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## A

absolute(int) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedResult
AbsoluteEuclideanClassifier - Class in uk.ac.ic.doc.automed.matching.modules.bidirectionalmap
AbsoluteEuclideanClassifier(Cluster[], double) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.AbsoluteEuclideanClassifier
AbstractClient - Class in uk.ac.ic.doc.automed.p2p.communication
AbstractClient(RequestListener) - Constructor for class uk.ac.ic.doc.automed.p2p.communication.AbstractClient
  Create a client with no fixed specification of destination hosts
AbstractClient(String, int, RequestListener) - Constructor for class uk.ac.ic.doc.automed.p2p.communication.AbstractClient
AbstractClient(String, int, RequestListener, byte[]) - Constructor for class uk.ac.ic.doc.automed.p2p.communication.AbstractClient
AbstractDaemon - Class in uk.ac.ic.doc.automed.p2p.communication
AbstractDaemon(RequestListener) - Constructor for class uk.ac.ic.doc.automed.p2p.communication.AbstractDaemon
AbstractMessage - Class in uk.ac.ic.doc.automed.p2p.messages.abstractlayer
AbstractMessage(String, String, String, String, String, Map) - Constructor for class uk.ac.ic.doc.automed.p2p.messages.abstractlayer.AbstractMessage
AbstractModule - Class in uk.ac.ic.doc.automed.matching.modules
  The AbstractModule class represents an abstract schema matching module.
AbstractModule() - Constructor for class uk.ac.ic.doc.automed.matching.modules.AbstractModule
AbstractNetwork - Class in uk.ac.ic.doc.automed.p2p.tree
AbstractNetwork(List) - Constructor for class uk.ac.ic.doc.automed.p2p.tree.AbstractNetwork
AbstractObjectBinding - Class in uk.ac.ic.doc.automed.util.persist
  AbstractTupleBinding.java
  Provides more developer-friendly methods than those defined in the `TupleBinding` parent class
AbstractObjectBinding() - Constructor for class uk.ac.ic.doc.automed.util.persist.AbstractObjectBinding
  Creates a new instance of AbstractTupleBinding
AbstractQueryAnnotationProvider - Class in uk.ac.bbk.dcs.automed.qproc.annotate
AbstractQueryAnnotationProvider() - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.AbstractQueryAnnotationProvider
AbstractRequestListener - Class in uk.ac.ic.doc.automed.p2p.communication
AbstractRequestListener() - Constructor for class uk.ac.ic.doc.automed.p2p.communication.AbstractRequestListener
  Creates a new instance of AbstractRequestListener
AbstractServer - Class in uk.ac.ic.doc.automed.p2p.communication
AbstractServer(int, RequestListener) - Constructor for class uk.ac.ic.doc.automed.p2p.communication.AbstractServer
accept(File) - Method in class uk.ac.ic.doc.automed.editor.DotExtensionFileFilter
accept(File) - Method in class uk.ac.ic.doc.automed.wrappers.XMLFileFilter
  Return true if this file should be shown in the directory pane, false if it shouldn't.
AccessMethod - Class in uk.ac.ic.doc.automed.reps
  The AccessMethod class describes how a particular database presented by a `Schema` can be accessed by an AutoMed application, using a particular `Protocol`.
ackExpected - Variable in class uk.ac.ic.doc.automed.p2p.communication.AbstractClient
action - Variable in class uk.ac.ic.doc.automed.editor.UserActionClass
ACTION_ADD - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
  Transformation action "add"
ACTION_ADD_STR - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
ACTION_CONTRACT - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
  Transformation action "contract"
ACTION_CONTRACT_STR - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
ACTION_DELETE - Static variable in class uk.ac.ic.doc.automed.p2p.directory.PeerEvent
ACTION_DELETE - Static variable in class uk.ac.ic.doc.automed.p2p.directory.SchemaEvent
ACTION_DELETE - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
  Transformation action "delete"
ACTION_DELETE_STR - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
ACTION_EXTEND - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
  Transformation action "extend"
ACTION_EXTEND_STR - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
ACTION_IDENT - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
  Transformation action "ident"
ACTION_IDENT_STR - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
ACTION_MAXIMUM - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
ACTION_MINIMUM - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
action_obj - Variable in class uk.ac.bbk.dcs.automed.qproc.iql.EnvParser
  Instance of action encapsulation class.
action_obj - Variable in class uk.ac.bbk.dcs.automed.qproc.iql.QParser
  Instance of action encapsulation class.
ACTION_REGISTER - Static variable in class uk.ac.ic.doc.automed.p2p.directory.PeerEvent
ACTION_REGISTER - Static variable in class uk.ac.ic.doc.automed.p2p.directory.SchemaEvent
ACTION_RENAME - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
  Transformation action "rename"
ACTION_RENAME_STR - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
action_table() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.EnvParser
  Access to parse-action table.
action_table() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.QParser
  Access to parse-action table.
ACTION_UPDATE - Static variable in class uk.ac.ic.doc.automed.p2p.directory.PeerEvent
ACTION_UPDATE - Static variable in class uk.ac.ic.doc.automed.p2p.directory.SchemaEvent
actionPerformed(ActionEvent) - Method in class uk.ac.ic.doc.automed.editor.IQLTool
  Edited by dmle 23/11/2005: add caching
  Basically we would like to check for similar queries to a new query in the cache before
  executing the new query.
  The query execution routine was moved to method `#executeQuery(ASG)` to increase modularity
actionPerformed(ActionEvent) - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
actionPerformed(ActionEvent) - Method in class uk.ac.ic.doc.automed.editor.PathwayOptimiserTool
actionPerformed(ActionEvent) - Method in class uk.ac.ic.doc.automed.editor.ReportException
actionPerformed(ActionEvent) - Method in class uk.ac.ic.doc.automed.editor.UserAction
actionPerformed(ActionEvent) - Method in class uk.ac.ic.doc.automed.editor.WrapperTool
actionPerformed(ActionEvent) - Method in class uk.ac.ic.doc.automed.editor.XMLSchemaEditor
actionPerformed(ActionEvent) - Method in class uk.ac.ic.doc.automed.p2p.gui.LoginFrame
actionPerformed(ActionEvent) - Method in class uk.ac.ic.doc.rodex.p2p.gui.CacheViewerFrame
  Implements `ActionListener` interface
actionPerformed(ActionEvent) - Method in class uk.ac.ic.doc.rodex.p2p.gui.LoginGui
actionPerformed(ActionEvent) - Method in class uk.ac.ic.doc.rodex.p2p.gui.QueryTool
  Override this method for new query execution
actionWeights - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
AD_CHECK_CACHE_FIRST - Static variable in interface uk.ac.ic.doc.automed.qproc.cache.CachePolicy
AD_CHECK_CACHE_LAST - Static variable in interface uk.ac.ic.doc.automed.qproc.cache.CachePolicy
AD_CHECK_CONTAINMENT - Static variable in interface uk.ac.ic.doc.automed.qproc.cache.CachePolicy
ADD - Static variable in exception uk.ac.ic.doc.automed.IntegrityException
  Exception caused by an operation doing some sort of addition to the repository.
add(BidirectionalDegree) - Method in class uk.ac.ic.doc.automed.matching.BidirectionalDegree
  Adds the specified bidirectional degree to the current degree.
add - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
add(AutoMedFloat) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedFloat
  Return the sum of two AutoMedFloats.
add(AutoMedInteger) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedInteger
  Return the sum of two AutoMedIntegers.
add(MiniConQueryRewriter.MiniConDescription) - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter.MiniConDescription
  A method to add two MCD objects together.
add_escapes(String) - Method in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.ParseException
  Used to convert raw characters to their escaped version when these raw version cannot be used as part of an ASCII string literal.
add_escapes(String) - Method in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.ParseException
  Used to convert raw characters to their escaped version when these raw version cannot be used as part of an ASCII string literal.
add_escapes(String) - Method in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.ParseException
  Used to convert raw characters to their escaped version when these raw version cannot be used as part of an ASCII string literal.
add_escapes(String) - Method in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.ParseException
  Used to convert raw characters to their escaped version when these raw version cannot be used as part of an ASCII string literal.
add_escapes(String) - Method in exception uk.ac.bbk.dcs.automed.qproc.translators.xquery.ParseException
  Used to convert raw characters to their escaped version when these raw version cannot be used as part of an ASCII string literal.
addAllTypesToHierarchy(TypeHierarchy) - Static method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Load ALL types for this type hierarchy.
addApplyToSpine - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
addArrayToList(Object[], List) - Static method in class uk.ac.ic.doc.automed.Util
  Adds in order all elements in the source array to the destination List and returns the destination list so that the method can be used as an argument to a method call.
addASubGoal(QuerySubGoal) - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter.MiniConDescription
  Add a sub-goal to this MCD
addAttachedElement(SchemaElement) - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
addAttribute(String) - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphElement
addAutoMedTuple(AutoMedTuple) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedResult
  Assert that a certain row number exists in a result
addAuxiliaryModule(AbstractModule) - Method in class uk.ac.ic.doc.automed.matching.Aggregator
  Appends the specified module to the list of auxiliary modules of this `Aggregator`
addBoundField(String) - Method in class uk.ac.ic.doc.rodex.qproc.QueryVariable
  Add variable to which this head var is bound to
addBoundFunction(QueryFunction) - Method in class uk.ac.ic.doc.rodex.qproc.QueryVariable
  Add a reference to a `QueryFunction` object that uses this variable
addChild(TreeNode) - Method in class uk.ac.bbk.dcs.automed.graph.TreeNode
  Adds a node to the set of children of the node
addChild(Object) - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphElement
addChild(TreeNode) - Method in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
addChild(Element) - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.ComplexType
  Add a child element
addChild(ArrayList) - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.ComplexType
  Add a list of child elements
addChildAttribute(Attribute) - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.ComplexType
  Add a child Attribute
addChildAttributes(ArrayList) - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.ComplexType
  Add a list of child Attributes
addClass(Class) - Method in class uk.ac.ic.doc.automed.p2p.tree.MainObjectClasses
addCommand(String, Class, String) - Static method in class uk.ac.ic.doc.automed.DSR
  Looks for a public method with the signature doCommand(String[] args) in the class methodClass and adds it to the commands that can be invoked from the CLI.
addConstraintScheme() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Constraint schemes can only be added to constructs of type Nodal, Link-Nodal, Link or Constraint Defaults to isKey = true, 1..1
addConstraintScheme(boolean) - Method in class uk.ac.ic.doc.automed.reps.Construct
addConstraintScheme(int, int) - Method in class uk.ac.ic.doc.automed.reps.Construct
addConstraintScheme(int, int, boolean) - Method in class uk.ac.ic.doc.automed.reps.Construct
addConstructConstraint(int, String, String) - Method in class uk.ac.ic.doc.automed.reps.Construct
  Add a new construct constraint to repository
addContentItem(String, Object) - Method in class uk.ac.ic.doc.automed.util.cache.CacheItem
  Add a new content item to this cache entry
addDataSource(String, String, String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  Add a new data source definition to the repository
addDefQuery(TransformationAbstraction) - Method in class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
  Add a definition query for the schema object represented by this sub-goal.
addDomainSpecToSchema(List, Schema) - Method in class uk.ac.ic.doc.automed.p2p.tree.ObjectBuilder
  Added support for domain spec
addEdge(Edge) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Takes an `Edge` struture and stores this in the database.
addEdgeNameScheme() - Method in class uk.ac.ic.doc.automed.reps.Construct
  EdgeName schemes can only be added to LINK and LINK-NODAL construct types.
addEdgeNameScheme(boolean) - Method in class uk.ac.ic.doc.automed.reps.Construct
addElement(XMLDSSGraphElement, XMLDSSGraphElement) - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraph
addElement(ElementVectorRepresentation) - Method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.Cluster
addElement(ElementVectorRepresentation) - Method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.Clusterer
addElements(ElementVectorRepresentation[]) - Method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.Clusterer
addEntry(ASG, ASG, AutoMedType[]) - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
  Add a view entry (i.e.
addEntry(ASG, ASG, AutoMedType[]) - Method in class uk.ac.ic.doc.rodex.qproc.RangeBasedQueryRewriterResult
addEscapes(String) - Static method in error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.TokenMgrError
  Replaces unprintable characters by their espaced (or unicode escaped) equivalents in the given string
addEscapes(String) - Static method in error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.TokenMgrError
  Replaces unprintable characters by their espaced (or unicode escaped) equivalents in the given string
addEscapes(String) - Static method in error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.TokenMgrError
  Replaces unprintable characters by their espaced (or unicode escaped) equivalents in the given string
addEscapes(String) - Static method in error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.TokenMgrError
  Replaces unprintable characters by their espaced (or unicode escaped) equivalents in the given string
addEscapes(String) - Static method in error uk.ac.bbk.dcs.automed.qproc.translators.xquery.TokenMgrError
  Replaces unprintable characters by their espaced (or unicode escaped) equivalents in the given string
addEventListener(EventListener) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
  Register an `EventListener` object
addEventListener(EventListener) - Method in class uk.ac.ic.doc.rodex.p2p.DirectoryServicePeer
  Register an `EventListener` object
addExtension(String) - Method in class uk.ac.ic.doc.automed.wrappers.XMLFileFilter
  Adds a filetype "dot" extension to filter against.
addFoldFunction(FoldFunction) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.FoldFunctionTable
addFunction(String, BuiltInFunction) - Method in class uk.ac.bbk.dcs.automed.qproc.FunctionTable
addFunctionTable(FunctionTable) - Method in class uk.ac.bbk.dcs.automed.qproc.FunctionTable
addFunctionTable(FunctionTable) - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
  Adds the input function table to the existing function table contained by this object (every QueryProcessorConfiguration object is instantiated with `StandardFunctionTable`)
addFunctionTable(FunctionTable[]) - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
  Adds the input function tables to the existing function table contained by this object (every QueryProcessorConfiguration object is instantiated with `StandardFunctionTable`)
addFunctionTokens(FunctionTable) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ReservedTokens
addGenericRoot(Document, String) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
  Method that adds a generic root named newRootName on top of the old root and returns the new document.
addGraphNode(DirectedGraphNode) - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraph
  Adds a node in the graph.
addIncomingEdge(DirectedGraphNode) - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraphNode
  Adds a node in the set of incoming edges of the calling node.
addJob(Job, JobHandler) - Method in class uk.ac.ic.doc.automed.util.queue.Queue
  Add a new a job to end of queue
addJobHandler(JobHandler) - Method in class uk.ac.ic.doc.automed.util.queue.QueueWorker
  Register a new job handler for jobs.
addKey(XSDOMObject, XSDOMObject) - Method in class uk.ac.ic.doc.automed.xmlschema.JTreeTransform
addKeyRef(XSDOMObject, XSDOMObject, XSDOMObject, XSDOMObject) - Method in class uk.ac.ic.doc.automed.xmlschema.JTreeTransform
  Methods to add extra AutoMed schemes from the JTree Add an xmlSchema:keyRef construct to AutoMed from the JTree.
addLabelScheme() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Label schemes are scheme arguments that have no corresponding HDM (except maybe through automatic HDM node and edge names if the label is defined as key for its construct) Defaults to isKey = true, 1..1
addLabelScheme(boolean) - Method in class uk.ac.ic.doc.automed.reps.Construct
addLabelScheme(int, int) - Method in class uk.ac.ic.doc.automed.reps.Construct
addLabelScheme(int, int, boolean) - Method in class uk.ac.ic.doc.automed.reps.Construct
addLayoutComponent(String, Component) - Method in class uk.ac.ic.doc.automed.editor.PinBoardLayout
addListener(StateChangedListener) - Method in class uk.ac.ic.doc.automed.p2p.state.PeerStateHandler
  Register an interested listener
addListener(CacheManagementListener) - Static method in class uk.ac.ic.doc.automed.qproc.cache.CacheManager
addListener(CacheListener) - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
  Register a listener for handling cache-related events
addListener(CacheListener) - Method in interface uk.ac.ic.doc.automed.util.cache.Cacheable
  Add a listener to the cache
addMainClass(Class) - Method in class uk.ac.ic.doc.automed.p2p.tree.Root
addModel(String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  Save a model structure to repository
addModel(String, String, String, String[]) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  An overload method of `#addModel(name, description, structure)` above
addModelChangeListener(ModelChangeListener) - Method in class uk.ac.ic.doc.automed.reps.Model
addModelsListener(ModelsListener) - Static method in class uk.ac.ic.doc.automed.reps.Model
  Add an instance of any class implementing interface `ModelsListener` such that it will be notified of any adding or deleting of models that may occur.
addModule(AbstractModule) - Method in class uk.ac.ic.doc.automed.matching.Filter
  Appends the specified module to the list of modules of this `Filter` object.
addNestTransform(String, String, XSDOMObject, XSDOMObject) - Method in class uk.ac.ic.doc.automed.xmlschema.JTreeTransform
  Automed transforations to nest an element inside another one, replacing an fk element in the process
addNetworkChangeListener(NetworkChangeListener) - Method in class uk.ac.ic.doc.automed.reps.Network
addNetworksListener(NetworksListener) - Static method in class uk.ac.ic.doc.automed.reps.Network
addNode(String, String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Takes a node type and a value and adds to the database
addNodeNameScheme() - Method in class uk.ac.ic.doc.automed.reps.Construct
  NodeName schemes can only be added to NODAL and LINK-NODAL construct types.
addNodeNameScheme(boolean) - Method in class uk.ac.ic.doc.automed.reps.Construct
addNodeNameScheme(int, int) - Method in class uk.ac.ic.doc.automed.reps.Construct
addNodeNameScheme(int, int, boolean) - Method in class uk.ac.ic.doc.automed.reps.Construct
addNonAuxiliaryModule(AbstractModule) - Method in class uk.ac.ic.doc.automed.matching.Aggregator
  Appends the specified module to the list of non-auxiliary modules of this `Aggregator`
addObject(Object) - Method in class uk.ac.ic.doc.automed.editor.PatternWritingTool.DynamicTree
  Add child to the currently selected node.
addObject(DefaultMutableTreeNode, Object) - Method in class uk.ac.ic.doc.automed.editor.PatternWritingTool.DynamicTree
addObject(DefaultMutableTreeNode, Object, boolean) - Method in class uk.ac.ic.doc.automed.editor.PatternWritingTool.DynamicTree
addObject(DefaultMutableTreeNode, Object, int, boolean) - Method in class uk.ac.ic.doc.automed.editor.PatternWritingTool.DynamicTree
addObject(AutoMedObject) - Method in class uk.ac.ic.doc.automed.p2p.tree.CollectionSet
addObject(PersistentObject) - Method in class uk.ac.ic.doc.automed.p2p.tree.Root
addObjectCollection(ObjectCollection) - Method in class uk.ac.ic.doc.automed.p2p.tree.Root
addObjectsToSchema(List, Schema) - Method in class uk.ac.ic.doc.automed.p2p.tree.ObjectBuilder
  dmle 13/11/2005: change scope to package level
addOutgoingEdge(DirectedGraphNode) - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraphNode
  Adds a node in the set of outgoing edges of the calling node.
addPathway(Object[]) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  Add a new pathway definition to the repository
addPathwayTranformation(Object[]) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  Add a new pathway transformation to the repository
addPeer(String[]) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  Add a new peer
addPeer(String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  Deprecated.
addPeerSchema(String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
addPI(String) - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.Document
  Add the PI info to the top of the schema file
addPrefix(String, String) - Static method in class uk.ac.ic.doc.automed.Util
  Adds the prefix to the beginning of each line in message
addPrefix(String, String) - Static method in class uk.ac.ic.doc.automed.xml.XMLSyntax
addQuery(String, Object) - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
  Store reference to the `AbstractQueryProcessor` object that processes this query
  so that we can in a later stage use the query analysis with query result
  to build a semantic cache entry for the query
  .
addQuery(String, Object) - Method in interface uk.ac.ic.doc.automed.qproc.cache.IQueryCache
  Store reference to the `AbstractQueryProcessor` object that processes this query
  so that we can in a later stage use the query analysis with query result
  to build a semantic cache entry for the query
  .
addQueryResult(String, Object) - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
  Add a new query to cache.
addQueryResult(String, Object) - Method in interface uk.ac.ic.doc.automed.qproc.cache.IQueryCache
  Add a new query to cache.
addQuerySchemaObjectsToConditions(ArrayList) - Method in class uk.ac.ic.doc.automed.tml.TML
addRangeDef(String, AutoMedType[][]) - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
addRangeDef(String, AutoMedType[][]) - Method in class uk.ac.ic.doc.rodex.qproc.RangeBasedQueryRewriterResult
addReferenceScheme(Construct) - Method in class uk.ac.ic.doc.automed.reps.Construct
addReferenceScheme(Construct, boolean) - Method in class uk.ac.ic.doc.automed.reps.Construct
addReferenceScheme(Construct, int, int) - Method in class uk.ac.ic.doc.automed.reps.Construct
addReferenceScheme(Construct, int, int, boolean) - Method in class uk.ac.ic.doc.automed.reps.Construct
addReloadHook(Method) - Static method in class uk.ac.ic.doc.automed.DSR
addRequestListener(RequestListener) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Register a `RequestListener` object for client requests
addRequestListener(RequestListener) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
  Register a `RequestListener` object to client requests
addRequestListener(RequestListener) - Method in class uk.ac.ic.doc.rodex.p2p.DirectoryServicePeer
  Register a `RequestListener` object to client requests
ADDRESS - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
address - Variable in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
addResult(String, String) - Method in class uk.ac.ic.doc.automed.p2p.messages.applicationlayer.TellBrokerQuery
addResults(List, List) - Method in class uk.ac.ic.doc.automed.p2p.messages.applicationlayer.TellBrokerQuery
addRootType(ComplexType) - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.Document
  Add a single root type
addRootTypes(ArrayList) - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.Document
  Add some root types
addSchema(String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
addSchemaChangeListener(SchemaChangeListener) - Method in class uk.ac.ic.doc.automed.reps.Schema
addSchemasListener(SchemasListener) - Static method in class uk.ac.ic.doc.automed.reps.Schema
  Add an instance of any class implementing interface `SchemasListener` such that it will be notified of any adding or deleting of schemas that may occur.
addSchemeProfile(String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  Add schema-model-peer association
addSubGoal(QuerySubGoal) - Method in class uk.ac.ic.doc.rodex.qproc.QueryVariable
  Add a new sub goal object that uses this shared variable
addSubGoals(List) - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter.MiniConDescription
  Add sub-goals to the MCD
addSubGraph(DirectedGraph) - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraph
  Adds a subGraph in the set of subGraphs.
addSubQueryResult(String, String, Object) - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
  Add result of a sub-query of a query in the cache.
addSubQueryResult(String, String, Object) - Method in interface uk.ac.ic.doc.automed.qproc.cache.IQueryCache
  Add result of a sub-query of a query in the cache.
addSupressedTokenType(int) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
addSupressedTokenTypes(int[]) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
addToNegPostString(String) - Method in class uk.ac.ic.doc.automed.tml.TML
addToNegPreString(String) - Method in class uk.ac.ic.doc.automed.tml.TML
addToPosPostString(String) - Method in class uk.ac.ic.doc.automed.tml.TML
addToPosPreString(String) - Method in class uk.ac.ic.doc.automed.tml.TML
addToViewMap(SchemeInfo, Cell, Map, int) - Static method in class uk.ac.bbk.dcs.automed.qproc.reformulate.AtomicViewMap
addTree(TreeNode) - Method in class uk.ac.bbk.dcs.automed.graph.Forest
  Adds a tree to the forest.
addTypeScheme() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Constraint schemes can only be added to constructs of type Nodal and Link-Nodal Defaults to isKey = true, 1..1
addTypeScheme(boolean) - Method in class uk.ac.ic.doc.automed.reps.Construct
addTypeScheme(int, int) - Method in class uk.ac.ic.doc.automed.reps.Construct
addTypeScheme(int, int, boolean) - Method in class uk.ac.ic.doc.automed.reps.Construct
addTypeToHierarchy(int, String, int, int) - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Add a type from the repository to the hierarchy
addTypeToHierarchy(String, String, String) - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Add a new type to the hierarchy and the repository.
addVariable(QueryVariable) - Method in class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
  A head variable of the sub-goal.
addViewSet(List) - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
addXMLDSS(String, Document, String) - Static method in class uk.ac.bbk.dcs.automed.xml.wrappers.NXDBSchemaManager
adjustBeginLineColumn(int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
  Method to adjust line and column numbers for the start of a token.
adjustBeginLineColumn(int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
  Method to adjust line and column numbers for the start of a token.
adjustBeginLineColumn(int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
  Method to adjust line and column numbers for the start of a token.
adjustBeginLineColumn(int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
  Method to adjust line and column numbers for the start of a token.
adjustBeginLineColumn(int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
  Method to adjust line and column numbers for the start of a token.
ADVANCED_ALGORITHM - Static variable in class uk.ac.ic.doc.automed.tml.PathwayOptimiser
AdvancedQueryGetter - Class in uk.ac.ic.doc.rodex.p2p
AdvancedQueryGetter(AutoMedPeer) - Constructor for class uk.ac.ic.doc.rodex.p2p.AdvancedQueryGetter
ADVERTISE - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  performative
advertiseSchema(String) - Method in class uk.ac.ic.doc.automed.p2p.SchemaAdvertiser
advertizePath(SchemaDescription) - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
AestheticRootLayout - Class in uk.ac.ic.doc.automed.editor.layout
AestheticRootLayout(Gui, Object[]) - Constructor for class uk.ac.ic.doc.automed.editor.layout.AestheticRootLayout
aestheticRootLayout(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.layout.AestheticRootLayout
afterEv - Variable in class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
afterEv - Variable in class uk.ac.bbk.dcs.automed.qproc.QueryProcessor
afterEv - Variable in class uk.ac.bbk.dcs.automed.qproc.TempQueryProcessor
afterLO - Variable in class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
afterLO - Variable in class uk.ac.bbk.dcs.automed.qproc.QueryProcessor
afterLO - Variable in class uk.ac.bbk.dcs.automed.qproc.TempQueryProcessor
afterQAFP - Variable in class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
afterQAFP - Variable in class uk.ac.bbk.dcs.automed.qproc.QueryProcessor
afterQAFP - Variable in class uk.ac.bbk.dcs.automed.qproc.TempQueryProcessor
afterQR - Variable in class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
afterQR - Variable in class uk.ac.bbk.dcs.automed.qproc.QueryProcessor
afterQR - Variable in class uk.ac.bbk.dcs.automed.qproc.TempQueryProcessor
afterSubmit - Variable in class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
afterSubmit - Variable in class uk.ac.bbk.dcs.automed.qproc.QueryProcessor
afterSubmit - Variable in class uk.ac.bbk.dcs.automed.qproc.TempQueryProcessor
afterTranslation - Variable in class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
afterTranslation - Variable in class uk.ac.bbk.dcs.automed.qproc.QueryProcessor
afterTranslation - Variable in class uk.ac.bbk.dcs.automed.qproc.TempQueryProcessor
afterVU - Variable in class uk.ac.bbk.dcs.automed.qproc.QueryProcessor
aggregateIQLFunction - Variable in class uk.ac.bbk.dcs.automed.wrappers.IQLTranslator
aggregateQuery - Variable in class uk.ac.bbk.dcs.automed.wrappers.IQLTranslator
Aggregator - Class in uk.ac.ic.doc.automed.matching
  The class that represents the Aggregator component in the schema matching architecture.
Aggregator(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.Aggregator
  Constructs the `Aggregator` for the specified compatible pairs of elements.
AlgoPerfExp - Class in uk.ac.bbk.dcs.automed.xml.experiments.subclass
  Class Task Description
AlgoPerfExp() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.subclass.AlgoPerfExp
AlgoPerfExp - Class in uk.ac.bbk.dcs.automed.xml.experiments.thesis
  Class Task Description
AlgoPerfExp() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.thesis.AlgoPerfExp
ALL - Static variable in class uk.ac.ic.doc.automed.editor.MatchingTool
AllSchemasFrame - Class in uk.ac.ic.doc.automed.p2p.gui
AllSchemasFrame(PeerApplication) - Constructor for class uk.ac.ic.doc.automed.p2p.gui.AllSchemasFrame
alternation - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
am - Variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
AM_XMLDSS_ATTRIBUTES - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
AM_XMLDSS_DTD_CARDINALITY - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
AM_XMLDSS_ID - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
AM_XMLDSS_XSD_PRIMITIVE_TYPE - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
AMQfromIQL(ASG) - Method in class uk.ac.bbk.dcs.automed.wrappers.SQLTranslator
AMQfromIQL(ASG) - Method in class uk.ac.bbk.dcs.automed.wrappers.Translator
analyse() - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter
  Implements method in `QueryWriter` parent class
  Analyse query and view rules into head vars and sub-goals in order to prepare
  for the actual rewrite to take place
analyse() - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
  Start analysing the query
analyse() - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriter
  Analyse query and view rules to prepare for the actual rewriting to take place
analyse() - Method in class uk.ac.ic.doc.rodex.qproc.RangeBasedQueryRewriter
  Implements method in `QueryWriter` parent class
  Analyse query and view rules into head vars and sub-goals in order to prepare
  for the actual rewrite to take place
And - Class in uk.ac.bbk.dcs.automed.qproc.functions.logical
And() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.logical.And
AND - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
AND - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLQuery
  SQL logical AND binary operator for use within WHERE expressions
annotate() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
annotate(Cell, boolean) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
ANNOTATION_COMP_ARG - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
ANNOTATION_COMP_ROOT - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
ANNOTATION_OPT_DO_NOT_UNNEST - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
ANNOTATION_OTHER - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
ANY - Static variable in class uk.ac.ic.doc.automed.editor.CommandLineDriver
ANY - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
APPEARS_WITH_DIFFERENT_SEMANTICS - Static variable in class uk.ac.bbk.dcs.automed.evolution2.ExtendedConstruct
APPEARS_WITH_SAME_SEMANTICS - Static variable in class uk.ac.bbk.dcs.automed.evolution2.ExtendedConstruct
appearsInSchemeOf(SchemaObject) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Determines whether or not the schema object appears anywhere in the scheme of another schema object.
append() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
APPEND - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendConstants
Append - Class in uk.ac.bbk.dcs.automed.qproc.functions.collections
Append() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.collections.Append
appendmonus() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
APPENDMONUS - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusConstants
appendQuery(TellBrokerQuery) - Method in class uk.ac.ic.doc.automed.p2p.messages.applicationlayer.TellBrokerQuery
application - Variable in class uk.ac.ic.doc.automed.p2p.gui.LoginFrame
application - Variable in class uk.ac.ic.doc.automed.p2p.gui.MainFrame
ApplicationMessage - Interface in uk.ac.ic.doc.automed.p2p.messages.applicationlayer
ApplicationPropertyException - Exception in uk.ac.ic.doc.automed.p2p
ApplicationPropertyException() - Constructor for exception uk.ac.ic.doc.automed.p2p.ApplicationPropertyException
ApplicationPropertyException(String) - Constructor for exception uk.ac.ic.doc.automed.p2p.ApplicationPropertyException
ApplicationPropertyException(Throwable) - Constructor for exception uk.ac.ic.doc.automed.p2p.ApplicationPropertyException
ApplicationPropertyException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.p2p.ApplicationPropertyException
apply - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
apply(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.FoldNilRule
apply(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.optimisers.ChooseOptimiser
  Applies rules in a bottom-to-top fashion.
apply(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.optimisers.CollectionOperatorReorganiser
apply(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.PatternRule
apply(Cell) - Method in interface uk.ac.bbk.dcs.automed.qproc.optimise.Rule
applyAddTransformation(Construct, Object[], String, String) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Returns the `Schema` which is the result of applying an ADD transformation.
applyAddTransformation(Construct, AutoMedType, Object[], String, String) - Method in class uk.ac.ic.doc.automed.reps.Schema
applyAddTransformation(Construct, Object[], String, String, String) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Returns the `Schema` which is the result of applying an ADD transformation.
applyAddTransformation(Construct, String, String, String) - Method in class uk.ac.ic.doc.automed.reps.Schema
applyConstraintTransformation(Schema, Set) - Static method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.ExtensionalSchemaEvolution
applyConstraintTransformation(Schema, String) - Static method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.ExtensionalSchemaEvolution
applyContractTransformation(Schema, String) - Static method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.ExtensionalSchemaEvolution
applyContractTransformation(SchemaObject, String, String) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Returns the `Schema` which is the result of applying a CONTRACT transformation.
applyContractTransformation(SchemaObject, String, String, String) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Returns the `Schema` which is the result of applying a CONTRACT transformation.
applyDeleteTransformation(SchemaObject, String, String) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Returns the `Schema` which is the result of applying a DELETE transformation.
applyDeleteTransformation(SchemaObject, String, String, String) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Returns the `Schema` which is the result of applying a DELETE transformation.
applyExtendTransformation(Construct, Object[], String, String) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Returns the `Schema` which is the result of applying an EXTEND transformation.
applyExtendTransformation(Construct, String, String, String) - Method in class uk.ac.ic.doc.automed.reps.Schema
applyExtendTransformation(Construct, Object[], String, String, String) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Returns the `Schema` which is the result of applying an EXTEND transformation.
applyIdent(Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
applyIdentTransformation(Schema) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Links this schema to another schema which should have exactly the same structure, i.e.
applyPathway(Transformation[], Schema) - Static method in class uk.ac.bbk.dcs.automed.evolution.EvolutionUtility
applyPathway(Transformation[], Schema) - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
applyRenameTransformation(SchemaObject, Object[]) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Returns the `Schema` which is the result of applying a RENAME transformation.
applyRenameTransformation(SchemaObject, Object[], String) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Returns the `Schema` which is the result of applying a RENAME transformation.
applyRetract(Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
applyToSpineCalls - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
applyTransformationToSchema(Transformation, Schema) - Static method in class uk.ac.bbk.dcs.automed.evolution.EvolutionUtility
  This method is given transformation and a schema arguments.
applyTransformationToSchema(Transformation, Schema) - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
  This method is given transformation and a schema arguments.
AppToolKit - Class in uk.ac.ic.doc.automed.p2p
AppToolKit() - Constructor for class uk.ac.ic.doc.automed.p2p.AppToolKit
  Creates a new instance of AppToolKit
AppToolKit.NodeConfig - Class in uk.ac.ic.doc.automed.p2p
  Inner class to define a server configuration
AppToolKit.NodeConfig(String, String, String, int, int, int, int, int) - Constructor for class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
AppToolKit.NodeConfig(String, Properties) - Constructor for class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
  Alternatively, we can create a config object with loads of properties
  and then use getter methods to access them.
areAllToLayoutObjLocked() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutERObject
areRelated(SchemaObject[], SchemaObject[], SemanticRelationship, boolean) - Method in class uk.ac.ic.doc.automed.matching.Integrator
  Returns a list of `SchemaElementPair` arrays with all the combinations of related schema elements.
areRelativesMaximal() - Method in class uk.ac.ic.doc.automed.reps.Network
areSchemasIntegrated() - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
arithmeticFunction() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
arithmOp() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
arity - Variable in class uk.ac.bbk.dcs.automed.qproc.functions.BuiltInFunction
ARROW - Static variable in class uk.ac.ic.doc.rodex.qproc.Util
AS - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
ASG - Class in uk.ac.bbk.dcs.automed.qproc.iql
  Every IQL query is internally represented as an Abstract Syntax Graph (ASG).
ASG() - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.ASG
ASG(Cell) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.ASG
ASG(String) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.ASG
ASG(File) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.ASG
asgArea - Variable in class uk.ac.ic.doc.automed.editor.IQLTool
ASGCollection - Class in uk.ac.bbk.dcs.automed.qproc.iql
ASGCollection(Cell) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.ASGCollection
ASGCollection(String) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.ASGCollection
ASGCollection(File) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.ASGCollection
ASGCollectionIterator - Class in uk.ac.bbk.dcs.automed.qproc.iql
ASGComprehension - Class in uk.ac.bbk.dcs.automed.qproc.iql
ASGComprehensionMiniCon - Class in uk.ac.bbk.dcs.automed.qproc.iql
ASGExplore - Class in uk.ac.ic.doc.rodex.qproc
ASGExplore(ASG) - Constructor for class uk.ac.ic.doc.rodex.qproc.ASGExplore
  Creates a new instance of ASGExplore dmle 22/11/2005
ASGObjectBuilder - Class in uk.ac.ic.doc.automed.p2p.tree
ASGObjectBuilder(Root) - Constructor for class uk.ac.ic.doc.automed.p2p.tree.ASGObjectBuilder
  Creates a new instance of SchemaObjectBuilder
ASGQuery - Class in uk.ac.ic.doc.automed.qproc
  ASGQuery.java
  Extends `ASG` class to introduce extra properties such as queryID and {@link QueryDescription)
ASGQuery() - Constructor for class uk.ac.ic.doc.automed.qproc.ASGQuery
ASGTuple - Class in uk.ac.bbk.dcs.automed.qproc.iql
ASGTuple(Cell) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.ASGTuple
ASGTuple(String) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.ASGTuple
ASK - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  performative
assemblePackets(Vector, int) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  Assemble UDP fragments together
assertProtocol(String) - Static method in class uk.ac.ic.doc.automed.reps.Protocol
  Returns the `Protocol` with a certain name, creating it if it does not already exist..
assertType(String, String) - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Make sure @param typeName is in the type hierarchy.
ASSIGN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
assignCIDs(Document) - Static method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
  Assigns UIDs to the schema document supplied.
asString(Document) - Static method in class uk.ac.ic.doc.automed.p2p.util.XmlHandler
AsynchThread - Class in uk.ac.ic.doc.automed.util.thread
AsynchThread(String, Threadable) - Constructor for class uk.ac.ic.doc.automed.util.thread.AsynchThread
  Creates a new instance of TimedThread
at(int) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.ModifiedArray
AT - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
AT_LEAST_ONE - Static variable in class uk.ac.ic.doc.automed.editor.CommandLineDriver
atDebugLevel(int) - Static method in class uk.ac.ic.doc.automed.editor.XMLSchemaEditor
  Determine is debug is at or above a certain level.
atDebugLevel(int) - Static method in class uk.ac.ic.doc.automed.STR
  Return true if the debug level set by `STR.setDebugLevel(int)` is at least at a certain level.
atDebugLevel(int) - Static method in class uk.ac.ic.doc.automed.util.Debugger
  Return true if the debug level set by `Debugger.setDebugLevel(int)` is at least at a certain level.
atDebugLevel(int) - Static method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Determine is debug is at or above a certain level.
AtomicViewMap - Class in uk.ac.bbk.dcs.automed.qproc.reformulate
  This class creates atomic views from the Automed Transformations.
AtomicViewMap(Schema, Schema, QueryProcessorConfiguration, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.reformulate.AtomicViewMap
  Constructs a new `AtomicViewMap` object for the input source and target schemas, then populates it.
atSectionDebugLevel(int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Tests whether the section of code has been set to at least the debug level specified.
atSectionDebugLevel(int, int) - Static method in class uk.ac.ic.doc.automed.util.Debugger
  Tests whether the section of code has been set to at least the debug level specified.
attachParent(AutoLayoutTreeObject, int) - Static method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutTreeObject
  Attaches the specified node to its children, setting offsets.
ATTRIB_CACHE_MODE - Static variable in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
ATTRIB_CACHE_RESULT_EXPIRED_OK - Static variable in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
ATTRIB_COST - Static variable in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
ATTRIB_FRESHNESS - Static variable in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
ATTRIB_PREFER_CACHE - Static variable in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
ATTRIB_QLTY_DS - Static variable in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
ATTRIB_QLTY_INFO - Static variable in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
ATTRIB_QLTY_PW - Static variable in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
ATTRIB_QUERY - Static variable in class uk.ac.ic.doc.rodex.qproc.QueryDescription
ATTRIB_RESULT_TTL - Static variable in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
ATTRIB_SCHEMA_NAME - Static variable in class uk.ac.ic.doc.rodex.qproc.QueryDescription
attribute - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
Attribute - Class in uk.ac.ic.doc.automed.wrappers.xsdomobject
Attribute(String, String, boolean) - Constructor for class uk.ac.ic.doc.automed.wrappers.xsdomobject.Attribute
  Creates a new instance of Attribute
AttributeDomain - Class in uk.ac.ic.doc.rodex.reps
  AttributeDomain.java Represents an attribute's domain
AttributeDomain(String, int, int, int) - Constructor for class uk.ac.ic.doc.rodex.reps.AttributeDomain
  Creates a new instance of AttributeDomain
AttributeJaccardExistenceModule - Class in uk.ac.ic.doc.automed.matching.modules.probability.binary
  The module that compares the schema elements by examining if they have common instances
AttributeJaccardExistenceModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.binary.AttributeJaccardExistenceModule
AttributeJaccardNameModule - Class in uk.ac.ic.doc.automed.matching.modules.probability.binary
  The module that compares the names of the schema elements
AttributeJaccardNameModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.binary.AttributeJaccardNameModule
AttributePrecisionModule - Class in uk.ac.ic.doc.automed.matching.modules.probability.binary
  The module that compares the schema elements by examining the precision of their instances
AttributePrecisionModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.binary.AttributePrecisionModule
authenticate() - Method in class uk.ac.ic.doc.automed.p2p.AuthenticationHelper
  Authenticate an automed peer to the network
authenticate() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Authenticate using the authentication helper
AUTHENTICATION - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
authentication - Variable in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
AuthenticationException - Exception in uk.ac.ic.doc.automed.p2p
AuthenticationException(String) - Constructor for exception uk.ac.ic.doc.automed.p2p.AuthenticationException
  Creates a new instance of HandlerNotFoundException
AuthenticationException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.p2p.AuthenticationException
  Creates a new instance of HandlerNotFoundException
AuthenticationHelper - Class in uk.ac.ic.doc.automed.p2p
AuthenticationHelper(AutoMedPeer) - Constructor for class uk.ac.ic.doc.automed.p2p.AuthenticationHelper
  Creates a new instance of AuthenticationHelper
AuthenticationTuple - Class in uk.ac.ic.doc.rodex.p2p.messages.applicationlayer
  AuthenticationTuple.java
  Represents authentication tuple
AuthenticationTuple(String, String, String) - Constructor for class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.AuthenticationTuple
  Creates a new instance of AuthenticationTuple
AutoLayout - Class in uk.ac.ic.doc.automed.editor.autolayout
AutoLayout(AutoLayoutSchemaObject) - Constructor for class uk.ac.ic.doc.automed.editor.autolayout.AutoLayout
  Creates a new instance of AutoLayout
AutoLayoutERObject - Class in uk.ac.ic.doc.automed.editor.autolayout
AutoLayoutERObject(Positionable) - Constructor for class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutERObject
AutoLayoutPositionable - Class in uk.ac.ic.doc.automed.editor.autolayout
  Base class for ale others AutoLayout* classes.
AutoLayoutPositionable(Positionable) - Constructor for class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutPositionable
  Creates a new instance of AutoLayoutPositionable
autoLayoutPositionablesTable - Static variable in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutPositionable
  HashMap which map SchemaObjects to AutoLayput* objects.
AutoLayoutSchemaObject - Class in uk.ac.ic.doc.automed.editor.autolayout
AutoLayoutSchemaObject(Positionable) - Constructor for class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSchemaObject
  Creates a new instance of AutoLayoutPositionableect
AutoLayoutSpringObject - Class in uk.ac.ic.doc.automed.editor.autolayout
  Class to implement Kamada and Kawai's spring algorithm described in Information Processing Letters Volume 31, Issue 1, Pages 1-56.
AutoLayoutSpringObject(Positionable) - Constructor for class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSpringObject
  Creates a new instance of AutoLayoutSpringObject
AutoLayoutTreeObject - Class in uk.ac.ic.doc.automed.editor.autolayout
  Class to implement tree autolayout algorithm.
AutoLayoutTreeObject(Positionable) - Constructor for class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutTreeObject
AutoLayoutTreeObject(Positionable, AutoLayoutTreeObject, AutoLayoutTreeObject, AutoLayoutTreeObject) - Constructor for class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutTreeObject
  Creates a new instance of AutoLayoutTreeObjectect
automed - Variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
AUTOMED_OBJECTS - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
AUTOMED_SQL_MODEL_COLUMN - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
AUTOMED_SQL_MODEL_FOREIGN_KEY - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
AUTOMED_SQL_MODEL_INDEX - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
AUTOMED_SQL_MODEL_NOTNULL_CONSTRAINT - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
AUTOMED_SQL_MODEL_PRIMARY_KEY - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
AUTOMED_SQL_MODEL_TABLE - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
AUTOMED_USER_DIR - Static variable in class uk.ac.ic.doc.automed.p2p.AppToolKit
AutoMedBoolean - Class in uk.ac.ic.doc.automed.wrappers
  Provides generic representation boolean values.
AutoMedBoolean(boolean) - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedBoolean
  Create a new AutoMedBoolean
AutoMedBoolean(String) - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedBoolean
  Create a new AutoMedBoolean from a String value.
AutoMedBoolean() - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedBoolean
  Create a new AutoMedBoolean that is null in value.
AutoMedException - Exception in uk.ac.ic.doc.automed
  The class root of all AutoMed generated exceptions.
AutoMedException(String) - Constructor for exception uk.ac.ic.doc.automed.AutoMedException
AutoMedException() - Constructor for exception uk.ac.ic.doc.automed.AutoMedException
AutoMedException(Throwable) - Constructor for exception uk.ac.ic.doc.automed.AutoMedException
AutoMedException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.AutoMedException
AutoMedFloat - Class in uk.ac.ic.doc.automed.wrappers
  Provides generic representation of floating values with abritrary precision.
AutoMedFloat(String) - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedFloat
  Create a new AutoMedFloat from text, creating a null value if the text cannon be parsed.
AutoMedFloat(float, int) - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedFloat
  Create a new AutoMedFloat from a 32 bit floating point value.
AutoMedFloat(double, int) - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedFloat
  Create a new AutoMedFloat from a 64 bit floating point value.
AutoMedFloat() - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedFloat
  Create a new AutoMedFloat that is null in value
AutoMedInteger - Class in uk.ac.ic.doc.automed.wrappers
  Provides generic representation of integer values with up to 64 bit precision.
AutoMedInteger(String) - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedInteger
  Create a new AutoMedInteger from text, creating a null value if the text cannon be parsed.
AutoMedInteger(int, int) - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedInteger
  Create a new AutoMedInteger from a 32 bit integer value.
AutoMedInteger(long, int) - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedInteger
  Create a new AutoMedInteger
AutoMedInteger(BigInteger) - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedInteger
  Create a new AutoMedInteger from a BigInteger.
AutoMedInteger() - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedInteger
  Create a new AutoMedInteger that is a null value
AutoMedMessagingHelper - Class in uk.ac.ic.doc.automed.p2p
AutoMedMessagingHelper(AutoMedPeer) - Constructor for class uk.ac.ic.doc.automed.p2p.AutoMedMessagingHelper
  Creates a new instance of AutoMedMessagingHelper
automedModelName - Variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
AutoMedObject - Class in uk.ac.ic.doc.automed.p2p.tree
AutoMedObject(PersistentKey) - Constructor for class uk.ac.ic.doc.automed.p2p.tree.AutoMedObject
AutoMedObject(PersistentObject) - Constructor for class uk.ac.ic.doc.automed.p2p.tree.AutoMedObject
AutoMedPeer - Class in uk.ac.ic.doc.automed.p2p
  Represent the AutoMed Repository in this Java Virtual Machine (JVM) as a peer on a peer-to-peer (P2P) network.
AutoMedPeer(String, PeerStateHandler) - Constructor for class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Create the one `AutoMedPeer` that is allowed in any JVM: to prevent more than one being created, this is a private method, and you must call `#newAutoMedPeer()` to create the peer.
AutoMedPeer.PeerProcessDescription - Class in uk.ac.ic.doc.automed.p2p
AutoMedPeer.PeerProcessDescription(String, String) - Constructor for class uk.ac.ic.doc.automed.p2p.AutoMedPeer.PeerProcessDescription
AutoMedPeer.PeerProcessDescription(String, String, int) - Constructor for class uk.ac.ic.doc.automed.p2p.AutoMedPeer.PeerProcessDescription
AutoMedQuery - Class in uk.ac.ic.doc.automed.wrappers
  A generic representation of query expressions as trees, where each AutoMedQuery has an operator type, and 0 or more fields that have a field type
AutoMedQuery(AutoMedQueryToken, Object[]) - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
AutoMedQuery(AutoMedQueryToken, Object) - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
AutoMedQueryToken - Class in uk.ac.ic.doc.automed.wrappers
  A generic representation of query langauge tokens
AutoMedResult - Class in uk.ac.ic.doc.automed.wrappers
  Provides a representation of the data associated with a scheme in an AutoMed Schema.
AutoMedResult(int) - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedResult
  Create a new AutoMedResult with a fixed size of tuple in the resultCache
AutoMedString - Class in uk.ac.ic.doc.automed.wrappers
  Provides generic representation of string values of abritrary size.
AutoMedString(String) - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedString
  Create a new AutoMedString
AutoMedTime - Class in uk.ac.ic.doc.automed.wrappers
  Provides generic representation of time values in GMT.
AutoMedTime(long, int) - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedTime
  Create a new AutoMedTime, measured as the number of milliseconds since 1st January 1970, 00:00:00 GMT
AutoMedTime(Date, int) - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedTime
  Create a new AutoMedTime
AutoMedTime() - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedTime
  Create a new AutoMedTime that is a null value
AutoMedToXSDOM - Class in uk.ac.ic.doc.automed.reps
AutoMedToXSDOM(Schema) - Constructor for class uk.ac.ic.doc.automed.reps.AutoMedToXSDOM
  Creates a new instance of AutoMedToXSDOM
AutoMedTreeException - Exception in uk.ac.ic.doc.automed.p2p.tree
AutoMedTreeException() - Constructor for exception uk.ac.ic.doc.automed.p2p.tree.AutoMedTreeException
AutoMedTreeException(String) - Constructor for exception uk.ac.ic.doc.automed.p2p.tree.AutoMedTreeException
AutoMedTreeException(Throwable) - Constructor for exception uk.ac.ic.doc.automed.p2p.tree.AutoMedTreeException
AutoMedTreeException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.p2p.tree.AutoMedTreeException
AutoMedTuple - Class in uk.ac.ic.doc.automed.wrappers
  A structure to hold one tuple of data, to be used by AutoMedResult as the basis for storing sets, lists or bags of tuples.
AutoMedTuple(AutoMedResult, int, int) - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedTuple
  Create a new tuple belonging to row i and with nc attributes
AutoMedType - Class in uk.ac.ic.doc.automed.wrappers
  Provides a base for the representation of basic types supported by AutoMed.
AutoMedType() - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedType
AutoMedWrapper - Class in uk.ac.ic.doc.automed.wrappers
  An AutoMedWrapper represents an open connection to a datasource.
AutoMedWrapper() - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
AutoMedWrapper(AccessMethod, String) - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Generate a new wrapper instance from information held in the repository about how to access a data source.
AutoMedWrapperFactory - Class in uk.ac.ic.doc.automed.wrappers
  An AutoMedWrapperFactory class able to produce AutoMedWrapper instances, together with any data that the wrapper requires to be present in the repository.
AutoMedWrapperFactory() - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
AutoMedXMLAttText - Static variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
AutoMedXMLText - Static variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
AutoRepException - Exception in uk.ac.ic.doc.automed.reps
  The class of exceptions generated by the `uk.ac.ic.doc.automed.reps` package.
AutoRepException(String) - Constructor for exception uk.ac.ic.doc.automed.reps.AutoRepException
  Creates an AutoRepException.
AutoRepException(String, Exception) - Constructor for exception uk.ac.ic.doc.automed.reps.AutoRepException
  Creates an AutoRepException.
Average - Class in uk.ac.bbk.dcs.automed.qproc.functions.collections
Average() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.collections.Average
Averages - Class in uk.ac.ic.doc.automed.matching
Averages(double[]) - Constructor for class uk.ac.ic.doc.automed.matching.Averages
awf - Variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper

## B

backButton - Variable in class uk.ac.ic.doc.automed.editor.IQLTool
backup(int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
backup(int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
backup(int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
backup(int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
backup(int) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
BadSchemaException - Exception in uk.ac.ic.doc.automed.reps
  The class of exceptions generated when the contents of an intentional schema materialized via a particular transformation pathway are not the same as those of the same schema materialized via its default transformation pathway (path to the cloesest extensional schema).
BadSchemaException(String, Schema) - Constructor for exception uk.ac.ic.doc.automed.reps.BadSchemaException
  Creates a BadSchemaException.
Bag2List - Class in uk.ac.bbk.dcs.automed.qproc.functions.typeConversion
Bag2List() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.typeConversion.Bag2List
Bag2Set - Class in uk.ac.bbk.dcs.automed.qproc.functions.typeConversion
Bag2Set() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.typeConversion.Bag2Set
banner(int) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.PrintUtility
  Prints a line of num stars.
banner() - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.PrintUtility
  Prints a line of 90 stars.
Bar - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
baseName - Variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
BASIC_ALGORITHM - Static variable in class uk.ac.ic.doc.automed.tml.PathwayOptimiser
BAVViewMap - Class in uk.ac.bbk.dcs.automed.qproc.reformulate
  Class containing BAV composite views between a single source schema and a single target schema.
BAVViewMap(Schema, Schema, QueryProcessorConfiguration) - Constructor for class uk.ac.bbk.dcs.automed.qproc.reformulate.BAVViewMap
  This constructor is called from CompositeViewMap class getInstance() method.
BCOMP - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompConstants
BCOMP - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendConstants
BCOMP - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusConstants
BComprehension - Class in uk.ac.bbk.dcs.automed.qproc.functions.internal
BComprehension() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.internal.BComprehension
beforeTranslation - Variable in class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
beforeTranslation - Variable in class uk.ac.bbk.dcs.automed.qproc.QueryProcessor
beforeTranslation - Variable in class uk.ac.bbk.dcs.automed.qproc.TempQueryProcessor
beginColumn - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Token
  beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
beginColumn - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.Token
  beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
beginColumn - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.Token
  beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
beginColumn - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.Token
  beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
beginColumn - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.Token
  beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
beginLine - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Token
  beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
beginLine - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.Token
  beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
beginLine - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.Token
  beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
beginLine - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.Token
  beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
beginLine - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.Token
  beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
BeginToken() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
BeginToken() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
BeginToken() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
BeginToken() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
BeginToken() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
BidirectionalDegree - Class in uk.ac.ic.doc.automed.matching
  The BidirectionalDegree class represents the bidirectional similarity degrees for two schema elements.
BidirectionalDegree(double, double) - Constructor for class uk.ac.ic.doc.automed.matching.BidirectionalDegree
  Constructs a `BidirectionalDegree` object based on the specified forward and backward similarity degrees.
bidirectionalDegrees - Variable in class uk.ac.ic.doc.automed.matching.modules.AbstractModule
  The `Hashtable` storing the bidirectional degrees.
BidirectionalMap - Class in uk.ac.ic.doc.automed.matching
  The BidirectionalMap class represents the map that defines the areas for each semantic relationship.
BidirectionalMap(double, double, double) - Constructor for class uk.ac.ic.doc.automed.matching.BidirectionalMap
  Constructs a `BidirectionalMap` object based on the specified thresholds.
BINARY_CLASS - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
BLSB - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
Books - Class in uk.ac.bbk.dcs.automed.xml.experiments.thesis
  Class Task Description
Books() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.thesis.Books
Books1 - Class in uk.ac.bbk.dcs.automed.xml.experiments.thesis
  Class Task Description
Books1() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.thesis.Books1
Books1Query - Class in uk.ac.bbk.dcs.automed.xml.experiments.thesis
Books1Query() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.thesis.Books1Query
Books2 - Class in uk.ac.bbk.dcs.automed.xml.experiments.thesis
  Class Task Description
Books2() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.thesis.Books2
Books2Query - Class in uk.ac.bbk.dcs.automed.xml.experiments.thesis
Books2Query() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.thesis.Books2Query
BooksQuery - Class in uk.ac.bbk.dcs.automed.xml.experiments.thesis
BooksQuery() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.thesis.BooksQuery
BOOLEAN - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.TypeConstants
BOOLEAN - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
BOOLEAN - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedType
  Type to represent a boolean true/false value.
BOOLEAN_TOKEN - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
booleanValue() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedBoolean
  Return a boolean representation of this AutoMedBoolean.
BOOLTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompConstants
BOOLTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendConstants
BOOLTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusConstants
bounds - Variable in class uk.ac.ic.doc.automed.editor.DrawVertex
boundsCorrection - Variable in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSchemaObject
bridge(PolyLine, int, int, PolyLine, int, int) - Static method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutTreeObject
  bridge
broker(PeerDescription, String, String) - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
broker(PeerDescription) - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
  Ask a peer to act as a broker for a query, executing the query against its local data sources, and those of any other peers that the peer knows about that implement public schemas of that peer.
broker() - Method in class uk.ac.ic.doc.automed.p2p.gui.SchemaInfoFrame
BROKER_ALL - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  performative
BrokerAllQuery - Class in uk.ac.ic.doc.automed.p2p.messages.applicationlayer
BrokerAllQuery(List, String, String) - Constructor for class uk.ac.ic.doc.automed.p2p.messages.applicationlayer.BrokerAllQuery
BrokerAllQuery(AbstractMessage) - Constructor for class uk.ac.ic.doc.automed.p2p.messages.applicationlayer.BrokerAllQuery
BrokerRequestReceiver - Class in uk.ac.ic.doc.automed.p2p
BrokerRequestReceiver(AbstractMessage) - Constructor for class uk.ac.ic.doc.automed.p2p.BrokerRequestReceiver
BrokerRequestSender - Class in uk.ac.ic.doc.automed.p2p
BrokerRequestSender() - Constructor for class uk.ac.ic.doc.automed.p2p.BrokerRequestSender
bsingleton() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns the root of an ASG representing an empty bag
bufcolumn - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
bufcolumn - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
bufcolumn - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
bufcolumn - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
bufcolumn - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
buffer - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
buffer - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
buffer - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
buffer - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
buffer - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
bufline - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
bufline - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
bufline - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
bufline - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
bufline - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
bufpos - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
bufpos - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
bufpos - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
bufpos - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
bufpos - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
build(String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapperFactory
buildAbstractMessage() - Method in class uk.ac.ic.doc.automed.p2p.messages.applicationlayer.TellBrokerQuery
buildCollectionSet(Element, Root) - Method in class uk.ac.ic.doc.automed.p2p.tree.TreeBuilder
BuildJTree - Class in uk.ac.ic.doc.automed.xmlschema.tree
BuildJTree(Document) - Constructor for class uk.ac.ic.doc.automed.xmlschema.tree.BuildJTree
  Creates a new instance of BuildJTree
buildMainObjectClasses(Element, Root) - Method in class uk.ac.ic.doc.automed.p2p.tree.TreeBuilder
buildMessage(Document) - Method in class uk.ac.ic.doc.automed.p2p.messages.abstractlayer.MessageFactory
buildMessage(String, String[]) - Static method in class uk.ac.ic.doc.automed.p2p.protocol.P2PProtocol
buildMessage() - Method in class uk.ac.ic.doc.automed.p2p.protocol.Request
buildPathwayRequest(String, String) - Static method in class uk.ac.ic.doc.automed.p2p.protocol.P2PProtocol
buildPathwayToSourceRequest(String) - Static method in class uk.ac.ic.doc.automed.p2p.protocol.P2PProtocol
buildPortRequest(String) - Static method in class uk.ac.ic.doc.automed.p2p.protocol.P2PProtocol
buildQueryRequest(String, String) - Static method in class uk.ac.ic.doc.automed.p2p.protocol.P2PProtocol
buildRegisterRequest(String, int) - Static method in class uk.ac.ic.doc.automed.p2p.protocol.P2PProtocol
buildSchemaRequest(String) - Static method in class uk.ac.ic.doc.automed.p2p.protocol.P2PProtocol
buildTree() - Method in class uk.ac.ic.doc.automed.p2p.tree.TreeBuilder
BuildViewException - Exception in uk.ac.bbk.dcs.automed.qproc.reformulate
  Exception to be used by all the classes related to building views.
BuildViewException(String) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.reformulate.BuildViewException
  Creates an BuildViewException when there has been no Exception that caused the error to discovered.
BuildViewException(String, Exception) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.reformulate.BuildViewException
  Creates an BuildViewException when it is acting as a wrapper for other Exceptions.
buildViews() - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.AtomicViewMap
  Traverses the pathway between the source and the target schema and populates the `AtomicViewMap` with views between a single source schema and a single target schema.
buildViews() - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.BAVViewMap
  Constructs the composite views
buildViews() - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.CompositeViewMap
buildViews(Map[]) - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.CompositeViewMap
buildViews() - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.GAVQueryReformulationProvider
  Traverses BAV pathways and builds GAV views.
buildViews() - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.GAVViewMap
  Constructs the composite views
buildViews() - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.LAVInvRulesViewMap
  Constructs the composite views
BuiltInFunction - Class in uk.ac.bbk.dcs.automed.qproc.functions
  Interface class for all functions.
BuiltInFunction() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.BuiltInFunction
builtins - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
builtinsTimeSpent - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator

## C

CACHE_EVAL - Static variable in class uk.ac.ic.doc.automed.qproc.P2PQueryProcessorConfiguration
CACHE_MODE_ADAPTIVE - Static variable in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
CACHE_MODE_ALWAYS - Static variable in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
CACHE_MODE_NONE - Static variable in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
CACHE_OPTI - Static variable in class uk.ac.ic.doc.automed.qproc.P2PQueryProcessorConfiguration
CACHE_REFO - Static variable in class uk.ac.ic.doc.automed.qproc.P2PQueryProcessorConfiguration
CACHE_RESULT - Static variable in interface uk.ac.ic.doc.automed.qproc.cache.CachePolicy
Cacheable - Interface in uk.ac.ic.doc.automed.util.cache
CacheContentDescription - Class in uk.ac.ic.doc.automed.util.cache
CacheContentDescription(String[], Object[][]) - Constructor for class uk.ac.ic.doc.automed.util.cache.CacheContentDescription
  Creates a new instance of CacheContentDescription
cacheEnd - Variable in class uk.ac.bbk.dcs.automed.qproc.functions.internal.CallToWrapper
CacheException - Exception in uk.ac.ic.doc.automed.util.cache
CacheException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.util.cache.CacheException
  Creates a new instance of CacheIntegrityException
CacheException(String) - Constructor for exception uk.ac.ic.doc.automed.util.cache.CacheException
cacheInstanceCreated(String, Cacheable) - Method in interface uk.ac.ic.doc.automed.util.cache.CacheManagementListener
  Handle the event where a new cache instance has been created
cacheInstanceCreated(String, Cacheable) - Method in class uk.ac.ic.doc.rodex.p2p.gui.CacheViewerPanel
CacheIntegrityException - Exception in uk.ac.ic.doc.automed.util.cache
CacheIntegrityException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.util.cache.CacheIntegrityException
  Creates a new instance of CacheIntegrityException
CacheIntegrityException(String) - Constructor for exception uk.ac.ic.doc.automed.util.cache.CacheIntegrityException
CacheItem - Class in uk.ac.ic.doc.automed.util.cache
CacheItem(String, String) - Constructor for class uk.ac.ic.doc.automed.util.cache.CacheItem
  Creates a new instance of CacheItem
CacheItem(String) - Constructor for class uk.ac.ic.doc.automed.util.cache.CacheItem
CacheListener - Interface in uk.ac.ic.doc.automed.util.cache
CacheManagementListener - Interface in uk.ac.ic.doc.automed.util.cache
  CacheManagementListener.java
CacheManager - Class in uk.ac.ic.doc.automed.qproc.cache
  CacheManager.java
  Responsible for creating a new query cache instance and manipulating the cache
CacheObjectBinding - Class in uk.ac.ic.doc.automed.qproc.cache
  CacheObjectBinding.java
  Custom binding of essential `CacheItem` attributes for persistency
CacheObjectBinding() - Constructor for class uk.ac.ic.doc.automed.qproc.cache.CacheObjectBinding
cacheOn - Variable in class uk.ac.bbk.dcs.automed.qproc.functions.internal.CallToWrapper
CachePolicy - Interface in uk.ac.ic.doc.automed.qproc.cache
  CachePolicy.java
CachePolicy2 - Class in uk.ac.ic.doc.automed.qproc.cache
  CachePolicy2.java Prefer live data
CachePolicy2() - Constructor for class uk.ac.ic.doc.automed.qproc.cache.CachePolicy2
  Creates a new instance of CachePolicy
CachePolicy3 - Class in uk.ac.ic.doc.automed.qproc.cache
  CachePolicy3.java Only use the case, do not cache at GUI
CachePolicy3() - Constructor for class uk.ac.ic.doc.automed.qproc.cache.CachePolicy3
  Creates a new instance of CachePolicy
cacheRefreshed() - Method in interface uk.ac.ic.doc.automed.util.cache.CacheListener
  deprecated use `CacheListener.operateOnCache(Cacheable)` instead
cacheResult(ASG, ASG, Cell, Map) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.internal.CallToWrapper
cacheStart - Variable in class uk.ac.bbk.dcs.automed.qproc.functions.internal.CallToWrapper
cacheTimeSpent - Static variable in class uk.ac.bbk.dcs.automed.qproc.functions.internal.CallToWrapper
CacheTK - Class in uk.ac.ic.doc.automed.qproc.cache
  CacheToolKit.java
CacheViewerFrame - Class in uk.ac.ic.doc.rodex.p2p.gui
CacheViewerFrame(String, Cacheable) - Constructor for class uk.ac.ic.doc.rodex.p2p.gui.CacheViewerFrame
  Creates a new instance of CacheViewerFrame.
CacheViewerPanel - Class in uk.ac.ic.doc.rodex.p2p.gui
CacheViewerPanel(Map, DetachedTextEditor) - Constructor for class uk.ac.ic.doc.rodex.p2p.gui.CacheViewerPanel
  Creates new form CacheViewerPanel
CacheViewers - Class in uk.ac.ic.doc.rodex.p2p.gui
  CacheViewers.java
CacheViewers(CacheManager, String) - Constructor for class uk.ac.ic.doc.rodex.p2p.gui.CacheViewers
  Creates a new instance of CacheViewers
cacheWrapper() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Cache this `AutoMedWrapper` as being able to provide the implementation of an `AccessMethod` used to create the wrapper.
calcRectangleConnector(Rectangle, Rectangle) - Static method in class uk.ac.ic.doc.automed.editor.EditorPanel
  Compute three points, the first two of which represent a rectangle that forms a box `between' the supplied rectangles, and the third point represents the `sign' of the relationship between the rectangles.
calculateCellValueLength(Component, String) - Static method in class uk.ac.ic.doc.automed.editor.TextEditor
  Get the estimated length of a text string painted on a component
Call2Wrapper - Class in uk.ac.ic.doc.automed.qproc.functions.internal
  Call2Wrapper.java Extends CallToWrapper but does not perform caching of the result
Call2Wrapper() - Constructor for class uk.ac.ic.doc.automed.qproc.functions.internal.Call2Wrapper
  Creates a new instance of Call2Wrapper
callConfirmMessagePane(String) - Method in class uk.ac.ic.doc.automed.editor.PatternWritingTool
callErrorMessagePane(String) - Method in class uk.ac.ic.doc.automed.editor.PatternWritingTool
calls - Static variable in class uk.ac.bbk.dcs.automed.qproc.functions.collections.Flatmap
CallToWrapper - Class in uk.ac.bbk.dcs.automed.qproc.functions.internal
CallToWrapper() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.internal.CallToWrapper
CAP_DEFAULT - Static variable in class uk.ac.ic.doc.automed.reps.DataSource
CAPABILITY - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
cardString(Graphics2D, String, Point, Point) - Method in class uk.ac.ic.doc.automed.editor.drawables.DrawERRelationshipArc
  Place a string neer the p1 end of a line between p1 and p2 such that it will not overlap the object p1 might connect to.
CASE - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
caseCommand(String) - Static method in class uk.ac.ic.doc.automed.Util
  converts the argument into lower case with the first letter in uppercase
castType(int, int) - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  This method attempts to cast a type to one higher in the type hierarchy.
cdata - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
CData - Static variable in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphText
Cell - Class in uk.ac.bbk.dcs.automed.qproc.iql
  Every node in an ASG is a Cell, so one has to use this class in order to perform any operations on an ASG
Cell(int, Object, Object, Object) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.Cell
Cell(int, Object, Object) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.Cell
Cell(int, Object) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.Cell
Cell(int, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.Cell
Cell(int, double) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.Cell
Cell(Object, Object) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.Cell
Cell(String) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.Cell
CFG_FILE_EXT - Static variable in class uk.ac.ic.doc.automed.p2p.AppToolKit
CFR - Class in uk.ac.bbk.dcs.automed.qproc.iql
  Constructors and Functions Repository class.
CFR() - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.CFR
changePeerState(int) - Method in class uk.ac.ic.doc.automed.p2p.state.PeerStateHandler
  It handle all state transitions in one method, throwing exceptions when
  conflicts occur
  .
changeSchemaUIDs(Schema, String) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.UIDUtility
CHANNEL_MULTICAST - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Send communication messages via multicast
CHANNEL_UNICAST - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Send communication messages via unicast
CHAR - Static variable in class uk.ac.ic.doc.automed.matching.SchemaElement
characters(char[], int, int) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSSAX
CHARACTERS - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
characters(char[], int, int) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
checkCDATA(String) - Static method in class uk.ac.ic.doc.automed.xml.XMLSyntax
  Thorws XMLSyntaxException if the string is null.
checkComparisonPredicates(QueryAnalyser, MiniConQueryRewriter.MiniConDescription) - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter
  keep a mapping b/w pairs of query-view whose predicates have been checked
checkConstants(QueryAnalyser, MiniConQueryRewriter.MiniConDescription) - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter
  Check if the current `MCD` support any constants in the query
checkDepenednts(Schema, String) - Static method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.ExtensionalSchemaEvolution
checkEditable() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Checks whether a schema is editable.
CheckExistenceModule - Class in uk.ac.ic.doc.automed.matching.modules.bidirectionalmap
  The module that compares the schema elements by examining if they have common instances
CheckExistenceModule(ArrayList, ArrayList) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.CheckExistenceModule
  Constructs a `CheckExistenceModule` to compare the specified schema elements in the input lists.
CheckExistenceModule(SchemaElement[], SchemaElement[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.CheckExistenceModule
  Constructs a `CheckExistenceModule` to compare the specified schema elements in the input arrays.
CheckExistenceModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.CheckExistenceModule
CheckExistenceModule - Class in uk.ac.ic.doc.automed.matching.modules.intervals
  The module that compares the schema elements by examining if they have common instances
CheckExistenceModule(ArrayList, ArrayList) - Constructor for class uk.ac.ic.doc.automed.matching.modules.intervals.CheckExistenceModule
  Constructs a `CheckExistenceModule` to compare the specified schema elements in the input lists.
CheckExistenceModule(SchemaElement[], SchemaElement[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.intervals.CheckExistenceModule
  Constructs a `CheckExistenceModule` to compare the specified schema elements in the input arrays.
CheckExistenceModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.intervals.CheckExistenceModule
CheckExistenceModule - Class in uk.ac.ic.doc.automed.matching.modules.probability.binary
  The module that compares the schema elements by examining if they have common instances
CheckExistenceModule(ArrayList, ArrayList) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.binary.CheckExistenceModule
  Constructs a `CheckExistenceModule` to compare the specified schema elements in the input lists.
CheckExistenceModule(SchemaElement[], SchemaElement[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.binary.CheckExistenceModule
  Constructs a `CheckExistenceModule` to compare the specified schema elements in the input arrays.
CheckExistenceModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.binary.CheckExistenceModule
CheckExistenceModule - Class in uk.ac.ic.doc.automed.matching.modules.probability.senary
  The module that compares the schema elements by examining if they have common instances
CheckExistenceModule(ArrayList, ArrayList) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.senary.CheckExistenceModule
  Constructs a `CheckExistenceModule` to compare the specified schema elements in the input lists.
CheckExistenceModule(SchemaElement[], SchemaElement[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.senary.CheckExistenceModule
  Constructs a `CheckExistenceModule` to compare the specified schema elements in the input arrays.
CheckExistenceModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.senary.CheckExistenceModule
checkModelsExist(String) - Method in class uk.ac.ic.doc.automed.p2p.SchemaGetter
  For each model name in a name-delimited string, check if it exists in the local database.
checkQualityIndicator(QueryDescription) - Method in class uk.ac.ic.doc.rodex.p2p.protocol.QEP
  Check if query execution can meet the expected quality indicator
checkSchemaName(StringBuffer) - Static method in class uk.ac.ic.doc.automed.reps.Schema
  Check if a given schema name already been assigned.
checkUnionConstructs(Set) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.ExtensionalSchemaEvolution
checkXMLChar(char) - Static method in class uk.ac.ic.doc.automed.xml.XMLSyntax
  Throws IlegleXMLCharacterExceptioin if c is not a valid XML character (i.e.
checkXMLName(String) - Static method in class uk.ac.ic.doc.automed.xml.XMLSyntax
  Throws an XMLSyntaxException if name is not a valid XML element or attribute name.
children - Variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
CHILDREN - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
chkOptimised - Variable in class uk.ac.ic.doc.automed.editor.IQLTool
Choose - Class in uk.ac.bbk.dcs.automed.qproc.functions
Choose() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Choose
chooseBackgroundColor(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
chooseForegroundColor(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
ChooseMainNode(SchemaObject[]) - Method in class uk.ac.ic.doc.automed.editor.layout.AestheticRootLayout
ChooseMainNode(SchemaObject[]) - Method in class uk.ac.ic.doc.automed.editor.layout.LogicalRootLayout
ChooseMainNode(SchemaObject[]) - Method in class uk.ac.ic.doc.automed.editor.layout.RootLayout
ChooseOptimiser - Class in uk.ac.bbk.dcs.automed.qproc.optimise.optimisers
  This Class optimises expressions involving the "choose" built-in function.
ChooseOptimiser() - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.optimisers.ChooseOptimiser
  The three simplification rules.
chooseTextColor(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
cidExists(int) - Static method in class uk.ac.ic.doc.automed.MDR
  Checks if a particular construct identifier (CID) exists in the MDR.
Class - Static variable in class uk.ac.bbk.dcs.automed.rdfs.RDFSConstants
CLASS - Static variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
CLASS_ALTERNATION - Static variable in class uk.ac.ic.doc.automed.reps.Construct
  Class of construct which acts as a place holder for one of list of alternative constructs.
CLASS_CONSTRAINT - Static variable in class uk.ac.ic.doc.automed.reps.Construct
  Class of construct for constraints, i.e.
CLASS_LINK - Static variable in class uk.ac.ic.doc.automed.reps.Construct
  Class of construct for linking constructs, i.e.
CLASS_LINK_NODAL - Static variable in class uk.ac.ic.doc.automed.reps.Construct
  Class of construct for link-nodal constructs, i.e.
CLASS_MAXIMUM - Static variable in class uk.ac.ic.doc.automed.reps.Construct
CLASS_MINIMUM - Static variable in class uk.ac.ic.doc.automed.reps.Construct
CLASS_NODAL - Static variable in class uk.ac.ic.doc.automed.reps.Construct
  Class of construct for nodal constructs, i.e.
CLASS_SEQUENCE - Static variable in class uk.ac.ic.doc.automed.reps.Construct
  Class of construct which acts as a place holder for a list of constructs.
classes - Variable in class uk.ac.ic.doc.automed.p2p.tree.MainObjectClasses
Classifier - Interface in uk.ac.ic.doc.automed.matching.modules.bidirectionalmap
classify(ElementVectorRepresentation) - Method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.AbsoluteEuclideanClassifier
classify(ElementVectorRepresentation) - Method in interface uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.Classifier
classify(ElementVectorRepresentation) - Method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.RelativeEuclideanClassifier
CLAUSE_CLASS - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
clear() - Method in class uk.ac.ic.doc.automed.editor.PatternWritingTool.DynamicTree
  Remove all nodes except the root node.
clear() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedMessagingHelper
clear() - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
  Clear the cache
clear() - Method in interface uk.ac.ic.doc.automed.util.cache.Cacheable
  Clear the cache
clear() - Method in class uk.ac.ic.doc.automed.util.cache.CacheContentDescription
  Clear the cache content
clearAccessMethods() - Static method in class uk.ac.ic.doc.automed.reps.AccessMethod
clearCache() - Method in class uk.ac.ic.doc.rodex.p2p.gui.CacheViewerFrame
  Clear the active cache
clearFeatures() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
  Clear all the features for this factory.
clearSchemas() - Static method in class uk.ac.ic.doc.automed.reps.Schema
  This method empties all the cached Schema, SchemaObject, Transformation, AccessMethods and Protocols that have been cached.
CLIENT_DEDICATED - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Dedicated network client
CLIENT_SOCK_TIME_OUT - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  default client time out (in milli-secs), this is especially useful in UDP communication where there is no way of knowing the status of the response (connectionless)
CLIENT_SWITCHED - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Switched network client
ClientFactory - Class in uk.ac.ic.doc.automed.p2p.communication
ClientFactory() - Constructor for class uk.ac.ic.doc.automed.p2p.communication.ClientFactory
clone() - Method in class uk.ac.ic.doc.automed.matching.SchemaElementPairRelationship
  Creates a clone of the `SchemaElementPairRelationship` object.
close() - Method in class uk.ac.ic.doc.automed.editor.Gui
close() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Close down the peer and its message handler, allowing another instance of this class to be created.
close() - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
close() - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
  Close the AutoMedPeer, and allow to register as a new peer
close() - Method in class uk.ac.ic.doc.automed.p2p.P2PRegistry
close() - Method in class uk.ac.ic.doc.automed.util.db.QueryCacheSQLAdapter
  Close the database
close() - Method in class uk.ac.ic.doc.automed.util.persist.PersistentDB
  Close the database
close() - Method in class uk.ac.ic.doc.automed.util.persist.PersistentDBController
  Close the environment
close() - Method in interface uk.ac.ic.doc.automed.util.persist.PersistentHandler
  Close the database
close() - Method in class uk.ac.ic.doc.automed.xml.XMLReader
  call this if you intend to stop reading tokens and haven't read an END_DOCUMENT or SAX_ERROR token this will not return until the parser thread completes or it times out at which point it throws an XMLReaderException.
close(int) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
close() - Method in class uk.ac.ic.doc.rodex.p2p.gui.GuiApplication
close() - Method in class uk.ac.ic.doc.rodex.p2p.gui.LoginGui
closeConnection() - Method in class uk.ac.ic.doc.automed.util.db.DBAccess
closeScheme - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
closeTag() - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
CLS_CACHE - Static variable in class uk.ac.ic.doc.automed.util.ModuleConnector
Cluster - Class in uk.ac.ic.doc.automed.matching.modules.bidirectionalmap
Cluster() - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.Cluster
Clusterer - Class in uk.ac.ic.doc.automed.matching.modules.bidirectionalmap
Clusterer() - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.Clusterer
ClustererClassifier - Class in uk.ac.ic.doc.automed.matching.modules.bidirectionalmap
ClustererClassifier() - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.ClustererClassifier
clusters - Variable in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.Clusterer
collapseWhiteSpace(Node) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
COLLECTION - Static variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
COLLECTION_BAG_CONS - Variable in class uk.ac.bbk.dcs.automed.qproc.iql.ASGCollection
COLLECTION_BAG_NIL - Variable in class uk.ac.bbk.dcs.automed.qproc.iql.ASGCollection
COLLECTION_LIST_CONS - Variable in class uk.ac.bbk.dcs.automed.qproc.iql.ASGCollection
COLLECTION_LIST_NIL - Variable in class uk.ac.bbk.dcs.automed.qproc.iql.ASGCollection
COLLECTION_SET - Static variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
COLLECTION_SET_CONS - Variable in class uk.ac.bbk.dcs.automed.qproc.iql.ASGCollection
COLLECTION_SET_NIL - Variable in class uk.ac.bbk.dcs.automed.qproc.iql.ASGCollection
CollectionOperatorReorganiser - Class in uk.ac.bbk.dcs.automed.qproc.optimise.optimisers
  This optimiser is to reorganise the order of arguments in expressions containing ++, --, intersect & union operators, so that constructs from the same schema come closer in the query tree and therefore bigger sub queries can be sent to the a datasource wrapper.
CollectionOperatorReorganiser() - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.optimisers.CollectionOperatorReorganiser
  Considering the fellowing cases: $x ++ ($y ++ $z) // Two++A ($x ++ $y) ++ $z // Two++B ($x ++ $y) ++ ($z ++ $m) // Three++ $x -- ($y -- $z) // unchangable ($x -- $y) -- $z // Two-- ($x -- $y) -- ($z -- $m) // Three-- $x ++ ($y -- $z) // unchangable ($x -- $y) ++ $z // unchangable ($x -- $y) ++ ($z -- $m) // unchangable $x -- ($y ++ $z) // One--One++ ($x ++ $y) -- $z // unchangable ($x ++ $y) -- ($z ++ $m) // One++One--One++ ($x ++ $y) ++ ($z -- $m) // Two++One-- ($x -- $y) ++ ($z ++ $m) // One--Two++ ($x ++ $y) -- ($z -- $m) // unchangable ($x -- $y) -- ($z ++ $m) // Two--One++ $x union ($y union $z) // TwoUnionA ($x union $y) union $z // TwoUnionB ($x union $y) union ($z union $m) //ThreeUnion $x intersect ($y intersect $z) //TwoIntersectA ($x intersect $y) intersect $z //TwoIntersectB ($x intersect $y) intersect ($z intersect $m) //ThreeIntersect
collectionQuery - Variable in class uk.ac.bbk.dcs.automed.wrappers.IQLTranslator
CollectionSet - Class in uk.ac.ic.doc.automed.p2p.tree
CollectionSet() - Constructor for class uk.ac.ic.doc.automed.p2p.tree.CollectionSet
collectionXMLDSS - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
Colon - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.FSym
Colon - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
COLON - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
colon - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
column - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
column - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
column - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
column - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
column - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
COLUMN_POSITION - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
  A feature option to model the position of a column in a table as part of a column in any `Schema` the factory generates
columns - Variable in class uk.ac.ic.doc.automed.matching.SQLRelationshipExtractor
combineRelationships(SemanticRelationship, SemanticRelationship) - Static method in class uk.ac.ic.doc.automed.matching.RelationshipExtractor
  Returns the relationship that can be deduced from the specified relationships.
COMMA - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SchemesConstants
COMMA - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompConstants
COMMA - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendConstants
COMMA - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusConstants
Comma - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.FSym
Comma - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
COMMA - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
comma - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
CommandLineDriver - Class in uk.ac.ic.doc.automed.editor
CommandLineDriver() - Constructor for class uk.ac.ic.doc.automed.editor.CommandLineDriver
CommandLineException - Exception in uk.ac.ic.doc.automed.editor
CommandLineException(String) - Constructor for exception uk.ac.ic.doc.automed.editor.CommandLineException
COMMENT - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  Comment string in configuration files
commit() - Method in class uk.ac.ic.doc.automed.util.db.DBAccess
  Only use this method if you want to commit changes immediately.
commit() - Method in class uk.ac.ic.doc.automed.util.db.DBEmbedded
  Only use this method if you want to commit changes immediately.
  In HSQLDB this can be avoided by using "SET _writeDelay 0 MILLIS" in dbname.script
  file.
commit() - Method in class uk.ac.ic.doc.automed.util.db.DBPostgres
  Only use this method if you want to commit changes immediately.
  In HSQLDB this can be avoided by using "SET _writeDelay 0 MILLIS" in dbname.script
  file.
CommunicationException - Exception in uk.ac.ic.doc.automed.p2p.communication
CommunicationException() - Constructor for exception uk.ac.ic.doc.automed.p2p.communication.CommunicationException
CommunicationException(String) - Constructor for exception uk.ac.ic.doc.automed.p2p.communication.CommunicationException
CommunicationException(Throwable) - Constructor for exception uk.ac.ic.doc.automed.p2p.communication.CommunicationException
CommunicationException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.p2p.communication.CommunicationException
COMP - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompConstants
COMP - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendConstants
COMP - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusConstants
ComparableExact - Interface in uk.ac.ic.doc.automed.matching.modules.bidirectionalmap
compare(Set, Cell) - Static method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.ExtensionalSchemaEvolution
compare(String, Cell) - Static method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.ExtensionalSchemaEvolution
compare(Object, Object) - Method in class uk.ac.ic.doc.automed.matching.Instance
compare(Range) - Method in class uk.ac.ic.doc.automed.matching.Range
compare(Object, Object) - Method in class uk.ac.ic.doc.automed.reps.Construct
  Ordering of `Construct`s is determined by their `Construct.getCID()` value.
compare(Object, Object) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
compareExpressions(AutoMedType, AutoMedType) - Static method in class uk.ac.ic.doc.rodex.qproc.QueryFunction
  Compare two `AutoMedType` expressions
compareNodes(Cell, Cell) - Static method in class uk.ac.bbk.dcs.automed.qproc.functions.comparison.Comparisons
compareNumericExpressions(double, double) - Static method in class uk.ac.ic.doc.rodex.qproc.QueryFunction
compareRange(ComparableExact, ComparableExact, ComparableExact, ComparableExact) - Static method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.PrecisionModule
compareStringExpressions(String, String) - Static method in class uk.ac.ic.doc.rodex.qproc.QueryFunction
compareTo(BidirectionalDegree) - Method in class uk.ac.ic.doc.automed.matching.BidirectionalDegree
compareTo(Object) - Method in interface uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.ComparableExact
compareTo(Object) - Method in class uk.ac.ic.doc.automed.matching.SimilarSchemaElementPair
compareTo(Object) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
compareTo(Object) - Method in class uk.ac.ic.doc.automed.reps.Transformation
comparison() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
Comparisons - Class in uk.ac.bbk.dcs.automed.qproc.functions.comparison
Comparisons() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.comparison.Comparisons
COMPARISONTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompConstants
COMPARISONTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendConstants
COMPARISONTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusConstants
Compatibility - Class in uk.ac.ic.doc.automed.matching.relationships
  The Compatibility class represent a compatible semantic relationship between `SchemaElement` objects.
CompGenReorganiser - Class in uk.ac.bbk.dcs.automed.qproc.optimise.optimisers
  This optimiser is used to reorganise the generators in comprehensions.
CompGenReorganiser() - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.optimisers.CompGenReorganiser
completeTree() - Method in class uk.ac.ic.doc.automed.p2p.tree.CollectionSet
completeTree() - Method in class uk.ac.ic.doc.automed.p2p.tree.Root
  completes the tree by adding the AutoMedObject nodes that correspond to the references of the tree.
ComplexType - Class in uk.ac.ic.doc.automed.wrappers.xsdomobject
  Define the internal representation for an XMLSchema complexType
ComplexType(String) - Constructor for class uk.ac.ic.doc.automed.wrappers.xsdomobject.ComplexType
  Creates a new instance of ComplexType
compOp() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
composeView(Map[], ViewKey) - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.CompositeViewMap
compositeQuery(ASG) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.DOMWrapper
compositeQuery(ASG) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.NXDBWrapper
compositeQuery(ASG) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.SAXWrapper
compositeQuery(ASG) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
CompositeViewMap - Class in uk.ac.bbk.dcs.automed.qproc.reformulate
  Class containing common functionality for creating composite views from atomic views.
CompositeViewMap(Schema, Schema, QueryProcessorConfiguration) - Constructor for class uk.ac.bbk.dcs.automed.qproc.reformulate.CompositeViewMap
  Constructs a new `CompositeViewMap` object for the input source and target schemas, then populates it.
Comprehension - Class in uk.ac.bbk.dcs.automed.qproc.functions.internal
Comprehension() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.internal.Comprehension
ComprehensionDistributor - Class in uk.ac.bbk.dcs.automed.qproc.optimise.optimisers
  This optimiser is used to decompose a comprehension whose generators contain append expressions, such as [x|x<-(E1++E2)].
ComprehensionDistributor(boolean) - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.optimisers.ComprehensionDistributor
ComprehensionSimplification - Class in uk.ac.bbk.dcs.automed.qproc.optimise.optimisers
  This Class optimises expressions involving the "choose" built-in function.
ComprehensionSimplification(boolean) - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.optimisers.ComprehensionSimplification
  The three simplification rules.
compSubCompMap - Variable in class uk.ac.bbk.dcs.automed.wrappers.IQLTranslator
  Contains mapping between the vars in a generator pattern and the vars in the head of a subcomp.
computeAbsolutePosition(AutoLayoutTreeObject, int, int) - Static method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutTreeObject
computeName(Schema, Schema, QueryProcessorConfiguration, int) - Static method in class uk.ac.bbk.dcs.automed.qproc.reformulate.AtomicViewMap
computeName(Schema, Schema, QueryProcessorConfiguration) - Static method in class uk.ac.bbk.dcs.automed.qproc.reformulate.CompositeViewMap
con - Variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapper
Concat - Class in uk.ac.bbk.dcs.automed.qproc.functions.string
  Concatenates a list of strings in a single string.
Concat() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.string.Concat
config - Variable in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
ConfigException - Exception in uk.ac.ic.doc.automed.editor
ConfigException(String) - Constructor for exception uk.ac.ic.doc.automed.editor.ConfigException
ConfigException(String, int, String) - Constructor for exception uk.ac.ic.doc.automed.editor.ConfigException
configureLogging() - Static method in class uk.ac.ic.doc.automed.p2p.overlay.OverlayToolKit
  Configure the overlay logging targets.
confirm(Component, Object) - Static method in class uk.ac.ic.doc.automed.p2p.gui.P2PGui
confirm(Object) - Static method in class uk.ac.ic.doc.automed.p2p.gui.P2PGui
CONFIRM - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  performative
confirmOptimise(TML, TML, String) - Method in class uk.ac.ic.doc.automed.editor.PathwayOptimiserTool
connect() - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  If connecting to the HDM store without a schema being passed assume same data source as for the MDR
connect(String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Connect to the database using the access method for the named schema.
connect(String, String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Connect to the database using the access method for the named schema using the access method in the repository for the schema and the password supplied.
connect() - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapper
connect() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.EXISTWrapper
connect() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
connect() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Use the connection details held with this wrapper to connect to the data source.
connect() - Method in class uk.ac.ic.doc.automed.wrappers.CSVWrapper
  Check that the CSV file exists
connect() - Method in class uk.ac.ic.doc.automed.wrappers.HDMWrapper
connect() - Method in class uk.ac.ic.doc.automed.wrappers.P2PWrapper
  In a P2P network, communication is not guarenteed, and hence this method returning with an Exception does not ensure that all peers are contactable.
connect() - Method in class uk.ac.ic.doc.automed.wrappers.QueryCacheWrapper
  Empty method to comply with `AutoMedWrapper`
connect() - Method in class uk.ac.ic.doc.automed.wrappers.SQLWrapper
  Connect to a JDBC database in the standard way.
connect() - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapper
  Check that the XML file exists
connect() - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapper
  Connect to a semistructured textfile --- i.e.
connections - Variable in class uk.ac.ic.doc.automed.util.db.DBAccess
connectToDB() - Method in class uk.ac.ic.doc.automed.reps.RelationalOutputter
  Connect to the local database
consName() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
consName() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
consName() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
consName() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
CONSOLE - Static variable in class uk.ac.ic.doc.automed.util.LogOutputHandler
  Print log messages to std output only
constant() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
constant() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
constant() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
CONSTANT - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
CONSTANT - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
CONSTANT_TOKEN - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
Constants - Interface in uk.ac.ic.doc.automed
  Deprecated. use constants in individual classes instead, such as Construct .CLASS_MINIMUM instead of CONSTRUCT_CLASS_MINIMUM
Constants - Class in uk.ac.ic.doc.automed.p2p
Constants() - Constructor for class uk.ac.ic.doc.automed.p2p.Constants
Constants - Class in uk.ac.ic.doc.automed.util.db
  Constants.java
Constants() - Constructor for class uk.ac.ic.doc.automed.util.db.Constants
Constants - Class in uk.ac.ic.doc.automed.wrappers
  Constants.java
Constants() - Constructor for class uk.ac.ic.doc.automed.wrappers.Constants
ConstantSimplification - Class in uk.ac.bbk.dcs.automed.qproc.optimise.optimisers
  This optimiser eliminates Constructors Null, Any, Void, Nil, SNil and BNil where possible.
ConstantSimplification() - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.optimisers.ConstantSimplification
CONSTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SchemesConstants
CONSTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompConstants
CONSTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendConstants
CONSTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusConstants
ConsToken - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
constrain(Component, int, int, int, int, int, int, double, double, int, int, int, int) - Method in class uk.ac.ic.doc.automed.editor.GUITool
constrain(Component, int, int, int, int, int, int, double, double) - Method in class uk.ac.ic.doc.automed.editor.GUITool
constrain(Component, int, int, int, int) - Method in class uk.ac.ic.doc.automed.editor.GUITool
constraint - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
CONSTRAINT_EXCLUSION - Static variable in class uk.ac.ic.doc.automed.reps.Construct
CONSTRAINT_INCLUSION - Static variable in class uk.ac.ic.doc.automed.reps.Construct
CONSTRAINT_MANDATORY - Static variable in class uk.ac.ic.doc.automed.reps.Construct
CONSTRAINT_REFLEXIVE - Static variable in class uk.ac.ic.doc.automed.reps.Construct
CONSTRAINT_UNDEFINED - Static variable in class uk.ac.ic.doc.automed.reps.Construct
CONSTRAINT_UNION - Static variable in class uk.ac.ic.doc.automed.reps.Construct
CONSTRAINT_UNIQUE - Static variable in class uk.ac.ic.doc.automed.reps.Construct
CONSTRAINTS - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
Construct - Class in uk.ac.ic.doc.automed.reps
  Edited by mdle on 20/10/2005 to implement the `PersistentObject` interface
Construct(Model, int, String, int, boolean) - Constructor for class uk.ac.ic.doc.automed.reps.Construct
  Instantiates a `Construct`, which is assumed to already exist in the `STR`.
construct - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
CONSTRUCT_ADDED - Static variable in class uk.ac.ic.doc.automed.reps.ModelChangeEvent
CONSTRUCT_CHANGED - Static variable in class uk.ac.ic.doc.automed.reps.ModelChangeEvent
CONSTRUCT_CLASS_CONSTRAINT - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated. Class of construct for constraints
CONSTRUCT_CLASS_LINK - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated. Class of construct for linking constructs
CONSTRUCT_CLASS_LINK_NODAL - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated. Class of construct for link-nodal constructs
CONSTRUCT_CLASS_MAXIMUM - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated.
CONSTRUCT_CLASS_MINIMUM - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated.
CONSTRUCT_CLASS_NODAL - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated. Class of construct for nodal constructs
CONSTRUCT_REMOVED - Static variable in class uk.ac.ic.doc.automed.reps.ModelChangeEvent
CONSTRUCT_TYPE_ANY - Static variable in class uk.ac.ic.doc.automed.reps.Construct
CONSTRUCT_TYPE_ARRAY - Static variable in class uk.ac.ic.doc.automed.reps.Construct
CONSTRUCT_TYPE_REFERENCE - Static variable in class uk.ac.ic.doc.automed.reps.Construct
constructAdded(ModelChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.ModelChangeListener
ConstructAny - Static variable in class uk.ac.ic.doc.automed.reps.Construct
ConstructArray - Static variable in class uk.ac.ic.doc.automed.reps.Construct
constructChanged(ModelChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.ModelChangeListener
ConstructConstraint - Class in uk.ac.ic.doc.automed.reps
ConstructConstraint(String, int, String, String) - Constructor for class uk.ac.ic.doc.automed.reps.ConstructConstraint
  Creates a new instance of ConstructConstraint
ConstructConstraint(int, String, String) - Constructor for class uk.ac.ic.doc.automed.reps.ConstructConstraint
  Creates a new instance of ConstructConstraint with a random id
constructor - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
ConstructReference - Static variable in class uk.ac.ic.doc.automed.reps.Construct
constructRemoved(ModelChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.ModelChangeListener
ConstructScheme - Class in uk.ac.ic.doc.automed.reps
  Edited by mdle on 20/10/2005 to implement the `PersistentObject` interface
ConstructScheme(int, int, int, Construct, boolean, int, int, int) - Constructor for class uk.ac.ic.doc.automed.reps.ConstructScheme
  Instantiates a new ConstructScheme object.
ConstructSchemeSyntaxException - Exception in uk.ac.ic.doc.automed.reps
ConstructSchemeSyntaxException(String) - Constructor for exception uk.ac.ic.doc.automed.reps.ConstructSchemeSyntaxException
ConstToken - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.FSym
contain(AutoLayoutSchemaObject) - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayout
contains(SchemaElementPair[], SchemaElement[], int) - Static method in class uk.ac.ic.doc.automed.matching.Integrator
  Returns `true` if the specified elements are contained in the specified pairs.
contains(SchemaElementPair[], SchemaElementPair[]) - Static method in class uk.ac.ic.doc.automed.matching.Integrator
  Returns `true` if the pairs are contained in the specified array.
contains(String) - Method in class uk.ac.ic.doc.automed.reps.Network
  Returns whether or not the network contains the named schema
contains(Schema) - Method in class uk.ac.ic.doc.automed.reps.Network
  Returns whether or not the network contains the supplied schema
contains(Node) - Method in class uk.ac.ic.doc.automed.reps.Network
  Returns whether or not the network contains the supplied node.
contains(SchemaObject) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Determine if a `SchemaObject` exists in this `Schema`
contains(String) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Determine if the `SchemaObject` that has the supplied name exists in this `Schema`
contains(List, List) - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter
  Check if a set of query sub-goals contains another set of sub-goals
containsGraphNode(DirectedGraphNode) - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraph
containsInstance(AbstractStringDistance, String, String[]) - Method in class uk.ac.ic.doc.automed.matching.modules.intervals.JaccardExistenceModule
containsInstance(AbstractStringDistance, String, String[]) - Method in class uk.ac.ic.doc.automed.matching.modules.intervals.JaroExistenceModule
containsInstance(AbstractStringDistance, String, String[]) - Method in class uk.ac.ic.doc.automed.matching.modules.probability.binary.AttributeJaccardExistenceModule
containsInstance(AbstractStringDistance, String, String[]) - Method in class uk.ac.ic.doc.automed.matching.modules.probability.binary.JaccardAtomicExistenceModule
containsInstance(AbstractStringDistance, String, String[]) - Method in class uk.ac.ic.doc.automed.matching.modules.probability.binary.JaccardExistenceModule
containsInstance(AbstractStringDistance, String, String[]) - Method in class uk.ac.ic.doc.automed.matching.modules.probability.binary.JaroAtomicExistenceModule
containsInstance(AbstractStringDistance, String, String[]) - Method in class uk.ac.ic.doc.automed.matching.modules.probability.binary.JaroExistenceModule
containsInstance(AbstractStringDistance, String, String[]) - Method in class uk.ac.ic.doc.automed.matching.modules.probability.senary.JaccardExistenceModule
containsInstance(AbstractStringDistance, String, String[]) - Method in class uk.ac.ic.doc.automed.matching.modules.probability.senary.JaroAtomicExistenceModule
containsInstance(AbstractStringDistance, String, String[]) - Method in class uk.ac.ic.doc.automed.matching.modules.probability.senary.JaroExistenceModule
containsInstance(Object) - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
  Returns `true` if the `SchemaElement` object contains the specified instance.
containsRelationship(SemanticRelationship[], SemanticRelationship) - Static method in class uk.ac.ic.doc.automed.matching.RelationshipExtractor
  Returns `true` if the specified relationship appears in the array of relationships
containsSchemaObject(String) - Method in class uk.ac.ic.doc.automed.reps.Schema
containsSubGoal(List) - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
  Check if a query/view contains some sub-goals
CONTENT - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
CONTEXT - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
contract - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
convertIntoObjects(List) - Static method in class uk.ac.ic.doc.automed.p2p.directory.ModelDescription
convertIntoObjects(List) - Static method in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
convertIntoObjects(List) - Static method in class uk.ac.ic.doc.automed.p2p.directory.SchemaDescription
convertIntoObjects(List) - Static method in class uk.ac.ic.doc.automed.p2p.PathwayDescription
  A method for creating a pathway abstraction objects from a List of records
convertPathToTP(Schema[]) - Method in class uk.ac.ic.doc.automed.reps.Pathway
  Create a list of `Transformation` objects that represent each transformation step from one schema to the next included in path
copy(List) - Static method in class uk.ac.ic.doc.automed.util.ListUtil
copyEnd - Variable in class uk.ac.bbk.dcs.automed.qproc.functions.internal.CallToWrapper
copyGraphCalls - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
copyOfASG() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  Creates and returns an exact copy of the ASG.
copyOfASG() - Method in class uk.ac.ic.doc.automed.qproc.ASGQuery
  Creates and returns an exact copy of the ASG.
copyOfGraph() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns an exact copy of the ASG
copyOfGraphTimeSpent - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
copyStart - Variable in class uk.ac.bbk.dcs.automed.qproc.functions.internal.CallToWrapper
copyTimeSpent - Static variable in class uk.ac.bbk.dcs.automed.qproc.functions.internal.CallToWrapper
Count - Class in uk.ac.bbk.dcs.automed.qproc.functions.collections
Count() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.collections.Count
count() - Method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.Vectors
countAppearances(String, char) - Static method in class uk.ac.ic.doc.automed.matching.Util
createAccessMethod(AutoMedObject) - Method in class uk.ac.ic.doc.automed.p2p.tree.ObjectBuilder
createAccessMethod(Schema, String, Protocol, String, String) - Static method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Used to created an AccessMethod where no password is required to access the data source.
createAccessMethod(Schema, String, Protocol, String, String, String, String, int) - Static method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Creates a new access method.
createAccessMethod(int, String, int, String, String, String, String, int) - Static method in class uk.ac.ic.doc.automed.STR
  Add the access methods of a schema to the STR.
  Precondition: The schema whose access methods are being added must already exist in the schemas table.
createAddTransformation(Schema, Construct, Object[], String, String) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
  Creates a new ADD transformation.
createAddTransformation(Schema, Construct, AutoMedType, Object[], String, String) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
createAddTransformation(Schema, Construct, Object[], String, String, String) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
  Creates an ADD transformation.
createAutoMedModel() - Method in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
  Define a relational modelling language for the SQL standard which is an "AutoMed" oriented modelling language..
createAutoMedNumberRanges(int, int, int) - Static method in class uk.ac.ic.doc.automed.util.NumberToolkit
  Devide an integer range into an equal number of disjoint, equal-sized sub-ranges
createAutoMedObjectsFromTree() - Method in class uk.ac.ic.doc.automed.p2p.tree.ASGObjectBuilder
  An overloading method for creating `Schema` object
createAutoMedObjectsFromTree(boolean) - Method in class uk.ac.ic.doc.automed.p2p.tree.ModelObjectBuilder
  An overloading method for creating `Model` object.
createAutoMedObjectsFromTree() - Method in class uk.ac.ic.doc.automed.p2p.tree.ObjectBuilder
createAutoMedObjectsFromTree() - Method in class uk.ac.ic.doc.automed.p2p.tree.PathwayAbstractObjectBuilder
  An overloading method for creating `Schema` object
createAutoMedObjectsFromTree() - Method in class uk.ac.ic.doc.automed.p2p.tree.PathwayDescriptionObjectBuilder
  An overloading method for creating `Schema` object
createAutoMedObjectsFromTree(Schema) - Method in class uk.ac.ic.doc.automed.p2p.tree.SchemaObjectBuilder
  An overloading method for creating `Schema` object
createAutoMedObjectsFromTree() - Method in class uk.ac.ic.doc.automed.p2p.tree.TransformationAbstractionBuilder
  An overloading method for creating `Schema` object
createAutoMedSchema(AutoMedWrapper, String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapperFactory
createAutoMedSchema(AutoMedWrapper, String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapperFactory
createAutoMedSchema(AutoMedWrapper, String) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
  Create an AutoMed oriented schema from the source oriented schema.
createAutoMedSchema(AutoMedWrapper, String) - Method in class uk.ac.ic.doc.automed.wrappers.CSVWrapperFactory
  Create the AutoMed schema for the CSV document
createAutoMedSchema(AutoMedWrapper, String) - Method in class uk.ac.ic.doc.automed.wrappers.HDMWrapperFactory
createAutoMedSchema(AutoMedWrapper, String) - Method in class uk.ac.ic.doc.automed.wrappers.P2PWrapperFactory
createAutoMedSchema(AutoMedWrapper, String) - Method in class uk.ac.ic.doc.automed.wrappers.QueryCacheWrapperFactory
  Create a new AutoMed-oriented schema for the cache by summarising the BAV rules of all distinct schema objects used in the materialised views
createAutoMedSchema(AutoMedWrapper, String) - Method in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
createAutoMedSchema(AutoMedWrapper, String) - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
  Create the AutoMed schema from the XSDOM representation of the XML Schema document
createAutoMedSchema(AutoMedWrapper, String) - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapperFactory
  Create an AutoMed oriented schema from the source oriented schema.
createClassInstance(String, Class[], Object[]) - Static method in class uk.ac.ic.doc.automed.util.ModuleConnector
  Create a new class instance using a declared constructor
createClassSingleInstance(String, Class[], Object[]) - Static method in class uk.ac.ic.doc.automed.util.ModuleConnector
  Create a class instance using getInstance() method
createClusters() - Method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.Clusterer
createClusters() - Method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.JSomClusterer
createClusters() - Method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.MapDisplay
createConjunctiveQueries(List, List) - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter
  Create the conjunctive queries from MCDs
createConjunctiveQueries(List, List) - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriterNonConjunctive
  Create the conjunctive queries from MCDs
createConstruct(int, String, int, boolean) - Static method in class uk.ac.ic.doc.automed.MDR
  Creates a new construct for a modelling language
createConstruct(String, int, boolean) - Method in class uk.ac.ic.doc.automed.reps.Model
  Creates a new construct and add to the model.
createConstructConstraint(int, String, String) - Static method in class uk.ac.ic.doc.automed.MDR
  Create a new construct constraint
createConstructScheme(int, int, int, boolean, int, int, int) - Static method in class uk.ac.ic.doc.automed.MDR
  Creates a new constructScheme argument for a construct
createConstructScheme(int, Construct, boolean, int, int, int) - Method in class uk.ac.ic.doc.automed.reps.Construct
  Semi-deprecated! See the various addXxxScheme() methods.
createContractTransformation(Schema, SchemaObject, String, String) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
  Creates an CONTRACT transformation.
createContractTransformation(Schema, SchemaObject, String, String, String) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
  Creates an CONTRACT transformation.
createDaemon(String, String, int, RequestListener, boolean) - Static method in class uk.ac.ic.doc.automed.p2p.AutoMedMessagingHelper
  Initiates a network daemon for an `AutoMedPeer` to listen to other peers' requests
  .
createDB(String, boolean, EntryBinding) - Method in class uk.ac.ic.doc.automed.util.persist.PersistentDBController
  Create a new persistent database
createDBtables() - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
createDBtables(String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Check to see if the repository tables are in place on the HDM store data source.
createDeleteTransformation(Schema, SchemaObject, String, String) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
  Creates a DELETE transformation.
createDeleteTransformation(Schema, SchemaObject, String, String, String) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
  Creates a DELETE transformation.
createDomDocAsWell(OutputStream) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
  for debug purposes you may want to create your XML via a DOM document builder
createDOMDocument(Element, String, String) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
  Creates a new file named "fileName" in path "filePath", with only the root, named "rootName", and returns its DOM representation.
createEditor(Positionable, boolean) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
  Create an EditorFrame for a `Positionable` in the GUI.
createEditorFrame(Positionable) - Method in class uk.ac.ic.doc.automed.editor.Gui
  Open an editor window on a `Positionable` (e.g.
createExtendTransformation(Schema, Construct, Object[], String, String) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
  Creates an EXTEND transformation.
createExtendTransformation(Schema, Construct, Object[], String, String, String) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
  Creates an EXTEND transformation.
createFields() - Method in class uk.ac.ic.doc.automed.editor.GUITool
createFields() - Method in class uk.ac.ic.doc.automed.editor.IQLTool
createFields() - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
createFields() - Method in class uk.ac.ic.doc.automed.editor.PathwayOptimiserTool
createFields() - Method in class uk.ac.ic.doc.automed.editor.ReportException
createFields() - Method in class uk.ac.ic.doc.automed.editor.WrapperTool
createFields() - Method in class uk.ac.ic.doc.automed.editor.XMLSchemaEditor
createFields() - Method in class uk.ac.ic.doc.rodex.p2p.gui.CacheViewerFrame
  Implements GUITool abstract methods
createFields() - Method in class uk.ac.ic.doc.rodex.p2p.gui.QueryTool
  Create Gui controls
createFollowingSchemaName() - Method in class uk.ac.ic.doc.automed.reps.Schema
createFollowingSchemaName(String) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Generate a name of a schema that "appears" to be following the name used for this Schema, and which has not already been used as a Schema name
createFrom(List, List) - Static method in class uk.ac.ic.doc.automed.p2p.directory.ModelDescription
createFrom(List, List) - Static method in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
createFrom(List, List) - Static method in class uk.ac.ic.doc.automed.p2p.directory.SchemaDescription
createFrom(AbstractMessage) - Method in interface uk.ac.ic.doc.automed.p2p.messages.applicationlayer.ApplicationMessage
createFrom(AbstractMessage) - Method in class uk.ac.ic.doc.automed.p2p.messages.applicationlayer.BrokerAllQuery
createFrom(AbstractMessage) - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
  Return an instance of this message created from a given `AbstractMessage` This method is used by the receiving peer to decode the message
createFrom(AbstractMessage) - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.SchemaAdvertMsg
  Return an instance of this message created from a given `AbstractMessage` This method is used by the receiving peer to decode the message
createFrom(AbstractMessage) - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.SchemaRegMsg
  Return an instance of this message created from a given `AbstractMessage` This method is used by the receiving peer to decode the message
createFromGlobalId(String) - Static method in class uk.ac.ic.doc.automed.reps.PersistentKey
createFromIdAndClass(String, Class) - Static method in class uk.ac.ic.doc.automed.reps.PersistentKey
createHdmStore(String, String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Create a logical HDM store for the given schema.
createIdentTransformation(Schema, Schema) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.ExtensionalSchemaEvolution
createIdentTransformation(Schema, Schema, String, String) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
  Creates an IDENT transformation.
createIdentTransformations(Schema, Schema, String, String) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
  Deprecated. Use `#createIdentTransformations()` instead.
createIDFromNumber(long) - Static method in class uk.ac.ic.doc.automed.p2p.overlay.OverlayToolKit
  Create a DHT-compatible ID for an integral number
createIDFromString(String) - Static method in class uk.ac.ic.doc.automed.p2p.overlay.OverlayToolKit
  Create an ID object from a String
CreateInstanceException - Exception in uk.ac.ic.doc.automed.util
CreateInstanceException(String) - Constructor for exception uk.ac.ic.doc.automed.util.CreateInstanceException
  Creates a new instance of CreateInstanceException
CreateInstanceException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.util.CreateInstanceException
createIntSchemaName(String, boolean, boolean) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
  Creates a name for an intentional schema based on a given schema.
createJTree() - Method in class uk.ac.ic.doc.automed.xmlschema.tree.BuildJTree
  Create the JTree
createLogger() - Static method in class uk.ac.bbk.dcs.automed.qproc.QProcLogger
createModel(String) - Static method in class uk.ac.ic.doc.automed.MDR
  Creates a new data modelling language which can then have constructs added.
createModel(AutoMedObject, boolean) - Method in class uk.ac.ic.doc.automed.p2p.tree.ModelObjectBuilder
  Create a model object from the corresponding tree
createModel(AutoMedObject) - Method in class uk.ac.ic.doc.automed.p2p.tree.ObjectBuilder
  Deprecated. use `ModelObjectBuilder.createModel(AutoMedObject objectNode, overwrite)` instead
createModel(String) - Static method in class uk.ac.ic.doc.automed.reps.Model
  Creates a new model with the given name.
createModel() - Method in class uk.ac.ic.doc.automed.wrappers.CSVWrapperFactory
  Define the CSV model in the Automed MDR database
createModel() - Method in class uk.ac.ic.doc.automed.wrappers.HDMWrapperFactory
  Define the xmlschema model in the Automed MDR database
createModel() - Method in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
  Define a relational modelling language for the SQL standard, together with the JDBC protocol for accessing SQL compliant databases.
createModel() - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
  Define the xmlschema model in the Automed MDR database
createNew() - Method in class uk.ac.bbk.dcs.automed.evolution1.Evolution
createNew() - Method in class uk.ac.bbk.dcs.automed.evolution1.ExtensionalSchemaEvolution
createNew() - Method in class uk.ac.bbk.dcs.automed.evolution1.VirtualSchemaEvolution
createNew() - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.ExtensionalSchemaEvolution
createNew() - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.IntegratedSchemaEvolution
createNew() - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
createNewOneStep() - Method in class uk.ac.bbk.dcs.automed.evolution1.Evolution
createNewOneStep() - Method in class uk.ac.bbk.dcs.automed.evolution1.ExtensionalSchemaEvolution
createNewOneStep() - Method in class uk.ac.bbk.dcs.automed.evolution1.VirtualSchemaEvolution
createNewOneStep() - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.ExtensionalSchemaEvolution
createNewOneStep() - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.IntegratedSchemaEvolution
createNewOneStep() - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
createNoneConjunctiveQueries(List, List) - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriterNonConjunctive
createNumberRanges(int, int, int) - Static method in class uk.ac.ic.doc.automed.util.NumberToolkit
  Devide an integer range into an equal number of disjoint, equal-sized sub-ranges
createObjectNode(PersistentObject) - Static method in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
createOutputQuery() - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
  Create output query from rewritten query and remainder query
createPathway(AutoMedObject) - Method in class uk.ac.ic.doc.automed.p2p.tree.ObjectBuilder
createPathway(Schema[]) - Static method in class uk.ac.ic.doc.automed.reps.Pathway
createPathwayAbstraction(String, String, String, String, float) - Method in class uk.ac.ic.doc.automed.p2p.tree.PathwayAbstractObjectBuilder
  Create a `PathwayAbstraction` object from tree
createPattern(String, String) - Static method in class uk.ac.ic.doc.automed.ssd.Pattern
createPattern(String, String) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Adds a new pattern to the SSMDR.
createPatternSobjAssociation(int, int, int, int) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Add the association between ssdpattern and schema object to the SSMDR.
createProtocol(String) - Static method in class uk.ac.ic.doc.automed.reps.Protocol
  Creates a new protocol.
createProtocol(String) - Static method in class uk.ac.ic.doc.automed.STR
  Add the given protocol to the STR.
createQueryFromSubGoals(List) - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter
createRandomID() - Static method in class uk.ac.ic.doc.automed.p2p.overlay.OverlayToolKit
  Create a random DHT-compatible ID
createRelationalTables() - Method in class uk.ac.ic.doc.automed.reps.RelationalOutputter
  Create the relational tables from the automed schema objects
createRenameTransformation(Schema, SchemaObject, Object[]) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
  Creates a RENAME transformation.
createRenameTransformation(Schema, SchemaObject, Object[], String) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
  Creates a RENAME transformation.
createResultQuery() - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
  Create result query from cached result (of the rewritten query) and remainder query, i.e.
createSchema(AutoMedObject) - Method in class uk.ac.ic.doc.automed.p2p.tree.ObjectBuilder
  Edited by dmle on 13/11/2005 to make this method package-scope
createSchema(Reference) - Method in class uk.ac.ic.doc.automed.p2p.tree.ObjectBuilder
createSchema(AutoMedObject, Schema) - Method in class uk.ac.ic.doc.automed.p2p.tree.SchemaObjectBuilder
  An overloading method to create a new `Schema` object.
createSchema(String, boolean) - Static method in class uk.ac.ic.doc.automed.reps.Schema
  Creates a new schema.
createSchema(String) - Static method in class uk.ac.ic.doc.automed.reps.Schema
  Creates a new STORED_TYPE schema.
createSchema(String, int, Schema) - Static method in class uk.ac.ic.doc.automed.reps.Schema
  Creates a new schema.
createSchema(String, int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Adds a new schema to the STR.
createSchemaObject(Construct, Object[], int) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Create a schema object with type_id
createSchemaObject(Construct, Object[]) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Creates a schema object.
createSchemaObject(Construct, AutoMedType, Object[]) - Method in class uk.ac.ic.doc.automed.reps.Schema
createSchemaObject(Schema, Construct, Object[]) - Static method in class uk.ac.ic.doc.automed.reps.SchemaObject
  All schemaobjects belong to schemas Creates a new schema object.
createSchemaObject(Schema, Construct, AutoMedType, Object[]) - Static method in class uk.ac.ic.doc.automed.reps.SchemaObject
createSchemaObject(int, int, String) - Static method in class uk.ac.ic.doc.automed.STR
  Adds a new schema object to the STR.
createSchemaObject(int, int, int, String) - Static method in class uk.ac.ic.doc.automed.STR
  As above but with the AMType in
createSchemaObjectFromDB(int, Schema) - Static method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Instantiates a `SchemaObject` whose record already exists in the STR.
createScheme(int, int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Adds a scheme to the STR.
createSSDFormat(String, Schema) - Static method in class uk.ac.ic.doc.automed.ssd.SSDFormat
  Create a SSDFormat
createSSDFormat(String) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Adds a new ssdformat to the SSMDR.
createSSDPattern(Pattern) - Method in class uk.ac.ic.doc.automed.ssd.SSDFormat
createSSDPattern(int) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Adds a ssdpattern to the SSMDR.
createTransformation(String, int, int, int, int, String, String) - Static method in class uk.ac.ic.doc.automed.STR
  Adds a transformation to the STR between two existing schemas, which must not already have a transformation between them.
createTree(PersistentObject) - Static method in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
createTree(PersistentObject[]) - Static method in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
createTreeFromObjects(PersistentObject[]) - Static method in class uk.ac.ic.doc.automed.p2p.tree.TransformationAbstractionBuilder
  Create the actual tree from objects
createType(int, String, int, int) - Static method in class uk.ac.ic.doc.automed.MDR
  Create a new record in type hierarchy table
createTypeHierarchies() - Static method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Load all the type information for all models into a static hashMap This method is called once when the system is started into the types hash map
createTypeHierarchy() - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapperFactory
createTypeHierarchy() - Method in class uk.ac.ic.doc.automed.wrappers.HDMWrapperFactory
createTypeHierarchy() - Method in class uk.ac.ic.doc.automed.wrappers.P2PWrapperFactory
createTypeHierarchy() - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapperFactory
createXSDOM() - Method in class uk.ac.ic.doc.automed.xmlschema.XMLSchemaBuilder
  Build up an internal representation of any XMLSchema nodes in the AutoMed Schema we're looking at
createXSDOMRepresentation(String) - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapper
  Create an internal representation of the XML Schema.
CrimeFunctionTable - Class in uk.ac.bbk.dcs.automed.xml.experiments.crime
  FunctionTable containing XML-related IQL functions.
CrimeFunctionTable() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.crime.CrimeFunctionTable
CrimeIQLFun1 - Class in uk.ac.bbk.dcs.automed.xml.experiments.crime
CrimeIQLFun1() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.crime.CrimeIQLFun1
CrimeSchemaConform - Class in uk.ac.bbk.dcs.automed.xml.experiments.crime
  Class Task Description
CrimeSchemaConform() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.crime.CrimeSchemaConform
CrimeSchemaMaterialisation - Class in uk.ac.bbk.dcs.automed.xml.experiments.crime
  Class Task Description
CrimeSchemaMaterialisation() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.crime.CrimeSchemaMaterialisation
CrimeSchemaQuery - Class in uk.ac.bbk.dcs.automed.xml.experiments.crime
  Class Task Description
CrimeSchemaQuery() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.crime.CrimeSchemaQuery
CrimeSchemaQueryTest - Class in uk.ac.bbk.dcs.automed.xml.experiments.crime
  Class Task Description
CrimeSchemaQueryTest() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.crime.CrimeSchemaQueryTest
CrimeSchemaWrap - Class in uk.ac.bbk.dcs.automed.xml.experiments.crime
  Class Task Description
CrimeSchemaWrap() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.crime.CrimeSchemaWrap
CrimeTest - Class in uk.ac.bbk.dcs.automed.xml.experiments.crime
  Class Task Description
CrimeTest() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.crime.CrimeTest
CSV_COLOUR - Static variable in class uk.ac.ic.doc.automed.wrappers.CSVWrapperFactory
CSV_MODEL_ELEMENT - Static variable in class uk.ac.ic.doc.automed.wrappers.CSVWrapperFactory
CSV_MODEL_LINK - Static variable in class uk.ac.ic.doc.automed.wrappers.CSVWrapperFactory
CSV_MODEL_NAME - Static variable in class uk.ac.ic.doc.automed.wrappers.CSVWrapperFactory
  Constants
CSV_MODEL_PREFIX - Static variable in class uk.ac.ic.doc.automed.wrappers.CSVWrapperFactory
CSV_MODEL_ROOT - Static variable in class uk.ac.ic.doc.automed.wrappers.CSVWrapperFactory
CSVWrapper - Class in uk.ac.ic.doc.automed.wrappers
CSVWrapper() - Constructor for class uk.ac.ic.doc.automed.wrappers.CSVWrapper
  Creates a new, empty instance of XMLSchemaWrapper
CSVWrapper(AccessMethod, String) - Constructor for class uk.ac.ic.doc.automed.wrappers.CSVWrapper
  This constructor is used when querying the schema
CSVWrapperFactory - Class in uk.ac.ic.doc.automed.wrappers
CSVWrapperFactory() - Constructor for class uk.ac.ic.doc.automed.wrappers.CSVWrapperFactory
  Creates a new instance of CSVWrapperFactory
curChar - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SchemesTokenManager
curChar - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompTokenManager
curChar - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendTokenManager
curChar - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusTokenManager
curChar - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLTokenManager
currentQuery - Variable in class uk.ac.ic.doc.automed.editor.IQLTool
currentSchema - Static variable in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutPositionable
currentToken - Variable in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.ParseException
  This is the last token that has been consumed successfully.
currentToken - Variable in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.ParseException
  This is the last token that has been consumed successfully.
currentToken - Variable in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.ParseException
  This is the last token that has been consumed successfully.
currentToken - Variable in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.ParseException
  This is the last token that has been consumed successfully.
currentToken - Variable in exception uk.ac.bbk.dcs.automed.qproc.translators.xquery.ParseException
  This is the last token that has been consumed successfully.
cx - Variable in class uk.ac.ic.doc.automed.editor.DefaultDrawLinkNodalVertex
CX_GUI - Static variable in interface uk.ac.ic.doc.automed.qproc.cache.CachePolicy
CX_QUERY_EVALUATOR - Static variable in interface uk.ac.ic.doc.automed.qproc.cache.CachePolicy
CX_QUERY_OPTIMISER - Static variable in interface uk.ac.ic.doc.automed.qproc.cache.CachePolicy
CX_QUERY_REFORMULATOR - Static variable in interface uk.ac.ic.doc.automed.qproc.cache.CachePolicy
CX_WRAPPER - Static variable in interface uk.ac.ic.doc.automed.qproc.cache.CachePolicy
cy - Variable in class uk.ac.ic.doc.automed.editor.DefaultDrawLinkNodalVertex

## D

d - Variable in class uk.ac.ic.doc.automed.editor.DrawArc
dashedStroke - Static variable in class uk.ac.ic.doc.automed.editor.DrawArc
dashedStroke - Static variable in class uk.ac.ic.doc.automed.editor.DrawVertex
dashedStroke - Static variable in class uk.ac.ic.doc.automed.editor.EditorPanel
data() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns the Object contained in the Cell
DATA_SIZE - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
  A feature option to model the size in bytes of a column as part of a column in any `Schema` the factory generates
data_source - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
DATA_SOURCE_TYPE - Static variable in class uk.ac.ic.doc.automed.reps.Schema
  In addition to the properties of STORED_TYPE schemas, DATA_SOURCE_TYPE schemas have some external data source that they represent.
DATA_TYPE - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
  A feature option to model the datatype of a column as part of a column in any `Schema` the factory generates
DataEvolution - Class in uk.ac.bbk.dcs.automed.evolution.dataEvolution
DataEvolution() - Constructor for class uk.ac.bbk.dcs.automed.evolution.dataEvolution.DataEvolution
DataEvolution - Class in uk.ac.bbk.dcs.automed.evolution2.dataEvolution
DataEvolution() - Constructor for class uk.ac.bbk.dcs.automed.evolution2.dataEvolution.DataEvolution
DataEvolutionException - Exception in uk.ac.bbk.dcs.automed.evolution.dataEvolution
DataEvolutionException(String) - Constructor for exception uk.ac.bbk.dcs.automed.evolution.dataEvolution.DataEvolutionException
DataEvolutionException - Exception in uk.ac.bbk.dcs.automed.evolution2.dataEvolution
DataEvolutionException(String) - Constructor for exception uk.ac.bbk.dcs.automed.evolution2.dataEvolution.DataEvolutionException
DataLineageTracing - Class in uk.ac.bbk.dcs.automed.dataWarehousing.dlt
DataLineageTracing(Schema, Schema) - Constructor for class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.DataLineageTracing
DataSource - Class in uk.ac.ic.doc.automed.reps
  DataSource.java Represents the data source published by a peer to the network.
DataSource(String, String, int) - Constructor for class uk.ac.ic.doc.automed.reps.DataSource
  Creates a new instance of DataSource
DataSourceException - Exception in uk.ac.ic.doc.automed.wrappers
  Generated when some problem occurs when accessing a data source, such as the wrong password being supplied.
DataSourceException(String) - Constructor for exception uk.ac.ic.doc.automed.wrappers.DataSourceException
  Creates an DataSourceException when there has been no Exception that caused the error to discovered.
DataSourceException(String, Exception) - Constructor for exception uk.ac.ic.doc.automed.wrappers.DataSourceException
  Creates an DataSourceException when it is acting as a wrapper for other Exceptions.
DataSourceRepository - Class in uk.ac.ic.doc.automed
  Deprecated. Old name for `DSR`
DataSourceRepository() - Constructor for class uk.ac.ic.doc.automed.DataSourceRepository
  Deprecated.
DataSourceRepositoryException - Exception in uk.ac.ic.doc.automed
  Deprecated. Old name for `DSRException`.
DataSourceRepositoryException(String) - Constructor for exception uk.ac.ic.doc.automed.DataSourceRepositoryException
  Deprecated.
dataToSend - Variable in class uk.ac.ic.doc.automed.p2p.communication.AbstractClient
dataType() - Method in class uk.ac.bbk.dcs.automed.hdmstore.EdgeElement
  get the dataType
dataType() - Method in class uk.ac.bbk.dcs.automed.hdmstore.Span
  Get the dataType
DataTypeModule - Class in uk.ac.ic.doc.automed.matching.modules.bidirectionalmap
  The module that compares the data types of the schema elements
DataTypeModule(ArrayList, ArrayList) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.DataTypeModule
  Constructs a `DataTypeModule` to compare the specified schema elements in the input lists.
DataTypeModule(SchemaElement[], SchemaElement[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.DataTypeModule
  Constructs a `DataTypeModule` to compare the specified schema elements in the input arrays.
DataTypeModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.DataTypeModule
DataTypeModule - Class in uk.ac.ic.doc.automed.matching.modules.intervals
  The module that compares the data types of the schema elements
DataTypeModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.intervals.DataTypeModule
DataTypeModule - Class in uk.ac.ic.doc.automed.matching.modules.probability.binary
  The module that compares the data types of the schema elements
DataTypeModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.binary.DataTypeModule
DataTypeModule - Class in uk.ac.ic.doc.automed.matching.modules.probability.senary
  The module that compares the data types of the schema elements
DataTypeModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.senary.DataTypeModule
DATE_TOKEN - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
DateFunctionTable - Class in uk.ac.bbk.dcs.automed.qproc.functions.date
  FunctionTable containing date-related IQL functions.
DateFunctionTable() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.date.DateFunctionTable
DateTimeToken - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
dateTimeType - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
DateUtil - Class in uk.ac.ic.doc.automed.util
dateValue() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedTime
datum - Variable in class uk.ac.ic.doc.automed.xml.XMLToken
DAY - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedTime
  Granularity of one day
DB_ENV_CACHE_PATH - Static variable in class uk.ac.ic.doc.automed.util.persist.PersistentDBController
DB_ENV_FILE_PATH - Static variable in class uk.ac.ic.doc.automed.util.persist.PersistentDBController
DB_ENV_OVERLAY_PATH - Static variable in class uk.ac.ic.doc.automed.util.persist.PersistentDBController
DB_FLOAT - Static variable in class uk.ac.ic.doc.automed.util.db.DBResultSet
DB_INT - Static variable in class uk.ac.ic.doc.automed.util.db.DBResultSet
DB_STRING - Static variable in class uk.ac.ic.doc.automed.util.db.DBResultSet
  DB column types
DBAccess - Class in uk.ac.ic.doc.automed.util.db
DBAccess(String, String, String, Properties) - Constructor for class uk.ac.ic.doc.automed.util.db.DBAccess
  Creates a new instance of DBAccess
DBAccessFactory - Class in uk.ac.ic.doc.automed.util.db
DBAccessFactory() - Constructor for class uk.ac.ic.doc.automed.util.db.DBAccessFactory
DBEmbedded - Class in uk.ac.ic.doc.automed.util.db
DBEmbedded(String, String, String, Properties) - Constructor for class uk.ac.ic.doc.automed.util.db.DBEmbedded
  Create a new instance
dbFQPath - Variable in class uk.ac.ic.doc.automed.util.db.DBAccess
DBInstanceException - Exception in uk.ac.ic.doc.automed.util.db
DBInstanceException(String) - Constructor for exception uk.ac.ic.doc.automed.util.db.DBInstanceException
  Creates a new instance of JDBCDriverException
DBInstanceException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.util.db.DBInstanceException
DBN_QUERY_CACHE - Static variable in class uk.ac.ic.doc.automed.util.persist.PersistentDBController
DBPostgres - Class in uk.ac.ic.doc.automed.util.db
DBRecord - Class in uk.ac.ic.doc.automed.util.db
DBRecord(List, Vector) - Constructor for class uk.ac.ic.doc.automed.util.db.DBRecord
  The order of fields is the same as in a record
DBRecordWithConstraints - Class in uk.ac.ic.doc.automed.util.db
DBRecordWithConstraints(List, Vector) - Constructor for class uk.ac.ic.doc.automed.util.db.DBRecordWithConstraints
  The order of fields is the same as in a record
DBRecordWithConstraints(ASG, ASG) - Constructor for class uk.ac.ic.doc.automed.util.db.DBRecordWithConstraints
  The order of fields is the same as in a record
DBResultSet - Class in uk.ac.ic.doc.automed.util.db
DBResultSet(List, Vector) - Constructor for class uk.ac.ic.doc.automed.util.db.DBResultSet
  Creates a new instance of DBResultSet
DBToolKit - Class in uk.ac.ic.doc.automed.util.db
  DBToolKit.java
  A collection of static methods which deal with database operations
Debug - Class in uk.ac.bbk.dcs.automed.hdmstore
  The Debug class allows debugging messages to be sent from a calling application.
Debug() - Constructor for class uk.ac.bbk.dcs.automed.hdmstore.Debug
  Standard constructor, default message level, no logging, print to output.
Debug(int) - Constructor for class uk.ac.bbk.dcs.automed.hdmstore.Debug
  Constructor with message level parameter , no logging, print to output.
Debug(int, boolean, boolean) - Constructor for class uk.ac.bbk.dcs.automed.hdmstore.Debug
  Constructor with message level, logging and print to output all parameters.
Debug(int, boolean, boolean, String) - Constructor for class uk.ac.bbk.dcs.automed.hdmstore.Debug
  Constructor with message level, logging, print to output and log file name all parameters.
debug - Variable in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
debug - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
debug(String) - Static method in class uk.ac.ic.doc.automed.util.Logger
debug(Object) - Static method in class uk.ac.ic.doc.automed.util.Logger
debug(Class, String, String) - Static method in class uk.ac.ic.doc.automed.util.Logger
  Overloading method to display more information about a debug message
debug(Class, String, String, int, int) - Static method in class uk.ac.ic.doc.automed.util.Logger
  Use this for a short-cut to invoking debug
debug(String, String, String) - Static method in class uk.ac.ic.doc.automed.util.Logger
  Overloading method to display more information about a debug message
debug(String, String, String, int, int) - Static method in class uk.ac.ic.doc.automed.util.Logger
  Use this for a short-cut to invoking debug
debug - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
DEBUG_CACHE - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  Debug section: cache
DEBUG_DIRECTORY - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  Debug section: directory service
DEBUG_DIRECTORY_REPOSITORY - Static variable in class uk.ac.ic.doc.automed.util.Debugger
DEBUG_DIRECTORY_TIMER - Static variable in class uk.ac.ic.doc.automed.util.Debugger
DEBUG_GENERAL - Static variable in class uk.ac.ic.doc.automed.STR
DEBUG_GENERAL - Static variable in class uk.ac.ic.doc.automed.util.Debugger
DEBUG_GUI - Static variable in class uk.ac.ic.doc.automed.STR
  Debug information from the gui package
DEBUG_GUI - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  Debug information from the gui package
DEBUG_HELLO - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  Debug Hello protocol
DEBUG_LEVEL_ALL - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  All debug information
DEBUG_LEVEL_DEFAULT - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  No debug but report run-time errors
DEBUG_LEVEL_DETAILED - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  Detailed debug information
DEBUG_LEVEL_ERROR - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  Error information
DEBUG_LEVEL_INFO - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  Debug information to let user know what is going on
DEBUG_LEVEL_NONE - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  No debug at all
DEBUG_LEVEL_PACKET - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  Packet-level debug information
DEBUG_LEVEL_STD - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  Standard debug information
DEBUG_LEVEL_WARN - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  Warning information
DEBUG_P2P - Static variable in class uk.ac.ic.doc.automed.STR
  Debug information from the p2p package
DEBUG_P2P - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  Debug information from the p2p package
DEBUG_P2P_MESSAGING - Static variable in class uk.ac.ic.doc.automed.util.Debugger
DEBUG_P2P_OVERLAY - Static variable in class uk.ac.ic.doc.automed.util.Debugger
DEBUG_PATHWAY - Static variable in class uk.ac.ic.doc.automed.STR
  Debug information about pathway manipulations in the reps package
DEBUG_PATHWAY - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  Debug information about pathway manipulations in the reps package
DEBUG_QUERY - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  Debug section: query processing
DEBUG_QUERY_REWRITE - Static variable in class uk.ac.ic.doc.automed.util.Debugger
DEBUG_REGISTRY - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  Debug section: registry
DEBUG_REPOSITORY - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  Debug the repository
DEBUG_SCHEMA - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  Debug the exchange of schema information
DEBUG_WRAPPER - Static variable in class uk.ac.ic.doc.automed.STR
  Debug information from the wrappers package
DEBUG_WRAPPER - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  Debug information from the wrappers package
Debugger - Class in uk.ac.ic.doc.automed.util
Debugger() - Constructor for class uk.ac.ic.doc.automed.util.Debugger
  Creates a new instance of Debugger
debugPrintStackTrace(Throwable, int) - Static method in class uk.ac.ic.doc.automed.STR
  Print an throwable's stack trace, but only at a certain debug level
debugPrintStackTrace(Throwable, int) - Static method in class uk.ac.ic.doc.automed.util.Debugger
  Print an throwable's stack trace, but only at a certain debug level
debugStream - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SchemesTokenManager
debugStream - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompTokenManager
debugStream - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendTokenManager
debugStream - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusTokenManager
debugStream - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLTokenManager
debugString() - Method in class uk.ac.ic.doc.automed.p2p.tree.Root
debugString() - Method in class uk.ac.ic.doc.automed.reps.Schema
  A String representation of this object useful for debugging code
debugString() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  A String representation of this object useful for debugging code
debugString() - Method in class uk.ac.ic.doc.automed.reps.Transformation
  A String representation of this object useful for debugging code
debugString() - Method in class uk.ac.ic.doc.automed.reps.TransformationAbstraction
  Print content
DECLARE - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
deepCopySet(Set) - Static method in class uk.ac.ic.doc.automed.util.SetUtil
DEF_CACHE_MODE - Static variable in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
DEF_COST - Static variable in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
DEF_FRESHNESS - Static variable in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
DEF_NUM_HOSTS - Static variable in class uk.ac.ic.doc.automed.p2p.overlay.OverlayController
DEF_QLT_INF - Static variable in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
DEF_QLT_PW - Static variable in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
DEF_QLTDS - Static variable in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
DEF_RESULT_TTL - Static variable in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
DEF_WRAPPER_ACTION - Static variable in class uk.ac.ic.doc.automed.qproc.cache.CachePolicy2
DEF_WRAPPER_ACTION - Static variable in class uk.ac.ic.doc.automed.qproc.cache.CachePolicy3
DEF_WRAPPER_ACTION - Static variable in class uk.ac.ic.doc.automed.qproc.cache.DefaultCachePolicy
DEFAULT - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SchemesConstants
DEFAULT - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompConstants
DEFAULT - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendConstants
DEFAULT - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusConstants
DEFAULT - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
default_datasource_color - Static variable in class uk.ac.ic.doc.automed.reps.Schema
  Default Color to use when creating a new data source schema
default_extensional_database_color - Static variable in class uk.ac.ic.doc.automed.reps.Schema
  Default Color to use when creating a new extensional database
default_extensional_schema_color - Static variable in class uk.ac.ic.doc.automed.reps.Schema
  Default Color to use when creating a new extensional schema
DEFAULT_INDENT - Static variable in class uk.ac.ic.doc.automed.reps.Network
DefaultCachePolicy - Class in uk.ac.ic.doc.automed.qproc.cache
  CachePolicy.java Prefer the cache
DefaultCachePolicy() - Constructor for class uk.ac.ic.doc.automed.qproc.cache.DefaultCachePolicy
  Creates a new instance of CachePolicy
DefaultDrawConstraintArc - Class in uk.ac.ic.doc.automed.editor
DefaultDrawConstraintArc(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.DefaultDrawConstraintArc
DefaultDrawConstraintVertex - Class in uk.ac.ic.doc.automed.editor
DefaultDrawConstraintVertex(EditorPanel, Positionable) - Constructor for class uk.ac.ic.doc.automed.editor.DefaultDrawConstraintVertex
DefaultDrawConstraintVertex(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.DefaultDrawConstraintVertex
DefaultDrawLinkArc - Class in uk.ac.ic.doc.automed.editor
DefaultDrawLinkArc(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.DefaultDrawLinkArc
DefaultDrawLinkNodalArc - Class in uk.ac.ic.doc.automed.editor
DefaultDrawLinkNodalArc(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.DefaultDrawLinkNodalArc
DefaultDrawLinkNodalVertex - Class in uk.ac.ic.doc.automed.editor
DefaultDrawLinkNodalVertex(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.DefaultDrawLinkNodalVertex
DefaultDrawLinkVertex - Class in uk.ac.ic.doc.automed.editor
DefaultDrawLinkVertex(EditorPanel, Positionable) - Constructor for class uk.ac.ic.doc.automed.editor.DefaultDrawLinkVertex
DefaultDrawLinkVertex(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.DefaultDrawLinkVertex
DefaultDrawNodalVertex - Class in uk.ac.ic.doc.automed.editor
DefaultDrawNodalVertex(EditorPanel, Positionable) - Constructor for class uk.ac.ic.doc.automed.editor.DefaultDrawNodalVertex
DefaultPathwayFinder - Class in uk.ac.ic.doc.automed.reps.pathway
  DefaultPathwayFinder.java Implement the default method for finding pathways
DefaultPathwayFinder() - Constructor for class uk.ac.ic.doc.automed.reps.pathway.DefaultPathwayFinder
  Creates a new instance of DefaultPathwayFinder
DefaultQueryCache - Class in uk.ac.ic.doc.automed.qproc.cache
DefaultQueryCache(long) - Constructor for class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
  Creates a new instance of DefaultQueryCache (singleton)
DEFINITIVE - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
DEFINITIVE_CHILDREN - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
DEFINITIVE_CHILDREN_RECURSE - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
DEFINITIVE_MEMBER - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
DEFINITIVE_MEMBER_AND_CHILDREN - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
DEFINITIVE_MEMBER_RECURSE - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
DegreeCombinator - Class in uk.ac.ic.doc.automed.matching
  The class that represents the Degree Combinator component in the schema matching architecture.
DegreeCombinator(SimilarSchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.DegreeCombinator
  Constructs the `DegreeCombinator` for the specified aggregated pairs of elements.
DELETE - Static variable in exception uk.ac.ic.doc.automed.IntegrityException
  Exception caused by an operation doing some sort of deletion from the repository.
delete - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
deleted() - Method in class uk.ac.ic.doc.automed.reps.Network
  Return true when the Network class is finished with, after all Schemas have been deleted from it
deleteEdge(String, String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Check the node type is valid & and instance of the node with this value exists.
deleteIQL(ASG) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapper
  Take the query and attempt to insert each of the values in the list into the database.
deleteIQL(ASG) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
deleteNode(String, String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Check the node type is valid & and instance of the node with this value exists.
deleteOldPathway(Schema, Schema) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.ExtensionalSchemaEvolution
deleteOldSchema(String) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.ExperimentsUtility
deleteOldSchema(PrintStream, String) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.ExperimentsUtility
DemoDLT - Class in uk.ac.bbk.dcs.automed.dataWarehousing.dlt
DemoDLT() - Constructor for class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.DemoDLT
dependent - Variable in class uk.ac.ic.doc.automed.editor.DrawVertex
deriveVarToConstructMapping(String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.IQL2XQuery
description - Variable in class uk.ac.ic.doc.automed.p2p.directory.ModelDescription
description - Variable in class uk.ac.ic.doc.automed.p2p.directory.SchemaDescription
DESCRIPTION - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
deserialise(Map) - Static method in class uk.ac.ic.doc.automed.p2p.PathwayDescription
  This method guarantees that a PersistentObject can be deserialised properly from its own set of persistent attributes.
deserialise() - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
  Read content from disk (file or database)
deserialise(Map) - Static method in class uk.ac.ic.doc.automed.reps.DataSource
  This method guarantees that a PersistentObject can be deserialised properly from its own set of persistent attributes.
deserialise(Map) - Static method in class uk.ac.ic.doc.automed.reps.TransformationAbstraction
  This method guarantees that a PersistentObject can be deserialised properly from its own set of persistent attributes.
deserialise() - Method in interface uk.ac.ic.doc.automed.util.persist.Persistence
  Read content from disk (file or database)
deserialise(Map) - Static method in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
  This method guarantees that a PersistentObject can be deserialised properly from its own set of persistent attributes.
deserialise(Map) - Static method in class uk.ac.ic.doc.rodex.qproc.QueryDescription
  This method guarantees that a PersistentObject can be deserialised properly from its own set of persistent attributes.
deserialise(Map) - Static method in class uk.ac.ic.doc.rodex.reps.AttributeDomain
  This method guarantees that a PersistentObject can be deserialised properly from its own set of persistent attributes.
deserialiseASG(Root) - Static method in class uk.ac.ic.doc.rodex.p2p.protocol.QEP
  Deserialise an ASG from its XML representation
DetachedTextEditor - Class in uk.ac.ic.doc.automed.editor
  Another editor class for displaying table's cell value.
DetachedTextEditor(JFrame) - Constructor for class uk.ac.ic.doc.automed.editor.DetachedTextEditor
Difference - Class in uk.ac.bbk.dcs.automed.qproc.functions.collections
Difference() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.collections.Difference
differenceByName(Schema) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Return an `SchemaObject` array containing the difference by name between this schema (s1) and the schema passed as a parameter (s2).
DirectedGraph - Class in uk.ac.bbk.dcs.automed.graph
  Class that abstracts a directed unlabelled graph.
DirectedGraph() - Constructor for class uk.ac.bbk.dcs.automed.graph.DirectedGraph
DirectedGraphNode - Class in uk.ac.bbk.dcs.automed.graph
  Class that abstracts a node in a directed unlabelled graph.
DirectedGraphNode(String) - Constructor for class uk.ac.bbk.dcs.automed.graph.DirectedGraphNode
DIRECTORY_SERVER_CFG_FILE - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
DirectoryServicePeer - Class in uk.ac.ic.doc.rodex.p2p
  DirectoryServicePeer.java
  Represents directory service peer on the network.
DirectoryServicePeer(String, PeerStateHandler) - Constructor for class uk.ac.ic.doc.rodex.p2p.DirectoryServicePeer
  Creates a new instance of DirectoryServicePeer
disable_tracing() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
disable_tracing() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
disable_tracing() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
disable_tracing() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
disable_tracing() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
discoverRelationships() - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
Disjointness - Class in uk.ac.ic.doc.automed.matching.relationships
  The Disjointness class represent the disjointness semantic relationship between `SchemaElement` objects.
disjoints - Variable in class uk.ac.ic.doc.automed.matching.Integrator
dispatchCommand(String[]) - Static method in class uk.ac.ic.doc.automed.DSR
  Invokes the method registered for the command args[0] with `#addCommand(String, Class)`.
dispatchCommand(String) - Method in class uk.ac.ic.doc.automed.editor.CommandLineDriver
display(LinkedList) - Static method in class uk.ac.bbk.dcs.automed.hdmstore.EdgeElement
  Pretty print an edge
display() - Method in class uk.ac.bbk.dcs.automed.hdmstore.Span
  return the node value using the HDM notation
display(JTable, int, int) - Method in class uk.ac.ic.doc.automed.editor.DetachedTextEditor
  show this text editor
display() - Method in class uk.ac.ic.doc.automed.editor.GUITool
display() - Method in class uk.ac.ic.doc.rodex.p2p.gui.CacheViewerFrame
  display the frame
displayASG(String) - Static method in class uk.ac.ic.doc.rodex.qproc.ASGExplore
  For each ASG string, display the ASG graph of it
displaySet(Set) - Static method in class uk.ac.bbk.dcs.automed.evolution.EvolutionUtility
displayTransformation(Transformation) - Static method in class uk.ac.bbk.dcs.automed.evolution.EvolutionUtility
displayTransformation(Transformation) - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
Div - Class in uk.ac.bbk.dcs.automed.qproc.functions.arithmetic
Div() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.arithmetic.Div
Divide - Class in uk.ac.bbk.dcs.automed.qproc.functions.arithmetic
Divide() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.arithmetic.Divide
DIVIDE - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
divide(BidirectionalDegree) - Method in class uk.ac.ic.doc.automed.matching.BidirectionalDegree
  Divides the specified bidirectional degree from the current degree.
divide(AutoMedFloat) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedFloat
  Return the division of two AutoMedFloats.
divide(AutoMedInteger) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedInteger
  Return the division of two AutoMedIntegers.
dltInterface - Class in uk.ac.bbk.dcs.automed.dataWarehousing
dltInterface() - Constructor for class uk.ac.bbk.dcs.automed.dataWarehousing.dltInterface
  This is the default constructor
do_action(int, lr_parser, Stack, int) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.EnvParser
  Invoke a user supplied parse action.
do_action(int, lr_parser, Stack, int) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.QParser
  Invoke a user supplied parse action.
DO_NOT_USE_CACHE - Static variable in interface uk.ac.ic.doc.automed.qproc.cache.CachePolicy
doCreateCommand(String[]) - Static method in class uk.ac.ic.doc.automed.DSR
doCreatedbCommand(String[]) - Static method in class uk.ac.ic.doc.automed.DSR
  Reads the property CreateDB property for the data source and executes the value as an update on the databse connection
DOCTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
Document - Class in uk.ac.ic.doc.automed.wrappers.xsdomobject
  Define the internal representation for an XMLSchema document
Document(Element) - Constructor for class uk.ac.ic.doc.automed.wrappers.xsdomobject.Document
  Creates a new instance of Document with root as the root element
Document(Element, ArrayList) - Constructor for class uk.ac.ic.doc.automed.wrappers.xsdomobject.Document
  A new document with one or more types defined at the root level
documentToString(Document) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.PrintUtility
  Returns the String representation of document d.
doCustomRequest(String, String, String, int, int, boolean) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedMessagingHelper
  Create a custom keep-alive messaging helper for an `AutoMedPeer`.
doDefaultCommand(String[]) - Static method in class uk.ac.ic.doc.automed.DSR
doDisplayCommand(String[]) - Static method in class uk.ac.ic.doc.automed.DSR
doDropdbCommand(String[]) - Static method in class uk.ac.ic.doc.automed.DSR
DOES_NOT_APPEAR_AND_CANNOT_BE_DERIVED - Static variable in class uk.ac.bbk.dcs.automed.evolution2.ExtendedConstruct
DOES_NOT_APPEAR_BUT_CAN_BE_DERIVED - Static variable in class uk.ac.bbk.dcs.automed.evolution2.ExtendedConstruct
doExitCommand(String[]) - Method in class uk.ac.ic.doc.automed.editor.CommandLineDriver
doGetCommand(String[]) - Static method in class uk.ac.ic.doc.automed.DSR
doGetModelsCommand(String[]) - Method in class uk.ac.ic.doc.automed.editor.Editor
doGetNetworkCommand(String[]) - Method in class uk.ac.ic.doc.automed.editor.Editor
doGetNetworkNamesCommand(String[]) - Method in class uk.ac.ic.doc.automed.editor.Editor
doGetNetworksCommand(String[]) - Method in class uk.ac.ic.doc.automed.editor.Editor
doGetSchemaNetworkCommand(String[]) - Method in class uk.ac.ic.doc.automed.editor.Editor
doHelpCommand(String[]) - Static method in class uk.ac.ic.doc.automed.DSR
doHelpCommand(String[]) - Method in class uk.ac.ic.doc.automed.editor.CommandLineDriver
doIsCommand(String[]) - Static method in class uk.ac.ic.doc.automed.DSR
doLayout() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutERObject
doLayout() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutPositionable
  Perform layout process on whole graph starting from this object.
doLayout() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSpringObject
  Perform layout process on whole graph starting from this object.
doLayoutER(Object[]) - Static method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutERObject
doLayoutSpring(Object[]) - Static method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayout
doLayoutXML(Object[]) - Static method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayout
doListSchemaCommand(String[]) - Method in class uk.ac.ic.doc.automed.editor.Editor
DOMAIN - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
domain - Variable in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
domDriver - Static variable in class uk.ac.bbk.dcs.automed.rdfs.RDFSConstants
DOMMaterialiser - Class in uk.ac.bbk.dcs.automed.xml.materialisation
  TODO: investigate what happens to text in mixed elements TODO: is it possible to make class work without UIDs? TODO: make generic root creation optional and use superclass's switch.
DOMMaterialiser(Schema, Schema[], String, String, QueryProcessorConfiguration) - Constructor for class uk.ac.bbk.dcs.automed.xml.materialisation.DOMMaterialiser
DOMWrapper - Class in uk.ac.bbk.dcs.automed.xml.wrappers
  A lower level wrapper that conforms to the XMLWrapper class.
DOMWrapper(AccessMethod, String) - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.DOMWrapper
DOMWrapperFactory - Class in uk.ac.bbk.dcs.automed.xml.wrappers
DOMWrapperFactory() - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.DOMWrapperFactory
doMyGraphLayout() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayout
Done() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
Done() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
Done() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
Done() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
Done() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
doPopulatedbCommand(String[]) - Static method in class uk.ac.ic.doc.automed.DSR
doPrintCommand(String[]) - Static method in class uk.ac.ic.doc.automed.DSR
doPrintNetworkCommand(String[]) - Method in class uk.ac.ic.doc.automed.editor.Editor
doQuitCommand(String[]) - Method in class uk.ac.ic.doc.automed.editor.CommandLineDriver
doReloadCommand(String[]) - Static method in class uk.ac.ic.doc.automed.DSR
doRemoveCommand(String[]) - Static method in class uk.ac.ic.doc.automed.DSR
doRequest(String, String, AbstractMessage, String, String, int, RequestListener, int, boolean, boolean, boolean) - Static method in class uk.ac.ic.doc.automed.p2p.AutoMedMessagingHelper
  Perform a network request on behalf of the client.
doRequest(String) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedMessagingHelper
  Utility method for performing specific P2P requests
  See `Constants` for a list of OPT_* request types
doSetCommand(String[]) - Static method in class uk.ac.ic.doc.automed.DSR
doSimpleAnonymousRequest(AbstractMessage, AutoMedPeer.PeerProcessDescription) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedMessagingHelper
  Overloading method that accepts a `PeerDescription` object and finds the destination port of this peer
doSimpleAnonymousRequest(AbstractMessage, String, int) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedMessagingHelper
  This overiding method works the same as {@link doSimpleAnonymousRequest( AbstractMessage requestMessage, String protocol, String remoteAddress, int remotePort) in that it uses the default protocol in the peer's configuration file
doSimpleAnonymousRequest(AbstractMessage, String, String, int) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedMessagingHelper
  This overiding method is used for executing switched, synchronousrequests
  that expects a response.
doSimpleRequest(AbstractMessage, String, String, int, RequestListener, boolean) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedMessagingHelper
  This overiding method is used for executing switched, synchronous/asynchronousrequests that expects a response
  .
doSimpleRequest(AbstractMessage, String, String, int, boolean) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedMessagingHelper
  This overiding method is used for executing switched, synchronous/asynchronousrequests
  that does NOT expect a response
  .
doSimpleRequest(String, AbstractMessage, String, String, int, boolean, boolean) - Static method in class uk.ac.ic.doc.automed.p2p.AutoMedMessagingHelper
  This overiding method is used for executing switched, synchronous/asynchronousrequests
  that does NOT expect a response
  .
Dot - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.FSym
DotExtensionFileFilter - Class in uk.ac.ic.doc.automed.editor
DotExtensionFileFilter(String, String[]) - Constructor for class uk.ac.ic.doc.automed.editor.DotExtensionFileFilter
  Create a `FileFilter` that selects only files with certain 'dot' extentions.
DOUBLE_TOKEN - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
doubleValue() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedBoolean
  Return a double representation of this AutoMedBoolean, where true is 1.0 and false 0.0
doubleValue() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedFloat
  Return the value of this AutoMedFloat as an double
doubleValue() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedInteger
  Return the value of this AutoMedInteger as a double
doubleValue() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedString
doubleValue() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedTime
  Return the number of milliseconds since 1970 as a double
doubleValue() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedTuple
  Return the arity (size) of the tuple as a double.
doubleValue() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedType
  Return the double representation of this AutoMedType.
DPoint - Class in uk.ac.ic.doc.automed.editor.autolayout
  A class for holding a real position points.
DPoint(double, double) - Constructor for class uk.ac.ic.doc.automed.editor.autolayout.DPoint
DPoint() - Constructor for class uk.ac.ic.doc.automed.editor.autolayout.DPoint
DPoint(DPoint) - Constructor for class uk.ac.ic.doc.automed.editor.autolayout.DPoint
dragDropEnd(DragSourceDropEvent) - Method in class uk.ac.ic.doc.automed.xmlschema.tree.TreeDragSource
dragEnter(DragSourceDragEvent) - Method in class uk.ac.ic.doc.automed.xmlschema.tree.TreeDragSource
dragEnter(DropTargetDragEvent) - Method in class uk.ac.ic.doc.automed.xmlschema.tree.TreeDropTarget
dragExit(DragSourceEvent) - Method in class uk.ac.ic.doc.automed.xmlschema.tree.TreeDragSource
dragExit(DropTargetEvent) - Method in class uk.ac.ic.doc.automed.xmlschema.tree.TreeDropTarget
dragGestureRecognized(DragGestureEvent) - Method in class uk.ac.ic.doc.automed.xmlschema.tree.TreeDragSource
dragOver(DragSourceDragEvent) - Method in class uk.ac.ic.doc.automed.xmlschema.tree.TreeDragSource
dragOver(DropTargetDragEvent) - Method in class uk.ac.ic.doc.automed.xmlschema.tree.TreeDropTarget
Drawable - Interface in uk.ac.ic.doc.automed.editor
DrawableArc - Interface in uk.ac.ic.doc.automed.editor
DrawableVertex - Interface in uk.ac.ic.doc.automed.editor
DrawAMRDBForeignKeyArc - Class in uk.ac.ic.doc.automed.editor.drawables
DrawAMRDBForeignKeyArc(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.drawables.DrawAMRDBForeignKeyArc
DrawAMRDBPrimaryKeyArc - Class in uk.ac.ic.doc.automed.editor.drawables
DrawAMRDBPrimaryKeyArc(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.drawables.DrawAMRDBPrimaryKeyArc
DrawArc - Class in uk.ac.ic.doc.automed.editor
DrawArc(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.DrawArc
  Pass in the array of objects that this connects together.
DrawArc(EditorPanel, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.DrawArc
  Pass in the array of objects that this connects together.
drawArrow(Graphics2D, int, int, int, int, int) - Static method in class uk.ac.ic.doc.automed.editor.DrawArc
drawDiamond(Graphics2D, int, int, int, int) - Static method in class uk.ac.ic.doc.automed.editor.DefaultDrawLinkVertex
DrawEERAttributeVertex - Class in uk.ac.ic.doc.automed.editor.drawables
DrawEERAttributeVertex(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.drawables.DrawEERAttributeVertex
DrawEERRelationshipArc - Class in uk.ac.ic.doc.automed.editor.drawables
DrawEERRelationshipArc(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.drawables.DrawEERRelationshipArc
DrawERGeneralisationArc - Class in uk.ac.ic.doc.automed.editor.drawables
DrawERGeneralisationArc(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.drawables.DrawERGeneralisationArc
DrawERGeneralisationVertex - Class in uk.ac.ic.doc.automed.editor.drawables
DrawERGeneralisationVertex(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.drawables.DrawERGeneralisationVertex
DrawERRelationshipArc - Class in uk.ac.ic.doc.automed.editor.drawables
DrawERRelationshipArc(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.drawables.DrawERRelationshipArc
DrawERRelationshipVertex - Class in uk.ac.ic.doc.automed.editor.drawables
DrawERRelationshipVertex(EditorPanel, Positionable) - Constructor for class uk.ac.ic.doc.automed.editor.drawables.DrawERRelationshipVertex
DrawHDMArc - Class in uk.ac.ic.doc.automed.editor.drawables
DrawHDMArc(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.drawables.DrawHDMArc
DrawHDMVertex - Class in uk.ac.ic.doc.automed.editor.drawables
DrawHDMVertex(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.drawables.DrawHDMVertex
drawMap(String[][]) - Static method in class uk.ac.ic.doc.automed.reps.SchemaMapGenerator
drawMap(String[][], boolean) - Static method in class uk.ac.ic.doc.automed.reps.SchemaMapGenerator
DrawNetwork - Class in uk.ac.ic.doc.automed.editor
  Draw a symbol the represents a `Network` in an AutoMed `EditorPanel`.
DrawNetwork(EditorPanel, Positionable) - Constructor for class uk.ac.ic.doc.automed.editor.DrawNetwork
DrawRDBForeignKeyArc - Class in uk.ac.ic.doc.automed.editor.drawables
DrawRDBForeignKeyArc(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.drawables.DrawRDBForeignKeyArc
DrawRDBForeignKeyVertex - Class in uk.ac.ic.doc.automed.editor.drawables
DrawRDBForeignKeyVertex(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.drawables.DrawRDBForeignKeyVertex
DrawRDBPrimaryKeyArc - Class in uk.ac.ic.doc.automed.editor.drawables
DrawRDBPrimaryKeyArc(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.drawables.DrawRDBPrimaryKeyArc
DrawRDBPrimaryKeyVertex - Class in uk.ac.ic.doc.automed.editor.drawables
DrawRDBPrimaryKeyVertex(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.drawables.DrawRDBPrimaryKeyVertex
DrawRDBTableVertex - Class in uk.ac.ic.doc.automed.editor.drawables
DrawRDBTableVertex(EditorPanel, Positionable) - Constructor for class uk.ac.ic.doc.automed.editor.drawables.DrawRDBTableVertex
DrawSchema - Class in uk.ac.ic.doc.automed.editor
  Draw a symbol the represents a `Schema` in an AutoMed `EditorPanel`.
DrawSchema(EditorPanel, Positionable) - Constructor for class uk.ac.ic.doc.automed.editor.DrawSchema
DrawTransformation - Class in uk.ac.ic.doc.automed.editor
  Draw a symbol the represents a `Transformation` in an AutoMed `EditorPanel`.
DrawTransformation(EditorPanel, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.DrawTransformation
drawTree() - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraph
DrawVertex - Class in uk.ac.ic.doc.automed.editor
  The default implementation of `DrawableVertex` that the editor will use to draw any vertex it does not know (or has been told) to draw otherwise.
DrawVertex(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.DrawVertex
DrawVertex(EditorPanel, Positionable) - Constructor for class uk.ac.ic.doc.automed.editor.DrawVertex
DrawXSArc - Class in uk.ac.ic.doc.automed.editor.drawables
DrawXSArc(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.drawables.DrawXSArc
driver - Variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
DRIVER_HSQLDB - Static variable in class uk.ac.ic.doc.automed.util.db.DBAccessFactory
  Hypersonic SQL database driver
DRIVER_MSSQL - Static variable in class uk.ac.ic.doc.automed.util.db.DBAccessFactory
  Misrosoft SQL Server database driver
DRIVER_MYSQL - Static variable in class uk.ac.ic.doc.automed.util.db.DBAccessFactory
  MySQL Server database driver
DRIVER_ORACLE - Static variable in class uk.ac.ic.doc.automed.util.db.DBAccessFactory
  Oracle Server database driver
DRIVER_POSTGRES - Static variable in class uk.ac.ic.doc.automed.util.db.DBAccessFactory
  Postgres database driver
driverDOM - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
driverEXIST_SOAP - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
driverEXIST_XMLDB - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
driverSAX - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
driverString - Static variable in class uk.ac.ic.doc.automed.wrappers.CSVWrapper
driverString - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapper
drop(DropTargetDropEvent) - Method in class uk.ac.ic.doc.automed.xmlschema.tree.TreeDropTarget
dropActionChanged(DragSourceDragEvent) - Method in class uk.ac.ic.doc.automed.xmlschema.tree.TreeDragSource
dropActionChanged(DropTargetDragEvent) - Method in class uk.ac.ic.doc.automed.xmlschema.tree.TreeDropTarget
dropSchemas(Pathway) - Static method in class uk.ac.bbk.dcs.automed.evolution.EvolutionUtility
  Retracts schemas in the pathway from s1 to s2, WITHOUT retracting s2.
dropSchemas(Pathway) - Static method in class uk.ac.bbk.dcs.automed.evolution1.Evolution
  Retracts schemas in the pathway from s1 to s2, WITHOUT retracting s2.
dropSchemas(Pathway) - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
  Retracts schemas in the pathway from s1 to s2, WITHOUT retracting s2.
dropSchemas(Pathway) - Static method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
  Retracts schemas in the pathway from s1 to s2, WITHOUT retracting s2.
dropSequence() - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Older versions of Postgres do not automatically drop sequences created for primary keys etc when the table is dropped - this loops through dropping the sequences explicitly.
dropTable(String) - Method in class uk.ac.ic.doc.automed.tests.p2p.TestDBProcess
DS_REPS_CFG_FILE_PREFIX - Static variable in class uk.ac.ic.doc.automed.p2p.AppToolKit
dsEnd - Variable in class uk.ac.bbk.dcs.automed.qproc.functions.internal.CallToWrapper
DSR - Class in uk.ac.ic.doc.automed
  Reads data source definitions from a configuration file and provides methods to get a `Connection` for a data souce.
DSRConfiguration - Class in uk.ac.ic.doc.automed
  Basic ability to configure the DSR, and to support the use of multiple DSRs.
DSRConfiguration() - Constructor for class uk.ac.ic.doc.automed.DSRConfiguration
DSRException - Exception in uk.ac.ic.doc.automed
  The class of exceptions generated by `DSR`.
DSRException(String) - Constructor for exception uk.ac.ic.doc.automed.DSRException
dsStart - Variable in class uk.ac.bbk.dcs.automed.qproc.functions.internal.CallToWrapper
dsTimeSpent - Static variable in class uk.ac.bbk.dcs.automed.qproc.functions.internal.CallToWrapper
duplicateDOM(Document) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
  Method that creates and returns a new DOM representation of the input one - no validation on either doc.
duplicateDOM(String, boolean) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
duplicatePathway(Schema, Schema) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.ExtensionalSchemaEvolution
DuplicatePersistentHandler - Interface in uk.ac.ic.doc.automed.util.persist
  DuplicatePersistentHandler.java Used by user application code to call appropriate persistent handler object
duplicateSchema(Schema, String) - Static method in class uk.ac.bbk.dcs.automed.evolution.EvolutionUtility
duplicateSchema(Schema, String) - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
duplicateTransformation(Schema) - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Creates a duplicate of the transformation.

## E

Edge - Class in uk.ac.bbk.dcs.automed.hdmstore
  A Edge represents an HDM edge, which can be of any length, each element (or `Span`) can be a node or an edge and edges can be named (optionally).
Edge(String, String[]) - Constructor for class uk.ac.bbk.dcs.automed.hdmstore.Edge
  Construct a representation of an edge from a string representing its type and an array of spans
edge() - Method in class uk.ac.bbk.dcs.automed.hdmstore.EdgeElement
  get the edge
EDGE_ADDED - Static variable in class uk.ac.ic.doc.automed.reps.NetworkChangeEvent
EDGE_REMOVED - Static variable in class uk.ac.ic.doc.automed.reps.NetworkChangeEvent
edgeAdded(NetworkChangeEvent) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
edgeAdded(NetworkChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.NetworkChangeListener
EdgeElement - Class in uk.ac.bbk.dcs.automed.hdmstore
  An edge element represents a single element of an edge.
edgeExists(Span) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Test to see if an edge exists has been passed a `Span` structure - split this out into type and and value and return the result.
edgeExists(String, String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Does and edge with this type and value exist in the HDM store?
edgeInstanceExists(String, String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Check to see if an instance of this edge exists in the HDM store
edgeNameIsUnique(String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Edge names dont have to be unique - the combination of edge name and types is unique i.e.
edgeOrNode() - Method in class uk.ac.bbk.dcs.automed.hdmstore.Span
  Get the edgeOrNode indicator
edgeRemoved(NetworkChangeEvent) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
edgeRemoved(NetworkChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.NetworkChangeListener
edgeSpan - Static variable in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
edgeTypeExists(String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Given an edge type e.g.
edgeTypeForName(String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Assuming edge name is unique (which need to be checked before calling) return its edge type e.g.
edgeValueAsString() - Method in class uk.ac.bbk.dcs.automed.hdmstore.Edge
  Get the edge values as a string
Editor - Class in uk.ac.ic.doc.automed.editor
Editor(String[]) - Constructor for class uk.ac.ic.doc.automed.editor.Editor
EditorException - Exception in uk.ac.ic.doc.automed.editor
EditorException(String) - Constructor for exception uk.ac.ic.doc.automed.editor.EditorException
EditorPanel - Class in uk.ac.ic.doc.automed.editor
  Provide a `JPanel` extension to display arcs and vertices using implementations of `DrawableArc` and `DrawableVertex`.
EditorPanel(Gui, Map, Gui.EditorFrame) - Constructor for class uk.ac.ic.doc.automed.editor.EditorPanel
EditorPanel(Gui, Gui.EditorFrame) - Constructor for class uk.ac.ic.doc.automed.editor.EditorPanel
element - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
Element - Class in uk.ac.ic.doc.automed.wrappers.xsdomobject
  Define the internal representation for an XMLSchema element
Element(String, String) - Constructor for class uk.ac.ic.doc.automed.wrappers.xsdomobject.Element
  Creates a new instance of Element
Element(String, String, int, boolean) - Constructor for class uk.ac.ic.doc.automed.wrappers.xsdomobject.Element
  Creates a new instance of Element with a type and a boundedness
elementAttributeQuery(String, String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.DOMWrapper
elementAttributeQuery(String, String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.NXDBWrapper
elementAttributeQuery(String, String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.SAXWrapper
elementAttributeQuery(String, String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
elementElementQuery(String, String, int) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.DOMWrapper
  Nodes are compared based on elementName:count, not their whole UID
elementElementQuery(String, String, int) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.NXDBWrapper
elementElementQuery(String, String, int) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.SAXWrapper
  Nodes are compared based on elementName:count, not their whole UID
elementElementQuery(String, String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
elementElementQuery(String, String, int) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
ElementNameModule - Class in uk.ac.ic.doc.automed.matching.modules.bidirectionalmap
  The module that compares the names of the schema elements
ElementNameModule(ArrayList, ArrayList) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.ElementNameModule
  Constructs a `ElementNameModule` to compare the specified schema elements in the input lists.
ElementNameModule(SchemaElement[], SchemaElement[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.ElementNameModule
  Constructs a `ElementNameModule` to compare the specified schema elements in the input arrays.
ElementNameModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.ElementNameModule
ElementNameModule - Class in uk.ac.ic.doc.automed.matching.modules.intervals
  The module that compares the names of the schema elements
ElementNameModule(ArrayList, ArrayList) - Constructor for class uk.ac.ic.doc.automed.matching.modules.intervals.ElementNameModule
  Constructs a `ElementNameModule` to compare the specified schema elements in the input lists.
ElementNameModule(SchemaElement[], SchemaElement[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.intervals.ElementNameModule
  Constructs a `ElementNameModule` to compare the specified schema elements in the input arrays.
ElementNameModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.intervals.ElementNameModule
ElementNameModule - Class in uk.ac.ic.doc.automed.matching.modules.probability.binary
  The module that compares the names of the schema elements
ElementNameModule(ArrayList, ArrayList) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.binary.ElementNameModule
  Constructs a `ElementNameModule` to compare the specified schema elements in the input lists.
ElementNameModule(SchemaElement[], SchemaElement[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.binary.ElementNameModule
  Constructs a `ElementNameModule` to compare the specified schema elements in the input arrays.
ElementNameModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.binary.ElementNameModule
ElementNameModule - Class in uk.ac.ic.doc.automed.matching.modules.probability.senary
  The module that compares the names of the schema elements
ElementNameModule(ArrayList, ArrayList) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.senary.ElementNameModule
  Constructs a `ElementNameModule` to compare the specified schema elements in the input lists.
ElementNameModule(SchemaElement[], SchemaElement[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.senary.ElementNameModule
  Constructs a `ElementNameModule` to compare the specified schema elements in the input arrays.
ElementNameModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.senary.ElementNameModule
elementOrPCData - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
elementPCDataQuery(String, int) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.DOMWrapper
elementPCDataQuery(String, int) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.NXDBWrapper
elementPCDataQuery(String, int) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.SAXWrapper
elementPCDataQuery(String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
elementPCDataQuery(String, int) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
elementQuery(String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.DOMWrapper
elementQuery(String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.NXDBWrapper
elementQuery(String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.SAXWrapper
elementQuery(String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
ElementsFromRDB - Class in uk.ac.bbk.dcs.automed.xml.functions
  Input 1: the unique ID of the element whose extent this function is creating
  Input 2: the scheme of the relational table
ElementsFromRDB() - Constructor for class uk.ac.bbk.dcs.automed.xml.functions.ElementsFromRDB
elementType() - Method in class uk.ac.bbk.dcs.automed.hdmstore.EdgeElement
  get the elementType;
ElementVectorRepresentation - Class in uk.ac.ic.doc.automed.matching.modules
ElementVectorRepresentation(SchemaElement, double[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.ElementVectorRepresentation
ELSE - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
ELSE - Static variable in class uk.ac.ic.doc.automed.matching.SchemaElement
empty - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
emptyBag() - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  Returns the ASG representation of the empty Bag - a BNil constructor.
emptyCollection(String) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
emptyKeyProtection - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
emptyKeys - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
emptyList() - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  Returns the ASG representation of the empty List - a Nil constructor.
emptySet() - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  Returns the ASG representation of the empty Set - an SNil constructor.
enable_tracing() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
enable_tracing() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
enable_tracing() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
enable_tracing() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
enable_tracing() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
ENCRYPTION - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
END_DOCUMENT - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
END_ELEMENT - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
END_OF_FRAG - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  performative: end of fragmentation
endApplyInSpine - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
endBuiltIn - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
endColumn - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Token
  beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
endColumn - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.Token
  beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
endColumn - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.Token
  beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
endColumn - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.Token
  beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
endColumn - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.Token
  beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
endDocument() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSSAX
endDocument() - Method in class uk.ac.ic.doc.automed.xml.XMLReader
endElement(String, String, String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSSAX
endElement(String) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
endEval - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
endLine - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Token
  beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
endLine - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.Token
  beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
endLine - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.Token
  beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
endLine - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.Token
  beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
endLine - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.Token
  beginLine and beginColumn describe the position of the first character of this token; endLine and endColumn describe the position of the last character of this token.
endRL - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
endWHNF - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
EnhancedDHTFactory - Class in uk.ac.ic.doc.automed.p2p.overlay
  EnhancedDHTFactory.java
EnhancedDHTFactory() - Constructor for class uk.ac.ic.doc.automed.p2p.overlay.EnhancedDHTFactory
EnhancedDHTImpl - Class in uk.ac.ic.doc.automed.p2p.overlay
  EnhancedDHTImpl.java
  Extends `DHTImpl` to support the filtering of the entire result value set instead of one value at a time.
EnhancedDHTImpl(DHTConfiguration, ID) - Constructor for class uk.ac.ic.doc.automed.p2p.overlay.EnhancedDHTImpl
EnhancedDHTImpl(short, short, DHTConfiguration, ID) - Constructor for class uk.ac.ic.doc.automed.p2p.overlay.EnhancedDHTImpl
EnhancedDHTImpl(DHTConfiguration, RoutingService) - Constructor for class uk.ac.ic.doc.automed.p2p.overlay.EnhancedDHTImpl
ensureDupFree() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.ModifiedArray
ensureSorted() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.ModifiedArray
ensureSortedDupFree() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.ModifiedArray
entryToObject(TupleInput) - Method in class uk.ac.ic.doc.automed.qproc.cache.CacheObjectBinding
  Convert a database entry into a `CacheItem` object
entryToObject(TupleInput) - Method in class uk.ac.ic.doc.automed.util.persist.AbstractObjectBinding
  Constructs a key or data object from a `TupleInput` entry.
Environment - Class in uk.ac.bbk.dcs.automed.qproc.iql
Environment() - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.Environment
Environment(String) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.Environment
Environment(File) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.Environment
EnvLexer - Class in uk.ac.bbk.dcs.automed.qproc.iql
EnvLexer(Reader) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.EnvLexer
EnvLexer(InputStream) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.EnvLexer
EnvParser - Class in uk.ac.bbk.dcs.automed.qproc.iql
  CUP v0.10j generated parser.
EnvParser() - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.EnvParser
  Default constructor.
EnvParser(Scanner) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.EnvParser
  Constructor which sets the default scanner.
EnvSym - Class in uk.ac.bbk.dcs.automed.qproc.iql
  CUP generated class containing symbol constants.
EnvSym() - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.EnvSym
EOF - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SchemesConstants
EOF - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompConstants
EOF - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendConstants
EOF - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusConstants
EOF - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.EnvSym
EOF - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.FSym
EOF - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
EOF - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
EOF - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
EOF_sym() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.EnvParser
  `EOF` Symbol index.
EOF_sym() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.QParser
  `EOF` Symbol index.
eol - Variable in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.ParseException
  The end of line string for this machine.
eol - Variable in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.ParseException
  The end of line string for this machine.
eol - Variable in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.ParseException
  The end of line string for this machine.
eol - Variable in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.ParseException
  The end of line string for this machine.
eol - Variable in exception uk.ac.bbk.dcs.automed.qproc.translators.xquery.ParseException
  The end of line string for this machine.
EOL - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
ep - Variable in class uk.ac.ic.doc.automed.editor.DrawArc
ep - Variable in class uk.ac.ic.doc.automed.editor.DrawVertex
ep - Variable in class uk.ac.ic.doc.automed.editor.Gui
Equal - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
EQUAL - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLQuery
  SQL equality predicate for use within WHERE expressions
Equals - Class in uk.ac.bbk.dcs.automed.qproc.functions.comparison
Equals() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.comparison.Equals
equals(Object) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
equals(Object) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
equals(Object) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
equals(Object) - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.ViewKey
EQUALS - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
equals(DPoint) - Method in class uk.ac.ic.doc.automed.editor.autolayout.DPoint
equals(Object) - Method in class uk.ac.ic.doc.automed.matching.Averages
equals(BidirectionalDegree) - Method in class uk.ac.ic.doc.automed.matching.BidirectionalDegree
  Returns `true` if this degree is equal to the specified degree.
equals(Object) - Method in class uk.ac.ic.doc.automed.matching.Instance
equals(Object) - Method in class uk.ac.ic.doc.automed.matching.Range
equals(Object) - Method in class uk.ac.ic.doc.automed.matching.relationships.Compatibility
equals(Object) - Method in class uk.ac.ic.doc.automed.matching.relationships.Disjointness
equals(Object) - Method in class uk.ac.ic.doc.automed.matching.relationships.Equivalence
equals(Object) - Method in class uk.ac.ic.doc.automed.matching.relationships.Incompatibility
equals(Object) - Method in class uk.ac.ic.doc.automed.matching.relationships.Overlapness
equals(Object) - Method in class uk.ac.ic.doc.automed.matching.relationships.SemanticRelationship
  Compares this object against the specified object.
equals(Object) - Method in class uk.ac.ic.doc.automed.matching.relationships.Subsumption
equals(Object) - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
  Compares this object against the specified object.
equals(Object) - Method in class uk.ac.ic.doc.automed.matching.SchemaElementPair
  Compares this object against the specified object.
equals(Object) - Method in class uk.ac.ic.doc.automed.p2p.directory.ModelDescription
equals(Object) - Method in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
equals(Object) - Method in class uk.ac.ic.doc.automed.p2p.directory.SchemaDescription
equals(Object) - Method in class uk.ac.ic.doc.automed.reps.Construct
equals(Object) - Method in class uk.ac.ic.doc.automed.reps.PersistentKey
equals(Object) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
equals(Object) - Method in class uk.ac.ic.doc.automed.util.persist.PersistentKey
equals(AutoMedType) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedBoolean
equals(AutoMedType) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedFloat
equals(AutoMedType) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedInteger
equals(AutoMedType) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedString
equals(AutoMedType) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedTime
equals(AutoMedType) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedTuple
equals(AutoMedType) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedType
  Test two AutoMedTypes for equality, performing conversions as appropriate.
equals(Object) - Method in class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
  Override the comparison method
equals(Object) - Method in class uk.ac.ic.doc.rodex.qproc.QueryVariable
  Compare string-representation of two query variable objects
Equivalence - Class in uk.ac.ic.doc.automed.matching.relationships
  The Equivalence class represent the equivalence semantic relationship between `SchemaElement` objects.
equivalents - Variable in class uk.ac.ic.doc.automed.matching.Integrator
ERROR - Static variable in class uk.ac.bbk.dcs.automed.hdmstore.Debug
error(String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.Debug
  Write an error level message
error - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.EnvSym
error - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.FSym
error - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
error(JFrame, String, Exception) - Static method in class uk.ac.ic.doc.automed.p2p.gui.P2PGui
error(JFrame, String, String) - Static method in class uk.ac.ic.doc.automed.p2p.gui.P2PGui
ERROR - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  performative
error(String) - Static method in class uk.ac.ic.doc.automed.util.Logger
error(String, Throwable) - Static method in class uk.ac.ic.doc.automed.util.Logger
error(Throwable) - Static method in class uk.ac.ic.doc.automed.util.Logger
error(String, String, String, Throwable) - Static method in class uk.ac.ic.doc.automed.util.Logger
ERROR - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
error(SAXParseException) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
ERROR_LOG_FILE - Static variable in class uk.ac.ic.doc.automed.util.LogOutputHandler
error_sym() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.EnvParser
  `error` Symbol index.
error_sym() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.QParser
  `error` Symbol index.
ErrorReplyException - Exception in uk.ac.ic.doc.automed.p2p
ErrorReplyException() - Constructor for exception uk.ac.ic.doc.automed.p2p.ErrorReplyException
ErrorReplyException(String, String) - Constructor for exception uk.ac.ic.doc.automed.p2p.ErrorReplyException
ErrorReplyException(AbstractMessage) - Constructor for exception uk.ac.ic.doc.automed.p2p.ErrorReplyException
escapedSQLID(Object) - Method in class uk.ac.bbk.dcs.automed.wrappers.MSAccessWrapper
  Ensure that Postgres table names and column names starting in capitals are put in double quotes
escapedSQLID(Object) - Method in class uk.ac.ic.doc.automed.wrappers.HsqldbWrapper
  Ensure that Hsqldb table names and column names starting in capitals are put in double quotes
escapedSQLID(Object) - Method in class uk.ac.ic.doc.automed.wrappers.PostgresWrapper
  Ensure that Postgres table names and column names starting in capitals are put in double quotes
escapedSQLID(Object) - Method in class uk.ac.ic.doc.automed.wrappers.SQLWrapper
  Perform what escaping is necessary on SQL table names and column names.
escapeSQLString(String) - Static method in class uk.ac.ic.doc.automed.STR
  Take a string, and escape its characters such the \ character will be stored in SQL correctly.
escapeString(String) - Static method in class uk.ac.ic.doc.automed.reps.Syntax
  Take a string, and escape its characters such the \ character will print correctly.
EV_AFTER_EXECUTION - Static variable in interface uk.ac.ic.doc.automed.qproc.cache.CachePolicy
EV_BEFORE_EXECUTION - Static variable in interface uk.ac.ic.doc.automed.qproc.cache.CachePolicy
EV_FAIL_TO_COMMUNICATE - Static variable in interface uk.ac.ic.doc.automed.qproc.cache.CachePolicy
EV_REMOTE_PEER_NOT_AVAILABLE - Static variable in interface uk.ac.ic.doc.automed.qproc.cache.CachePolicy
EV_SOURCE_SCHEMA_NOT_AVAILABLE - Static variable in interface uk.ac.ic.doc.automed.qproc.cache.CachePolicy
evaluate(String) - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.IQLEvaluator4DW
evaluate(Cell) - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.IQLEvaluator4DW
evaluate(ASG) - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.IQLEvaluator4DW
evaluate(ASG, QueryProcessorConfiguration) - Method in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
  Deprecated. use `Evaluator.evaluate(ASG, Map, QueryProcessorConfiguration)` instead
evaluate(ASG, Map, QueryProcessorConfiguration) - Method in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
  Evaluates g to normal form.
evaluate(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
  Evaluates the graph of which root is the root to normal form.
evaluate(ASG, Map, QueryProcessorConfiguration) - Method in class uk.ac.ic.doc.automed.qproc.eval.P2PQueryEvaluator
evaluate(ASG, Map, QueryProcessorConfiguration) - Method in interface uk.ac.ic.doc.automed.qproc.eval.QueryEvaluationProvider
  Evaluate an IQL query based on a given configuration
evaluateAction(String, int, QueryProcessorConfiguration) - Method in interface uk.ac.ic.doc.automed.qproc.cache.CachePolicy
  Evalute a set of of conditions to produce the appropriate cache actions
evaluateAction(String, int, QueryProcessorConfiguration) - Method in class uk.ac.ic.doc.automed.qproc.cache.CachePolicy2
  Evalute a set of of conditions to produce the appropriate cache actions
evaluateAction(String, int, QueryProcessorConfiguration) - Method in class uk.ac.ic.doc.automed.qproc.cache.CachePolicy3
  Evalute a set of of conditions to produce the appropriate cache actions
evaluateAction(String, int, QueryProcessorConfiguration) - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultCachePolicy
  Evalute a set of of conditions to produce the appropriate cache actions
evaluateMaxUnion(ASG, ASG) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
EVALUATION_STATE_EVALUATED - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
EVALUATION_STATE_UNKNOWN - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
EVALUATION_STATE_WHNF - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
evaluationTimeSpent - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
Evaluator - Class in uk.ac.bbk.dcs.automed.qproc.evaluate
  The class that coordinates the evaluation of IQL queries.
Evaluator(QueryProcessorConfiguration) - Constructor for class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
Evaluator(FunctionTable) - Constructor for class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
  Deprecated. use `Evaluator.Evaluator(QueryProcessorConfiguration)` instead
Evaluator(FunctionTable, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
  Deprecated. use `Evaluator.Evaluator(QueryProcessorConfiguration)` instead
Evolution - Interface in uk.ac.bbk.dcs.automed.evolution
Evolution - Class in uk.ac.bbk.dcs.automed.evolution1
Evolution() - Constructor for class uk.ac.bbk.dcs.automed.evolution1.Evolution
Evolution - Interface in uk.ac.bbk.dcs.automed.evolution2
EvolutionException - Exception in uk.ac.bbk.dcs.automed.evolution
EvolutionException(String) - Constructor for exception uk.ac.bbk.dcs.automed.evolution.EvolutionException
EvolutionException - Exception in uk.ac.bbk.dcs.automed.evolution2
EvolutionException(String) - Constructor for exception uk.ac.bbk.dcs.automed.evolution2.EvolutionException
EvolutionException(Throwable) - Constructor for exception uk.ac.bbk.dcs.automed.evolution2.EvolutionException
evolutionType - Variable in class uk.ac.bbk.dcs.automed.evolution.dataEvolution.DataEvolution
evolutionType - Variable in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolution
evolutionType - Variable in class uk.ac.bbk.dcs.automed.evolution2.dataEvolution.DataEvolution
evolutionType - Variable in class uk.ac.bbk.dcs.automed.evolution2.modelEvolution.ModelEvolution
evolutionType - Variable in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
EvolutionUtility - Class in uk.ac.bbk.dcs.automed.evolution
EvolutionUtility() - Constructor for class uk.ac.bbk.dcs.automed.evolution.EvolutionUtility
EvolutionUtility - Class in uk.ac.bbk.dcs.automed.evolution2
EvolutionUtility() - Constructor for class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
evolve(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.ExtensionalSchemaEvolution
evolve(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.IntegratedSchemaEvolution
EVOLVE_ADD - Static variable in interface uk.ac.bbk.dcs.automed.evolution2.Evolution
EVOLVE_CONTRACT - Static variable in interface uk.ac.bbk.dcs.automed.evolution2.Evolution
EVOLVE_DATA - Static variable in interface uk.ac.bbk.dcs.automed.evolution.Evolution
EVOLVE_DATA - Static variable in interface uk.ac.bbk.dcs.automed.evolution2.Evolution
EVOLVE_DELETE - Static variable in interface uk.ac.bbk.dcs.automed.evolution2.Evolution
EVOLVE_EXTEND - Static variable in interface uk.ac.bbk.dcs.automed.evolution2.Evolution
EVOLVE_EXTENTIONAL_SCHEMA - Static variable in interface uk.ac.bbk.dcs.automed.evolution.Evolution
EVOLVE_EXTENTIONAL_SCHEMA - Static variable in interface uk.ac.bbk.dcs.automed.evolution2.Evolution
EVOLVE_INTEGRATED_SCHEMA - Static variable in interface uk.ac.bbk.dcs.automed.evolution.Evolution
EVOLVE_INTEGRATED_SCHEMA - Static variable in interface uk.ac.bbk.dcs.automed.evolution2.Evolution
EVOLVE_MODEL - Static variable in interface uk.ac.bbk.dcs.automed.evolution2.Evolution
EVOLVE_RENAME - Static variable in interface uk.ac.bbk.dcs.automed.evolution2.Evolution
EVOLVE_SCHEMA - Static variable in interface uk.ac.bbk.dcs.automed.evolution2.Evolution
EVOLVE_SCHEMAMODEL - Static variable in interface uk.ac.bbk.dcs.automed.evolution.Evolution
evolvedSchema - Variable in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolution
exactlyTwo(Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
EXCLUDE - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
EXCLUDE_MEMBER - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
executeButton - Variable in class uk.ac.ic.doc.automed.editor.IQLTool
executeCommand(String) - Method in class uk.ac.ic.doc.automed.util.db.DBAccess
  Mostly used for executing control commands, e.g.
executeCommand(String) - Method in class uk.ac.ic.doc.automed.util.db.DBEmbedded
  Mostly used for executing control commands, e.g.
executeCommand(String) - Method in class uk.ac.ic.doc.automed.util.db.DBPostgres
  Mostly used for executing control commands, e.g.
executeCSVQuery(ASG) - Method in class uk.ac.ic.doc.automed.wrappers.CSVWrapper
  Given an IQL query, this method queries the CSV file, then returns the answer in ASG format.
executeIQL(ASG) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapper
  Takes `ASG` query and passes it to a `LowLevelWrapperHdm` for processing.
executeIQL(ASG) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
executeIQL(ASG) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Execute an IQL query on the datasource.
executeIQL(ASG, String) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Execute an IQL query on the datasource.
executeIQL(ASG) - Method in class uk.ac.ic.doc.automed.wrappers.CSVWrapper
executeIQL(ASG) - Method in class uk.ac.ic.doc.automed.wrappers.HDMWrapper
  Takes `ASG` query and passes it to a `LowLevelWrapperHdm` for processing.
executeIQL(ASG, QueryEvaluationConfiguration) - Method in class uk.ac.ic.doc.automed.wrappers.P2PWrapper
  Execute query with constraints.
executeIQL(ASG) - Method in class uk.ac.ic.doc.automed.wrappers.P2PWrapper
  Execute an IQL query on the datasource.
executeIQL(ASG) - Method in class uk.ac.ic.doc.automed.wrappers.QueryCacheWrapper
  Execute a query against the cache
executeIQL(ASG) - Method in class uk.ac.ic.doc.automed.wrappers.SQLWrapper
executeIQL(ASG) - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapper
executeIQL(ASG) - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapper
executeLocalQuery(AutoMedQuery) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapper
  This is a stub required as the AutoMedWrapper requires it
executeLocalQuery(AutoMedQuery) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
executeLocalQuery(AutoMedQuery) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Execute a query in the datasource's native query language, and obtain a result in an AutoMedResult class
executeLocalQuery(AutoMedQuery) - Method in class uk.ac.ic.doc.automed.wrappers.HDMWrapper
  This is a stub required as the AutoMedWrapper requires it
executeLocalQuery(AutoMedQuery) - Method in class uk.ac.ic.doc.automed.wrappers.SQLWrapper
executeLocalQuery(AutoMedQuery) - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapper
executeQuery(String) - Static method in class uk.ac.ic.doc.automed.MDR
  Execute a SQL query on the repository, and return the result in a `Vector`
executeQuery(String) - Static method in class uk.ac.ic.doc.automed.STR
  Execute a SQL query on the repository, and return the result in a `Vector`
executeQuery(String) - Method in class uk.ac.ic.doc.automed.util.db.DBAccess
  This method is used for SELECT statement
executeQuery(String) - Method in class uk.ac.ic.doc.automed.util.db.DBEmbedded
  This method is used for SELECT statement
executeQuery(String) - Method in class uk.ac.ic.doc.automed.util.db.DBPostgres
  This method is used for SELECT statement
executeQuery(AbstractMessage) - Method in class uk.ac.ic.doc.rodex.p2p.protocol.QEP
  Execute query and return result (server-side).
executeSQLQuery(SQLQuery) - Method in class uk.ac.ic.doc.automed.wrappers.SQLWrapper
  Execute a query on the data source, returning the result in the standard format for instances of SQL queries.
executeStatement(String, String, boolean) - Static method in class uk.ac.ic.doc.automed.DSR
executeStatement(String, String, boolean, Set) - Static method in class uk.ac.ic.doc.automed.DSR
executeStatement(String) - Method in class uk.ac.ic.doc.automed.util.db.DBAccess
  This method is used for making changes to data, e.g.
executeStatement(String) - Method in class uk.ac.ic.doc.automed.util.db.DBEmbedded
  This method is used for making changes to data, e.g.
executeStatement(String) - Method in class uk.ac.ic.doc.automed.util.db.DBPostgres
  This method is used for making changes to data, e.g.
executeStatement(String, Connection, OutputStream) - Static method in class uk.ac.ic.doc.automed.Util
executeStatement(String, Connection, OutputStream, Set) - Static method in class uk.ac.ic.doc.automed.Util
executeStatement(String, Connection, Writer) - Static method in class uk.ac.ic.doc.automed.Util
  Executes the sql statement on the JDBC Concection and returns either a ResultSet, an Integer representing the update count or an SQLException if thrown when executing the command.
executeStatement(String, Connection, Writer, Set) - Static method in class uk.ac.ic.doc.automed.Util
executeStatements(String, String, boolean) - Static method in class uk.ac.ic.doc.automed.DSR
executeStatements(String, String, boolean, Set) - Static method in class uk.ac.ic.doc.automed.DSR
executeStatements(String, String, Connection, OutputStream) - Static method in class uk.ac.ic.doc.automed.Util
executeStatements(String, String, Connection, OutputStream, Set) - Static method in class uk.ac.ic.doc.automed.Util
executeStatements(String, String, Connection, Writer) - Static method in class uk.ac.ic.doc.automed.Util
  Calls {link #executeStatement(String, Connection, Writer)} with each each statement in sql seperated by del.
executeStatements(String, String, Connection, Writer, Set) - Static method in class uk.ac.ic.doc.automed.Util
executeUpdate(String) - Static method in class uk.ac.ic.doc.automed.MDR
  Execute a SQL update on the repository.
executeUpdate(String) - Static method in class uk.ac.ic.doc.automed.STR
  Execute a SQL update on the repository.
executeXMLQuery(ASG) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
  Given an IQL query, this method queries the XML file, then returns the answer in ASG format.
executeXMLSchemaQuery(ASG) - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapper
  Given an IQL query, this method queries the XML file, then returns the answer in ASG format.
executeYattaQuery(YattaQuery) - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapper
EXISTING_PEER - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  Context
exists(String) - Static method in class uk.ac.ic.doc.automed.reps.Model
exists(int) - Static method in class uk.ac.ic.doc.automed.reps.Model
exists(String) - Static method in class uk.ac.ic.doc.automed.reps.Protocol
  Determine if a given named protocol exists in the repository
exists(String) - Static method in class uk.ac.ic.doc.automed.reps.Schema
  Returns true is the named schema exists
exists(String) - Static method in class uk.ac.ic.doc.automed.ssd.Pattern
exists(String) - Static method in class uk.ac.ic.doc.automed.ssd.SSDFormat
  Returns true if the format for the specified ssdformat exists
exists(int) - Static method in class uk.ac.ic.doc.automed.ssd.SSDFormat
  Returns true if the format for the specified schema identifier exists
existsIn(SchemaElement, SchemaElementPair[], int) - Method in class uk.ac.ic.doc.automed.matching.Integrator
  Returns `true` if the specified element appears in one of the pairs of the array.
existsIn(String, SchemaObject[]) - Method in class uk.ac.ic.doc.automed.matching.Integrator
  Returns `true` if a schema object with the specified name exists in the array.
EXISTWrapper - Class in uk.ac.bbk.dcs.automed.xml.wrappers
  Class Task Description
EXISTWrapper(AccessMethod, String) - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.EXISTWrapper
EXISTWrapperFactory - Class in uk.ac.bbk.dcs.automed.xml.wrappers
  Class Task Description
EXISTWrapperFactory() - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.EXISTWrapperFactory
exitCommandLine() - Method in class uk.ac.ic.doc.automed.editor.CommandLineDriver
exitCommandLine(int) - Method in class uk.ac.ic.doc.automed.editor.CommandLineDriver
exitHelp - Static variable in class uk.ac.ic.doc.automed.editor.CommandLineDriver
exitMenuItem - Variable in class uk.ac.ic.doc.automed.editor.Gui
exitSyntax - Static variable in class uk.ac.ic.doc.automed.editor.CommandLineDriver
ExpandBuff(boolean) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
ExpandBuff(boolean) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
ExpandBuff(boolean) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
ExpandBuff(boolean) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
ExpandBuff(boolean) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
ExpandedArrayList - Class in uk.ac.ic.doc.automed.editor.autolayout
ExpandedArrayList() - Constructor for class uk.ac.ic.doc.automed.editor.autolayout.ExpandedArrayList
ExpandedHashMap - Class in uk.ac.ic.doc.automed.editor.autolayout
ExpandedHashMap() - Constructor for class uk.ac.ic.doc.automed.editor.autolayout.ExpandedHashMap
  Creates a new instance of ExpandedHashMap
expectedTokenSequences - Variable in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.ParseException
  Each entry in this array is an array of integers.
expectedTokenSequences - Variable in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.ParseException
  Each entry in this array is an array of integers.
expectedTokenSequences - Variable in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.ParseException
  Each entry in this array is an array of integers.
expectedTokenSequences - Variable in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.ParseException
  Each entry in this array is an array of integers.
expectedTokenSequences - Variable in exception uk.ac.bbk.dcs.automed.qproc.translators.xquery.ParseException
  Each entry in this array is an array of integers.
ExperimentalOptimisationProvider - Class in uk.ac.bbk.dcs.automed.qproc.optimise
  This class coordinates the application of the logical optimisations.
ExperimentalOptimisationProvider() - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.ExperimentalOptimisationProvider
ExperimentalOptimisationProvider(Schema, Schema[]) - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.ExperimentalOptimisationProvider
ExperimentsUtility - Class in uk.ac.bbk.dcs.automed.xml.experiments
  Class Task Description
ExperimentsUtility() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.ExperimentsUtility
explore() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
explore(PrintStream) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
exportConstructs(OutputStream) - Method in class uk.ac.ic.doc.automed.reps.Model
exportConstructs(PrintWriter) - Method in class uk.ac.ic.doc.automed.reps.Model
exportFile(Object) - Method in class uk.ac.ic.doc.automed.editor.Gui
exportFile(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
exportSchemaObjects(OutputStream) - Method in class uk.ac.ic.doc.automed.reps.Schema
exportSchemaObjects(PrintWriter) - Method in class uk.ac.ic.doc.automed.reps.Schema
exportSchemes(OutputStream) - Method in class uk.ac.ic.doc.automed.reps.Construct
exportSchemes(PrintWriter) - Method in class uk.ac.ic.doc.automed.reps.Construct
extend - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
ExtendedConstruct - Class in uk.ac.bbk.dcs.automed.evolution2
ExtendedConstruct(String, int, String, ExtendedConstruct) - Constructor for class uk.ac.bbk.dcs.automed.evolution2.ExtendedConstruct
extendEnvironment(String) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Environment
extendEnvironment(File) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Environment
extendToMatch(Schema, Schema) - Static method in class uk.ac.ic.doc.automed.matching.Integrator
  Returns the `Schema` produced by extending the two schemas with schema objects which are missing from each other.
extendToMatch(Schema) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Create a new Schema which contains the same set of constructs as the current schema, plus all those constructs of another schema, which are defined via extend operators.
ExtensionalSchemaEvolution - Class in uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution
ExtensionalSchemaEvolution(boolean, Schema, Schema[], Schema[], Schema, Schema, String, Object) - Constructor for class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.ExtensionalSchemaEvolution
ExtensionalSchemaEvolution - Class in uk.ac.bbk.dcs.automed.evolution1
ExtensionalSchemaEvolution - Class in uk.ac.bbk.dcs.automed.evolution2.schemaEvolution
ExtensionalSchemaEvolution(boolean, Schema, Schema) - Constructor for class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.ExtensionalSchemaEvolution
EXTRACT_USING_DOM - Static variable in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapperFactory
EXTRACT_USING_DTD - Static variable in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapperFactory
EXTRACT_USING_SAX - Static variable in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapperFactory
EXTRACT_USING_XML_SCHEMA - Static variable in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapperFactory
extractXMLDSSDOM(XMLWrapperFactory, Document) - Static method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSDOM
  Creates the XMLDSS of the instanceDoc.
extSchemas - Variable in class uk.ac.ic.doc.automed.editor.IQLTool
extSchemasInUse - Variable in class uk.ac.ic.doc.automed.editor.IQLTool

## F

factoryInUse - Variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
FAIL - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  performative
FailedOperationException - Exception in uk.ac.ic.doc.automed.p2p
FailedOperationException() - Constructor for exception uk.ac.ic.doc.automed.p2p.FailedOperationException
FailedOperationException(String) - Constructor for exception uk.ac.ic.doc.automed.p2p.FailedOperationException
FailedOperationException(Throwable) - Constructor for exception uk.ac.ic.doc.automed.p2p.FailedOperationException
FailedOperationException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.p2p.FailedOperationException
FailReplyException - Exception in uk.ac.ic.doc.automed.p2p
FailReplyException() - Constructor for exception uk.ac.ic.doc.automed.p2p.FailReplyException
FailReplyException(String, String) - Constructor for exception uk.ac.ic.doc.automed.p2p.FailReplyException
FailReplyException(AbstractMessage) - Constructor for exception uk.ac.ic.doc.automed.p2p.FailReplyException
FATAL_ERROR - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
fatalError(SAXParseException) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
features - Static variable in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.StatisticsModule
  The special characters that are examined in the elements' instances
features - Static variable in class uk.ac.ic.doc.automed.matching.modules.intervals.StatisticsModule
  The special characters that are examined in the elements' instances
features - Static variable in class uk.ac.ic.doc.automed.matching.modules.probability.binary.StatisticsModule
  The special characters that are examined in the elements' instances
features - Static variable in class uk.ac.ic.doc.automed.matching.modules.probability.senary.StatisticsModule
  The special characters that are examined in the elements' instances
features - Static variable in class uk.ac.ic.doc.automed.matching.SchemaElement
Field - Class in uk.ac.ic.doc.automed.p2p.tree
Field(String, Value) - Constructor for class uk.ac.ic.doc.automed.p2p.tree.Field
FIELD - Static variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
FIELD - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLQuery
FIELD_ALIAS - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLQuery
  Define an alias of a table.
FIELD_TYPE_AUTOMEDQUERY - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
  A field that can hold a AutoMedQuery
FIELD_TYPE_INTEGER - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
  A field that can hold an Integer constant
FIELD_TYPE_INTEGER - Static variable in class uk.ac.ic.doc.automed.wrappers.SchemeQuery
  A field that can hold an Integer constant
FIELD_TYPE_ONE_OR_MORE - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
  Used when the previous field type may be repeated any number of times.
FIELD_TYPE_ONE_OR_MORE - Static variable in class uk.ac.ic.doc.automed.wrappers.SchemeQuery
  Used when the previous field type may be repeated any number of times.
FIELD_TYPE_SCHEMEQUERY - Static variable in class uk.ac.ic.doc.automed.wrappers.SchemeQuery
  A field that can hold a SchemeQuery
FIELD_TYPE_STRING - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
  A field that can hold a String constant
FIELD_TYPE_STRING - Static variable in class uk.ac.ic.doc.automed.wrappers.SchemeQuery
  A field that can hold a String constant
fields - Variable in class uk.ac.ic.doc.automed.util.db.DBRecord
FILE - Static variable in class uk.ac.ic.doc.automed.util.LogOutputHandler
  Print log messages to file
fileMenu - Variable in class uk.ac.ic.doc.automed.editor.Gui
filePath - Static variable in class uk.ac.bbk.dcs.automed.xml.experiments.subclass.AlgoPerfExp
filePath - Static variable in class uk.ac.bbk.dcs.automed.xml.experiments.thesis.AlgoPerfExp
FillBuff() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
FillBuff() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
FillBuff() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
FillBuff() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
FillBuff() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
fillDiamond(Graphics2D, int, int, int, int) - Static method in class uk.ac.ic.doc.automed.editor.DefaultDrawLinkVertex
Filter - Class in uk.ac.ic.doc.automed.matching
  The class that represents the Filter component in the schema matching architecture.
Filter(SchemaElement[], SchemaElement[]) - Constructor for class uk.ac.ic.doc.automed.matching.Filter
  Constructs the `Filter`.
Filter(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.Filter
  Constructs the `Filter`.
filter(Serializable) - Method in class uk.ac.ic.doc.automed.p2p.overlay.QueryFilter
  Implement interface `EntryFilter`
filter(Set) - Method in class uk.ac.ic.doc.automed.p2p.overlay.QueryFilter
finalize() - Method in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
finalize() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.BuiltInFunction
finalize() - Method in class uk.ac.bbk.dcs.automed.qproc.FunctionTable
finalize() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
finalize() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
finalize() - Method in class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
finalize() - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.ExperimentalOptimisationProvider
finalize() - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.FoldFunction
finalize() - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.FoldFunctionTable
finalize() - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.FoldNilRule
finalize() - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.optimisers.CollectionOperatorReorganiser
finalize() - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.optimisers.ConstantSimplification
finalize() - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.PatternRule
finalize() - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.StandardOptimisationProvider
finalize() - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.GAVQueryReformulationProvider
finalize() - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
finalize() - Method in class uk.ac.ic.doc.rodex.p2p.Peer
findAllPaths(Schema, Schema) - Method in class uk.ac.ic.doc.automed.reps.pathway.DefaultPathwayFinder
  Find all pathways
findAllPaths(Schema, Schema) - Method in interface uk.ac.ic.doc.automed.reps.pathway.PathwayFinder
  Find all pathways
findAllPathwayAbstractions(Schema) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Find abstractions of all transformation pathways from this schema to another schema
findAllPathways(Schema, Schema) - Static method in class uk.ac.ic.doc.automed.reps.Pathway
  Return all possible pathways to a data source
findAllPathways(Schema, Schema) - Static method in class uk.ac.ic.doc.automed.reps.PathwayAbstraction
  Override parent's method to return a List of `PathwayAbstraction` objects instead
findAllPathways(Schema) - Method in class uk.ac.ic.doc.automed.reps.Schema
findAtomicRelationships(SchemaObject[], SchemaObject[]) - Method in class uk.ac.ic.doc.automed.matching.RelationshipExtractor
  Returns the semantic relationships between the atomic schema element pairs defined by the schema object arrays.
findAtomicRelationships(SchemaObject, SchemaObject[]) - Method in class uk.ac.ic.doc.automed.matching.RelationshipExtractor
  Returns a `SchemaElementPairRelationship` array for the specified schema objects.
findAttachedDataSources() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Deprecated. Use `Schema.getAttachedSchemas(int)` instead. Returns an array of Schema's that are connected to this schema by some transformation pathway and are data sources (including this schema itself if it is a data source). For each schema s returned, s.isDataSource() is true.
findAttachedExtDBs() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Deprecated. Use `Schema.getAttachedSchemas(int)` instead. Returns an array of Schema's that are connected to this schema by some transformation pathway and have extensional data (including this schema itself if it has extensional data). For each schema s returned, s.isExtDB() is true.
findAttachedExtSchemas() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Deprecated. Use `Schema.getAttachedSchemas(int)` instead. Returns an array of Schema's that are connected to this schema by some transformation pathway and are extensional schemas (including this schema itself if it is an extensional schema). For each schema s returned, s.isExtSchema() is true.
findAutoLayoutPositionableFor(Positionable) - Static method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutPositionable
  Find AutoLayout* object that represent SchemaObject.
findAutoMedFile(String, String) - Static method in class uk.ac.ic.doc.automed.Util
findFile(String, String) - Static method in class uk.ac.ic.doc.automed.Util
  Returns a URL for the given name using several methods to make it useful for locating configuration files, resources etc.
findmax(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.collections.Max
findmin(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.collections.Min
findObjByLabel(String) - Static method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutTreeObject
findPath(Node, Node, LinkedList, LinkedList) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
  IMPORTANT: Both goingUpPath and goingDownPath lists contain the common ancestor.
findPath(XMLDSSGraphElement, XMLDSSGraphElement, LinkedList, LinkedList) - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraph
  IMPORTANT: Both goingUpPath and goingDownPath lists contain the common ancestor.
findRelated(SchemaObject[], SchemaObject[], SemanticRelationship, boolean) - Method in class uk.ac.ic.doc.automed.matching.Integrator
  Returns a list of `SchemaElementPair` arrays with all the combinations of related schema elements.
findRoot() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutTreeObject
  Find object which label = "root$1"
findShortestPath(Schema, Schema) - Method in class uk.ac.ic.doc.automed.reps.pathway.DefaultPathwayFinder
  Find optimal pathways
findShortestPath(Schema, Schema) - Method in interface uk.ac.ic.doc.automed.reps.pathway.PathwayFinder
  Find optimal pathways
findShortestPath(Schema) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Returns an array of schemas such that: There is a transformation between each pair of adjacent schamas.
findShortestPathway(String, String) - Static method in class uk.ac.ic.doc.automed.reps.Pathway
findShortestPathway(Schema, Schema) - Static method in class uk.ac.ic.doc.automed.reps.Pathway
  Find the shortest path containing the fewest number of steps between two schemas.
firstCharKeyword - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
FIRSTPASS - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
Flatmap - Class in uk.ac.bbk.dcs.automed.qproc.functions.collections
Flatmap() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.collections.Flatmap
flattenSchemes(Object[]) - Static method in class uk.ac.ic.doc.automed.STR
  Converts an `Object` array representation of a schema object's scheme into a `String` representation.
FLexer - Class in uk.ac.bbk.dcs.automed.qproc.iql
FLexer(Reader) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.FLexer
FLexer(InputStream) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.FLexer
FLOAT - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
FLOAT - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedType
  Type to represent a floating point atomic type
FLOAT_TOKEN - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
FloatToken - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
floatType - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
floatValue() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedFloat
  Return the value of this AutoMedFloat as an float
FlushTimeHelper - Class in uk.ac.ic.doc.automed.p2p.directory
FlushTimeHelper(Queue, P2PDirectory, HoldTimeHelper) - Constructor for class uk.ac.ic.doc.automed.p2p.directory.FlushTimeHelper
  Creates a new instance of HoldTimeHelper
FLWRExpression() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
fm - Static variable in class uk.ac.ic.doc.automed.editor.DrawArc
fm - Static variable in class uk.ac.ic.doc.automed.editor.DrawVertex
FoldFunction - Class in uk.ac.bbk.dcs.automed.qproc.optimise
FoldFunction(String, int, String, String, String) - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.FoldFunction
FoldFunction(String, int, String) - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.FoldFunction
FoldFunctionTable - Class in uk.ac.bbk.dcs.automed.qproc.optimise
FoldFunctionTable() - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.FoldFunctionTable
Foldl - Class in uk.ac.bbk.dcs.automed.qproc.functions.collections
Foldl() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.collections.Foldl
FoldNilRule - Class in uk.ac.bbk.dcs.automed.qproc.optimise
FoldNilRule(FoldFunctionTable) - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.FoldNilRule
Foldr - Class in uk.ac.bbk.dcs.automed.qproc.functions.collections
Foldr() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.collections.Foldr
FOR - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
FOREIGN_KEY - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
  A feature option to model foreign keys in any `Schema` the factory generates
Forest - Class in uk.ac.bbk.dcs.automed.graph
  Class that abstracts the structure of a forest.
Forest() - Constructor for class uk.ac.bbk.dcs.automed.graph.Forest
forestToTree() - Method in class uk.ac.bbk.dcs.automed.graph.Forest
  This method adds a generic root node to the forest and adds the trees' roots as children to the generic root node.
forExpr(HashMap) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
format(LogRecord) - Method in class uk.ac.bbk.dcs.automed.qproc.GQPFormatter
FormatConversionIPI - Class in uk.ac.bbk.dcs.automed.xml.experiments.ws
FormatConversionIPI() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.ws.FormatConversionIPI
formattedString(ASG) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  Deprecated. Functionality same as toString().
formattedString(Cell) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  Deprecated. Functionality same as toString().
formattedString() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  Given that the ASG represents a list the string returned has each element separated by carriage returns for more legible output.
forVariable(HashMap) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
forwardButton - Variable in class uk.ac.ic.doc.automed.editor.IQLTool
FOUND_NWK_HANDLER_FLAG - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  A single-element byte array returned by RequestListener.handleEvent() method when the message that the listener receives is in fact meant for it
FragmentProcessor - Class in uk.ac.bbk.dcs.automed.qproc.annotate
  The purpose of this class is to replace all schemes with wrapper objects.
FragmentProcessor() - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.FragmentProcessor
FragmentProcessor(Schema[]) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.FragmentProcessor
  Deprecated. use `FragmentProcessor.FragmentProcessor()` instead
frame - Variable in class uk.ac.ic.doc.automed.editor.Gui
frame - Static variable in class uk.ac.ic.doc.automed.matching.modules.AbstractModule
FROM - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLQuery
  The first field can contain a SQLQuery WHERE
FROM_SCHEMA - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
fromASG(ASG) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  Returns the text IQL of g.
fromASG(Cell) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  Returns the text IQL of the abstract syntax graph of which n is the root.
fromASGCollection(ASG) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  If g represents a list/set/bag this returns an ArrayList of its Cells.
fromASGCollection(Cell) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  If n is the root of an ASG that represents a list, this returns an ArrayList of its Cells.
fromASGList(ASG) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  If g represents a list this returns an ArrayList of its Cells.
fromASGList(Cell) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  If n is the root of an ASG that represents a list, this returns an ArrayList of its Cells.
fromASGTuple(ASG) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  If g represents a tuple this returns an ArrayList of its Cells.
fromASGTuple(Cell) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  If n is the root of an ASG that represents a tuple, this returns an ArrayList of its Cells.
fromSchema - Variable in class uk.ac.ic.doc.automed.p2p.protocol.Request.Pathway
FSym - Class in uk.ac.bbk.dcs.automed.qproc.iql
  CUP generated class containing symbol constants.
FSym() - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.FSym
function - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
Function - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.EnvSym
FUNCTION - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
FunctionTable - Class in uk.ac.bbk.dcs.automed.qproc
  A FunctionTable contains the pairs (IQL function name) - (Java class implementing IQL function)
FunctionTable() - Constructor for class uk.ac.bbk.dcs.automed.qproc.FunctionTable

## G

GAVQueryReformulationProvider - Class in uk.ac.bbk.dcs.automed.qproc.reformulate
  The query reformulator accepts an IQL query on the source schema and rewrites it in terms of constructs of the target schemata.
GAVQueryReformulationProvider() - Constructor for class uk.ac.bbk.dcs.automed.qproc.reformulate.GAVQueryReformulationProvider
GAVQueryReformulationProvider(Schema, Schema[]) - Constructor for class uk.ac.bbk.dcs.automed.qproc.reformulate.GAVQueryReformulationProvider
  Deprecated. use `GAVQueryReformulationProvider.GAVQueryReformulationProvider(Schema, Schema[], QueryProcessorConfiguration)` instead
GAVQueryReformulationProvider(Schema, Schema[], QueryProcessorConfiguration) - Constructor for class uk.ac.bbk.dcs.automed.qproc.reformulate.GAVQueryReformulationProvider
GAVViewMap - Class in uk.ac.bbk.dcs.automed.qproc.reformulate
  Class containing GAV composite views between a single source schema and a single target schema.
GAVViewMap(Schema, Schema, QueryProcessorConfiguration) - Constructor for class uk.ac.bbk.dcs.automed.qproc.reformulate.GAVViewMap
  This constructor is called from CompositeViewMap class getInstance() method.
GenerateElemUID - Class in uk.ac.bbk.dcs.automed.xml.functions
  Function that produces element UIDs based on the two arguments passed to the function.
GenerateElemUID() - Constructor for class uk.ac.bbk.dcs.automed.xml.functions.GenerateElemUID
GenerateElemUIDOffSet - Class in uk.ac.bbk.dcs.automed.xml.functions
  Function that produces element UIDs based on the two arguments passed to the function.
GenerateElemUIDOffSet() - Constructor for class uk.ac.bbk.dcs.automed.xml.functions.GenerateElemUIDOffSet
generateGID - Class in uk.ac.ic.doc.automed.wrappers.ssdfunctions
generateGID() - Constructor for class uk.ac.ic.doc.automed.wrappers.ssdfunctions.generateGID
GenerateNestLists - Class in uk.ac.bbk.dcs.automed.xml.functions
  Class Task Description
GenerateNestLists() - Constructor for class uk.ac.bbk.dcs.automed.xml.functions.GenerateNestLists
generateParseException() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
generateParseException() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
generateParseException() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
generateParseException() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
generateParseException() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
generateSID - Class in uk.ac.ic.doc.automed.wrappers.ssdfunctions
generateSID() - Constructor for class uk.ac.ic.doc.automed.wrappers.ssdfunctions.generateSID
generators - Variable in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehension
generatorsFromXPath(String, String, HashMap, Document) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.UIDUtility
genericRoot - Static variable in class uk.ac.bbk.dcs.automed.xml.materialisation.Materialiser
genericRoot - Static variable in class uk.ac.bbk.dcs.automed.xml.materialisation.XMLDSSMaterialiser
genericRootName - Static variable in class uk.ac.bbk.dcs.automed.graph.Forest
get(int) - Method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.Vectors
get(int) - Method in class uk.ac.ic.doc.automed.reps.Pathway
  Returns the `Schema` at the given index of the pathway.
get(PersistentKey) - Method in class uk.ac.ic.doc.automed.util.db.QueryCacheSQLAdapter
  Get the first (or unique) data entry found for key
get(PersistentKey) - Method in class uk.ac.ic.doc.automed.util.persist.PersistentDB
  Get the first (or unique) data entry found for key
get(PersistentKey) - Method in interface uk.ac.ic.doc.automed.util.persist.PersistentHandler
  Get the first (or unique) data entry found for key
get(ID) - Method in class uk.ac.ic.doc.rodex.p2p.Peer
  Get a set of values from the overlay network for `ID`
get(String) - Method in class uk.ac.ic.doc.rodex.p2p.Peer
  Get a set of values from the overlay network for a String ID
get(ID, ASG) - Method in class uk.ac.ic.doc.rodex.p2p.Peer
  Get a set of values from the overlay network for `ID`
get1stItems(ASG) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
getAbsoluteDegrees(ArrayList, ArrayList) - Static method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.ClustererClassifier
getAbsolutePosition() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSchemaObject
getAbsolutePosition() - Method in interface uk.ac.ic.doc.automed.editor.Positionable
  Return the absolute coordinate of this .
getAbsolutePosition() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Same behaviour as `Construct.getPosition()` since `Construct` instances are not placed relative to other `Positionable`s.
getAbsolutePosition() - Method in class uk.ac.ic.doc.automed.reps.Model
  Same behaviour as `Model.getPosition()` since `Model` instances are not placed relative to other `Positionable`s.
getAbsolutePosition() - Method in class uk.ac.ic.doc.automed.reps.Network
  Same behaviour as `Network.getPosition()` since `Network` instances are not placed relative to other `Positionable`s.
getAbsolutePosition() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Same behaviour as `Schema.getPosition()` since `Schema` instances are not placed relative to other `Positionable`s.
getAbsolutePosition() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
getAbstractMessage() - Method in interface uk.ac.ic.doc.automed.p2p.messages.applicationlayer.ApplicationMessage
getAbstractMessage() - Method in class uk.ac.ic.doc.automed.p2p.messages.applicationlayer.BrokerAllQuery
getAbstractMessage() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
  Return the actual message
getAbstractMessage() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.SchemaAdvertMsg
  Return the actual message
getAbstractMessage() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.SchemaRegMsg
  Return the actual message
getAccessMethod(int) - Static method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Returns the `AccessMethod` held with the given identifier in in the STR.
getAccessMethod() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Returns the `AccessMethod` associated with this wrapper, which holds the details of the datasource being wrapped.
getAccessMethodAWFFeatures(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the feature settings of the specified access method.
getAccessMethodBySID(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns all the access method identifiers (AMID) that point to the access methods for the specified schema.
getAccessMethodDBDriver(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the database driver of the specified access method.
getAccessMethodPassword(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the password of the specified access method.
getAccessMethodPID(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the protocol identifier (PID) of the specified access method.
getAccessMethodProperty(int, String) - Static method in class uk.ac.ic.doc.automed.STR
  Access Method Property
getAccessMethods() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Find the `AccessMethod`s that may be used to access the physical database system that holds this `Schema`.
getAccessMethodSID(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the schema identifier (SID) to which the specified access method connects.
getAccessMethodURL(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the URL of the specified access method.
getAccessMethodUsername(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the username of the specified access method.
getAccessMethodWrapper(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the feature settings of the specified access method.
getAccompanyingSchemaRootName() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapperFactory
getAccompanyingSchemaURI() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapperFactory
getAction() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.TransfStep
getAction() - Method in class uk.ac.ic.doc.automed.p2p.directory.PeerEvent
getAction() - Method in class uk.ac.ic.doc.automed.p2p.directory.SchemaEvent
getAction() - Method in class uk.ac.ic.doc.automed.tml.TML
getActionFrom(Schema) - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns the action of the transformation.
getActionName() - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Return this transformation's action name
getActionNameFrom(Schema) - Method in class uk.ac.ic.doc.automed.reps.Transformation
getActionNameTo(Schema) - Method in class uk.ac.ic.doc.automed.reps.Transformation
getActionNumber(String) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
  Return an action number from its name
getActionString(int) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
getActionString() - Method in class uk.ac.ic.doc.automed.tml.TML
getActionTo(Schema) - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns the action of the transformation.
getAdded() - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.ComplexType
  Get whether or not this has been added to the AutoMed Schema
getAddress() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
  Peer's IP address
getAdjacent() - Method in class uk.ac.ic.doc.automed.reps.Node
  Returns all nodes that are adjacent to this node - that is, nodes for which a transformation is defined between its schema and this node's schema.
getAdvertiseRequest(String, String, String, Map) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
getAgeTime() - Method in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
getAgeTime() - Method in class uk.ac.ic.doc.automed.p2p.directory.SchemaDescription
  Calculate the schema's age time from last update time value
getAllCombinations(Object[], Object[]) - Method in class uk.ac.ic.doc.automed.matching.Integrator
getAllCombinations(Object[], Object[]) - Method in class uk.ac.ic.doc.automed.matching.RelationshipExtractor
getAllNodes() - Method in class uk.ac.ic.doc.automed.reps.Network
getAllObjInSchema() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSchemaObject
getAllPairs() - Method in class uk.ac.ic.doc.automed.matching.Filter
  Returns an array of all schema element pairs, compatible and incompatible.
getAllPatternNames() - Static method in class uk.ac.ic.doc.automed.ssd.Pattern
getAllPatternNames() - Static method in class uk.ac.ic.doc.automed.SSMDR
  Returns the vector of patterns'name
getAllPatterns(String) - Method in class uk.ac.ic.doc.automed.editor.PatternWritingTool
getAllPeers() - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
  Get all peers from db
getAllPeers() - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
getAllProtocols() - Static method in class uk.ac.ic.doc.automed.STR
  Returns the name of all the protocols found in the STR.
getAllPublicSchemas() - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
getAllReferencedSchemaObjects() - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns all the schema objects referenced in a transformation, including those referenced in its query.
  The result of this method is the union of the results returned by the methods `Transformation.getReferencedSchemaObjects()` and `Transformation.getReferencedSchemaObjectsInQuery()`.
getAllReferences() - Method in class uk.ac.ic.doc.automed.p2p.tree.AutoMedObject
getAllReferences() - Method in class uk.ac.ic.doc.automed.p2p.tree.ValueList
getAllResultObjects(Map, int) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
getAllSchemaNames() - Static method in class uk.ac.ic.doc.automed.STR
  Returns the name of all the schemas found in the STR.
getAllSchemeNames() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Returns an `Object` array of schemes of all the schema objects that belong to the schema.
getAllSchemeNames(boolean) - Method in class uk.ac.ic.doc.automed.reps.Schema
getAllSchemeNames(boolean, int, int) - Method in class uk.ac.ic.doc.automed.reps.Schema
getAllSchemeNames(boolean, int, int, boolean) - Method in class uk.ac.ic.doc.automed.reps.Schema
getAllSchemeNames(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns an `Object` array of all objects' schemes of a schema.
getAllSchemeNamesString() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Returns the scheme representation (of type `String`) of the schemes of all the schema objects that belong to the schema.
getAllSchemeNamesString(boolean) - Method in class uk.ac.ic.doc.automed.reps.Schema
getAllSchemeNamesString(boolean, int, int) - Method in class uk.ac.ic.doc.automed.reps.Schema
getAllSchemeNamesString(boolean, int, int, boolean) - Method in class uk.ac.ic.doc.automed.reps.Schema
getAllSchemeNamesString(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the scheme representation (of type `String`) of all objects' schemes of a schema.
getAllSchemes() - Method in class uk.ac.ic.doc.rodex.qproc.ASGExplore
  Get all ASG's cell scheme
getAllTrans() - Static method in class uk.ac.ic.doc.automed.reps.Transformation
getAllTuples(ASG) - Static method in class uk.ac.ic.doc.rodex.qproc.QueryResultProducer
  Loop through the entire `ASG` list-type structure and covert its content into an `List` of rows, each row is a `List` object containing all tuple values
  .
getAllTypes(int) - Static method in class uk.ac.ic.doc.automed.MDR
  Get the complete rows of `TypeHierarchy` objects.
getAllValues() - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerTableModel
getAllVarablesFromCell(Cell) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
getAMID() - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Returns the access method identifier (AMID).
getAMXMLDSS() - Method in class uk.ac.bbk.dcs.automed.xml.relational.XMLDSSFromRDB
  This method first creates a network of tables, based on their foreign key dependencies.
getAnnotation() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
getAnnotator() - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
  Return the logical optimiser name
getAppearances() - Method in class uk.ac.ic.doc.automed.matching.Instance
  Returns the number of appearances of the value of this instance.
getAppearances(String[], char) - Static method in class uk.ac.ic.doc.automed.matching.Util
getArcDrawable() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Returns the name of the class implementing drawable that should be used to draw arc elements of this construct.
getArgCID() - Method in class uk.ac.ic.doc.automed.reps.ConstructScheme
getArgConstruct() - Method in class uk.ac.ic.doc.automed.reps.ConstructScheme
  Returns the `Construct` type of the `ConstructScheme`.
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.BuiltInFunction
getArity(String) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ReservedTokens
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.FoldFunction
getArray4List(String) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
getArray4List(ASG) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
getArrayList(Cell) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
getAsciiEscapeString(String) - Static method in class uk.ac.ic.doc.automed.xml.XMLSyntax
  returns a String suitable for printing to standard out
getASG() - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
  The original ASG object of the represented view
getASGQuery() - Method in class uk.ac.ic.doc.rodex.qproc.QueryDescription
getASGRoot() - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
getAskRequest(String, String, String, Map) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
getAsList() - Method in class uk.ac.ic.doc.automed.p2p.directory.ModelDescription
getAsList() - Method in interface uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryObject
getAsList() - Method in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
getAsList() - Method in class uk.ac.ic.doc.automed.p2p.directory.SchemaDescription
getAsMap() - Method in class uk.ac.bbk.dcs.automed.wrappers.IQLTranslator
getAssociatedModels() - Method in class uk.ac.ic.doc.automed.reps.Pathway
  Return all associated `Model`s necessary to re-build the `Schema`s in
  the pathway
getAtomicPairRelationships() - Method in class uk.ac.ic.doc.automed.matching.RelationshipExtractor
  Returns the relationships of pairs of atomic schema elements.
getAtomicRelationship(SchemaElementPair) - Method in class uk.ac.ic.doc.automed.matching.RelationshipExtractor
  Returns the relationship of the pair of atomic schema elements
getAtomicRelationshipCombinations(SchemaObject[], SchemaObject[]) - Method in class uk.ac.ic.doc.automed.matching.RelationshipExtractor
  Returns a list of `SchemaElementPairRelationship` arrays for the specified schema objects.
getAttachedElements() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
getAttachedSchemas(int) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Returns an array of Schema's that are connected to this schema by some pathway.
getAttribute(String) - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphElement
getAttribute(int) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedTuple
  Return a particular attribute from a tuple (counting from one)
getAttributeDomains() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Return the attribute domain specifications
getAttributeDomains() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
  Return the attribute domain specifications
getAttributeExtent(String, String) - Method in class uk.ac.bbk.dcs.automed.xml.materialisation.Materialiser
getAttributeExtent(String, String) - Method in class uk.ac.bbk.dcs.automed.xml.materialisation.XMLDSSMaterialiser
getAttributes() - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphElement
getAttributeType(int) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedResult
  Returns the type of an attribute in the tuple that the cursor currently points at.
getAttributeType(int) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedTuple
getAuthentication() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
  Peer's authentication
getAutoID() - Method in class uk.ac.ic.doc.automed.util.cache.CacheItem
  Return the current value of the auto-increment ID
getAutoMedFile(String, String) - Static method in class uk.ac.ic.doc.automed.Util
getAutoMedID(Node) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.UIDUtility
getAutoMedModel() - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapperFactory
getAutoMedModel() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapperFactory
getAutoMedModel() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
  Return the AutoMed oriented `Model` used to represent the `Schema` of the datasource.
getAutoMedModel() - Method in class uk.ac.ic.doc.automed.wrappers.CSVWrapperFactory
  Return the XML Schema model from the Automed MDR database
getAutoMedModel() - Method in class uk.ac.ic.doc.automed.wrappers.HDMWrapperFactory
  Return the HDM model from the Automed MDR database
getAutoMedModel() - Method in class uk.ac.ic.doc.automed.wrappers.P2PWrapperFactory
  Always the same as `P2PWrapperFactory.getModel()` for the P2PWrapperFactory.
getAutoMedModel() - Method in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
  Return the AutoMed relational `Model` used to represent the `Schema` for the SQL datasource wrapper.
getAutoMedModel() - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
  Return the XML Schema model from the Automed MDR database
getAutoMedModel() - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapperFactory
  Return the AutoMed oriented `Model`, which is the same as the source oriented `Model` for the semistructured datasource
getAutoMedModelName() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
  Find the name of the `Model` that will be used to represent an AutoMed oriented view of the data source.
getAutoMedObject(Reference) - Method in class uk.ac.ic.doc.automed.p2p.tree.CollectionSet
getAutoMedObject(Reference) - Method in class uk.ac.ic.doc.automed.p2p.tree.Root
getAutoMedObjects(List) - Method in class uk.ac.ic.doc.automed.p2p.tree.CollectionSet
getAutoMedObjects(List) - Method in class uk.ac.ic.doc.automed.p2p.tree.Root
  Returns a list of AutoMedObject nodes that correspond to the list of References given as parameter.
getAutoMedPeer() - Static method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Return the `AutoMedPeer` that represents the repository in the JVM on the P2P network.
getAutoMedPeer() - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
  Return the `AutoMedPeer` this application provides a UI for.
getAutoMedQueryToken() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
  Return the AutoMedQueryToken of this node; ie the type of object query node represents.
getAutoMedTuple() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedResult
  Return the tuple which the cursor current points at.
getAutoMedTuple(int) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedResult
  Move the cursor and get the tuple that is at the point
getAutoMedWrapper(AccessMethod) - Static method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Equivalent to calling newAutoMedWrapper(am,null)
getAutoMedWrapper(AccessMethod, String) - Static method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Return the wrapper asspciated to a stored AccessMethod.
getAutoMedWrapperFactory() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Return the AutoMedWrapperFactory currently associated with this wrapper.
getAutoMedWrapperFactory() - Method in class uk.ac.ic.doc.automed.wrappers.CSVWrapper
getAutoMedWrapperFactory() - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapper
getAutoMedWrapperFactoryFeatures() - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Returns the feature settings as used with associated `AutoMedWrapperFactory`
getAverage(double[]) - Static method in class uk.ac.ic.doc.automed.matching.Util
getAverageAppearances(String[], char) - Static method in class uk.ac.ic.doc.automed.matching.Util
getAverageFanOut(Document) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
getAverages() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
getBackgroundColor() - Method in interface uk.ac.ic.doc.automed.editor.Positionable
getBackgroundColor() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Return the default background colour to be used from drawing `SchemaObject`s of this `Construct`.
getBackgroundColor() - Method in class uk.ac.ic.doc.automed.reps.Model
  Return the default background colour to be used from drawing `SchemaObject`s of this `Model`.
getBackgroundColor() - Method in class uk.ac.ic.doc.automed.reps.Network
getBackgroundColor() - Method in class uk.ac.ic.doc.automed.reps.Schema
getBackgroundColor() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
getBackwardDegree() - Method in class uk.ac.ic.doc.automed.matching.BidirectionalDegree
  Returns the backward similarity degree.
getBaseType() - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.ComplexType
  Return whether or not this has been used as a subtype
getBaseTypeName() - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy.TypeObject
  Get the name of the base type for this type object
getBeginColumn() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
getBeginColumn() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
getBeginColumn() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
getBeginColumn() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
getBeginColumn() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
getBeginLine() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
getBeginLine() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
getBeginLine() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
getBeginLine() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
getBeginLine() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
getBidirectionalDegrees(Hashtable, Hashtable) - Static method in class uk.ac.ic.doc.automed.matching.modules.AbstractModule
  Returns a `Hashtable` of the bidirectional degrees.
getBidirectionalDegrees() - Method in class uk.ac.ic.doc.automed.matching.modules.AbstractModule
  Returns an array of `SimilarSchemaElementPair` objects which define the bidirectional degrees between the pairs of schema elements.
getBidirectionalSimilarity(SchemaElementPair) - Method in class uk.ac.ic.doc.automed.matching.modules.AbstractModule
  Returns a `SimilarSchemaElementPair` object which defines the bidirectional degrees for the specified `SchemaElementPair`
getBitString(int) - Static method in class uk.ac.ic.doc.automed.util.NumberToolkit
  Get the bit string of an integer value
getBodyVars(List) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehension
getBoundFields() - Method in class uk.ac.ic.doc.rodex.qproc.QueryVariable
  Getter for bounded fields
getBoundFunctions() - Method in class uk.ac.ic.doc.rodex.qproc.QueryVariable
  Getter for bound functions
getBounds() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayout
getBounds() - Method in class uk.ac.ic.doc.automed.editor.DefaultDrawConstraintVertex
getBounds() - Method in class uk.ac.ic.doc.automed.editor.DefaultDrawLinkNodalVertex
getBounds() - Method in interface uk.ac.ic.doc.automed.editor.DrawableVertex
  Describe the rectangular area within the `EditorPanel` where this `Drawable` vertex is to be painted.
getBounds() - Method in class uk.ac.ic.doc.automed.editor.DrawNetwork
getBounds() - Method in class uk.ac.ic.doc.automed.editor.DrawVertex
getBriefDateString() - Static method in class uk.ac.ic.doc.automed.util.DateUtil
  Return a brief date string of current date
  Example: 20/7/2006 1:1:1---> 20060720
getBufferSize() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractDaemon
getBufferSize() - Method in class uk.ac.ic.doc.automed.xml.XMLReader
getBytes() - Method in class uk.ac.ic.doc.automed.p2p.messages.abstractlayer.AbstractMessage
  Utility method to return message bytes
getBytesFromInputStream(InputStream, int) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  Get bytes array from an input stream
getCache() - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessor
getCache() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Return the `PeerCache` that this AutoMedPeer keeps, containing data fetched form the `P2PDirectory` of other peers and public schemas.
getCachedQueries() - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
  Return external queries of all cached items
getCachedQueries() - Method in interface uk.ac.ic.doc.automed.qproc.cache.IQueryCache
  Return external queries of all cached items
getCacheMode() - Method in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
getCachePolicy(String) - Static method in class uk.ac.ic.doc.automed.qproc.cache.CacheManager
getCachePolicy() - Method in class uk.ac.ic.doc.automed.qproc.eval.QueryEvaluationConfiguration
  Accepts a list of input conditions and return the action
getCacheResultExpiredOK() - Method in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
getCacheSource() - Method in class uk.ac.ic.doc.automed.wrappers.QueryCacheWrapper
  Return the reference to the `IQueryCache` instance
getCacheStatus() - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
getCacheStatus() - Method in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
getCardinality() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGTuple
getCause() - Method in exception uk.ac.ic.doc.automed.AutoMedException
  Return the source exception
getCause() - Method in exception uk.ac.ic.doc.automed.RepositoryAccessException
getCause() - Method in exception uk.ac.ic.doc.automed.reps.AutoRepException
getCellAsString(Cell) - Static method in class uk.ac.ic.doc.rodex.qproc.ASGExplore
  Added to return a string representation of a ASG's cell dmle 22/11/2005
getCellEditorValue() - Method in class uk.ac.ic.doc.automed.editor.TextEditor
  Implement one method of `AbstractCellEditor` adapter class
getCellType(Cell) - Static method in class uk.ac.ic.doc.rodex.qproc.ASGExplore
  Return the ASG cell's type name dmle 22/11/2005
getCentre() - Method in class uk.ac.ic.doc.automed.editor.DefaultDrawLinkNodalVertex
getCentre() - Method in interface uk.ac.ic.doc.automed.editor.DrawableVertex
  Describe where the centre of the `Drawable` visually appears to a viewer.
getCentre() - Method in class uk.ac.ic.doc.automed.editor.DrawVertex
  Describe where the centre of the `Drawable` visually appears to a viewer.
getCentreOffset() - Method in class uk.ac.ic.doc.automed.editor.DefaultDrawLinkNodalVertex
getCentreOffset() - Method in interface uk.ac.ic.doc.automed.editor.DrawableVertex
  Describe where the centre of the `Drawable` visually appears to a viewer.
getCentreOffset() - Method in class uk.ac.ic.doc.automed.editor.DrawVertex
  Implements the `Drawable`
getChild(Object) - Method in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
getChild(String) - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.ComplexType
  Get a child element
getChildAttributes() - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.ComplexType
  Return any child attributes
getChildCount(Node) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
  Counts the children of the given node.
getChildren() - Method in class uk.ac.bbk.dcs.automed.graph.TreeNode
getChildren() - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphElement
getChildren() - Method in class uk.ac.ic.doc.automed.p2p.tree.MainObjectClasses
getChildren() - Method in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
getChildren() - Method in class uk.ac.ic.doc.automed.p2p.tree.ValueList
getChildren() - Method in class uk.ac.ic.doc.automed.reps.Node
  If the network this node belongs to is directed then returns all the adjacent nodes that are children of this node, otherwise its behaviour is defined by the type of network but the children will be a subset of adjacent.
getChildren() - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.ComplexType
  Return any child elements
getCID() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Returns the construct identifier (CID) of the construct.
getCID() - Method in class uk.ac.ic.doc.automed.reps.ConstructScheme
  Other setter, getter methods
getClassCatalog() - Method in class uk.ac.ic.doc.automed.util.persist.PersistentDBController
  The class datalog
getClasses() - Method in class uk.ac.ic.doc.automed.p2p.tree.MainObjectClasses
getClassName() - Method in exception uk.ac.ic.doc.automed.IntegrityException
  Return the className of the object that the manipulation of caused this exception.
getClientInstance(RequestListener, String, int, String, Properties) - Static method in class uk.ac.ic.doc.automed.p2p.communication.ClientFactory
  Create a new instance of communication client for a specific protocol
getClientInstance(RequestListener, String, Properties) - Static method in class uk.ac.ic.doc.automed.p2p.communication.ClientFactory
  Create a new instance of communication client for a specific protocol.
getClockRepresentation(long) - Static method in class uk.ac.ic.doc.automed.util.DateUtil
  Return a standard clock representation from the number of millisecs
getClockRepresentation(Date) - Static method in class uk.ac.ic.doc.automed.util.DateUtil
  Return a standard clock representation of a Date object
getClockRepresentation(long[]) - Static method in class uk.ac.ic.doc.automed.util.DateUtil
  Return a standard clock representation of a time value.
getCloseSchemeBracket() - Static method in class uk.ac.ic.doc.automed.reps.Schema
  find what string is used to deliminate the closing of a scheme name, such as the ">>" in "<<person>>" or "<<person,name>>".
getCloseSchemeBracket() - Static method in class uk.ac.ic.doc.automed.STR
  Return String used to close schemes
getClusters() - Method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.Clusterer
getCollectionClass() - Method in class uk.ac.ic.doc.automed.p2p.tree.ObjectCollection
getCollectionForClass(Class) - Method in class uk.ac.ic.doc.automed.p2p.tree.Root
getCollectionSize() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  Usage intended only for CallToWrapper cache, to help decide between in-memory and on-disk caching
getCollectionSize() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGCollection
getCollectionType() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGCollection
getColType(Cell) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
getColumn() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
  Deprecated.
getColumn() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
  Deprecated.
getColumn() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
  Deprecated.
getColumn() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
  Deprecated.
getColumn() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
  Deprecated.
getColumnCount() - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerTableModel
getColumnDetailsSchemeLength() - Method in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
  Return the number of fields in a full source table scheme that are used to represent the structure and type of one column (ie its name, data type, size, null, ...)
getColumnName(int) - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerTableModel
getColumnNames(ResultSet) - Static method in class uk.ac.ic.doc.automed.Util
getColumns(SchemaObject, ArrayList) - Method in class uk.ac.ic.doc.automed.matching.SQLRelationshipExtractor
  Returns an array of schema objects that are the columns of the specified table.
getColumnsOfTable(Schema, SchemaObject) - Method in class uk.ac.ic.doc.automed.matching.SQLIntegrator
  Returns an array of schema objects of the columns of the specified table in the schema.
getColumnTypes(ResultSet) - Static method in class uk.ac.ic.doc.automed.Util
getCombinations(Object[]) - Method in class uk.ac.ic.doc.automed.matching.Integrator
getCombinationsOverMultipleArrays(ArrayList[]) - Method in class uk.ac.ic.doc.automed.matching.Integrator
getCommandClass() - Static method in class uk.ac.ic.doc.automed.DSR
getCommonRelationship(SchemaElementPairRelationship[]) - Static method in class uk.ac.ic.doc.automed.matching.Integrator
getCommonSchema(Transformation) - Method in class uk.ac.ic.doc.automed.reps.Transformation
getCommProperties(String) - Static method in class uk.ac.ic.doc.automed.p2p.AppToolKit
  Get communication properties for a specific protocol
getCommProperties(String) - Method in class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
  Get communication properties for a specific protocol
getCommProtocol() - Static method in class uk.ac.ic.doc.automed.p2p.AppToolKit
  Get communication protocol attributes
getCommProtocol() - Method in class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
  Get communication protocol attributes
getCompatibles(double) - Method in class uk.ac.ic.doc.automed.matching.Filter
  Returns an array of `SimilarSchemaElementPair` objects that define compatible pairs.
getCompDistributionMetric(Cell) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.IQLUtility
getCompSubCompMap() - Method in class uk.ac.bbk.dcs.automed.wrappers.IQLTranslator
getConfig(String) - Static method in class uk.ac.ic.doc.automed.p2p.AppToolKit
getConfig(String, boolean) - Static method in class uk.ac.ic.doc.automed.p2p.AppToolKit
  Return the P2PDirectory config
getConfig() - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
  Return the reference to the configuration file used by the directory service
getConfigFileName() - Static method in class uk.ac.ic.doc.automed.DSR
  Returns the name of the file used for data source definitions.
getConfiguration() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.AbstractQueryAnnotationProvider
getConfiguration() - Method in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
getConfiguration() - Method in interface uk.ac.ic.doc.automed.qproc.eval.QueryEvaluationProvider
  Returns the specific configuration for each query processing phase
getConnection() - Method in class uk.ac.ic.doc.automed.util.db.DBAccess
getConnection() - Method in class uk.ac.ic.doc.automed.util.db.DBEmbedded
getConnection() - Method in class uk.ac.ic.doc.automed.util.db.DBPostgres
getConnectionJDBCURL(String) - Static method in class uk.ac.ic.doc.automed.DSR
  Return the JDBC URL assocaited with a DSR identified by its name
getConnectionPoint(Point) - Method in class uk.ac.ic.doc.automed.editor.DefaultDrawConstraintVertex
getConnectionPoint(Point) - Method in class uk.ac.ic.doc.automed.editor.DefaultDrawLinkVertex
getConnectionPoint(Point) - Method in class uk.ac.ic.doc.automed.editor.DefaultDrawNodalVertex
getConnectionPoint(Point) - Method in class uk.ac.ic.doc.automed.editor.drawables.DrawERGeneralisationVertex
getConnectionPoint(Point) - Method in class uk.ac.ic.doc.automed.editor.drawables.DrawRDBForeignKeyVertex
getConnectionPoint(Point) - Method in interface uk.ac.ic.doc.automed.editor.DrawableVertex
  Calculate the `Point` where a `DrawableArc` connecting to this `DrawableVertex` should be drawn to, no
getConnectionPoint(Point) - Method in class uk.ac.ic.doc.automed.editor.DrawSchema
getConnectionPoint(Point) - Method in class uk.ac.ic.doc.automed.editor.DrawVertex
getConnectionPointMovableCentre(Point) - Method in class uk.ac.ic.doc.automed.editor.DrawVertex
  A more visually pleasing implementation of `DrawVertex.getConnectionPoint(java.awt.Point)` for use on rectangular Drawables that allows the centre of the object you are connecting with to be treated as only loosely defining where the connection point should be aligned to, such that as the other point moves to the right, so the centre of the drawable moves a little to the right
getConnectionUsername(String) - Static method in class uk.ac.ic.doc.automed.DSR
  Return the username associated with a DSR identified by its name
getConnectsTo() - Method in interface uk.ac.ic.doc.automed.editor.Drawable
getConnectsTo() - Method in class uk.ac.ic.doc.automed.editor.DrawArc
getConnectsTo() - Method in class uk.ac.ic.doc.automed.editor.DrawVertex
getConstantVariables() - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter.MiniConDescription
  Return a `List` of constants (if any) in the associated view
getConstantVariables() - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
  Return a `List` of constant variables in the query.
getConstraint() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.Lineage
getConstraint() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Returns a List of `ConstructConstraint` objects associated to this construct
getConstraint() - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns the constraint associated with the transformation.
getConstraint() - Method in class uk.ac.ic.doc.automed.tml.TML
getConstraintDefinition(String) - Method in class uk.ac.ic.doc.automed.reps.Construct
  Return the definition of a constraint used within this `Construct`.
getConstraintReferencedConstructs(SchemaObject) - Static method in class uk.ac.ic.doc.automed.reps.Utility
  Returns all the objects in a SchemaObject's scheme that are correspond to positions in the SchemaObject's scheme of type `SCHEME_TYPE_CONSTRUCT`
getConstruct() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.Lineage
getConstruct(int) - Static method in class uk.ac.ic.doc.automed.reps.Construct
  Returns the `Construct` identified by the given construct identifier (CID).
getConstruct(String) - Method in class uk.ac.ic.doc.automed.reps.Model
  Returns the named construct in the model or throws an AutoMedException if the construct name doesn't exist in the model.
getConstruct() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Returns the construct type of the schema object.
getConstructAsSchemaObject(Transformation) - Static method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.ExtensionalSchemaEvolution
getConstructAsString(Transformation) - Static method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.ExtensionalSchemaEvolution
getConstructClass() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSchemaObject
  Returns the class of the construct.
getConstructClass(int) - Static method in class uk.ac.ic.doc.automed.MDR
getConstructClass() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Returns the class of the construct.
getConstructClassString(int) - Static method in class uk.ac.ic.doc.automed.reps.Construct
getConstructConstraint(int, String) - Static method in class uk.ac.ic.doc.automed.MDR
getConstructConstraints(int) - Static method in class uk.ac.ic.doc.automed.MDR
  Get all constraints associated to a construct
getConstructDescription() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Returns a printable description of the construct including all of its schemes.
getConstructMID(int) - Static method in class uk.ac.ic.doc.automed.MDR
  Gets the Model Identifier for a given construct
getConstructName(int) - Static method in class uk.ac.ic.doc.automed.MDR
getConstructName() - Method in class uk.ac.ic.doc.automed.reps.ConstructConstraint
  Retrieve construct from repository
getConstructNames(int) - Static method in class uk.ac.ic.doc.automed.MDR
  Gets a list of all construct names for a modelling language
getConstructorArities() - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ReservedTokens
getConstructorTypes() - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ReservedTokens
getConstructProperty(int, int, String, boolean) - Static method in class uk.ac.ic.doc.automed.MDR
getConstructs(int) - Static method in class uk.ac.ic.doc.automed.MDR
  Get the CIDs of all constructs for a modelling language
getConstructs() - Method in class uk.ac.ic.doc.automed.reps.Model
  Returns an array of all the constructs in the model.
getConstructs(boolean) - Method in class uk.ac.ic.doc.automed.reps.Model
  Get a list of `Construct` objects associated to a `Model` object for generating XML structure.
getConstructSchemeArgCID(int, int) - Static method in class uk.ac.ic.doc.automed.MDR
getConstructSchemeCount(int) - Static method in class uk.ac.ic.doc.automed.MDR
  Gets the count of construct scheme arguments for this construct, the number is also the highest index (argument pos) usable as the construct scheme numbering starts at 1
getConstructSchemeHDMType(int, int) - Static method in class uk.ac.ic.doc.automed.MDR
getConstructSchemeLowerBound(int, int) - Static method in class uk.ac.ic.doc.automed.MDR
getConstructSchemeType(int, int) - Static method in class uk.ac.ic.doc.automed.MDR
getConstructSchemeUpperBound(int, int) - Static method in class uk.ac.ic.doc.automed.MDR
getConstructType() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
getConstructType() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
getContainmentQuery() - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
getContent() - Method in class uk.ac.ic.doc.automed.p2p.messages.abstractlayer.AbstractMessage
getContent() - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
  Implements interface `Cacheable`.
getContent() - Method in class uk.ac.ic.doc.automed.util.cache.CacheItem
  Return all cache item's content as a `HashMap`
getContentItem(String) - Method in class uk.ac.ic.doc.automed.util.cache.CacheItem
  Return an individual content item
getContentObject() - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
  Return the cache data bag
getContentObject() - Method in interface uk.ac.ic.doc.automed.util.cache.Cacheable
  Get the actual content object
getContext() - Method in class uk.ac.ic.doc.automed.p2p.messages.abstractlayer.AbstractMessage
getContext() - Method in interface uk.ac.ic.doc.automed.p2p.messages.applicationlayer.ApplicationMessage
getContext() - Method in class uk.ac.ic.doc.automed.p2p.messages.applicationlayer.BrokerAllQuery
getContext() - Method in exception uk.ac.ic.doc.automed.p2p.UnsuccessfulReplyException
getContext() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloAckMsg
  Return the message context
getContext() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
  Return the message context
getContext() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.SchemaAdvertMsg
  Return the message context
getContext() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.SchemaRegMsg
  Return the message context
getCost() - Method in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
getCreated() - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
getCreated() - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
getCurrentModelSyntax - Static variable in class uk.ac.ic.doc.automed.editor.Editor
getCurrentRow(ResultSet) - Method in class uk.ac.ic.doc.automed.util.db.DBAccess
  Return current row in a result set as a `HashMap` of column->value.
getCurrentTagName() - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
getCurrentToken(int, int) - Method in class uk.ac.ic.doc.automed.reps.Syntax.Tokenizer
getCurrentToken(int) - Method in class uk.ac.ic.doc.automed.reps.Syntax.Tokenizer
getCurrentToken() - Method in class uk.ac.ic.doc.automed.reps.Syntax.Tokenizer
getDaemonPort() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedMessagingHelper
  Get the daemon port as created by the system
getDaemonPort() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  public boolean isRegistered() { return this.registered; }
getData() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedTuple
  Return all the attributes of this tuple as an array
getDatabaseName() - Method in class uk.ac.ic.doc.automed.util.persist.PersistentDB
  Return the database name
getDatabaseNames() - Method in class uk.ac.ic.doc.automed.util.persist.PersistentDBController
  Get a list of db names
getDatafromYattaData(Vector) - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapper
getDataLineageOf(Lineage) - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.DataLineageTracing
getDataLineageOf(ArrayList) - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.DataLineageTracing
getDataSource() - Method in class uk.ac.ic.doc.automed.p2p.PathwayDescription
getDataSource() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Create the `DataSource` object representing the data source represented by this schema
getDataSourceConnection(String) - Static method in class uk.ac.ic.doc.automed.DSR
  Gets a connection to the named data souce.
getDataSourceConnection(String, String, String) - Static method in class uk.ac.ic.doc.automed.DSR
  Gets a connection to the named data souce.
getDataSourceName() - Static method in class uk.ac.ic.doc.automed.MDR
  Returns the name of the repository in the local database.
getDataSourceName() - Static method in class uk.ac.ic.doc.automed.SSMDR
  Returns the name of the repository in the local database.
getDataSourceName() - Static method in class uk.ac.ic.doc.automed.STR
  Returns the name of the repository in the local database.
getDataSourceProperty(String, String) - Static method in class uk.ac.ic.doc.automed.DSR
  Returns the named property for the named data source as defined in the configuration file.
getDataType() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
  Returns the data type of the schema element.
getDate() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
getDate() - Static method in class uk.ac.ic.doc.automed.util.DateUtil
  Return the current date/time in a standard format
getDate(long) - Static method in class uk.ac.ic.doc.automed.util.DateUtil
  Return a date from number of its milli-seconds
getDateAsMillisecs() - Static method in class uk.ac.ic.doc.automed.util.DateUtil
  Return the current date as the number of milli-seconds
getDateString() - Static method in class uk.ac.ic.doc.automed.util.DateUtil
  Return a date string of current date
  Example: 20/7/2006 1:1:1---> 20060720_010101
getDateTime() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
getDay() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
getDB(String) - Method in class uk.ac.ic.doc.automed.util.persist.PersistentDBController
  Return reference to a created database object
getDBAccessInstance(String, String, String, String, Properties) - Static method in class uk.ac.ic.doc.automed.util.db.DBAccessFactory
  Create a new `DBAccess` instance for a data source.
  As such, we can initiate multiple databases (data sources) at the same time.
getDBDriver() - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Returns the database driver used for connecting to the database.
getDBInstance(String, String, String, Properties) - Static method in class uk.ac.ic.doc.automed.util.db.DBEmbedded
  Create a new DB process instance for a data source named `dsName`.
  As such, we can initiate multiple databases (data sources) at the same time.
getDBInstance(String, String, String, Properties) - Static method in class uk.ac.ic.doc.automed.util.db.DBPostgres
  Create a new DB process instance for a data source named `dsName`.
  As such, we can initiate multiple databases (data sources) at the same time.
getDebug() - Method in class uk.ac.ic.doc.automed.xml.XMLReader
getDebugInf() - Method in class uk.ac.ic.doc.rodex.qproc.QueryMediator
  Debug information
getDebugLevel() - Static method in class uk.ac.ic.doc.automed.STR
  Return the value of the debug level at set by `STR.setDebugLevel(int)` deprecated: use `#Debugger.getDebugLevel()` instead
getDebugLevel() - Static method in class uk.ac.ic.doc.automed.util.Debugger
  Return the value of the debug level at set by `Debugger.setDebugLevel(int)`
getDebugLogger() - Static method in class uk.ac.bbk.dcs.automed.qproc.QProcLogger
getDebugResult() - Method in class uk.ac.ic.doc.rodex.qproc.QueryMediator
  Debug result
getDeepQuery() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.NXDBWrapper
getDefaultConfigFileName() - Static method in class uk.ac.ic.doc.automed.DSRConfiguration
  Return the default name of the configuration file used by the DSR class.
getDefaultDataSource() - Static method in class uk.ac.ic.doc.automed.DSR
getDefaultEncoding() - Static method in class uk.ac.ic.doc.automed.xml.XMLWriter
getDefaultName() - Static method in class uk.ac.ic.doc.automed.util.thread.AsynchThread
  Return the default, unique name for a thread
getDefaultName() - Static method in class uk.ac.ic.doc.automed.util.thread.TimedThread
  Return the default, unique name for a thread
getDefaultPath(String) - Static method in class uk.ac.ic.doc.automed.Util
  Return the default path to a file/directory given its relative name
  E.g.: given automed --> $USERHOME/.automed/automed
getDefaultQuery(int) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.IQLUtility
getDefaultSchemaName(AutoMedWrapper) - Method in class uk.ac.bbk.dcs.automed.wrappers.MSAccessWrapperFactory
getDefaultSchemaName(AutoMedWrapper) - Method in class uk.ac.ic.doc.automed.wrappers.HsqldbWrapperFactory
getDefaultSchemaName(AutoMedWrapper) - Method in class uk.ac.ic.doc.automed.wrappers.OracleWrapperFactory
getDefaultSchemaName(AutoMedWrapper) - Method in class uk.ac.ic.doc.automed.wrappers.PostgresWrapperFactory
getDefaultSchemaName(AutoMedWrapper) - Method in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
  Return the name of the default schema for the type of database being wrapped.
getDefaultSchemaName(AutoMedWrapper) - Method in class uk.ac.ic.doc.automed.wrappers.TransactSQLWrapperFactory
getDefaultUserName() - Static method in class uk.ac.ic.doc.automed.DSR
getDefaultWrapperFactory() - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapper
  Returns a new instance of the default wrapper factory for this wrapper
getDefaultWrapperFactory() - Method in class uk.ac.bbk.dcs.automed.wrappers.MSAccessWrapper
  Returns a new instance of the default wrapper factory for this wrapper
getDefaultWrapperFactory() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.DOMWrapper
  Returns a new instance of the default wrapper factory for this wrapper
getDefaultWrapperFactory() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.EXISTWrapper
getDefaultWrapperFactory() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.SAXWrapper
  Returns a new instance of the default wrapper factory for this wrapper
getDefaultWrapperFactory() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Return the default `AutoMedWrapperFactory` that is used to generate `Schema` instances from information in a data sources
getDefaultWrapperFactory() - Method in class uk.ac.ic.doc.automed.wrappers.CSVWrapper
getDefaultWrapperFactory() - Method in class uk.ac.ic.doc.automed.wrappers.HDMWrapper
  Returns a new instance of the default wrapper factory for this wrapper
getDefaultWrapperFactory() - Method in class uk.ac.ic.doc.automed.wrappers.HsqldbWrapper
  Returns a new instance of the default wrapper factory for this wrapper
getDefaultWrapperFactory() - Method in class uk.ac.ic.doc.automed.wrappers.OracleWrapper
  Returns a new instance of the default wrapper factory for this wrapper
getDefaultWrapperFactory() - Method in class uk.ac.ic.doc.automed.wrappers.P2PWrapper
  Return the default `AutoMedWrapperFactory` that is used to generate `Schema` instances from information in a data sources
getDefaultWrapperFactory() - Method in class uk.ac.ic.doc.automed.wrappers.PostgresWrapper
  Returns a new instance of the default wrapper factory for this wrapper
getDefaultWrapperFactory() - Method in class uk.ac.ic.doc.automed.wrappers.QueryCacheWrapper
  Return an instance of `QueryCacheWrapperFactory` associated to this wrapper
getDefaultWrapperFactory() - Method in class uk.ac.ic.doc.automed.wrappers.SQLWrapper
getDefaultWrapperFactory() - Method in class uk.ac.ic.doc.automed.wrappers.TransactSQLWrapper
  Returns a new instance of the default wrapper factory for this wrapper
getDefaultWrapperFactory() - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapper
getDefaultWrapperFactory() - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapper
  Returns a new instance of the default wrapper factory for this wrapper
getDefQueries() - Method in class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
getDegree() - Method in class uk.ac.ic.doc.automed.matching.SimilarSchemaElementPair
  Returns the bidirectional degree of this pair.
getDelta() - Method in class uk.ac.ic.doc.automed.reps.ModelChangeEvent
getDelta() - Method in class uk.ac.ic.doc.automed.reps.NetworkChangeEvent
getDelta() - Method in class uk.ac.ic.doc.automed.reps.SchemaChangeEvent
getDependentAutoLayoutPositionables() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSchemaObject
  Return all AutoLayoutSchemaObject which have a reference to this AutoLayout* in their scheme.
getDependentAutoLayoutPositionables(int) - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSchemaObject
  Return AutoLayoutSchemaObject of a particular Construct which have a reference to this AutoLayout* object in their scheme.
getDependentSchemaObjects(SchemaObject) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Return all `SchemaObject`s of a particular `Construct` in this `Schema` which have a reference to the given `SchemaObject` in their scheme.
getDependentSchemaObjects(SchemaObject, Construct) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Return those `SchemaObject`s of a particular `Construct` in this `Schema` which have a reference to the given `SchemaObject` in their scheme.
getDependentSchemaObjects() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Return all `SchemaObject`s which have a reference to this `SchemaObject` in their scheme.
getDependentSchemaObjects(Construct) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Return those `SchemaObject`s of a particular `Construct` which have a reference to this `SchemaObject` in their scheme.
getDependentSchemaObjects(int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the object identifiers (OBID) in ascending order of all the schema objects that depedent on the existanace of some other object.
getDepth(Document) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
getDescription() - Method in class uk.ac.ic.doc.automed.editor.DotExtensionFileFilter
getDescription() - Method in class uk.ac.ic.doc.automed.p2p.directory.ModelDescription
  Get the plain text description of the public Schema being described.
getDescription() - Method in class uk.ac.ic.doc.automed.p2p.directory.SchemaDescription
  Get the plain text description of the public Schema being described.
getDescription() - Method in exception uk.ac.ic.doc.automed.p2p.UnsuccessfulReplyException
getDescription() - Method in class uk.ac.ic.doc.automed.wrappers.XMLFileFilter
  Returns the human readable description of this filter.
getDescription() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.SchemaAccessibility
getDesiredPort() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractDaemon
getDestroyed() - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
getDestroyed() - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
getDetails() - Method in class uk.ac.ic.doc.automed.util.queue.Job
getDHT(DHTConfiguration) - Static method in class uk.ac.ic.doc.automed.p2p.overlay.EnhancedDHTFactory
  Returns an instance of DHT.
getDHT(DHTConfiguration, ID) - Static method in class uk.ac.ic.doc.automed.p2p.overlay.EnhancedDHTFactory
  Returns an instance of DHT.
getDHT(short, short, DHTConfiguration) - Static method in class uk.ac.ic.doc.automed.p2p.overlay.EnhancedDHTFactory
  Returns an instance of DHT.
getDHT(short, short, DHTConfiguration, ID) - Static method in class uk.ac.ic.doc.automed.p2p.overlay.EnhancedDHTFactory
  Returns an instance of DHT.
getDHT(DHTConfiguration, RoutingService) - Static method in class uk.ac.ic.doc.automed.p2p.overlay.EnhancedDHTFactory
  Returns an instance of DHT.
getDirectory() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Return directory service object
getDirectory() - Method in class uk.ac.ic.doc.rodex.p2p.DirectoryServicePeer
  Return directory service object
getDirectoryInstance() - Static method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
  Create a unique instance of directory service from application code
getDirectoryRepository() - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
  Returns the reference to the `P2PDirectoryRepository` instance that is responsible
  for handling storage for the directory service.
getDisjointIDs() - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
getDoc() - Method in class uk.ac.ic.doc.automed.reps.AutoMedToXSDOM
getDoc() - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapper
  Return the XSDOM document
getDoc() - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
  Return the global doc for this factory
getDomain() - Static method in class uk.ac.ic.doc.automed.p2p.AppToolKit
  Return the P2PDirectory config.
getDomain() - Method in class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
  Return the domain name of this peer
getDomain() - Method in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
  Return the peer's domain
getDomain() - Method in class uk.ac.ic.doc.automed.p2p.directory.PeerEvent
getDomain() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
  Peer's domain
getDoublePosition() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSpringObject
  Give accurate object position.
getDoubleValue(String) - Method in class uk.ac.ic.doc.automed.util.db.DBRecord
getDrawable() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutPositionable
getDrawable(Positionable) - Method in class uk.ac.ic.doc.automed.editor.EditorPanel
  Return a `Drawable` that has been used to represent a `Positionable` in this panel.
getDrawable(Positionable) - Method in class uk.ac.ic.doc.automed.editor.Gui
  Return a `Drawable` that has been used to represent a `Positionable`.
getDriver() - Static method in class uk.ac.ic.doc.automed.wrappers.CSVWrapper
  The name of the driver string that identifies this wrapper
getDriver() - Static method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapper
  The name of the driver string that identifies this wrapper
getDriver() - Static method in class uk.ac.ic.doc.automed.wrappers.YattaWrapper
  The name of the driver string that identifies this wrapper
getDrivers() - Static method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Returns all the drivers currently loaded into the system
getDsQuality() - Method in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
getDTD() - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
getDtPattern() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
getDuplicates(PersistentKey) - Method in interface uk.ac.ic.doc.automed.util.persist.DuplicatePersistentHandler
  Use the database cursor to obtain all values corresponding to a key
getDuplicates(PersistentKey) - Method in class uk.ac.ic.doc.automed.util.persist.PersistentDB
  Use the database cursor to obtain all values corresponding to a key
getE() - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.FoldFunction
getEdgeInstances(String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Return all the instances of the passed edge type as a `LinkedList` of `Span` elements, each `Span` representing an instance of an edge.
getEditorPanel() - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
getElement(String) - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraph
getElement() - Method in class uk.ac.ic.doc.automed.matching.modules.ElementVectorRepresentation
getElement(String, boolean) - Static method in class uk.ac.ic.doc.automed.matching.SchemaElement
  Returns a `SchemaElement` object.
getElement(SchemaObject, boolean) - Static method in class uk.ac.ic.doc.automed.matching.SchemaElement
  Returns a `SchemaElement` object.
getElement(int) - Method in class uk.ac.ic.doc.automed.matching.SchemaElementPair
  Returns the `SchemaElement` object at the specified index in the pair.
getElementByCID(Document, String) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.UIDUtility
  Returns the node in the input doc that has an AutoMedID with the value of elementCID
getElementByUID(Document, String) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.UIDUtility
  Returns the node in the input doc that has an AutoMedID with the value of elementUID
getElementChildCount(Node) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
  Counts the element children of the given node.
getElementChildren(Element) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
getElementChildren(Element, String) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
getElementChildren() - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphElement
getElementExtent(String) - Method in class uk.ac.bbk.dcs.automed.xml.materialisation.Materialiser
getElementExtent(String) - Method in class uk.ac.bbk.dcs.automed.xml.materialisation.XMLDSSMaterialiser
getElementLevel(Node, int) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
  Returns all the element nodes in a given level.
getElementName(String) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.UIDUtility
getElementNodeOrder(Element) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
  Returns the order of element node n in its parent's children NodeList - takes into account only elements.
getElementPathExpression(Element) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
getElements() - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraph
getElements(SchemaObject[], boolean) - Static method in class uk.ac.ic.doc.automed.matching.Integrator
  Returns a `SchemaElement` array, whose member wraps the corresponding member in the `SchemaObject` array.
getElements() - Method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.Cluster
getElements() - Method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.Clusterer
getElements() - Method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.SimilarCluster
getElements() - Method in class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
  Return all scheme elements (scheme name + fields) as one array
getEleStruct() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.Lineage
getEmptyDOM(String) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
getEncoding() - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
getEncrypt() - Method in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
getEncryption() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.AuthenticationTuple
getEncryption() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
getEndColumn() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
getEndColumn() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
getEndColumn() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
getEndColumn() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
getEndColumn() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
getEndFragmentMessage() - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
getEndLine() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
getEndLine() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
getEndLine() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
getEndLine() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
getEndLine() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
getEntries() - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
getEntries() - Method in class uk.ac.ic.doc.rodex.qproc.RangeBasedQueryRewriterResult
getEntry(ASG) - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
getEntry(ASG) - Method in class uk.ac.ic.doc.rodex.qproc.RangeBasedQueryRewriterResult
getEntryPoint() - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraph
getEnv() - Method in class uk.ac.ic.doc.automed.util.persist.PersistentDBController
  Return the database environment Needed for things like beginning transactions
getEquivHDMType(int) - Static method in class uk.ac.ic.doc.automed.MDR
getEquivHighLevelType(int, int) - Static method in class uk.ac.ic.doc.automed.MDR
getEvaluationState() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
getEvaluator() - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
  Return evaluator name
getEvolutionType() - Method in class uk.ac.bbk.dcs.automed.evolution.dataEvolution.DataEvolution
getEvolutionType() - Method in interface uk.ac.bbk.dcs.automed.evolution.Evolution
getEvolutionType() - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolution
getEvolutionType() - Method in class uk.ac.bbk.dcs.automed.evolution2.dataEvolution.DataEvolution
getEvolutionType() - Method in interface uk.ac.bbk.dcs.automed.evolution2.Evolution
getEvolutionType() - Method in class uk.ac.bbk.dcs.automed.evolution2.modelEvolution.ModelEvolution
getEvolutionType() - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
getExactQuery(String) - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
  Check in the cache for an exact query match.
getExactQuery(String) - Method in interface uk.ac.ic.doc.automed.qproc.cache.IQueryCache
  Check in the cache for an exact query match.
getExactSubQuery(String, String) - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
  Check if result of the sub-query of a query already exists in the cache.
getExactSubQuery(String) - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
  Check sub-query existence in the whole cache.
getExactSubQuery(String, String) - Method in interface uk.ac.ic.doc.automed.qproc.cache.IQueryCache
  Check if result of the sub-query of a query already exists in the cache.
getExactSubQuery(String) - Method in interface uk.ac.ic.doc.automed.qproc.cache.IQueryCache
  Check sub-query existence in the whole cache.
getExecutionalQuery(boolean) - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
  Rewrite optimised query the same way as in `QueryRewriteProcessor.getInternalQuery(boolean rebuildIfExist)`
  to construct the executional query.
getExpression() - Method in class uk.ac.ic.doc.rodex.qproc.QueryFunction
getExtendedConstruct() - Method in class uk.ac.bbk.dcs.automed.evolution2.ExtendedConstruct
getExtension(File) - Method in class uk.ac.ic.doc.automed.wrappers.XMLFileFilter
  Return the extension portion of the file's name .
getExtentOf(String) - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.DataLineageTracing
getExternalQuery() - Method in class uk.ac.ic.doc.rodex.qproc.QueryMediator
  Getter methods for various query (`ASG`) objects
getExternalQuery() - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
  Get external query
getFeatureNames() - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapperFactory
  Return a string list of features supported by this wrapper: at present none!
getFeatureNames() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapperFactory
  Return a string list of features supported by this wrapper, where the first one is bit zero in the feature bit map, second bit one, etc
getFeatureNames() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
  Return the list of feature names provided by the wrapper factory.
getFeatureNames() - Method in class uk.ac.ic.doc.automed.wrappers.CSVWrapperFactory
  Return a string list of features supported by this wrapper, where the first one is bit zero in the feature bit map, second bit one, etc
getFeatureNames() - Method in class uk.ac.ic.doc.automed.wrappers.HDMWrapperFactory
  Return a string list of features supported by this wrapper: at present none!
getFeatureNames() - Method in class uk.ac.ic.doc.automed.wrappers.P2PWrapperFactory
getFeatureNames() - Method in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
  Return a string list of features supported by this wrapper, where the first one is bit zero in the feature bit map, second bit one, etc
getFeatureNames() - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
  Return a string list of features supported by this wrapper, where the first one is bit zero in the feature bit map, second bit one, etc
getFeatureNames() - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapperFactory
  Return the list of feature names provided by the YATTA wrapper factory.
getFeatures() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
  Return the bitwise or of all the features in use for a wrapper.
getField(String) - Method in class uk.ac.ic.doc.automed.p2p.gui.InputDialog
getField(int) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
  Return a field from the query node, where fields are counted from zero.
getField(int) - Method in class uk.ac.ic.doc.automed.wrappers.SchemeQuery
  Return a field from the query node.
getField() - Method in class uk.ac.ic.doc.automed.xmlschema.output.XPathSelector
  Return XPath field
getFields() - Method in class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
getFieldValue(String) - Method in class uk.ac.ic.doc.automed.p2p.tree.AutoMedObject
getFile(String, String) - Static method in class uk.ac.ic.doc.automed.Util
getFinalConstructs() - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.CompositeViewMap
getFirstElement() - Method in class uk.ac.ic.doc.automed.matching.SchemaElementPair
  Returns the first `SchemaElement` object of the pair.
getFloat() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
getFoldFunction(String) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.FoldFunctionTable
getFontMetrics() - Method in class uk.ac.ic.doc.automed.editor.EditorPanel
  Utility method for all editor drawing tools to use when they need to obtain the `FontMetrics` of an `EditorPanel`
getFontMetrics(JComponent) - Static method in class uk.ac.ic.doc.automed.editor.Gui
  Utility method for all editor drawing tools to use when they need to obtain the `FontMetrics` of a `JComponent`
getForegroundColor() - Method in interface uk.ac.ic.doc.automed.editor.Positionable
getForegroundColor() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Return the default foreground colour to be used from drawing `SchemaObject`s of this `Construct`.
getForegroundColor() - Method in class uk.ac.ic.doc.automed.reps.Model
  Return the default foreground colour to be used from drawing `SchemaObject`s of this `Model`.
getForegroundColor() - Method in class uk.ac.ic.doc.automed.reps.Network
getForegroundColor() - Method in class uk.ac.ic.doc.automed.reps.Schema
getForegroundColor() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
getForest() - Method in class uk.ac.bbk.dcs.automed.graph.Forest
getFormuatedQuery() - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
  Return the original formulated query
getFormulatedQuery() - Method in class uk.ac.ic.doc.rodex.qproc.QueryMediator
getForwardDegree() - Method in class uk.ac.ic.doc.automed.matching.BidirectionalDegree
  Returns the forward similarity degree.
getForwardMessage(String) - Method in class uk.ac.ic.doc.automed.p2p.messages.applicationlayer.BrokerAllQuery
getFrame() - Method in class uk.ac.ic.doc.automed.editor.Gui
getFreshness() - Method in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
getFromOBID() - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns the schema object identifier (OBID) of the input of the transformaiton (fromObject).
getFromObject() - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns the `SchemaObject` input of the transformation.
getFromObject() - Method in class uk.ac.ic.doc.automed.tml.TML
getFromObjectsUnmatched() - Method in exception uk.ac.ic.doc.automed.reps.SchemasNotIdenticalException
getFromSchema() - Method in class uk.ac.ic.doc.automed.p2p.PathwayDescription
getFromSchema() - Method in exception uk.ac.ic.doc.automed.reps.SchemasNotIdenticalException
getFromSchema() - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns the originating `Schema` of the transformation.
getFromSchema() - Method in class uk.ac.ic.doc.automed.tml.TML
getFromSID() - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns the schema identifier (SID) of the originating schema.
getFullExceptionMessage(Throwable) - Static method in class uk.ac.ic.doc.automed.xml.XMLSyntax
getFullExceptionMessage(Throwable, String, boolean) - Static method in class uk.ac.ic.doc.automed.xml.XMLSyntax
getFullTagNames() - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
getFunction(String) - Method in class uk.ac.bbk.dcs.automed.qproc.FunctionTable
getFunction(String) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Environment
getFunction() - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns the function of the transformation.
getFunction() - Method in class uk.ac.ic.doc.automed.tml.TML
getFunctionClassMap() - Method in class uk.ac.bbk.dcs.automed.qproc.FunctionTable
getFunctions() - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter.MiniConDescription
  Return the `List` of `QueryFunction` objects found.
  Returns `null` if no functions found
getFunctions() - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
  Return the `List` of `QueryFunction` objects found.
  Returns `null` if no functions found
getFunctions(QueryVariable) - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
  Get a `List` of query functions which are linked to a specified query variable
getFunctions(QuerySubGoal) - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
  Get a `List` of query functions which are linked to a specified query sub-goal
getFunctionTable() - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
getFunctionTableString() - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
getFutureBounds() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSchemaObject
getFutureBounds() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSpringObject
getFutureSchemaBounds() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSchemaObject
getGeneralConstruct(SchemaObject) - Static method in class uk.ac.ic.doc.automed.reps.Utility
  Returns a SchemaObject corresponding to the "general" entity of a generalization.
getGenerators() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehension
getGenericDataType(String) - Static method in class uk.ac.ic.doc.automed.matching.SchemaElement
getGenericRoot(boolean) - Method in class uk.ac.bbk.dcs.automed.xml.materialisation.Materialiser
getGenericRoot(boolean) - Method in class uk.ac.bbk.dcs.automed.xml.materialisation.XMLDSSMaterialiser
getGlobalId() - Method in class uk.ac.ic.doc.automed.reps.PersistentKey
getGlobalName() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Returns the global schema name
getGraph() - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraph
getGroupNo(int, int) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Returns the group no of ssdpattern and schemaobject in the SSMDR.
getGroupNoByOBID(int) - Method in class uk.ac.ic.doc.automed.ssd.SSDFormat
getHandler() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractServer
getHandlerObject() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractClient
  Return reference to `RequestListener` (handler) object
getHandlerType() - Method in class uk.ac.ic.doc.automed.util.LogOutputHandler
  return the log handler type
getHandlerType() - Method in class uk.ac.ic.doc.automed.util.queue.Job
getHandlerType(JobHandler) - Static method in class uk.ac.ic.doc.automed.util.queue.QueueWorker
  Utility method to standardise `JobHandler` the type of a job handler
getHashMapFromAConstraint(Cell) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
getHashMapFromTwoTuples(Cell, Cell) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
getHDMEquiv() - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy.TypeObject
  Get the type id of the HDM equivalent of this type
getHDMType() - Method in class uk.ac.ic.doc.automed.reps.ConstructScheme
  Returns the HDM type of the `ConstructScheme`.
getHDMType() - Method in class uk.ac.ic.doc.automed.reps.Scheme
getHDMTypeString(int) - Static method in class uk.ac.ic.doc.automed.reps.ConstructScheme
getHDMTypeString(int, boolean) - Static method in class uk.ac.ic.doc.automed.reps.ConstructScheme
getHead() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehension
getHeaders() - Method in class uk.ac.ic.doc.automed.util.cache.CacheContentDescription
  Return headers
getHeadPattern() - Method in class uk.ac.bbk.dcs.automed.wrappers.IQLTranslator
getHeadVariables() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehensionMiniCon
getHeadVarIndex(String) - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
  Return the index of a head variable in the query head var set
getHeadVars() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehension
getHeadVars() - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter.MiniConDescription
  Return a `List` of head variables of the view query associated
  to this `MCD`
getHeadVars() - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
  Getter methods
getHeadVarsForTable(String) - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
  Return a `Map` of head vars that are associated to a table.
getHelloProtocolChannel() - Method in class uk.ac.ic.doc.automed.p2p.AppToolKit
getHelloProtocolChannel() - Method in class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
getHelloTime() - Method in class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
  Peer's hello time
getHost() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer.PeerProcessDescription
  return the host IP
getHours() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
getIcon() - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
getIcon() - Method in interface uk.ac.ic.doc.automed.xmlschema.tree.IconAndTipCarrier
getID() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
getId() - Method in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
getID() - Method in class uk.ac.ic.doc.automed.util.cache.CacheItem
  Get cache item's id
getID() - Method in class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
  Return the object if corresponding to this scheme
getIDColumn() - Method in class uk.ac.ic.doc.automed.util.cache.CacheContentDescription
getIdents() - Method in class uk.ac.ic.doc.automed.p2p.tree.AbstractNetwork
getIDString() - Static method in class uk.ac.ic.doc.automed.STR
  Return a string that is globally unique for a STR repository
getIDString() - Method in class uk.ac.ic.doc.rodex.p2p.Peer
  Overlay ID string
GetImage() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
GetImage() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
GetImage() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
GetImage() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
GetImage() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
getIncomingEdges() - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraphNode
getIndentSize() - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
getIndex() - Method in class uk.ac.ic.doc.automed.util.cache.CacheItem
getIndex() - Method in class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
  Return the temporary index position of this sub-goal in a list
getInfoQuality() - Method in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
getInputDoc() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.DOMWrapper
getInsertableSQLValue(Object, int) - Static method in class uk.ac.ic.doc.automed.Util
getInstance(String) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehension
getInstance(Cell) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehension
getInstance(File) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehension
getInstance(String) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehensionMiniCon
getInstance(Cell) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehensionMiniCon
getInstance(File) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehensionMiniCon
getInstance(Schema, Schema, QueryProcessorConfiguration, int) - Static method in class uk.ac.bbk.dcs.automed.qproc.reformulate.AtomicViewMap
getInstance(Schema, Schema, QueryProcessorConfiguration) - Static method in class uk.ac.bbk.dcs.automed.qproc.reformulate.CompositeViewMap
getInstance(int) - Static method in class uk.ac.ic.doc.automed.p2p.overlay.OverlayController
getInstance(int, int) - Static method in class uk.ac.ic.doc.automed.p2p.overlay.OverlayController
getInstance() - Static method in class uk.ac.ic.doc.automed.qproc.cache.CacheManager
getInstance(long) - Static method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
  A singleton method to make sure that there is only one instance of query cache per peer
getInstance(String, boolean) - Static method in class uk.ac.ic.doc.automed.util.persist.PersistentDBController
  Set up the environment once
getInstance(String, PeerStateHandler) - Static method in class uk.ac.ic.doc.rodex.p2p.DirectoryServicePeer
  Returns a single instance of the dsp
getInstance(AutoMedPeer, int) - Static method in class uk.ac.ic.doc.rodex.p2p.protocol.HEP
getInstance(AutoMedPeer) - Static method in class uk.ac.ic.doc.rodex.p2p.protocol.SICP
  Return a single instance of SICP protocol
getInstance(AutoMedPeer) - Static method in class uk.ac.ic.doc.rodex.p2p.protocol.SRCP
  Create a single instance of this class
getInstances() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
getInstancesSorted() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
  Returns the sorted array of the instances of this `SchemaElement` object.
getInstUID(String, long, long) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.UIDUtility
getInt() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
getInt(int) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedTuple
  Return a particular attribute from a tuple (counting from one) as a 32 bit integer
getIntegerConstructProperty(int, int, String) - Static method in class uk.ac.ic.doc.automed.MDR
getIntegerValue(String) - Method in class uk.ac.ic.doc.automed.util.db.DBRecord
getIntegratedSchema() - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
getInternalQuery(boolean) - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
  Create the internal representation of the original query in which each query scheme
  is replaced by a unique object-id assigned to it in the repository.
getInternalQuery(boolean) - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
  Rewrite formulated query string so that each scheme (sub-goal) is replaced by
  a unique scheme-obj-id in the repository.
getIntProperty(String, String) - Static method in class uk.ac.ic.doc.automed.p2p.AppToolKit
getIntProperty(String, String) - Method in class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
getIOTime() - Method in class uk.ac.bbk.dcs.automed.xml.XMLRestructurer
getIPAddress(String) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  A static utility method to perform reverse name lookup
getIQL() - Method in interface uk.ac.bbk.dcs.automed.qproc.translators.Translator
getIQL() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
getIQLConsNameFromIQLVar(String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.IQL2XQuery
getIQLConsNameFromXPath(String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.IQL2XQuery
GetIQLSource - Class in uk.ac.bbk.dcs.automed.dataWarehousing.util
GetIQLSource() - Constructor for class uk.ac.bbk.dcs.automed.dataWarehousing.util.GetIQLSource
getIQLString() - Method in class uk.ac.ic.doc.rodex.qproc.QueryResultProducer
  Convert the result set into IQL's string for display
getIQLString(List) - Static method in class uk.ac.ic.doc.rodex.qproc.QueryResultProducer
  Return a String representation of a list of ASG tuples
getIsDataEvolution() - Method in class uk.ac.bbk.dcs.automed.evolution1.Evolution
getIsRepair() - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolution
getIsRepair() - Method in class uk.ac.bbk.dcs.automed.evolution1.Evolution
getIsRepair() - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
getIsSchemaEvolution() - Method in class uk.ac.bbk.dcs.automed.evolution1.Evolution
getJob() - Method in class uk.ac.ic.doc.automed.util.queue.Queue
  Check if there are any jobs.
getKeepAliveStatus() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedMessagingHelper
  Check keep-alive status
getKeepAliveTime() - Static method in class uk.ac.ic.doc.automed.p2p.AppToolKit
getKeepAliveTime() - Method in class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
  Peer's keep-alive time
getKey() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
getKey() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
getKey() - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.ViewKey
getKey() - Method in class uk.ac.ic.doc.automed.p2p.PathwayDescription
getKey() - Method in class uk.ac.ic.doc.automed.p2p.tree.AutoMedObject
getKey() - Method in class uk.ac.ic.doc.automed.p2p.tree.Reference
getKey() - Method in class uk.ac.ic.doc.automed.qproc.ASGQuery
getKey(Object) - Method in class uk.ac.ic.doc.automed.qproc.cache.CacheObjectBinding
getKey() - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
getKey() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Implements `PersistentObject` interface Added by mdle on 20/10/2005
getKey() - Method in class uk.ac.ic.doc.automed.reps.ConstructConstraint
  Implements the `PersistentObject` interface
getKey() - Method in class uk.ac.ic.doc.automed.reps.ConstructScheme
  Implements `PersistentObject` interface Added by mdle on 20/10/2005
getKey() - Method in class uk.ac.ic.doc.automed.reps.DataSource
getKey() - Method in class uk.ac.ic.doc.automed.reps.Model
  Implements the `PersistentObject` interface
getKey() - Method in class uk.ac.ic.doc.automed.reps.Pathway
getKey() - Method in class uk.ac.ic.doc.automed.reps.PathwayAbstraction
getKey() - Method in interface uk.ac.ic.doc.automed.reps.PersistentObject
getKey() - Method in class uk.ac.ic.doc.automed.reps.Schema
getKey() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
getKey() - Method in class uk.ac.ic.doc.automed.reps.Scheme
getKey() - Method in class uk.ac.ic.doc.automed.reps.Transformation
getKey() - Method in class uk.ac.ic.doc.automed.reps.TransformationAbstraction
getKey() - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Implements the `PersistentObject` interface
getKey() - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy.TypeObject
  Implements the `PersistentObject` interface
getKey(Object) - Method in class uk.ac.ic.doc.automed.util.persist.AbstractObjectBinding
  Return a `PersistentKey` object from the value object
getKey(XSDOMObject, XSDOMObject) - Method in class uk.ac.ic.doc.automed.xmlschema.JTreeTransform
getKey() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.AuthenticationTuple
getKey() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.SchemaAccessibility
getKey() - Method in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
getKey() - Method in class uk.ac.ic.doc.rodex.qproc.QueryDescription
getKey() - Method in class uk.ac.ic.doc.rodex.reps.AttributeDomain
getKeyId() - Method in class uk.ac.ic.doc.automed.reps.PersistentKey
getKeyObject() - Method in class uk.ac.ic.doc.automed.util.persist.PersistentKey
  Return the actual database entry object of the key
getKeyRef() - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
getKnownSchema(int) - Static method in class uk.ac.ic.doc.automed.reps.Schema
  Use to obtain a schema that is known to exist, and therefore no sense in trapping NotFoundException.
getKnownSchema(String) - Static method in class uk.ac.ic.doc.automed.reps.Schema
  Use to obtain a schema that is known to exist, and therefore no sense in trapping NotFoundException.
getKnownSchemaObject(int) - Static method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Similiar to `SchemaObject.getSchemaObject(int)` except that it throws a runtime exception `InconsistentException` if the obid is not found.
getKnownSchemaObject(int) - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Use instead of `Transformation.getSchemaObject(int)` where you are sure that the sid is valid for the transformation.
getKnownSchemaObject(Schema) - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Use instead of `Transformation.getSchemaObject(Schema)` where you are sure that the `Schema` is valid for the transformation.
getKnownTransformation(Schema, Schema) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
getLabel() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutPositionable
  Get the text used to label this SchemaObject.
getLabel() - Method in interface uk.ac.ic.doc.automed.editor.Positionable
getLabel() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Get the text used to label this Construct.
getLabel() - Method in class uk.ac.ic.doc.automed.reps.Model
  Get the text used to label this Model.
getLabel() - Method in class uk.ac.ic.doc.automed.reps.Network
  Get the text used to label this Network.
getLabel() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Get the text used to label this Schema.
getLabel() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Get the text used to label this SchemaObject.
getLabelPosition() - Method in interface uk.ac.ic.doc.automed.editor.Positionable
getLabelPosition() - Method in class uk.ac.ic.doc.automed.reps.Construct
getLabelPosition() - Method in class uk.ac.ic.doc.automed.reps.Model
getLabelPosition() - Method in class uk.ac.ic.doc.automed.reps.Network
getLabelPosition() - Method in class uk.ac.ic.doc.automed.reps.Schema
getLabelPosition() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
getLabelXPos() - Method in interface uk.ac.ic.doc.automed.editor.Positionable
getLabelXPos() - Method in class uk.ac.ic.doc.automed.reps.Construct
getLabelXPos() - Method in class uk.ac.ic.doc.automed.reps.Model
getLabelXPos() - Method in class uk.ac.ic.doc.automed.reps.Network
getLabelXPos() - Method in class uk.ac.ic.doc.automed.reps.Schema
getLabelXPos() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
getLabelYPos() - Method in interface uk.ac.ic.doc.automed.editor.Positionable
getLabelYPos() - Method in class uk.ac.ic.doc.automed.reps.Construct
getLabelYPos() - Method in class uk.ac.ic.doc.automed.reps.Model
getLabelYPos() - Method in class uk.ac.ic.doc.automed.reps.Network
getLabelYPos() - Method in class uk.ac.ic.doc.automed.reps.Schema
getLabelYPos() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
getLastExtSchema() - Method in class uk.ac.ic.doc.automed.reps.Pathway
  Returns the last extentional `Schema` in the pathway.
getLastKeyString() - Method in class uk.ac.ic.doc.rodex.p2p.Peer
getLastRouteString() - Method in class uk.ac.ic.doc.rodex.p2p.Peer
getLastUpdate() - Method in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
getLeafs() - Method in class uk.ac.ic.doc.automed.reps.Network
getLeastRestrictiveMapping(QuerySubGoal, List) - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter
  Check for sub-goal mapping between a query's sub-goal and a view.
getLengthRange() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
getLevel(Node, int) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
  Returns all the nodes in a given level.
getLine() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
  Deprecated.
getLine() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
  Deprecated.
getLine() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
  Deprecated.
getLine() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
  Deprecated.
getLine() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
  Deprecated.
getLinegeData() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.Lineage
getLinkAddress() - Method in class uk.ac.ic.doc.rodex.p2p.protocol.SICP
  Return the IP address of the network interface which connects a peer to the network
getLocalId() - Method in class uk.ac.ic.doc.automed.reps.PersistentKey
getLocation() - Method in class uk.ac.ic.doc.automed.xml.XMLToken
getLocationPad() - Method in class uk.ac.ic.doc.automed.xml.XMLToken
getLogger() - Static method in class uk.ac.bbk.dcs.automed.qproc.QProcLogger
getLogger(String) - Static method in class uk.ac.ic.doc.automed.util.LogController
  Customise the logger
getLoggingMessage(String, String, String) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
getLogicalOptimisedQuery() - Method in class uk.ac.ic.doc.rodex.qproc.QueryMediator
getLogServerAddress() - Static method in class uk.ac.ic.doc.automed.p2p.AppToolKit
getLogServerAddress() - Method in class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
getLogServerPort() - Static method in class uk.ac.ic.doc.automed.p2p.AppToolKit
getLogServerPort() - Method in class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
getLower() - Method in class uk.ac.ic.doc.automed.reps.ConstructScheme
  Returns the lower bound indicating the minimum occurence of the `ConstructScheme`.
getMainClasses() - Method in class uk.ac.ic.doc.automed.p2p.tree.Root
getMassPotential() - Method in class uk.ac.ic.doc.automed.matching.UncertainSchemaElementPair
  Returns the mass potential of this pair.
getMaterialisedFile() - Method in class uk.ac.bbk.dcs.automed.xml.materialisation.Materialiser
getMaterialisedFile() - Method in class uk.ac.bbk.dcs.automed.xml.materialisation.XMLDSSMaterialiser
getMaterializedSource() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.TransfStep
getMax() - Method in class uk.ac.ic.doc.automed.matching.Range
getMaximum(double[]) - Static method in class uk.ac.ic.doc.automed.matching.Util
getMaxOccurs() - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
getMDR_DataSourceName() - Static method in class uk.ac.ic.doc.automed.MDR
  Deprecated. use `MDR.getDataSourceName()` instead
getMediatorInstance() - Static method in class uk.ac.ic.doc.rodex.qproc.QueryMediator
  Create a singleton mediator object
getMedium(double[]) - Static method in class uk.ac.ic.doc.automed.matching.Util
getMessage() - Method in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.ParseException
  This method has the standard behavior when this object has been created using the standard constructors.
getMessage() - Method in error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.TokenMgrError
  You can also modify the body of this method to customize your error messages.
getMessage() - Method in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.ParseException
  This method has the standard behavior when this object has been created using the standard constructors.
getMessage() - Method in error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.TokenMgrError
  You can also modify the body of this method to customize your error messages.
getMessage() - Method in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.ParseException
  This method has the standard behavior when this object has been created using the standard constructors.
getMessage() - Method in error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.TokenMgrError
  You can also modify the body of this method to customize your error messages.
getMessage() - Method in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.ParseException
  This method has the standard behavior when this object has been created using the standard constructors.
getMessage() - Method in error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.TokenMgrError
  You can also modify the body of this method to customize your error messages.
getMessage() - Method in exception uk.ac.bbk.dcs.automed.qproc.translators.xquery.ParseException
  This method has the standard behavior when this object has been created using the standard constructors.
getMessage() - Method in error uk.ac.bbk.dcs.automed.qproc.translators.xquery.TokenMgrError
  You can also modify the body of this method to customize your error messages.
getMessage(String, String, String, String, Map) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
getMessageBytes(String, String, Map, String, String) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  An utility method to get byte-representation of an XML message
  This method is used in UDP communication
getMessageBytes(AbstractMessage) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  An overloading method of `getMessageBytes(String performative, String context, Map content)`
  to return an array of bytes for an `AbstractMessage` object
getMessageFromBytes(byte[]) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  An utility method to construct an `AbstractMessage` from an array of
  `byte`s This method is used in UDP communication
getMessageFromInput(InputStream) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
getMessageHandler() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
getMessagingHelper() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Return reference to the `AutoMedMessagingHelper` object
getMetaData() - Method in class uk.ac.ic.doc.automed.p2p.directory.ModelDescription
getMetaData() - Method in interface uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryObject
getMetaData() - Method in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
getMetaData() - Method in class uk.ac.ic.doc.automed.p2p.directory.SchemaDescription
getMID() - Method in class uk.ac.ic.doc.automed.reps.Model
  Returns the repository identifer of the model.
getMID() - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy.TypeObject
  Get the id of the model the type comes from
getMilliseconds(Date) - Static method in class uk.ac.ic.doc.automed.util.DateUtil
  Convert a `Date` object into the number of milliseconds from start of the clock
getMin() - Method in class uk.ac.ic.doc.automed.matching.Range
getMinimum(double[]) - Static method in class uk.ac.ic.doc.automed.matching.Util
getMinimumCoverage(List, QueryAnalyser) - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter
  Check that a query contains certain variables in its head and if not it
  must contains all related sub-goals
getMinimumCoverage(List, QueryAnalyser, Map) - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriterAdaptive
  Check that a query contains certain variables in its head and if not it
  must contains all related sub-goals
getMinOccurs() - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
getMinutes() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
getModel() - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapperFactory
getModel() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapperFactory
getModel(String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  Get a model structure from the database
getModel() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Return the `Model` to which this Construct belongs
getModel(String) - Static method in class uk.ac.ic.doc.automed.reps.Model
  Returns a reference to the `Model` with the given modelName.
getModel(int) - Static method in class uk.ac.ic.doc.automed.reps.Model
  Returns a reference to the `Model` with the given MID.
getModel() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
  Return the source oriented `Model` used to represent the `Schema` of the datasource.
getModel() - Method in class uk.ac.ic.doc.automed.wrappers.CSVWrapperFactory
  Return the XML Schema model from the Automed MDR database
getModel() - Method in class uk.ac.ic.doc.automed.wrappers.HDMWrapperFactory
  Return the HDM model from the Automed MDR database
getModel() - Method in class uk.ac.ic.doc.automed.wrappers.P2PWrapperFactory
  Broken!! Until the P2P protocol package supports transfer of models this (incorrectly) returns null.
getModel() - Method in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
  Return the `raw' relational `Model` used to represent the `Schema` for the SQL datasource wrapper.
getModel() - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
  Return the XML Schema model from the Automed MDR database
getModel() - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapperFactory
  Return the source oriented `Model`, YATTA Model, used to represent the semistructured datasource.
getModelBaseName() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
  Return text used as basis for generating `Model` names
getModelByName(String) - Static method in class uk.ac.ic.doc.automed.MDR
getModelDescription() - Method in class uk.ac.ic.doc.automed.reps.Model
  Returns a description of the model, each construct along with their schemes is listed in a way suitable for printing.
getModelDescription(boolean) - Method in class uk.ac.ic.doc.automed.reps.Model
  Returns a description of the model, each construct along with its schemes are listed in a way suitable for printing.
getModelForSchema(String) - Static method in class uk.ac.ic.doc.automed.MDR
  Retrieve a model for a schema
getModelMap() - Method in class uk.ac.ic.doc.automed.p2p.tree.ObjectBuilder
  Getter for model map object
getModelName() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
getModelName(int) - Static method in class uk.ac.ic.doc.automed.MDR
getModelName() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
  Find the name of the `Model` that will be used when a new wrapper is generated
getModelNames() - Static method in class uk.ac.ic.doc.automed.MDR
  Gets a list of all modelling language names in the MDR
getModelNames(String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  Get all models that are associated to a particular schema
getModels() - Static method in class uk.ac.ic.doc.automed.MDR
  Gets a list of all modelling language identifiers in the MDR
getModels(String) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
  Ask P2P directory for one or more model objects
getModels(String) - Method in class uk.ac.ic.doc.automed.p2p.SchemaGetter
  For each model name that does not exist in the local database, get it from the directory
getModels() - Static method in class uk.ac.ic.doc.automed.reps.Model
  Returns an array of all models.
getModels() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Get all associated models to a schema object.
getModelsAsString() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Works similar to `Schema.getModels()` method except that this method returns a delimited string of `Model`s' names
getModelsHelp - Static variable in class uk.ac.ic.doc.automed.editor.Editor
getModelsSyntax - Static variable in class uk.ac.ic.doc.automed.editor.Editor
getModelString() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.SchemaAccessibility
getModelTree() - Method in class uk.ac.ic.doc.automed.p2p.PathwayDescription
  Return the models tree dmle 14/11/2005
GetMonth - Class in uk.ac.bbk.dcs.automed.qproc.functions.date
  Provides a mapping between number and word representation for the months.
GetMonth() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.date.GetMonth
getMonth() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
getMulticastHost(String, RequestListener, int, Properties) - Static method in class uk.ac.ic.doc.automed.p2p.communication.ServerFactory
  Create a new instance of a `MulticastServer`
getMyKeys() - Method in class uk.ac.ic.doc.rodex.p2p.Peer
getMySchemas() - Method in class uk.ac.ic.doc.automed.p2p.PeerCache
getMyValues(ID) - Method in class uk.ac.ic.doc.rodex.p2p.Peer
getMyValues(String) - Method in class uk.ac.ic.doc.rodex.p2p.Peer
getName() - Method in class uk.ac.bbk.dcs.automed.evolution2.ExtendedConstruct
getName() - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraphNode
getName() - Method in class uk.ac.bbk.dcs.automed.graph.TreeNode
getName() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.AbstractQueryAnnotationProvider
getName() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.FragmentProcessor
getName() - Method in interface uk.ac.bbk.dcs.automed.qproc.annotate.QueryAnnotationProvider
  Return a unique name of a provider.
getName() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.StandardQueryAnnotationProvider
getName() - Method in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
getName() - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.FoldFunction
getName() - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.StandardOptimisationProvider
getName() - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.AtomicViewMap
getName() - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.CompositeViewMap
getName() - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphAttribute
getName() - Method in class uk.ac.ic.doc.automed.matching.relationships.Compatibility
getName() - Method in class uk.ac.ic.doc.automed.matching.relationships.Disjointness
getName() - Method in class uk.ac.ic.doc.automed.matching.relationships.Equivalence
getName() - Method in class uk.ac.ic.doc.automed.matching.relationships.Incompatibility
getName() - Method in class uk.ac.ic.doc.automed.matching.relationships.Overlapness
getName() - Method in class uk.ac.ic.doc.automed.matching.relationships.SemanticRelationship
  Returns the name of the `SemanticRelationship` object
getName() - Method in class uk.ac.ic.doc.automed.matching.relationships.Subset
getName() - Method in class uk.ac.ic.doc.automed.matching.relationships.Superset
getName() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
  Returns the name of the schema element.
getName() - Method in class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
  Getters
getName() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
getName() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer.PeerProcessDescription
getName() - Method in class uk.ac.ic.doc.automed.p2p.directory.ModelDescription
  Get the name of the public Schmea being described.
getName() - Method in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
  Get the logical name of the Peer being described.
getName() - Method in class uk.ac.ic.doc.automed.p2p.directory.SchemaDescription
  Get the name of the public Schmea being described.
getName() - Method in interface uk.ac.ic.doc.automed.qproc.cache.CachePolicy
  Return a default name of a cache policy
getName() - Method in class uk.ac.ic.doc.automed.qproc.cache.CachePolicy2
getName() - Method in class uk.ac.ic.doc.automed.qproc.cache.CachePolicy3
getName() - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultCachePolicy
getName() - Method in interface uk.ac.ic.doc.automed.qproc.eval.QueryEvaluationProvider
  Return a unique name of a provider.
getName() - Method in interface uk.ac.ic.doc.automed.qproc.opti.QueryOptimisationProvider
  Return a unique name of a provider.
getName() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Returns the name of the construct.
getName() - Method in class uk.ac.ic.doc.automed.reps.DataSource
getName() - Method in class uk.ac.ic.doc.automed.reps.Model
  Returns the name of the model.
getName() - Method in class uk.ac.ic.doc.automed.reps.Network
getName() - Method in class uk.ac.ic.doc.automed.reps.Protocol
  Returns the name of the protocol.
getName() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Find the name of the schema.
getName(int) - Static method in class uk.ac.ic.doc.automed.reps.Schema
  Returns the name of a schema from its SID without instantiating it
getName() - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy.TypeObject
  Get the name of the type
getName() - Method in class uk.ac.ic.doc.automed.ssd.Pattern
getName() - Method in class uk.ac.ic.doc.automed.ssd.SSDFormat
getName() - Method in class uk.ac.ic.doc.automed.util.hashing.OrderPreservedHashing
  Unique name of this hash
getName() - Method in interface uk.ac.ic.doc.automed.util.hashing.StringHash
getName() - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
  Get the name of this object
getName() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
  Peer's name
getName() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.SchemaAccessibility
getName() - Method in class uk.ac.ic.doc.rodex.qproc.QueryVariable
getNameIndexDB() - Method in class uk.ac.ic.doc.automed.util.persist.PersistentDBController
  Return reference to the secondary database (used for indexing)
getNegativePostconditions() - Method in class uk.ac.ic.doc.automed.tml.TML
getNegativePreconditions() - Method in class uk.ac.ic.doc.automed.tml.TML
getNestListExtent(String, String) - Method in class uk.ac.bbk.dcs.automed.xml.materialisation.Materialiser
getNestListExtent(int, String, String) - Method in class uk.ac.bbk.dcs.automed.xml.materialisation.XMLDSSMaterialiser
getNetwork(Schema, String) - Static method in class uk.ac.ic.doc.automed.reps.Network
  Returns the complete undirected network that contains schema s.
getNetwork() - Method in class uk.ac.ic.doc.automed.reps.Node
  Returns the network this node belongs to
getNetworkHelp - Static variable in class uk.ac.ic.doc.automed.editor.Editor
getNetworkNamesHelp - Static variable in class uk.ac.ic.doc.automed.editor.Editor
getNetworkNamesSyntax - Static variable in class uk.ac.ic.doc.automed.editor.Editor
getNetworks(int) - Static method in class uk.ac.ic.doc.automed.reps.Network
  Return a List that contains all Networks held in the repository.
getNetworks(boolean, int) - Static method in class uk.ac.ic.doc.automed.reps.Network
  Return a list that contains all Networks held in the repository.
getNetworksHelp - Static variable in class uk.ac.ic.doc.automed.editor.Editor
getNetworksSyntax - Static variable in class uk.ac.ic.doc.automed.editor.Editor
getNetworkSyntax - Static variable in class uk.ac.ic.doc.automed.editor.Editor
getnewId() - Static method in class uk.ac.ic.doc.automed.wrappers.ssdfunctions.generateGID
getNextID() - Static method in class uk.ac.ic.doc.automed.util.thread.AsynchThread
  Get the next id counter for a new thread
getNextID() - Static method in class uk.ac.ic.doc.automed.util.thread.TimedThread
  Get the next id counter for a new thread
getNextToken() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
getNextToken() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SchemesTokenManager
getNextToken() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
getNextToken() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompTokenManager
getNextToken() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
getNextToken() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendTokenManager
getNextToken() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
getNextToken() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusTokenManager
getNextToken() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
getNextToken() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLTokenManager
getNextToken(int, int) - Method in class uk.ac.ic.doc.automed.reps.Syntax.Tokenizer
getNextToken(int) - Method in class uk.ac.ic.doc.automed.reps.Syntax.Tokenizer
getNextToken() - Method in class uk.ac.ic.doc.automed.reps.Syntax.Tokenizer
getNode(int) - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraph
getNode(String) - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraph
getNode(String) - Method in class uk.ac.ic.doc.automed.reps.Network
  Returns the network node representing the named schema
getNode(Schema) - Method in class uk.ac.ic.doc.automed.reps.Network
  Returns the network node representing the supplied schema
getNode(Node) - Method in class uk.ac.ic.doc.automed.reps.Network
  Deprecated.
getNode(String) - Static method in class uk.ac.ic.doc.automed.reps.Node
  returns the node for a schema if one exists or null otherwise
getNode(Schema) - Static method in class uk.ac.ic.doc.automed.reps.Node
  returns the node for a schema if one exists or null otherwise
getNodeDepth(Node) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
  Returns the depth of node n.
getNodeInstances(String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Given a node type return all the instances in the HDM store as a `LinkedList` with elements of type `Span`, each element representing an instance
getNodeName() - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphElement
getNodeOrder(Node) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
getNodeOrder() - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphElement
getNodeOrder() - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphText
getNonAtomicPairRelationships() - Method in class uk.ac.ic.doc.automed.matching.RelationshipExtractor
  Returns the relationships of pairs of non-atomic schema elements.
getNonAtomicRelationship(SchemaElementPair) - Method in class uk.ac.ic.doc.automed.matching.RelationshipExtractor
  Returns the relationship of the pair of non-atomic schema elements
getNotNullObject(Map, String) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
getNotNullString(Map, String) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  Retrieve a mandatory field from a message content
getNthCard(int, Object[]) - Method in class uk.ac.ic.doc.automed.editor.drawables.DrawEERRelationshipArc
getNthCard(int, Object[]) - Method in class uk.ac.ic.doc.automed.editor.drawables.DrawERRelationshipArc
getNumberOfRepositoryInteractions() - Method in class uk.ac.bbk.dcs.automed.xml.XMLRestructurer
getNumberOfTransformations() - Method in class uk.ac.bbk.dcs.automed.xml.XMLRestructurer
getNumbers(String[]) - Static method in class uk.ac.ic.doc.automed.matching.Util
getNumCharRange() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
getNumHosts() - Method in class uk.ac.ic.doc.automed.p2p.overlay.OverlayController
getNumOfDistinctInstances() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
getNumOfFunctions(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.optimisers.ChooseOptimiser
  Get the number of functions in the ASG, if the ASG is a Void Cell, return -1
getNumPathWays() - Method in class uk.ac.ic.doc.automed.p2p.PathwayDescription
  return the number of pathways
getNumRange() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
getOBID() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Returns the schema object identifier (OBID) of a schema object.
getOBIDBySFIDSPID(int, int) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Returns the ID of schemaobject in the SSMDR for the particular ssdformat and ssdpattern.
getOBIDBySPID(int) - Method in class uk.ac.ic.doc.automed.ssd.SSDFormat
getObjectBetweenMeAnd(AutoLayoutSchemaObject) - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSchemaObject
  Return object which connect this and obj.
getObjectBinding() - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
getObjectBinding() - Method in interface uk.ac.ic.doc.automed.util.persist.Persistence
  Return an instance of object binding for serialisation
getObjectBinding() - Method in class uk.ac.ic.doc.automed.util.persist.PersistentDB
  Return reference to the object binder
getObjectClass() - Method in class uk.ac.ic.doc.automed.p2p.tree.AutoMedObject
getObjectClass() - Method in class uk.ac.ic.doc.automed.p2p.tree.Reference
getObjectClass() - Method in class uk.ac.ic.doc.automed.reps.PersistentKey
getObjectFromSerialisation(byte[]) - Static method in class uk.ac.ic.doc.automed.util.ObjectToolKit
getObjectID() - Method in exception uk.ac.ic.doc.automed.IntegrityException
  Return the object indentifier of the the object, that the manipulation of caused this exception.
getObjectSchemeNames(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns an `Object` array of an object's scheme.
getObjectSchemeNamesString(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the scheme representation (of type `String`}) of an object's scheme.
getObjectSerialisation(Serializable) - Static method in class uk.ac.ic.doc.automed.util.ObjectToolKit
  Return the byte array representation of a serializable ojbect
getObjectsFor(MainFrame) - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
getObjectType() - Method in class uk.ac.ic.doc.automed.p2p.gui.AllSchemasFrame
getObjectType() - Method in class uk.ac.ic.doc.automed.p2p.gui.MainFrame
getObjectType() - Method in class uk.ac.ic.doc.automed.p2p.gui.MySchemasFrame
getObjectType() - Method in class uk.ac.ic.doc.automed.p2p.gui.SchemaInfoFrame
getoldId() - Static method in class uk.ac.ic.doc.automed.wrappers.ssdfunctions.generateGID
getOpenSchemeBracket() - Static method in class uk.ac.ic.doc.automed.reps.Schema
  Find what string is used to deliminate the opening of a scheme name, such as the "<<" in "<<person>>" or "<<person,name>>".
getOpenSchemeBracket() - Static method in class uk.ac.ic.doc.automed.STR
  Return String used to open schemes
getOperation() - Method in exception uk.ac.ic.doc.automed.IntegrityException
  Return the operation attempted on the object that caused this exception.
getOperation() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.SchemaAccessibility
getOperator() - Method in class uk.ac.ic.doc.automed.wrappers.SchemeQuery
  Return the operator type that this query node represents.
getOperator() - Method in class uk.ac.ic.doc.rodex.qproc.QueryFunction
getOptimisationAnnotation() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
getOptimisationState() - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
  Return the optimisation state
getOptimiser() - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
  Return the logical optimiser name
getOption(String) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Return an option setting.
getOptionalString(Map, String) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  Retrieve an optional field from a message content
getOptionKeyProtection() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Return the list of boolean values that indicate if the value associated with a key should be altered by a user application.
getOptionKeys() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Return the list of options keys that this wrapper understands.
getOpts(String, String[]) - Static method in class uk.ac.ic.doc.automed.Util
getOriginalSchemas() - Method in class uk.ac.ic.doc.automed.reps.Transformation
getOtherSchema(Schema) - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns the schemas of the transformation.
getOutgoingEdges() - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraphNode
getOverallTime() - Method in class uk.ac.bbk.dcs.automed.xml.XMLRestructurer
getOverlayController() - Static method in class uk.ac.ic.doc.rodex.p2p.Peer
  Return the `OverlayController` for further tasks
getOwner() - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphAttribute
getOwnerGraph() - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphElement
getPairs() - Method in class uk.ac.ic.doc.automed.matching.Aggregator
  Returns an array of `SimilarSchemaElementPair` objects with their aggregated bidirectional degrees
getParent() - Method in class uk.ac.bbk.dcs.automed.graph.TreeNode
getParent() - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphElement
getParent() - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphText
getParent() - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
  Get the parent of this object
getParentName() - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy.TypeObject
  Get the name of the parent type
getParents() - Method in class uk.ac.ic.doc.automed.reps.Node
  If the network this node belongs to is directed then returns all the adjacent nodes that are parents of this node, otherwise its behaviour is defined by the type of network but the parents will be a subset of adjacent.
getParentTagNames() - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
getParentTid() - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy.TypeObject
  Get the type id of the parent of this type
getParentType(int) - Static method in class uk.ac.ic.doc.automed.MDR
getParentType(String) - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Retrieve the parent `TypeHierarchy.TypeObject` object of @param typeName from this hierarchy
getPassword() - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Returns the password of the user, if it exists
getPassword() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.AuthenticationTuple
getPassword() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
getPath() - Method in class uk.ac.ic.doc.automed.p2p.messages.applicationlayer.BrokerAllQuery
getPathToSource(String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.PathwayGetter
  Edited by dmle on 9/11/2005 to cater for multiple pathways
getPathway(PeerDescription) - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
getPathway(String, String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.PathwayGetter
getPathwayAbstractDescriptions(String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
  Return a `List` of `PathwayDescription` objects, each representing a pathway abstraction
getPathwayAbstractDescriptions(String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  Return a list of rows of pathways
getPathwayRequest(String, String, String, String) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
getPathways() - Method in class uk.ac.ic.doc.automed.p2p.tree.AbstractNetwork
getPathwayToSourceAbstractRequest(String, String, String) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
getPathwayToSourceRequest(String, String, String) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
getPattern(String) - Method in class uk.ac.ic.doc.automed.editor.PatternWritingTool
getPattern() - Method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.Cluster
getPattern() - Method in class uk.ac.ic.doc.automed.matching.modules.ElementVectorRepresentation
getPattern() - Method in class uk.ac.ic.doc.automed.ssd.SSDFormat
getPattern() - Method in class uk.ac.ic.doc.automed.ssd.SSDPattern
getPatternByName(String) - Static method in class uk.ac.ic.doc.automed.ssd.Pattern
getPatternByName(String) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Returns the pattern identifier (PID).
getPatternIDs() - Static method in class uk.ac.ic.doc.automed.SSMDR
  Returns the IDs of all the patterns found in the SSMDR.
getPatternName(int) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Returns the name of the pattern.
getPatternSize() - Method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.Clusterer
getPatternValue() - Method in class uk.ac.ic.doc.automed.ssd.SSDPattern
getPatternValue(int) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Returns the value (an actual pattern in regular expression) of the pattern.
getPeerAddress() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Added by dmle 27/10/2005 to get a peer's IP address
getPeerAddress() - Method in class uk.ac.ic.doc.automed.p2p.directory.PeerEvent
getPeerCache() - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
  Return the reference to `PeerCache` object which stores peer data
getPeerConfig() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Return the configuration of the peer
getPeerDaemonPort() - Static method in class uk.ac.ic.doc.automed.p2p.AppToolKit
getPeerDaemonPort() - Method in class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
getPeerDescription(String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
  Return reference a PeerDescription object about a registered peer (from the cache) Use this method is you are sure that a peer has successfully been registered
getPeerDescription() - Method in class uk.ac.ic.doc.automed.p2p.directory.SchemaEvent
getPeerDescriptions(SchemaDescription) - Method in class uk.ac.ic.doc.automed.p2p.PeerCache
  Return a `Map` of `PeerDescription`s for a given `SchemaDescription`.
getPeerHost() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Added by dmle 27/10/2005 to get a peer's host name
getPeerModel() - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerTable
getPeerName() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
getPeerName() - Method in class uk.ac.ic.doc.automed.p2p.directory.PeerEvent
getPeerPort(AutoMedPeer.PeerProcessDescription, boolean) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
getPeerPort(String) - Method in class uk.ac.ic.doc.automed.p2p.P2PRegistry
getPeers(String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  Get a list of peers of a given status.
getPeers() - Method in class uk.ac.ic.doc.automed.p2p.messages.applicationlayer.TellBrokerQuery
getPeersImplementing(String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
getPeersImplementing(String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
getPeersImplementing(String) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
getPeerState() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Return the current state of the peer as managed by `PeerStateHandler`
getPeerState() - Method in class uk.ac.ic.doc.automed.p2p.state.PeerStateHandler
  Return the current peer state
getPerformative() - Method in class uk.ac.ic.doc.automed.p2p.messages.abstractlayer.AbstractMessage
getPerformative() - Method in interface uk.ac.ic.doc.automed.p2p.messages.applicationlayer.ApplicationMessage
getPerformative() - Method in class uk.ac.ic.doc.automed.p2p.messages.applicationlayer.BrokerAllQuery
getPerformative() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloAckMsg
  Return the message's performative
getPerformative() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
  Return the message's performative
getPerformative() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.SchemaAdvertMsg
  Return the message's performative
getPerformative() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.SchemaRegMsg
  Return the message's performative
getPersistentAttributes() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
getPersistentAttributes() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
getPersistentAttributes() - Method in class uk.ac.ic.doc.automed.p2p.PathwayDescription
getPersistentAttributes() - Method in class uk.ac.ic.doc.automed.qproc.ASGQuery
getPersistentAttributes() - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
getPersistentAttributes() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Implements `PersistentObject` interface Added by mdle on 20/10/2005
getPersistentAttributes() - Method in class uk.ac.ic.doc.automed.reps.ConstructConstraint
  Implements the `PersistentObject` interface
getPersistentAttributes() - Method in class uk.ac.ic.doc.automed.reps.ConstructScheme
  Implements `PersistentObject` interface Added by mdle on 20/10/2005
getPersistentAttributes() - Method in class uk.ac.ic.doc.automed.reps.DataSource
getPersistentAttributes() - Method in class uk.ac.ic.doc.automed.reps.Model
  Implements the `PersistentObject` interface
getPersistentAttributes() - Method in class uk.ac.ic.doc.automed.reps.Pathway
getPersistentAttributes() - Method in class uk.ac.ic.doc.automed.reps.PathwayAbstraction
getPersistentAttributes() - Method in interface uk.ac.ic.doc.automed.reps.PersistentObject
getPersistentAttributes() - Method in class uk.ac.ic.doc.automed.reps.Schema
getPersistentAttributes() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
getPersistentAttributes() - Method in class uk.ac.ic.doc.automed.reps.Scheme
getPersistentAttributes() - Method in class uk.ac.ic.doc.automed.reps.Transformation
getPersistentAttributes() - Method in class uk.ac.ic.doc.automed.reps.TransformationAbstraction
  Only return an abstraction of the transformation
getPersistentAttributes() - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Implements the `PersistentObject` interface
getPersistentAttributes() - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy.TypeObject
  Implements the `PersistentObject` interface
getPersistentAttributes() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.AuthenticationTuple
getPersistentAttributes() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.SchemaAccessibility
getPersistentAttributes() - Method in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
getPersistentAttributes() - Method in class uk.ac.ic.doc.rodex.qproc.QueryDescription
getPersistentAttributes() - Method in class uk.ac.ic.doc.rodex.reps.AttributeDomain
getPersistentHandler() - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
getPhase1Time() - Method in class uk.ac.bbk.dcs.automed.xml.XMLRestructurer
getPhase2Time() - Method in class uk.ac.bbk.dcs.automed.xml.XMLRestructurer
getPhysicalOptimisedQuery() - Method in class uk.ac.ic.doc.rodex.qproc.QueryMediator
getPI() - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.Document
  Return the PI info
getPID() - Method in class uk.ac.ic.doc.automed.reps.Protocol
  Returns the protocol identifier (PID).
getPID() - Method in class uk.ac.ic.doc.automed.ssd.Pattern
getPIDByName(String) - Static method in class uk.ac.ic.doc.automed.ssd.Pattern
getPIDBySPID(int) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Returns the ssdpattern identifier (SPID).
getPK(SchemaObject, ArrayList) - Method in class uk.ac.ic.doc.automed.matching.SQLRelationshipExtractor
  Returns a schema object that is the primary key of the specified table.
getPKColumns(SchemaObject, ArrayList) - Method in class uk.ac.ic.doc.automed.matching.SQLRelationshipExtractor
  Returns an array of schema objects that are the columns constituting the primary key of the specified table.
getPort() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer.PeerProcessDescription
getPort() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractDaemon
getPort() - Method in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
getPort() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
  Peer's port
getPortRequest(String) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
getPosition() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutPositionable
getPosition() - Method in interface uk.ac.ic.doc.automed.editor.Positionable
  Return the `Point` that represents the position of this `Positionable` in a `Panel`.
getPosition() - Method in class uk.ac.ic.doc.automed.reps.Construct
getPosition() - Method in class uk.ac.ic.doc.automed.reps.Model
getPosition() - Method in class uk.ac.ic.doc.automed.reps.Network
getPosition() - Method in class uk.ac.ic.doc.automed.reps.Schema
getPosition() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
getPositionable() - Method in interface uk.ac.ic.doc.automed.editor.Drawable
getPositionable() - Method in class uk.ac.ic.doc.automed.editor.DrawArc
  Return the `Positionable` that this `Drawable` is providing a graphical representation of.
getPositionable() - Method in class uk.ac.ic.doc.automed.editor.DrawVertex
  Return the `Positionable` that this `Drawable` is providing a graphical representation of.
getPositionables() - Method in class uk.ac.ic.doc.automed.editor.DrawArc
  Return the `Positionable`s that this `Drawable` is providing a graphical representation of an arc betweem
getPositionedRelativeTo() - Method in interface uk.ac.ic.doc.automed.editor.Positionable
  Return the `Positionable` this is relative to.
getPositionedRelativeTo() - Method in class uk.ac.ic.doc.automed.reps.Construct
getPositionedRelativeTo() - Method in class uk.ac.ic.doc.automed.reps.Model
getPositionedRelativeTo() - Method in class uk.ac.ic.doc.automed.reps.Network
getPositionedRelativeTo() - Method in class uk.ac.ic.doc.automed.reps.Schema
getPositionedRelativeTo() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
getPositivePostconditions() - Method in class uk.ac.ic.doc.automed.tml.TML
getPositivePreconditions() - Method in class uk.ac.ic.doc.automed.tml.TML
getPredicates() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehension
getPreferCache() - Method in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
getPrettifyAttributes() - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
getPrimaryKey() - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.ComplexType
  Get the primary key for this complexType
getPrimaryKey() - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.Element
  Get the primary key for this Element
getPrimaryKeyOfTable(Schema, SchemaObject) - Static method in class uk.ac.ic.doc.automed.reps.Utility
  Returns the primary key of a table SchemaObject.
getProcessedQuery() - Method in class uk.ac.ic.doc.rodex.qproc.QueryMediator
getProfile() - Method in class uk.ac.ic.doc.automed.util.queue.Job
getProjected() - Method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.MapDisplay
getProperties() - Static method in class uk.ac.ic.doc.automed.p2p.AppToolKit
getProperties() - Method in class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
getProperty(String, String) - Static method in class uk.ac.ic.doc.automed.p2p.AppToolKit
getProperty(String, String) - Method in class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
  A generic getter to get properties
getProperty(String) - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Returns a property associated with this AccessMethod.
getProperty(String) - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns a property associated with this Transformation.
getProtocol() - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Returns the `Protocol` used for connecting to the database.
getProtocol(String) - Static method in class uk.ac.ic.doc.automed.reps.Protocol
  Returns the `Protocol` with the given protocolName.
getProtocol(int) - Static method in class uk.ac.ic.doc.automed.reps.Protocol
  Returns the `Protocol` with the given PID.
getProtocol() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Returns the `Protocol` associated with the Wrapper.
getProtocolByName(String) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the protocol identifier (PID) of the specified protocol name.
getProtocolName() - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapper
  The name of the `Protocol` in the repository used to represent the HDM store.
getProtocolName() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.DOMWrapper
getProtocolName() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.EXISTWrapper
getProtocolName() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.SAXWrapper
  The name of the `Protocol`in the repository used to represent JDBC connections.
getProtocolName(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the name of the given protocol identifier (PID).
getProtocolName() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  The name of the `Protocol` that this wrapper uses
getProtocolName() - Method in class uk.ac.ic.doc.automed.wrappers.CSVWrapper
getProtocolName() - Method in class uk.ac.ic.doc.automed.wrappers.HDMWrapper
  The name of the `Protocol` in the repository used to represent the HDM store.
getProtocolName() - Method in class uk.ac.ic.doc.automed.wrappers.P2PWrapper
  The name of the `Protocol` that this wrapper uses.
getProtocolName() - Method in class uk.ac.ic.doc.automed.wrappers.QueryCacheWrapper
  The name of the `Protocol` for this wrapper
getProtocolName() - Method in class uk.ac.ic.doc.automed.wrappers.SQLWrapper
  The name of the `Protocol` in the repository used to represent JDBC connections.
getProtocolName() - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapper
getProtocolName() - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapper
  The name of the `Protocol` in the repository used to represent flat files with a YATTA schema.
getProviderInstance(String, Schema[]) - Static method in class uk.ac.bbk.dcs.automed.qproc.annotate.QueryAnnotationFactory
getProviderInstance(String, QueryProcessorConfiguration) - Static method in class uk.ac.bbk.dcs.automed.qproc.evaluate.QueryEvaluationFactory
getProviderInstance(String, Schema, Schema[]) - Static method in class uk.ac.bbk.dcs.automed.qproc.optimise.QueryOptimisationFactory
getProviderInstance(String) - Static method in class uk.ac.bbk.dcs.automed.qproc.reformulate.QueryReformulationFactory
getProviderInstance(String) - Static method in class uk.ac.ic.doc.automed.qproc.eval.QueryEvaluationFactory
  Returns a query reformulation provider associated with a given name.
getProviderInstance(String) - Static method in class uk.ac.ic.doc.automed.qproc.opti.QueryOptimisationFactory
  Returns a query optimisation provider associated with a given name.
getPublicName() - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
getPublicSchema(String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
  Look up schema definition from the repository and
getPublicSchema(String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
getPublicSchema(String) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
  Edited by MDLE on 19/10/2005 to get extra model information for a schema
getPublicSchemas() - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
getPublicSchemas() - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  Edited by dmle 31/10/2005:
  Look for schema list in a joined table Return a list of all schemas including active, inactive and flush
getPublicSchemas() - Method in class uk.ac.ic.doc.automed.p2p.PeerCache
  Return a `Set` containing `SchemaDescription`s
getPwd() - Method in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
getPwQuality() - Method in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
getQEP() - Method in class uk.ac.ic.doc.rodex.p2p.Peer
  Return reference to `QEP` protocol instance
getQEPInstance(AutoMedPeer) - Static method in class uk.ac.ic.doc.rodex.p2p.protocol.QEP
  Return a single QEP instance per JVM
getQPCache() - Method in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
getQualifiers() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehension
getQuality() - Method in class uk.ac.ic.doc.automed.p2p.PathwayDescription
getQuality() - Method in class uk.ac.ic.doc.automed.reps.pathway.PathwayFinderConfiguration
getQuality() - Method in class uk.ac.ic.doc.automed.reps.Transformation
getQualityIndicator() - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
getQualityIndicator() - Method in class uk.ac.ic.doc.rodex.qproc.QueryDescription
getQualityMeasure() - Method in class uk.ac.ic.doc.automed.reps.Pathway
getQueriedSchemaObjects(QueryAnalyser) - Static method in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
  Return an array of schema objects being queried.
getQuery() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.TransfStep
getQuery() - Method in class uk.ac.bbk.dcs.automed.evolution2.ExtendedConstruct
getQuery() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
getQuery() - Method in class uk.ac.ic.doc.automed.p2p.messages.applicationlayer.BrokerAllQuery
getQuery(String) - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
  Check in the cache for a similar query match.
getQuery(ASG) - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
getQuery(String) - Method in interface uk.ac.ic.doc.automed.qproc.cache.IQueryCache
  Check in the cache for a similar query match.
getQuery() - Method in class uk.ac.ic.doc.automed.util.db.DBRecordWithConstraints
  Return the definition query
getQuery() - Method in class uk.ac.ic.doc.rodex.qproc.QueryDescription
getQueryAggregator() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Return an instance of `IQueryAggregator`
getQueryAggregator() - Method in class uk.ac.ic.doc.rodex.p2p.Peer
  Return a different instance of `IQueryAggregator`
getQueryAnalyser() - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter
  Return query analyser
getQueryAnalyser() - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriter
  Return reference to the `QueryAnalyser` object which was used to analyse
  the query
getQueryAnalyser() - Method in class uk.ac.ic.doc.rodex.qproc.RangeBasedQueryRewriter
  Return query analyser
getQueryBasedOnRangeSemantics(String) - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.AtomicViewMap
getQueryCache() - Static method in class uk.ac.ic.doc.automed.qproc.cache.CacheManager
  Return a unique query cache instance
getQueryCache(String, String) - Static method in class uk.ac.ic.doc.automed.qproc.cache.CacheManager
getQueryCache() - Static method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Return a unique reference to the query cache
getQueryCache(String, String) - Static method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
getQueryCaches() - Static method in class uk.ac.ic.doc.automed.qproc.cache.CacheManager
  Return the set of all query cache objects
getQueryDescription() - Method in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
getQueryDescription() - Method in class uk.ac.ic.doc.automed.qproc.ASGQuery
getQueryEvaluationConfig() - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
getQueryFunctions() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehensionMiniCon
getQueryID() - Method in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
  Return the query ID
getQueryID() - Method in class uk.ac.ic.doc.automed.qproc.ASGQuery
getQueryLanguage() - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
  Return the query language
getQueryLanguage() - Method in class uk.ac.ic.doc.automed.editor.IQLTool
  A method to execute query when it is not found in cache
getQueryLanguageString() - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
getQueryMediator() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Return query mediator instance
getQueryMetadata() - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
  Return the metadata (`QueryAnalyser`) object of the external query
getQueryMetadataObjects() - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
  Return an array of metadata objects associated to the query objects
getQueryMetadataObjects() - Method in interface uk.ac.ic.doc.automed.qproc.cache.IQueryCache
  Return an array of metadata objects associated to the query objects
getQueryParser(ASG) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.DOMWrapper
getQueryParser(ASG) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.NXDBWrapper
getQueryParser(ASG) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.SAXWrapper
getQueryParser(ASG) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Return a parser that will accept queries for the wrapper.
getQueryParser(ASG) - Method in class uk.ac.ic.doc.automed.wrappers.P2PWrapper
getQueryParser(ASG) - Method in class uk.ac.ic.doc.automed.wrappers.SQLWrapper
getQueryRequest(String, String, String, String) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
getQueryResultMessage(AbstractMessage, Map) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
getQueryResults(String, String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.QueryGetter
  Use `QEP` to send query request for execution
getQueryResults(String, String, QueryDescription) - Method in class uk.ac.ic.doc.automed.p2p.QueryGetter
getQueryResults(String, String, String, String) - Method in interface uk.ac.ic.doc.automed.qproc.IQueryAggregator
getQueryResults(String, String, QueryDescription) - Method in interface uk.ac.ic.doc.automed.qproc.IQueryAggregator
getQueryResults(String, String, QueryDescription) - Method in class uk.ac.ic.doc.rodex.p2p.AdvancedQueryGetter
  Use `QEP` to send query request for execution
getQueryRewriterInstance(ASG, List, int) - Static method in class uk.ac.ic.doc.rodex.qproc.QueryRewriter
  A factory method to create a new `QueryRewriter` object
getQueryRewriterInstance(ASG, QueryAnalyser[], int) - Static method in class uk.ac.ic.doc.rodex.qproc.QueryRewriter
  An overloading factory method to create a new `QueryRewriter` object given metadata objects of cached views
getQueryRewriterInstance(ASG, ASG, int) - Static method in class uk.ac.ic.doc.rodex.qproc.QueryRewriter
  Special-purpose rewriters
getQueryRewriterInstance(QueryAnalyser, ASG, int) - Static method in class uk.ac.ic.doc.rodex.qproc.QueryRewriter
  Special-purpose rewriters
getQuerySchemaObjects(int, String, Schema) - Static method in class uk.ac.ic.doc.automed.tml.TML
  Returns an ArrayList of OBIDs referenced by the given query.
getQueryScheme() - Method in class uk.ac.ic.doc.automed.wrappers.YattaQuery
getQueryString() - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
  Return the query representation as it was originally passed in
getQuerySubGoals() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehensionMiniCon
getQueryType(String) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
getQueryVariables() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehensionMiniCon
getQueryVariables() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
getQueryVariables() - Method in class uk.ac.ic.doc.automed.wrappers.YattaQuery
getQueryVariables() - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
getRandomID() - Static method in class uk.ac.ic.doc.automed.reps.PersistentKey
  Return a random ID for use as key ID when no alternative is found
getRandomInstance() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
  Returns a random instance of the `SchemaElement` object.
getRange() - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Determine the actual range of a transformation
getRange(ASG) - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
getRange(ASG) - Method in class uk.ac.ic.doc.rodex.qproc.RangeBasedQueryRewriterResult
getRangeDef(String) - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
getRangeDef(String) - Method in class uk.ac.ic.doc.rodex.qproc.RangeBasedQueryRewriterResult
getRangeSemantics() - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
  Get range semantics, i.e.
getRangeSemanticsString() - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
getRangeSemanticsString(int) - Static method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
getRDBDSSchema() - Method in class uk.ac.bbk.dcs.automed.xml.relational.XMLDSSFromRDB
getReadyState() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractClient
  Always true
getReadyState() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractServer
getReadyState() - Method in class uk.ac.ic.doc.automed.p2p.directory.FlushTimeHelper
getReadyState() - Method in class uk.ac.ic.doc.automed.p2p.directory.HelloTimeHelper
getReadyState() - Method in class uk.ac.ic.doc.automed.p2p.directory.HoldTimeHelper
getReadyState() - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
  Is the socket server ready to accept requests?
getReadyState() - Method in class uk.ac.ic.doc.automed.p2p.P2PRegistry
  Is the socket server ready to accept requests?
getReadyState() - Method in class uk.ac.ic.doc.automed.util.queue.QueueWorker
getReadyState() - Method in interface uk.ac.ic.doc.automed.util.thread.Threadable
getReadyState() - Method in class uk.ac.ic.doc.automed.util.thread.TimedThread
  Get the state of the handler object (ready or note).
getRealObject() - Method in class uk.ac.ic.doc.automed.p2p.tree.AutoMedObject
getRealObject() - Method in class uk.ac.ic.doc.automed.p2p.tree.Reference
getReceivedData() - Method in class uk.ac.ic.doc.automed.p2p.communication.UDPClient
  Get the data received from server
getReceiver() - Method in class uk.ac.ic.doc.automed.p2p.messages.abstractlayer.AbstractMessage
getRecommendOneRequest(String, String, String, Map) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
getRecord(int) - Method in class uk.ac.ic.doc.automed.util.db.DBResultSet
  Returns a `DBRecord` object at the specified index
getRefAction() - Method in class uk.ac.ic.doc.automed.tml.TempTML
getRefActionString() - Method in class uk.ac.ic.doc.automed.tml.TempTML
getRefConstraint() - Method in class uk.ac.ic.doc.automed.tml.TempTML
getRefConstructName() - Method in class uk.ac.ic.doc.automed.tml.TempTML
getReferencedAutoLayoutPositionables() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSchemaObject
  Returns the array of AutoLayoutSchemaObject that are referenced directly or indirectly by this AutoLayout* .
getReferencedConstruct(SchemaObject) - Static method in class uk.ac.ic.doc.automed.reps.Utility
  Returns the object a SchemaObject is attached to.
getReferencedConstructs(SchemaObject) - Static method in class uk.ac.ic.doc.automed.reps.Utility
  Returns all the objects in a SchemaObject's scheme that are correspond to positions in the SchemaObject's scheme of type `SCHEME_TYPE_CONSTRUCT` that are of NODAL class.
getReferencedField(SchemaObject) - Static method in class uk.ac.ic.doc.automed.reps.Utility
  Returns the field of a primary key SchemaObject.
getReferencedObjects(SchemaObject) - Static method in class uk.ac.ic.doc.automed.reps.Utility
  Returns all the objects in a SchemaObject's scheme that are correspond to positions in the SchemaObject's scheme of type `SCHEME_TYPE_CONSTRUCT`.
getReferencedSchemaObjects() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Returns the set of SchemaObjects that are referenced directly or indirectly by this SchemaObject.
getReferencedSchemaObjects() - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns all the schema objects referenced in a transformation.
getReferencedSchemaObjectsInQuery() - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns all the schema objects referenced in the query of a transformation.
getReferencedTable(SchemaObject) - Static method in class uk.ac.ic.doc.automed.reps.Utility
  Returns the table of a primary key SchemaObject.
getReferringObjects(Schema, SchemaObject) - Static method in class uk.ac.ic.doc.automed.reps.Utility
  Returns the SchemaObject objects that include `object` in their schemes.
getRefers() - Method in class uk.ac.ic.doc.automed.xmlschema.output.XPathSelector
  Return refers element for a keyref
getRefFromObjName() - Method in class uk.ac.ic.doc.automed.tml.TempTML
getRefFunction() - Method in class uk.ac.ic.doc.automed.tml.TempTML
getRefModelName() - Method in class uk.ac.ic.doc.automed.tml.TempTML
getReformulationSemantics() - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
getReformulationSemanticsString() - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
getReformulator() - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
  Return the reformulator name
getRefSchemaObject() - Method in class uk.ac.ic.doc.automed.reps.Scheme
  Returns the `SchemaObject` that this `Scheme` wraps
getRefToObjName() - Method in class uk.ac.ic.doc.automed.tml.TempTML
getRegisterRequest(String, int) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
getRegistryAddress() - Static method in class uk.ac.ic.doc.automed.p2p.AppToolKit
getRegistryAddress() - Method in class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
getRegistryInstance() - Static method in class uk.ac.ic.doc.automed.p2p.P2PRegistry
  Start a registry from a Peer
getRegistryPort() - Static method in class uk.ac.ic.doc.automed.p2p.AppToolKit
getRegistryPort() - Method in class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
getRelatedTables(ArrayList) - Method in class uk.ac.ic.doc.automed.matching.SQLIntegrator
  Returns a `SchemaElementPair` array of related table pairs in the specified list.
getRelationship(BidirectionalDegree) - Method in class uk.ac.ic.doc.automed.matching.BidirectionalMap
  Returns the `SemanticRelationship` object based on the specified bidirectional degree.
getRelationship(SchemaElementPair) - Method in class uk.ac.ic.doc.automed.matching.Integrator
  Returns the relationship in the pair.
getRelationship(SchemaElementPairRelationship[]) - Static method in class uk.ac.ic.doc.automed.matching.RelationshipExtractor
  Returns the relationship for the pair of elements.
getRelationship() - Static method in class uk.ac.ic.doc.automed.matching.relationships.Compatibility
  Returns an instance of the `Compatibility` class.
getRelationship() - Static method in class uk.ac.ic.doc.automed.matching.relationships.Disjointness
  Returns an instance of the `Disjointness` class.
getRelationship() - Static method in class uk.ac.ic.doc.automed.matching.relationships.Equivalence
  Returns an instance of the `Equivalence` class.
getRelationship() - Static method in class uk.ac.ic.doc.automed.matching.relationships.Incompatibility
  Returns an instance of the `Incompatibility` class.
getRelationship() - Static method in class uk.ac.ic.doc.automed.matching.relationships.Overlapness
  Returns an instance of the `Overlapness` class.
getRelationship() - Static method in class uk.ac.ic.doc.automed.matching.relationships.Subset
  Returns an instance of the `Subset` class.
getRelationship() - Static method in class uk.ac.ic.doc.automed.matching.relationships.Superset
  Returns an instance of the `Superset` class.
getRelationship() - Method in class uk.ac.ic.doc.automed.matching.SchemaElementPairRelationship
  Returns the semantic relationship between the first and the second element in the pair.
getRelationships(BidirectionalMap) - Method in class uk.ac.ic.doc.automed.matching.DegreeCombinator
  Returns the semantic relationships of the schema elements based on the areas of the `BidirectionalMap`.
getRelationships() - Method in class uk.ac.ic.doc.automed.matching.RelationshipExtractor
getRelationships(ArrayList) - Static method in class uk.ac.ic.doc.automed.matching.RelationshipExtractor
  Returns the relationships for each pair of elements in the specified list.
getRelationships() - Method in class uk.ac.ic.doc.automed.matching.SQLRelationshipExtractor
  Returns the semantic relationships for the schema objects in the schemas
getRelationshipsColumnEdges(double, double, double, double) - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
getRelationshipsColumns(double, double, double, double) - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
getRelationshipsTables(double, double, double, double) - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
getRelativeDegrees(ArrayList, ArrayList) - Static method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.ClustererClassifier
getRemainderQuery() - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
getRemoteAddress() - Method in class uk.ac.ic.doc.automed.p2p.communication.ResponseHandler
  The address of the remote host to which this response is sent
getRemotePort() - Method in class uk.ac.ic.doc.automed.p2p.communication.ResponseHandler
  The port on the remote host at which this response is targeted
getRemoteStatus() - Method in class uk.ac.ic.doc.automed.p2p.KeepAliveMessageHandler
getReply(AbstractMessage, String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
  Get reply for each send message of a broker query
getReplyForRequest(AbstractMessage, String, int) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
getRepObject() - Method in interface uk.ac.ic.doc.automed.editor.Positionable
getRepObject() - Method in class uk.ac.ic.doc.automed.reps.Construct
getRepObject() - Method in class uk.ac.ic.doc.automed.reps.Model
getRepObject() - Method in class uk.ac.ic.doc.automed.reps.Network
getRepObject() - Method in class uk.ac.ic.doc.automed.reps.Schema
getRepObject() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
getRepository() - Static method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  static { //LOAD DRIVER CLASSES try { Class.forName(driver); } catch(Exception e) { e.printStackTrace(); } } private Connection connection; private Statement statement; private ResultSet resultSet; private ResultSetMetaData metaData; private DatabaseMetaData dbMetaData; -- dmle 9/2/2006
getRepositoryFriendlyQuery(Schema, QueryAnalyser) - Static method in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
  A common method for building the repository-oriented representation of an IQL query
  One requirement for this is that the rewritting query must contain schema name for each scheme (subgoal) that it contains.
getRepTran() - Method in class uk.ac.ic.doc.automed.tml.TML
getRequestId() - Method in class uk.ac.ic.doc.automed.p2p.messages.abstractlayer.AbstractMessage
getRequestMessage() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractRequestListener
getRequestMessage() - Method in interface uk.ac.ic.doc.automed.p2p.communication.RequestListener
  The message to send across
getRequestMessage() - Method in class uk.ac.ic.doc.automed.p2p.KeepAliveMessageHandler
  Return an `AbstractMessage` object representing the message to send
getRequestMessage() - Method in class uk.ac.ic.doc.automed.p2p.UnregisterPeerMessageHandler
  Return an `AbstractMessage` object representing the message to send
getRequestMessage() - Method in class uk.ac.ic.doc.automed.p2p.UpdateDataMessageHandler
  Return an `AbstractMessage` object representing the message to send
getRequired() - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.Attribute
  Return the value of the required flag
getResponseData() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractRequestListener
  Method to retrieve response data
getResponseData() - Method in interface uk.ac.ic.doc.automed.p2p.communication.RequestListener
  Method to retrieve response data
getResponseData() - Method in class uk.ac.ic.doc.automed.p2p.SimpleMessageHandler
getResult() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.TransfStep
getResult() - Method in class uk.ac.ic.doc.automed.p2p.messages.applicationlayer.TellBrokerQuery
getResult() - Method in class uk.ac.ic.doc.automed.p2p.QueryResultDescription
getResultASG() - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
  Return the `ASG` representation of the cached views
getResultFromRepository() - Method in class uk.ac.ic.doc.automed.p2p.BrokerRequestReceiver
getResultObjects() - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
  A `List` of `ASG` result objects
getResultString() - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
  Return the `String` representation of the cached views
getResultString() - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
  IQL tuple result (as string)
getResultTTL() - Method in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
getReverseTransformation() - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns the reverse transformation of the given transformation.
getRole() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Return this peer's role
getRoot() - Method in class uk.ac.ic.doc.automed.p2p.PathwayDescription
  Backward compatible method: return the first element by default
getRoot() - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.Document
  Return the root element of this document
getRoots() - Method in class uk.ac.ic.doc.automed.p2p.PathwayDescription
  Get all roots
getRoots() - Method in class uk.ac.ic.doc.automed.reps.Network
getRootType(String) - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.Document
  Return a named root type, null if the named type is not a root ct
getRootTypes() - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.Document
  Return any root types
getRoutingTableString() - Method in class uk.ac.ic.doc.rodex.p2p.Peer
getRowCount() - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerTableModel
getRowData() - Method in class uk.ac.ic.doc.automed.util.cache.CacheContentDescription
  Return row data
getSchema() - Method in class uk.ac.ic.doc.automed.editor.XMLSchemaEditor
  Get the value of the Automed schema for this object
getSchema(SchemaDescription) - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
  Edited by MDLE on 19/10/2005 to also query associated models if required
getSchema() - Method in class uk.ac.ic.doc.automed.p2p.messages.applicationlayer.BrokerAllQuery
getSchema(String) - Method in class uk.ac.ic.doc.automed.p2p.SchemaGetter
  Edited by MDLE on 19/10/2005 to adapt to a new method signature in getting the schema's root object
  This method creates a new `Schema` together with its associated objects
getSchema(Schema) - Method in class uk.ac.ic.doc.automed.p2p.SchemaGetter
  An overloading method for creating a new `Schema` object
  This method differs from the overloaded one `SchemaGetter.getSchema(String schema)`
  in that it takes a pre-created `Schema` object and use it to create
  the associated objects.
getSchema() - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Returns the schema that represents the database to which the access method connects.
getSchema() - Method in exception uk.ac.ic.doc.automed.reps.BadSchemaException
  Returns the bad schema.
getSchema() - Method in class uk.ac.ic.doc.automed.reps.Node
  Returns the schema at this node in the network
getSchema(String) - Static method in class uk.ac.ic.doc.automed.reps.Schema
  Returns the `Schema` object with the given name.
getSchema(int) - Static method in class uk.ac.ic.doc.automed.reps.Schema
  Returns the `Schema object which has the given schema identifier (SID).`
getSchema() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Returns the `Schema` to which the SchemaObject belongs.
getSchema() - Method in class uk.ac.ic.doc.automed.ssd.SSDFormat
getSchema() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Returns the `Schema` that represents in the datasource in terms of `SchemaObject`s in a data source oriented manner.
getSchema(String) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  A method that creates in the repository a Schema and AccessMethod from the supplied information, together with a Protocol if necessary, and returns the AccessMethod.
getSchema() - Method in class uk.ac.ic.doc.automed.xmlschema.tree.TreeDropTarget
  Get the current schema
getSchemaBackgroundColor(int) - Static method in class uk.ac.ic.doc.automed.STR
getSchemaByName(String) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the schema identifier (SID) of the schema specified by name.
  Assumption:schema names are unique.
getSchemaDescription() - Method in class uk.ac.ic.doc.automed.p2p.directory.SchemaEvent
getSchemaDoc() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSDOMFromXSD
getSchemaDoc() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
getSchemaElements(Schema, int, boolean) - Static method in class uk.ac.ic.doc.automed.matching.SchemaElement
  Returns an array of schema elements that belong to the schema.
getSchemaElements(Schema, SchemaObject[], int, boolean) - Static method in class uk.ac.ic.doc.automed.matching.SchemaElement
  Returns an array of schema elements based on the schema objects' array.
getSchemaEvolutionType() - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolution
getSchemaEvolutionType() - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
getSchemaForegroundColor(int) - Static method in class uk.ac.ic.doc.automed.STR
getSchemaIDs() - Static method in class uk.ac.ic.doc.automed.reps.Schema
  Returns an array of SID of all the schemas found in the STR.
getSchemaIDs() - Static method in class uk.ac.ic.doc.automed.STR
  Returns the IDs of all the schemas found in the STR.
getSchemaLabelPos(int) - Static method in class uk.ac.ic.doc.automed.STR
getSchemaLocation() - Method in class uk.ac.ic.doc.automed.xmlschema.output.XMLSchemaOutputter
  Return the Schema Location
getSchemaMap() - Method in class uk.ac.ic.doc.automed.p2p.tree.ObjectBuilder
getSchemaName() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
getSchemaName() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
getSchemaName() - Method in class uk.ac.ic.doc.automed.p2p.directory.SchemaEvent
getSchemaName(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the name of the schema with the given schema identifier.
getSchemaName() - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
  Return the schema name of the query
getSchemaName() - Method in class uk.ac.ic.doc.rodex.qproc.QueryDescription
getSchemaName() - Method in class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
  Return the schema name (e.g.
getSchemaNames() - Static method in class uk.ac.ic.doc.automed.reps.Schema
  Returns an array of names of all the schemas found in the STR.
getSchemaNames() - Static method in class uk.ac.ic.doc.automed.STR
  Returns the name of all the schemas found in the STR.
getSchemaNetworkHelp - Static variable in class uk.ac.ic.doc.automed.editor.Editor
getSchemaNetworkSyntax - Static variable in class uk.ac.ic.doc.automed.editor.Editor
getSchemaObject() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
  Returns the `SchemaObject` wrapped by this `SchemaElement` object.
getSchemaObject(String) - Method in class uk.ac.ic.doc.automed.reps.Schema
getSchemaObject(String, int) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Return the `SchemaObject` that has the supplied name in this schema.
getSchemaObject(int) - Static method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Returns the `SchemaObject` reference that has the given schema object identifier (OBID).
getSchemaObject() - Method in class uk.ac.ic.doc.automed.reps.Scheme
  Returns the `SchemaObject` that this Scheme element is contained within, i.e.
getSchemaObject(Schema) - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns the `SchemaObject` of the transformation.
getSchemaObject() - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
  Get the schema object for this object
getSchemaObjectBackgroundColor(int) - Static method in class uk.ac.ic.doc.automed.STR
getSchemaObjectByName(String) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Deprecated. Return the `SchemaObject` that has the supplied name in this schema. Note that the String supplied must match exactly the name of the `SchemaObject` as returned by `SchemaObject.getSchemeNamesString()`
getSchemaObjectByOBID(int) - Static method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Deprecated. use `SchemaObject.getSchemaObject(int)` instead
getSchemaObjectCID(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the construct identifier (CID) of the schema object.
getSchemaObjectForegroundColor(int) - Static method in class uk.ac.ic.doc.automed.STR
getSchemaObjectID() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
getSchemaObjectLabelPos(int) - Static method in class uk.ac.ic.doc.automed.STR
getSchemaObjectPos(int) - Static method in class uk.ac.ic.doc.automed.STR
getSchemaObjects() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Find all `SchemaObjects` that are instances of a particular Construct.
getSchemaObjects() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Returns an array of schema objects (of class `SchemaObject`) that belong to the schema.
getSchemaObjects(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the object identifiers (OBID) in ascending order of all the schema objects that belong to a particular schema.
getSchemaObjectsByCID(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the object identifiers (OBID) in ascending order of all the schema objects that are instances of a certain construct type, in order of the OBID to which they belong
getSchemaObjectSID(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the schema identifier (SID) that a schema object belongs to.
getSchemaObjectsToLayout() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSchemaObject
  Same as calling getSchemaObjectsToLayout(null)
getSchemaObjectsToLayout(AutoLayoutSchemaObject) - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSchemaObject
  Get array of objects to layout connected to this object.
getSchemaObjectsToLayout() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSpringObject
getSchemaObjectTextColor(int) - Static method in class uk.ac.ic.doc.automed.STR
getSchemaObjectTID(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the type identifier (TID) for a schema object.
getSchemaObjectType() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Return the type id of this schema object - Note link objects will not have a type
getSchemaObjectTypeName() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Return the type name of this schema object - Note link objects will not have a type
getSchemaObjectValue(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the name (value) of the schema object.
getSchemaPos(int) - Static method in class uk.ac.ic.doc.automed.STR
getSchemaRequest(String, String, String) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
getSchemas() - Method in class uk.ac.ic.doc.automed.matching.Integrator
getSchemas() - Method in class uk.ac.ic.doc.automed.matching.SQLIntegrator
  Returns an array of the current schemas.
getSchemas() - Method in class uk.ac.ic.doc.automed.reps.Network
  Return all the `Schema`s in this network.
getSchemas() - Method in class uk.ac.ic.doc.automed.reps.Pathway
  Return as an array the `Schema`s that appear in the `Transformation`s of this Pathway.
getSchemas() - Static method in class uk.ac.ic.doc.automed.reps.Schema
  Find all `Schema` instances held in the repository.
getSchemas() - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns the schemas of the transformation.
getSchemaSIDs() - Static method in class uk.ac.ic.doc.automed.STR
  Returns the schema identifier (SID) of all the schemas found in the STR.
getSchemasImplementedBy(String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
getSchemasImplementedBy(String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
getSchemasImplementedBy(String) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
getSchemaSubnetSID(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the subnet schema id of this schema.
getSchemaTextColor(int) - Static method in class uk.ac.ic.doc.automed.STR
getSchemaType(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the type of a schema.
getSchemaUIDDoc() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSDOMFromXSD
getSchemaUIDDoc() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
getScheme() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
  Deprecated. use `#getSchemeString(boolean)` instead
getScheme() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Returns an array of `ConstructScheme` objects representing the scheme of the construct.
getSchemeDefinition() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  All SchemaObjects when they are created by methods such as `Schema.createSchemaObject`, `Schema.applyAddTransformation` and `Transformation.createAddTransformation` require that an Object array be supplied that defines the scheme of the new SchemaObject.
getSchemeItems() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
getSchemeName() - Method in class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
  Return the scheme name (e.g.
getSchemeNames() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  A shorthand for `#getSchemeNames(false)`
getSchemeNames(boolean) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Return the names of all objects in the scheme of this SchemaObject.
getSchemeNames(int, int) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
getSchemeNames(int, int, boolean) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
getSchemeNamesString(boolean) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
getSchemeNamesString() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Same as calling `#Schema.getSchemaNameString(false)`
getSchemeNamesString(boolean) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Returns the scheme representation this `SchemaObject` using brackets as set by `Schema.setOpenCloseSchemeBracket`.
getSchemeNamesString(int, int) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
getSchemeNamesString(int, int, boolean) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
getSchemeNamesString(Object[]) - Static method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Return the scheme string that would return from creating a `SchemaObject` using the supplied array of `Object`s.
getSchemeNamesStringWithOBID() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
  WARNING: returns the String representation of a SchemeInfo object with a ':'<OBID> suffix - this does NOT adhere to the scheme syntax.
getSchemeOBIDList(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns a list of all schema object identifiers (OBID) by which a particular schema object is referenced.
getSchemeObjects() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Returns an array of schema objects that are contained in the scheme of this schema object.
getSchemePos() - Method in class uk.ac.ic.doc.automed.reps.ConstructScheme
getSchemePos() - Method in class uk.ac.ic.doc.automed.reps.Scheme
  Returns the position of this `Scheme` in the definition of the `SchemaObject` it defines.
getSchemePosList(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns a list of positions in the scheme of a particular schema object.
getSchemes(Cell, LinkedList) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehension
getSchemes() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehension
getSchemes(Cell, LinkedList) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehensionMiniCon
getSchemes(Cell, Collection) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.IQLUtility
getSchemes(List, Cell) - Method in class uk.ac.ic.doc.rodex.qproc.ASGExplore
  A recursive method to get a list of schemes from an ASG query
  dmle 22/11/2005
getSchemeSOBID(int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the object identifier (SOBID) of the referenced schema object in the specified schema object's scheme at the given position.
getSchemeSOBIDList(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns a list of all schema object identifiers (SOBID) referenced by a particular schema object.
getSchemeString() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
getSchemeString(Schema) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
getSchemeType() - Method in class uk.ac.ic.doc.automed.reps.ConstructScheme
  Returns the scheme type of the `ConstructScheme`.
getSchemeTypeString(int) - Static method in class uk.ac.ic.doc.automed.reps.ConstructScheme
getSchemeTypeString(int, boolean) - Static method in class uk.ac.ic.doc.automed.reps.ConstructScheme
getScrollPane(JTextArea) - Static method in class uk.ac.ic.doc.automed.editor.TextEditor
  Initialises the scroll pane for the text area
getSecondElement() - Method in class uk.ac.ic.doc.automed.matching.SchemaElementPair
  Returns the second `SchemaElement` object of the pair.
getSeconds() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
getSectionDebugLevel(int) - Static method in class uk.ac.ic.doc.automed.STR
  Gets the debug level which the section of code has been set to.
getSectionDebugLevel(int) - Static method in class uk.ac.ic.doc.automed.util.Debugger
  Gets the debug level which the section of code has been set to.
getSelectedValue(JTable) - Method in class uk.ac.ic.doc.automed.editor.TextEditor
  Get the selected cell value
getSelectedValue() - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerTable
getSelector() - Method in class uk.ac.ic.doc.automed.xmlschema.output.XPathSelector
  Return XPath selector
getSelfIDAddressPair() - Method in class uk.ac.ic.doc.rodex.p2p.Peer
getSemanticRelationship(int) - Static method in class uk.ac.ic.doc.automed.matching.relationships.SemanticRelationship
getSender() - Method in class uk.ac.ic.doc.automed.p2p.messages.abstractlayer.AbstractMessage
getSeparateErrors() - Method in class uk.ac.ic.doc.automed.xml.XMLReader
  by default, errors are reported through the token stream, for parsing this may not be convenient you can have errors reported through getErrors() instead by setting separateErrors to true
getSerialEntryBinding(Class) - Method in class uk.ac.ic.doc.automed.util.persist.PersistentDBController
  Return serial-type entry binding
getServerAddress() - Static method in class uk.ac.ic.doc.automed.p2p.AppToolKit
getServerAddress(String) - Static method in class uk.ac.ic.doc.automed.p2p.AppToolKit
getServerAddress() - Method in class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
getServerAddress(String) - Method in class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
getServerInstance(RequestListener, int, String, Properties) - Static method in class uk.ac.ic.doc.automed.p2p.communication.ServerFactory
  Create a new instance of communication server for a specific protocol
getServerPort() - Static method in class uk.ac.ic.doc.automed.p2p.AppToolKit
getServerPort(String) - Static method in class uk.ac.ic.doc.automed.p2p.AppToolKit
getServerPort() - Method in class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
getServerPort(String) - Method in class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
getServerPort() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractServer
getSFID(String) - Static method in class uk.ac.ic.doc.automed.ssd.SSDFormat
getSFID() - Method in class uk.ac.ic.doc.automed.ssd.SSDFormat
getSFIDByName(String) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Returns the ssd format identifier (SFID) of the ssd format specified by name.
  Assumption:ssd format names are unique.
getSFIDBySID(int) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Returns the ssdformat identifier (SFID) of the ssd format specified by schema identifier (SID).
getSharedVariables(QuerySubGoal) - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter
  Get all shared variables between a query and one of its sub-goal
getSharedVariables() - Method in class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
  Return a `List` of shared variables
getSID() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Returns the schema identifier (SID) of the schema.
getSIDBySFID(int) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Returns the schema identifier (SID) of the ssd format specified by ssd format identifier (SFID).
getSimilarityDegree() - Method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.SimilarCluster
getSimpleTransfSteps(String, String) - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.TransfStep
getSimpleTransfSteps(Schema, Schema) - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.TransfStep
getSimpleValueMap() - Method in class uk.ac.ic.doc.automed.p2p.tree.AutoMedObject
  return a simple HashMap of field-> value as String.
getSize() - Method in class uk.ac.ic.doc.automed.matching.modules.ElementVectorRepresentation
getSmartQuoting() - Static method in class uk.ac.ic.doc.automed.reps.Syntax
getSOCount(Model, Schema) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.ExperimentsUtility
getSODefinition(QuerySubGoal) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapper
  Implement AutoMedWrapper abstract method
getSODefinition(QuerySubGoal) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
getSODefinition(QuerySubGoal, String, String) - Method in class uk.ac.ic.doc.automed.p2p.QueryGetter
  Ask a remote peer for the query definitions of a given schema object
getSODefinition(QuerySubGoal, String, String) - Method in interface uk.ac.ic.doc.automed.qproc.IQueryAggregator
  Ask a remote peer for the query definitions of a given schema object
getSODefinition(String) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Calculate the quality of a schema object.
getSODefinition(QuerySubGoal) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  An abstract method used by `#getSOQuality(String schemeDef)`.
getSODefinition(QuerySubGoal) - Method in class uk.ac.ic.doc.automed.wrappers.CSVWrapper
  Implement AutoMedWrapper abstract method This method should never be executed because the calling method should already know that the transformation leading to the schema object represented by qsg variable belongs to a source schema.
getSODefinition(QuerySubGoal) - Method in class uk.ac.ic.doc.automed.wrappers.HDMWrapper
  Implement AutoMedWrapper abstract method
getSODefinition(QuerySubGoal) - Method in class uk.ac.ic.doc.automed.wrappers.P2PWrapper
  Implement AutoMedWrapper abstract method
getSODefinition(QuerySubGoal) - Method in class uk.ac.ic.doc.automed.wrappers.QueryCacheWrapper
  This method is empty
getSODefinition(QuerySubGoal) - Method in class uk.ac.ic.doc.automed.wrappers.SQLWrapper
  Implement AutoMedWrapper abstract method This method should never be executed because the calling method should already know that the transformation leading to the schema object represented by qsg variable belongs to a source schema.
getSODefinition(QuerySubGoal) - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapper
  Implement AutoMedWrapper abstract method This method should never be executed because the calling method should already know that the transformation leading to the schema object represented by qsg variable belongs to a source schema.
getSODefinition(QuerySubGoal) - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapper
  Implement AutoMedWrapper abstract method
getSODefinition(QuerySubGoal, String, String) - Method in class uk.ac.ic.doc.rodex.p2p.AdvancedQueryGetter
  Ask a remote peer for the query definitions of a given schema object
getSODefinition(QuerySubGoal) - Method in class uk.ac.ic.doc.rodex.qproc.QueryMediator
  Get query definitions for a schema object.
getSourceAddress() - Method in class uk.ac.ic.doc.automed.p2p.communication.ResponseHandler
  The address of this host used for sending response
getSourcePath(PeerDescription) - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
  Get the pathway from a peer between a public schema and any named schema at that peer.
getSourcePath() - Method in class uk.ac.ic.doc.automed.p2p.gui.SchemaInfoFrame
getSources() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.TransfStep
getSourceSchema() - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.CompositeViewMap
getSourceSchemaSID() - Method in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
getSourcesOfIQL(Cell) - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.GetIQLSource
getSourcesOfIQL(String) - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.GetIQLSource
getSourceType(String, String) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
getSpans(int, int) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  For the edge specified return a `LinkedList` with each element of type `Span` representing a span in that edge.
getSpecialConstructs(SchemaObject) - Static method in class uk.ac.ic.doc.automed.reps.Utility
  Returns an array of SchemaObject objects corresponing to the sub-entities of a generalization.
getSPID() - Method in class uk.ac.ic.doc.automed.ssd.SSDPattern
getSPID(int) - Method in class uk.ac.ic.doc.automed.ssd.SSDPattern
getSPIDByOBID(int) - Method in class uk.ac.ic.doc.automed.ssd.SSDFormat
getSPIDByPID(int) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Returns the recent ssdpattern identifier (SPID) of the specified pattern.
getSPIDBySFIDOBID(int, int) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Returns the ID of ssdpattern in the SSMDR for the particular ssdformat and schemaobject.
getSPIDsBySFID(int) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Returns the IDs of all the ssdpatterns found in the SSMDR.
getSQLQuery(int) - Method in class uk.ac.ic.doc.automed.wrappers.SQLQuery
  Return the SQLQuery held in a certain field, or null if the field is empty.
getSQLTableReference(Object[]) - Method in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
  Given the scheme of a table, get the name SQL uses to reference that table.
getSQLType(String) - Static method in class uk.ac.ic.doc.automed.Util
getSQLTypeName(int) - Static method in class uk.ac.ic.doc.automed.Util
getSSDFormat(String) - Static method in class uk.ac.ic.doc.automed.ssd.SSDFormat
getSSDFormat(int) - Static method in class uk.ac.ic.doc.automed.ssd.SSDFormat
getSSDFormat() - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapper
getSSDFormatBySchema(Schema) - Static method in class uk.ac.ic.doc.automed.ssd.SSDFormat
getSSDFormatIDs() - Static method in class uk.ac.ic.doc.automed.SSMDR
  Returns the IDs of all the ssd formats found in the SSMDR.
getSSDFormatName(int) - Static method in class uk.ac.ic.doc.automed.ssd.SSDFormat
getSSDFormatName(int) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Returns the name of the ssd format with the given ssd format identifier.
getSSDFormatNames() - Static method in class uk.ac.ic.doc.automed.SSMDR
  Returns the name of all the ssd formats found in the SSMDR.
getSSDPatternBySPID(int) - Method in class uk.ac.ic.doc.automed.ssd.SSDFormat
getSSDPatternIDs() - Method in class uk.ac.ic.doc.automed.ssd.SSDFormat
getSSDSource() - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapper
getSSMDR_DataSourceName() - Static method in class uk.ac.ic.doc.automed.SSMDR
  Deprecated. use getDataSourceName()
getStackSize(Throwable) - Static method in class uk.ac.ic.doc.automed.Util
  Determine the size (in bytes) of an exception stack
getStandardDeviation(double[]) - Static method in class uk.ac.ic.doc.automed.matching.Util
getStandardDeviation(double[], double) - Static method in class uk.ac.ic.doc.automed.matching.Util
getStateHandler() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Return reference to state handler
getStateHandler() - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
  Return the peer-wise state handler object.
getStats() - Method in class uk.ac.ic.doc.automed.matching.Averages
getStatus() - Method in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
  Getter for status and last update
getStatus() - Method in class uk.ac.ic.doc.automed.p2p.directory.SchemaDescription
  Getter for status
getSTR_DataSourceName() - Static method in class uk.ac.ic.doc.automed.STR
  Deprecated. use getDataSourceName()
getStrength() - Method in class uk.ac.ic.doc.automed.matching.relationships.Compatibility
getStrength() - Method in class uk.ac.ic.doc.automed.matching.relationships.Disjointness
getStrength() - Method in class uk.ac.ic.doc.automed.matching.relationships.Equivalence
getStrength() - Method in class uk.ac.ic.doc.automed.matching.relationships.Incompatibility
getStrength() - Method in class uk.ac.ic.doc.automed.matching.relationships.Overlapness
getStrength() - Method in class uk.ac.ic.doc.automed.matching.relationships.SemanticRelationship
  Returns the strength of the `SemanticRelationship` object.
getStrength() - Method in class uk.ac.ic.doc.automed.matching.relationships.Subsumption
getString(int) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
  Return a field as a String value.
getString(int) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedTuple
  Return a particular attribute from a tuple (counting from one) as a String
getStringConstructProperty(int, int, String) - Static method in class uk.ac.ic.doc.automed.MDR
getStringHashProvider(String) - Static method in class uk.ac.ic.doc.automed.util.hashing.StringHashFactory
getStringValue(String) - Method in class uk.ac.ic.doc.automed.util.db.DBRecord
getSubGoals() - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter.MiniConDescription
  Returns only the minimum set of sub-goals found when constructing the MCD
getSubGoals() - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
  Return a list of `QuerySubGoal` objects
getSubGoals() - Method in class uk.ac.ic.doc.rodex.qproc.QueryVariable
  Return a list of `QuerySubGoal` objects which refer to this variable
getSubGraphs() - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraph
getSubnetSchema() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Find the extensional schema in the same subnetwork as this Schema.
getSubnetSchema() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Find the extensional schema in the same subnetwork as this SchemaObject.
getSubQual(String, String) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
getSubQueries() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.TransfStep
getSubSteps() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.TransfStep
GetSuffix(int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
GetSuffix(int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
GetSuffix(int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
GetSuffix(int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
GetSuffix(int) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
getSupressedTokenTypes() - Method in class uk.ac.ic.doc.automed.xml.XMLReader
getSupressIgnorableWhitespace() - Method in class uk.ac.ic.doc.automed.xml.XMLReader
  The supressIgnorableWhitespace property and supressTokenTypes list are different in knid.
getSystemConst(Set) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.CFR
getSystemConst(List) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.CFR
getTableCellEditorComponent(JTable, Object, boolean, int, int) - Method in class uk.ac.ic.doc.automed.editor.TextEditor
  Implement `TableCellEditor` interface.
  Return the actual text editor to use in the selected table cell.
getTableDetailsSchemeLength() - Method in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
  Return the number of fields in a full source table scheme used to reprsent the table details
getTableForeignKeyPoints(SchemaObject) - Static method in class uk.ac.ic.doc.automed.reps.Utility
  Returns the table that a foreign key SchemaObject points.
getTableNames() - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
getTables(Schema) - Method in class uk.ac.ic.doc.automed.matching.SQLIntegrator
  Returns an array of schema objects of tables in the specified schema.
getTableWithForeignKey(SchemaObject) - Static method in class uk.ac.ic.doc.automed.reps.Utility
  Returns the table of a foreign key SchemaObject.
getTargetSchema() - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.CompositeViewMap
getTempPathway(Pathway) - Static method in class uk.ac.ic.doc.automed.tml.TempPathway
getTextArea(String, boolean, boolean, int, int) - Static method in class uk.ac.ic.doc.automed.editor.TextEditor
  Initialises the text area to use
getTextChildCount(Node) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
  Counts the number of text chidren of the input node.
getTextChildren() - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphElement
getTextColor() - Method in interface uk.ac.ic.doc.automed.editor.Positionable
getTextColor() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Return the default text colour to be used from drawing `SchemaObject`s of this `Construct`.
getTextColor() - Method in class uk.ac.ic.doc.automed.reps.Model
  Return the default text colour to be used from drawing `SchemaObject`s of this `Model`.
getTextColor() - Method in class uk.ac.ic.doc.automed.reps.Network
getTextColor() - Method in class uk.ac.ic.doc.automed.reps.Schema
getTextColor() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
getTextExtent(String) - Method in class uk.ac.bbk.dcs.automed.xml.materialisation.Materialiser
getTextExtent(String, String) - Method in class uk.ac.bbk.dcs.automed.xml.materialisation.Materialiser
getTextExtent(String) - Method in class uk.ac.bbk.dcs.automed.xml.materialisation.XMLDSSMaterialiser
getTextExtent(String, String) - Method in class uk.ac.bbk.dcs.automed.xml.materialisation.XMLDSSMaterialiser
getTextNodeOrder(Node) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
getTextNodes(Element) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
getThe1stComp(String) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
getThe1stComp(Cell) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
getThreadObject() - Method in class uk.ac.ic.doc.automed.util.thread.TimedThread
  Return the threadable object
getThrowErrors() - Method in class uk.ac.ic.doc.automed.xml.XMLReader
  all errors are reported through the token stream or through the error stream, by setting throwErrors you can have nextToken and peekToken throw an exception if the next token is an error.
getTime() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
getTimeOut() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractDaemon
getTimeOut() - Method in class uk.ac.ic.doc.automed.p2p.P2PRegistry
getTimeStamp() - Method in class uk.ac.ic.doc.automed.util.cache.CacheItem
  Get time stamp
getTitleFor(MainFrame) - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
getTML(Schema, Schema) - Static method in class uk.ac.ic.doc.automed.tml.TML
getTmlList() - Method in class uk.ac.ic.doc.automed.tml.TempPathway
getToken(int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
getToken(int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
getToken(int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
getToken(int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
getToken(int) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
getToOBID() - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns the schema object identifier (OBID) of the output of the transformaiton (toObject).
getToObject() - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns the `SchemaObject` output of the transformation.
getToObject() - Method in class uk.ac.ic.doc.automed.tml.TML
getToObjectsUnmatched() - Method in exception uk.ac.ic.doc.automed.reps.SchemasNotIdenticalException
getTool(Object[]) - Static method in class uk.ac.ic.doc.automed.editor.IQLTool
  Provide a method suitable for the AutoMed GUI to call and create a GUITool
getTool(Object[]) - Static method in class uk.ac.ic.doc.automed.editor.MatchingTool
getTool(Object[]) - Static method in class uk.ac.ic.doc.automed.editor.PathwayOptimiserTool
getTool(Object[]) - Static method in class uk.ac.ic.doc.automed.editor.PatternWritingTool
getTool(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.WrapperTool
  Provide a method suitable for the AutoMed GUI to call and create a WrapperTool
getTool(Object[]) - Static method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
  Method for the AutoMed GUI to call to launch the P2P system.
getTool(Object[]) - Static method in class uk.ac.ic.doc.rodex.p2p.gui.QueryTool
  Provide a method suitable for the AutoMed GUI to call and create a GUITool
getToolTipText() - Method in interface uk.ac.ic.doc.automed.xmlschema.tree.IconAndTipCarrier
getToolTipText() - Method in class uk.ac.ic.doc.automed.xmlschema.tree.IconAndTipRenderer
getToSchema() - Method in class uk.ac.ic.doc.automed.p2p.PathwayDescription
getToSchema() - Method in exception uk.ac.ic.doc.automed.reps.SchemasNotIdenticalException
getToSchema() - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns the resultant `Schema` of the transformation.
getToSchema() - Method in class uk.ac.ic.doc.automed.tml.TML
getToSID() - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns the schema identifier (SID) of the resultant schema.
getTotalColumns() - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
getTranAction(int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the action of transformation between two schemas.
getTranConstraint(int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the constraint of a transformation between two schemas.
getTranFromObject(int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the schema object to be transformed in a transformation.
getTranFromSchema(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns a list of schema identifiers (SID) from which a particular schema can be derived.
getTranFunction(int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the function of a transformation between two schemas.
getTransformation(int, int) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns the transformation between two given schemas.
getTransformation(Schema, Schema) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns the transformation between two given schemas.
getTransformationBetweenSchemas(Schema, Schema) - Static method in class uk.ac.bbk.dcs.automed.evolution.EvolutionUtility
getTransformationBetweenSchemas(Schema, Schema) - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
getTransformationObject(int) - Static method in class uk.ac.ic.doc.automed.reps.SchemaObject
getTransformationPathwayLength(String, String) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
  Prints out the transformation pathway created by the schema transformation algorithm.
getTransformationProperty(int, int, String) - Static method in class uk.ac.ic.doc.automed.STR
  Transformation Property
getTransformations(Schema, Schema) - Static method in class uk.ac.bbk.dcs.automed.evolution.EvolutionUtility
getTransformations(Schema, Schema) - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
getTransformations() - Method in class uk.ac.ic.doc.automed.p2p.PathwayDescription
  XML representation of the transformations
getTransformations() - Method in class uk.ac.ic.doc.automed.reps.Pathway
  Return as an array the `Transformation`s that make up this Pathway.
getTransformations() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Return an array of all `Transformation` that go out from a particular schema.
getTransformations() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Find the set of `Transformation`s that involve this SchemaObject.
getTransformations() - Static method in class uk.ac.ic.doc.automed.reps.Transformation
getTransformations() - Static method in class uk.ac.ic.doc.automed.STR
  Returns a vector representing all transformations in the repository
getTransformationsByOBID(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the pairs of schema identifiers (SID) of all the schema transformations that involve the supplied OBID
getTransformationsFrom() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Returns an array of `Transformation`'s that have this schema as the `fromSchema` field in the transformation table of the STR.
getTransformationSteps() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.DataLineageTracing
getTransformationsTo() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Returns an array of `Transformation`'s that have this schema as the `toSchema` field in the transformation table of the STR.
getTransformationsToObject(int) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
  Get all transformations to a specific schema object
getTransfSteps(String, String) - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.TransfStep
getTransfSteps(Schema, Schema) - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.TransfStep
getTranToObject(int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns the schema object as a result of a transformation.
getTranToSchema(int) - Static method in class uk.ac.ic.doc.automed.STR
  Returns a list of schema identifiers (SID) which are derived from a particular schema.
getTree() - Method in class uk.ac.ic.doc.automed.editor.PatternWritingTool.DynamicTree
getTreeCellRendererComponent(JTree, Object, boolean, boolean, boolean, int, boolean) - Method in class uk.ac.ic.doc.automed.xmlschema.tree.IconAndTipRenderer
getTreeModel() - Method in class uk.ac.ic.doc.automed.editor.PatternWritingTool.DynamicTree
getTupleItems() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGTuple
getType() - Method in class uk.ac.bbk.dcs.automed.evolution2.ExtendedConstruct
getType() - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraphNode
getType() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
getType() - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphAttribute
getType() - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphText
getType() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractRequestListener
getType() - Method in interface uk.ac.ic.doc.automed.p2p.communication.RequestListener
  The handler type
getType() - Method in class uk.ac.ic.doc.automed.p2p.KeepAliveMessageHandler
  Return this class type
getType() - Method in class uk.ac.ic.doc.automed.p2p.UnregisterPeerMessageHandler
  Return this class type
getType() - Method in class uk.ac.ic.doc.automed.p2p.UpdateDataMessageHandler
  Return this class type
getType() - Method in class uk.ac.ic.doc.automed.reps.ModelChangeEvent
getType() - Method in class uk.ac.ic.doc.automed.reps.NetworkChangeEvent
getType() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Return the type (VIRTUAL_TYPE, STORED_TYPE, ...) of this schema..
getType() - Method in class uk.ac.ic.doc.automed.reps.SchemaChangeEvent
getType(String) - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Retrieve a specific `TypeHierarchy.TypeObject` object from this hierarchy
getType(int) - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Retrieve a specific `TypeHierarchy.TypeObject` object from this hierarchy by tid
getType() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedBoolean
getType() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedFloat
getType() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedInteger
getType() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedString
getType() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedTime
getType() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedTuple
getType() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedType
  Return the Type (INTEGER, TUPLE, ...) of this AutoMedType
getType() - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.ComplexType
  Return the type
getType() - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
  Get the type of this object
getType() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.SchemaAccessibility
getTypeCheckingState() - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
  Return the optimisation state
getTypeHierarchy() - Method in class uk.ac.ic.doc.automed.reps.Model
  Return the type hierarchy for this model
getTypeHierarchy(int) - Static method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Get the type hierarchy identified by mid or create one if none exits
getTypeHierarchyId() - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Get the unique identifier for this TypeHierarchy object This is the model id of the `Model` this hierarchy is attached to
getTypeId(int, String) - Static method in class uk.ac.ic.doc.automed.MDR
getTypeID(int, String) - Static method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
getTypeId() - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy.TypeObject
  Get the type of this object
getTypeIds() - Static method in class uk.ac.ic.doc.automed.MDR
  Get the type id of @param type_name in model @param mid
getTypeList() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.BuiltInFunction
getTypeMID(int) - Static method in class uk.ac.ic.doc.automed.MDR
getTypeName(int) - Static method in class uk.ac.ic.doc.automed.MDR
getTypeName(int) - Static method in class uk.ac.ic.doc.automed.xml.XMLToken
getTypeObjects() - Method in class uk.ac.ic.doc.automed.reps.Model
  Get a list of `TypeHierarchy` objects associated to this model
getTypeObjects() - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Get all the type objects this TypeHierarchy object
getTypesForModel(String) - Static method in class uk.ac.ic.doc.automed.MDR
  Get the complete rows of `TypeHierarchy` objects for a specific
  `Model`.
getUnicodeEscapeString(char) - Static method in class uk.ac.ic.doc.automed.xml.XMLSyntax
  useful for reporting illegle characters that may not be printable
getUnregisterRequest(String) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  A message for peer unregistering from the local registry
getUnsuccessfulMessage(AbstractMessage, String, String) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
getUpper() - Method in class uk.ac.ic.doc.automed.reps.ConstructScheme
  Returns the upper bound indicating the maximum occurence of the `ConstructScheme`.
getURI() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
getUri() - Method in class uk.ac.ic.doc.automed.wrappers.CSVWrapper
  Return the url for this wrapper
getUri() - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapper
  Return the url for this wrapper
getURL() - Method in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
  Get the URL that the P2PDirectory has this peer down as being located at.
getURL() - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Returns the URL of the database to which the access method connects.
getUser() - Method in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
getUsername() - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Returns the username used for connecting to the database.
getUserName() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.AuthenticationTuple
getUserName() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
getUseSplitCDATA() - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
  due to optimization, writeCDATA() doesn't use the XMLSyntax.splitCDATA() for debug purposes you may want to make it use splitData
getUSRs() - Method in class uk.ac.ic.doc.automed.matching.modules.AbstractModule
getValue() - Method in class uk.ac.ic.doc.automed.matching.Instance
  Returns the value of this instance.
getValue(int) - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerTableModel
getValue() - Method in class uk.ac.ic.doc.automed.p2p.tree.Field
getValue() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Returns the name/value of the schema object.
getValue() - Method in class uk.ac.ic.doc.automed.ssd.Pattern
getValueAt(int, int) - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerTableModel
getValueObject() - Method in class uk.ac.ic.doc.automed.util.persist.PersistentValue
  Return the actual object
getValuePosInScheme() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Returns the position in the construct's scheme where the construct's name is, i.e.
getValueRange(List) - Static method in class uk.ac.ic.doc.rodex.qproc.QueryFunction
  Get a value range for a set of query functions
  This method supports two types of query expressions: numeric and literal
getValueRange(QuerySubGoal) - Method in class uk.ac.ic.doc.rodex.qproc.RangeBasedQueryRewriter
  Get a value range for a query sub-goal in the query based on the functions associated to this sub-goal.
getValueRange(QueryVariable) - Method in class uk.ac.ic.doc.rodex.qproc.RangeBasedQueryRewriter
  Get a value range for query variable in the query based on the functions associated to this variable.
getVarAndSchemaInsideList(Cell) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
getVarAndSchemaInsideTuple(Cell) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
getVarAsMap() - Method in class uk.ac.bbk.dcs.automed.wrappers.IQLTranslator
getVarConsMap() - Method in class uk.ac.bbk.dcs.automed.wrappers.IQLTranslator
getVariable() - Method in class uk.ac.ic.doc.rodex.qproc.QueryFunction
getVariableMappings(QueryVariable) - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
  Check if a query variable is mappable to one of the variables of the query
  If mappings found, return them in a `List`
getVariables() - Method in class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
  Query's head variables
getVarMap(boolean) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehension
getVertexComponent(Positionable) - Method in class uk.ac.ic.doc.automed.editor.EditorPanel
getVertexComponent(Positionable) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
  Get a JComponent that is the visualisation of a class that implements the `Positionable` interface
getVertexDrawable(Positionable) - Method in class uk.ac.ic.doc.automed.editor.EditorPanel
getVertexDrawable() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Returns the name of the class implementing drawable that should be used to draw nodal elements of this construct.
getView() - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter.MiniConDescription
  Return the original ASG object of the view
getViewAsString() - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter.MiniConDescription
  Return the view rule to which this MCD is associated
getViewMap() - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.AtomicViewMap
getViewMap() - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.CompositeViewMap
getViewSet(int) - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
  Return a view set at a specified index.
getViewSets() - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
  Return the entire sets of view sets
getViewSubGoals() - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter.MiniConDescription
  Returns the complete set of sub-goals of the associated view
getVirtualHosts() - Method in class uk.ac.ic.doc.automed.p2p.overlay.OverlayController
getVirtualSource() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.TransfStep
getvSources() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.TransfStep
getWeakestRelationship(SemanticRelationship[]) - Static method in class uk.ac.ic.doc.automed.matching.RelationshipExtractor
  Returns the weakest relationship of the specified relationships.
getWellformedErrorMsg() - Method in class uk.ac.ic.doc.automed.reps.Pathway
getWorkersNumber() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractDaemon
getWrapper() - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Returns the wrapper used for connecting to the database.
getWrapperSchema() - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapper
getXMLDocument() - Method in class uk.ac.ic.doc.automed.p2p.messages.abstractlayer.AbstractMessage
getXMLDocument() - Method in class uk.ac.ic.doc.automed.p2p.tree.Root
getXMLDocument() - Method in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
  Build a simple XML document for this node.
getXMLDocumentString(Document) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  Convert an XML document structure in to a printable string
getXMLDSS(String) - Static method in class uk.ac.bbk.dcs.automed.xml.wrappers.NXDBSchemaManager
getXMLDSS() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
getXMLDSSDoc(String, String) - Static method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSFromDTD
getXMLDSSDoc(String, String, String) - Static method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSFromXMLSchema
getXMLDSSDOM(String, XMLWrapperFactory, boolean) - Static method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSDOM
getXMLDSSExtractionMethod() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapperFactory
getXMLDSSFromAMSchema(Schema) - Static method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSFromAMSchema
getXMLDSSNXDB(NXDBWrapper, XMLWrapperFactory) - Static method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSNXDB
getXMLDSSSAX(String, XMLWrapperFactory, boolean) - Static method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSSAX
getXMLDSSSchema() - Method in class uk.ac.bbk.dcs.automed.xml.relational.XMLDSSFromRDB
getXMLInfo() - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapper
  Return the xmlInfo object for this schema instance
getXMLModel() - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
  Creates the XML Model in the AutoMed Repository (MDR).
getXMLNode(Document) - Method in class uk.ac.ic.doc.automed.p2p.tree.AutoMedObject
getXMLNode(Document) - Method in class uk.ac.ic.doc.automed.p2p.tree.CollectionSet
getXMLNode(Document) - Method in class uk.ac.ic.doc.automed.p2p.tree.Field
getXMLNode(Document) - Method in class uk.ac.ic.doc.automed.p2p.tree.MainObjectClasses
getXMLNode(Document) - Method in class uk.ac.ic.doc.automed.p2p.tree.ObjectCollection
getXMLNode(Document) - Method in class uk.ac.ic.doc.automed.p2p.tree.Reference
getXMLNode(Document) - Method in class uk.ac.ic.doc.automed.p2p.tree.Root
getXMLNode(Document) - Method in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
getXMLNode(Document) - Method in class uk.ac.ic.doc.automed.p2p.tree.Value
getXMLNode(Document) - Method in class uk.ac.ic.doc.automed.p2p.tree.ValueList
getXMLString() - Method in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
  Similar to `TreeNode.getXMLDocument()` but returns the XML string of the document
getXMLVersioni() - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
getXPos() - Method in interface uk.ac.ic.doc.automed.editor.Positionable
getXPos() - Method in class uk.ac.ic.doc.automed.reps.Construct
getXPos() - Method in class uk.ac.ic.doc.automed.reps.Model
getXPos() - Method in class uk.ac.ic.doc.automed.reps.Network
getXPos() - Method in class uk.ac.ic.doc.automed.reps.Schema
getXPos() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
getXSD() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSDOMFromXSD
getYattaRootNode(Schema) - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapper
getYear() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
getYourAddress() - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
getYPos() - Method in interface uk.ac.ic.doc.automed.editor.Positionable
getYPos() - Method in class uk.ac.ic.doc.automed.reps.Construct
getYPos() - Method in class uk.ac.ic.doc.automed.reps.Model
getYPos() - Method in class uk.ac.ic.doc.automed.reps.Network
getYPos() - Method in class uk.ac.ic.doc.automed.reps.Schema
getYPos() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
GLOBAL - Static variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
GQP - Class in uk.ac.bbk.dcs.automed.qproc
  The GQP component coordinates the various global query processor components.
GQP() - Constructor for class uk.ac.bbk.dcs.automed.qproc.GQP
  Deprecated. use `OldQueryProcessor` instead
GQP(Schema, Schema[]) - Constructor for class uk.ac.bbk.dcs.automed.qproc.GQP
  Deprecated. use `OldQueryProcessor` instead
GQPFormatter - Class in uk.ac.bbk.dcs.automed.qproc
  MyCustomFormatter formats the LogRecord as follows: date level localized message with parameters
GQPFormatter() - Constructor for class uk.ac.bbk.dcs.automed.qproc.GQPFormatter
GraphException - Exception in uk.ac.bbk.dcs.automed.graph
  An exception relating to the Graph package.
GraphException(String) - Constructor for exception uk.ac.bbk.dcs.automed.graph.GraphException
GraphException(String, Exception) - Constructor for exception uk.ac.bbk.dcs.automed.graph.GraphException
  Creates an XMLException when it is acting as a wrapper for other Exceptions.
graphToForest(Forest) - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraph
  This method first divides a given graph into subGraphs.
Greater - Class in uk.ac.bbk.dcs.automed.qproc.functions.comparison
Greater() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.comparison.Greater
GREATER_THAN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
GREATER_THAN_EQUALS - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
GreaterEqual - Class in uk.ac.bbk.dcs.automed.qproc.functions.comparison
GreaterEqual() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.comparison.GreaterEqual
GREATERTHAN - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLQuery
GREATERTHANEQUAL - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLQuery
Group - Class in uk.ac.bbk.dcs.automed.qproc.functions.comparison
Group() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.comparison.Group
GroupCompute - Class in uk.ac.bbk.dcs.automed.qproc.functions.comparison
GroupCompute() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.comparison.GroupCompute
grouplist(String) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.ModifiedArray
Gui - Class in uk.ac.ic.doc.automed.editor
  Provide a GUI into the AutoMed repositories.
Gui(InputStream) - Constructor for class uk.ac.ic.doc.automed.editor.Gui
gui - Static variable in class uk.ac.ic.doc.automed.editor.Gui
Gui.EditorFrame - Class in uk.ac.ic.doc.automed.editor
  A frame inside the main window to represent either All Networks, the contents of a Network (ie a connect seted of Schemas), or the contents of a Schema.
GuiApplication - Class in uk.ac.ic.doc.rodex.p2p.gui
GuiApplication(PeerApplication, InputStream) - Constructor for class uk.ac.ic.doc.rodex.p2p.gui.GuiApplication
  Creates a new instance of GuiApplication
GUITool - Class in uk.ac.ic.doc.automed.editor
  A GUITool instance provides a window in which as user make interact with the repository.
GUITool(String) - Constructor for class uk.ac.ic.doc.automed.editor.GUITool
GUITool(String, boolean, Object) - Constructor for class uk.ac.ic.doc.automed.editor.GUITool
  Create a new window that follows the AutoMed GUITool conventions.
GUITool() - Constructor for class uk.ac.ic.doc.automed.editor.GUITool

## H

handleAction() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractClient
  Handle thread's interrupted action
handleAction() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractServer
  Handle thread's interrupted action
handleAction() - Method in class uk.ac.ic.doc.automed.p2p.communication.TCPClient
  Handle thread's interrupted action
handleAction() - Method in class uk.ac.ic.doc.automed.p2p.communication.TCPServer
  Handle actions
handleAction() - Method in class uk.ac.ic.doc.automed.p2p.communication.UDPClient
  Handle thread's interrupted action
handleAction() - Method in class uk.ac.ic.doc.automed.p2p.communication.UDPServer
  Handle actions
handleAction() - Method in class uk.ac.ic.doc.automed.p2p.directory.FlushTimeHelper
  Implements `Theadable` interface.
handleAction() - Method in class uk.ac.ic.doc.automed.p2p.directory.HelloTimeHelper
  Implements `Theadable` interface.
handleAction() - Method in class uk.ac.ic.doc.automed.p2p.directory.HoldTimeHelper
  Implements `Theadable` interface.
handleAction() - Method in class uk.ac.ic.doc.automed.util.queue.QueueWorker
handleAction() - Method in interface uk.ac.ic.doc.automed.util.thread.Threadable
handleJob(Job) - Method in class uk.ac.ic.doc.automed.p2p.directory.FlushTimeHelper
  Implement `JobHandler` interface.
  This method is invoked by every job thread to handle job
handleJob(Job) - Method in class uk.ac.ic.doc.automed.p2p.directory.HelloTimeHelper
  Implement `JobHandler` interface.
  This method is invoked by every job thread to handle job
handleJob(Job) - Method in class uk.ac.ic.doc.automed.p2p.directory.HoldTimeHelper
  Implement `JobHandler` interface.
  This method is invoked by every job thread to handle job
handleJob(Job) - Method in interface uk.ac.ic.doc.automed.util.queue.JobHandler
handler - Variable in class uk.ac.ic.doc.automed.p2p.communication.AbstractClient
handleRequest(byte[], ResponseHandler) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Implements the method for handling network requests from other peers.
handleRequest(ResponseHandler) - Method in class uk.ac.ic.doc.automed.p2p.BrokerRequestReceiver
handleRequest(byte[], ResponseHandler) - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractRequestListener
  Handle both TCP and UDP requests
handleRequest() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractRequestListener
  Deprecated. use `AbstractRequestListener.handleRequest(byte[] dataReceived, ResponseHandler outputHandler)` instead
handleRequest(byte[], OutputStream) - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractRequestListener
  Deprecated. use `AbstractRequestListener.handleRequest(byte[] dataReceived, ResponseHandler outputHandler)` instead
handleRequest(byte[]) - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractRequestListener
  Deprecated. use `AbstractRequestListener.handleRequest(byte[] dataReceived, ResponseHandler outputHandler)` instead
handleRequest(byte[], ResponseHandler) - Method in interface uk.ac.ic.doc.automed.p2p.communication.RequestListener
  An unified handler method for both UDP and TCP protocols
handleRequest(byte[], OutputStream) - Method in interface uk.ac.ic.doc.automed.p2p.communication.RequestListener
  Deprecated. use `RequestListener.handleRequest(byte[] dataReceived, ResponseHandler outputHandler)` instead
handleRequest(byte[]) - Method in interface uk.ac.ic.doc.automed.p2p.communication.RequestListener
  Deprecated. use `RequestListener.handleRequest(byte[] dataReceived, ResponseHandler outputHandler)` instead
handleRequest(byte[], ResponseHandler) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
  Handle requests from peers
handleRequest(byte[], ResponseHandler) - Method in class uk.ac.ic.doc.automed.p2p.KeepAliveMessageHandler
  Handle keep-alive response
handleRequest(byte[], ResponseHandler) - Method in class uk.ac.ic.doc.automed.p2p.P2PRegistry
handleRequest(byte[], ResponseHandler) - Method in class uk.ac.ic.doc.automed.p2p.SimpleMessageHandler
handleRequest(byte[], ResponseHandler) - Method in class uk.ac.ic.doc.automed.p2p.UpdateDataMessageHandler
  Overrides `AbstractRequestListener` method to handler TCP response
HandlerNotFoundException - Exception in uk.ac.ic.doc.automed.p2p
HandlerNotFoundException(String) - Constructor for exception uk.ac.ic.doc.automed.p2p.HandlerNotFoundException
  Creates a new instance of HandlerNotFoundException
handleUDPRequest(byte[]) - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractRequestListener
  Deprecated. use `AbstractRequestListener.handleRequest(byte[] dataReceived, ResponseHandler outputHandler)` instead
handleUDPRequest(String, int, byte[]) - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractRequestListener
  Deprecated. use `AbstractRequestListener.handleRequest(byte[] dataReceived, ResponseHandler outputHandler)` instead
handleUDPRequest(InetAddress, int, byte[]) - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractRequestListener
  Deprecated. use `AbstractRequestListener.handleRequest(byte[] dataReceived, ResponseHandler outputHandler)` instead
handleUDPRequest(byte[]) - Method in interface uk.ac.ic.doc.automed.p2p.communication.RequestListener
  Deprecated. use `RequestListener.handleRequest(byte[] dataReceived, ResponseHandler outputHandler)` instead
handleUDPRequest(String, int, byte[]) - Method in interface uk.ac.ic.doc.automed.p2p.communication.RequestListener
  Deprecated. use `RequestListener.handleRequest(byte[] dataReceived, ResponseHandler outputHandler)` instead
handleUDPRequest(InetAddress, int, byte[]) - Method in interface uk.ac.ic.doc.automed.p2p.communication.RequestListener
  Deprecated. use `RequestListener.handleRequest(byte[] dataReceived, ResponseHandler outputHandler)` instead
hasChild(AutoLayoutPositionable) - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSchemaObject
  Function return true if array returned by getSchemaObjectsToLayout() contain u.
hasConstants() - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
  A quick check whether there are constants in the query
hasField(String) - Method in class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
  Check that it contains a field
hasFunctions(QueryVariable) - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
  Test if a `QueryVariable` has any associated functions
hash(String, int) - Method in class uk.ac.ic.doc.automed.util.hashing.OrderPreservedHashing
  Hash a
hash(String, int) - Method in interface uk.ac.ic.doc.automed.util.hashing.StringHash
hashCode() - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.ViewKey
hashCode() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
  Returns a hash code for this `SchemaElement` object.
hashCode() - Method in class uk.ac.ic.doc.automed.matching.SchemaElementPair
hashCode() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer.PeerProcessDescription
hashCode() - Method in class uk.ac.ic.doc.automed.p2p.directory.ModelDescription
hashCode() - Method in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
hashCode() - Method in class uk.ac.ic.doc.automed.p2p.directory.SchemaDescription
hashCode() - Method in class uk.ac.ic.doc.automed.reps.PersistentKey
hashCode() - Method in class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
  Override the `Object.hashCode()` method for use in a collection.
  Basically this method helps produces unique key for a `QuerySubGoal`
  object when it is stored in a collection, such as `HashTable/code>
  `
hasNext() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGCollectionIterator
hasNext() - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
  Implements mandatory methods of the `ListIterator` interface
hasNext() - Method in class uk.ac.ic.doc.automed.util.db.DBResultSet
  is there a next record?
hasObject(SchemaObject) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Determines if the schema contains the given schema object.
hasTextNodes(Element) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
hasUnequalConstantsInTwoTupes(Cell, Cell) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
hdm_constraint - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
hdm_edge - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
HDM_EDGE_CONS_TYPE - Static variable in class uk.ac.ic.doc.automed.wrappers.Constants
HDM_EDGE_CONS_TYPE - Static variable in class uk.ac.ic.doc.automed.wrappers.HDMWrapperFactory
HDM_MODEL_ID - Static variable in class uk.ac.ic.doc.automed.wrappers.Constants
  HDM constants (originally declared in HDMWrapperFactory class
HDM_MODEL_NAME - Static variable in class uk.ac.ic.doc.automed.wrappers.Constants
HDM_MODEL_NAME - Static variable in class uk.ac.ic.doc.automed.wrappers.HDMWrapperFactory
HDM_MODEL_PREFIX - Static variable in class uk.ac.ic.doc.automed.wrappers.Constants
HDM_MODEL_PREFIX - Static variable in class uk.ac.ic.doc.automed.wrappers.HDMWrapperFactory
hdm_node - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
HDM_NODE_CONS_TYPE - Static variable in class uk.ac.ic.doc.automed.wrappers.Constants
HDM_NODE_CONS_TYPE - Static variable in class uk.ac.ic.doc.automed.wrappers.HDMWrapperFactory
hdm_none - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
hdm_reference - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
HDM_TYPE_ANY - Static variable in class uk.ac.ic.doc.automed.reps.TypeHierarchy
HDM_TYPE_BOOL - Static variable in class uk.ac.ic.doc.automed.reps.TypeHierarchy
HDM_TYPE_C - Static variable in class uk.ac.ic.doc.automed.reps.Scheme
  Scheme relates to a constraint sentence in HDM
HDM_TYPE_E - Static variable in class uk.ac.ic.doc.automed.reps.Scheme
  Scheme relates to edge name in HDM when instantiating the containing construct, this scheme position takes the name of the new edge to be created in HDM
HDM_TYPE_FLOAT - Static variable in class uk.ac.ic.doc.automed.reps.TypeHierarchy
HDM_TYPE_INTEGER - Static variable in class uk.ac.ic.doc.automed.reps.TypeHierarchy
HDM_TYPE_MAXIMUM - Static variable in class uk.ac.ic.doc.automed.reps.Scheme
HDM_TYPE_MINIMUM - Static variable in class uk.ac.ic.doc.automed.reps.Scheme
HDM_TYPE_N - Static variable in class uk.ac.ic.doc.automed.reps.Scheme
  Scheme relates to node name in HDM.
HDM_TYPE_N1 - Static variable in class uk.ac.ic.doc.automed.reps.Scheme
  Deprecated.
HDM_TYPE_N2 - Static variable in class uk.ac.ic.doc.automed.reps.Scheme
  Deprecated.
HDM_TYPE_NUMERIC - Static variable in class uk.ac.ic.doc.automed.reps.TypeHierarchy
HDM_TYPE_OID - Static variable in class uk.ac.ic.doc.automed.reps.TypeHierarchy
HDM_TYPE_P1 - Static variable in class uk.ac.ic.doc.automed.reps.Scheme
  Deprecated.
HDM_TYPE_P2 - Static variable in class uk.ac.ic.doc.automed.reps.Scheme
  Deprecated.
HDM_TYPE_R - Static variable in class uk.ac.ic.doc.automed.reps.Scheme
  Scheme relates to node or edge name/s in HDM and to other Construct/s in the automed.reps API.
HDM_TYPE_STRING - Static variable in class uk.ac.ic.doc.automed.reps.TypeHierarchy
HDM_TYPE_Z - Static variable in class uk.ac.ic.doc.automed.reps.Scheme
  Scheme has no HDM representation
HdmStore - Class in uk.ac.bbk.dcs.automed.hdmstore
  A HdmStore allows data to be stored and queried in an HDM repository which is implemented in a Postgres databas).
HdmStore() - Constructor for class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Default constructor assumes only error messages should be displayed (not debugs)
HdmStore(Debug) - Constructor for class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Constructor is passed debug class to send debug & error messages to
HdmStoreCmd - Class in uk.ac.bbk.dcs.automed.hdmstore
  A command line processor for the HDM store which can be used as an alternative to the API..
HdmStoreCmd(String[]) - Constructor for class uk.ac.bbk.dcs.automed.hdmstore.HdmStoreCmd
  Construct a HdmStoreCmd and process the command line arguments
HdmStoreException - Exception in uk.ac.bbk.dcs.automed.hdmstore
  The class of exceptions generated by `DataSourceRepository`.
HdmStoreException(String) - Constructor for exception uk.ac.bbk.dcs.automed.hdmstore.HdmStoreException
hdmStoreExists(String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Is there an HDM store with the passed name in the repository?
HDMToHighLevel - Class in uk.ac.ic.doc.automed.reps
  A class to do HDM to high level model transformations
HDMToHighLevel(Schema) - Constructor for class uk.ac.ic.doc.automed.reps.HDMToHighLevel
  Creates a new instance of XMLSchemaTransform
hdmToHighLevelTypeLookup(String) - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Method to return the high level type in model @param mid equivalent to the HDM type @param hdmTypeName
hdmToRelational() - Method in class uk.ac.ic.doc.automed.reps.HDMToHighLevel
  Transform the HDM elements in this schema into relational elements
hdmToSQL(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
  Converts an HDM model to SQL
hdmToXML(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
  Converts an HDM model to XML
hdmToXMLSchema() - Method in class uk.ac.ic.doc.automed.reps.HDMToHighLevel
  Transform the HDM elements in this schema into XMLSchema elements
HDMTransformations - Class in uk.ac.ic.doc.automed.reps
HDMTransformations(Schema) - Constructor for class uk.ac.ic.doc.automed.reps.HDMTransformations
  Creates a new instance of HDMTransformations
HdmWrapper - Class in uk.ac.bbk.dcs.automed.hdmstore
  A Wrapper for the HDM data store.
HdmWrapper(AccessMethod, String) - Constructor for class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapper
HDMWrapper - Class in uk.ac.ic.doc.automed.wrappers
  A Wrapper for the HDM data store.
HDMWrapper(AccessMethod, String) - Constructor for class uk.ac.ic.doc.automed.wrappers.HDMWrapper
HdmWrapperFactory - Class in uk.ac.bbk.dcs.automed.hdmstore
HdmWrapperFactory() - Constructor for class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapperFactory
HDMWrapperFactory - Class in uk.ac.ic.doc.automed.wrappers
HDMWrapperFactory() - Constructor for class uk.ac.ic.doc.automed.wrappers.HDMWrapperFactory
  Creates a new instance of the HDMWrapperFactory
head - Variable in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehension
headPattern - Variable in class uk.ac.bbk.dcs.automed.wrappers.IQLTranslator
HELLO - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  Context: hello peer
HELLO_ACK - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
HelloAckMsg - Class in uk.ac.ic.doc.rodex.p2p.messages.applicationlayer
  HelloAckMsg.java
  The Hello acknowledgement message
HelloAckMsg(String, String, String, int, AuthenticationTuple) - Constructor for class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloAckMsg
  Creates a new instance of HelloMsg
HelloAckMsg(String, String, String) - Constructor for class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloAckMsg
HelloMsg - Class in uk.ac.ic.doc.rodex.p2p.messages.applicationlayer
  HelloMsg.java
  The Hello message exchanged between peers
HelloMsg(String, String, String, int, AuthenticationTuple) - Constructor for class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
  Creates a new instance of HelloMsg
HelloMsg(String, String, String) - Constructor for class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
HelloTimeHelper - Class in uk.ac.ic.doc.automed.p2p.directory
HelloTimeHelper(Queue, P2PDirectory) - Constructor for class uk.ac.ic.doc.automed.p2p.directory.HelloTimeHelper
  Creates a new instance of HoldTimeHelper
helpGetCurrentModel - Static variable in class uk.ac.ic.doc.automed.editor.Editor
helpHelp - Static variable in class uk.ac.ic.doc.automed.editor.CommandLineDriver
helpSyntax - Static variable in class uk.ac.ic.doc.automed.editor.CommandLineDriver
HEP - Class in uk.ac.ic.doc.rodex.p2p.protocol
  HEP.java
  llo Protocol is used by peers and directory service peers to discover each other on the network.
hid(String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Given an HDM store name return its row id number (or -1 if it does not exist)
hid() - Method in class uk.ac.bbk.dcs.automed.hdmstore.Span
  Get the hid
hide() - Method in class uk.ac.ic.doc.automed.editor.DetachedTextEditor
  Hide the text editor dialog
hide(Object) - Method in class uk.ac.ic.doc.automed.editor.Gui
  Hide an object from the GUI, such that is does not display it in any of its graphical views of the repository.
hideConstruct(Construct) - Method in class uk.ac.ic.doc.automed.editor.Gui
  Prevent the GUI from displaying any `SchemaObject` of a certain `Construct` type in any window.
hideConstructs(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
  Gui menu handler to access `#hideConstruct()`.
hideInternalSeperators(String) - Static method in class uk.ac.bbk.dcs.automed.hdmstore.Edge
  Remove commas that are not at the 'top level' e.g.
hideInternalSpaces(String) - Static method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStoreCmd
  Change any spaces within an edge thats a span to another character
hideModel(Model) - Method in class uk.ac.ic.doc.automed.editor.Gui
  Prevent the GUI from displaying any `SchemaObject` of a certain `Model` type in any window.
hideModels(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
  Gui menu handler to access `#hideModel()`.
hidePositionable(Positionable) - Method in class uk.ac.ic.doc.automed.editor.Gui
  Prevent the GUI from displaying a `Positionable`
hidePositionables(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
  Gui menu handler to access `#hidePositionable()`, calling that method for each `Positionable` passed.
highLevelToHDM(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
  Converts any high level model to HDM
HighLevelToHDM - Class in uk.ac.ic.doc.automed.reps
  Class to convert any high level schema into an equivalent HDM schema
HighLevelToHDM(Schema) - Constructor for class uk.ac.ic.doc.automed.reps.HighLevelToHDM
  Creates a new instance of HighLevelToHDM
highLevelToHDMTypeLookup(int) - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Method to return the name of the HDM type equivalent to to the high level type @param tid
HoldTimeHelper - Class in uk.ac.ic.doc.automed.p2p.directory
HoldTimeHelper(Queue, P2PDirectory, HelloTimeHelper) - Constructor for class uk.ac.ic.doc.automed.p2p.directory.HoldTimeHelper
  Creates a new instance of HoldTimeHelper
host - Variable in class uk.ac.ic.doc.automed.p2p.AutoMedPeer.PeerProcessDescription
hostname - Variable in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
HOUR - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedTime
  Granularity of one hour
HsqldbWrapper - Class in uk.ac.ic.doc.automed.wrappers
  A lower level wrapper for the conforming to the AutoMed SQL high level wrapper for HSQLDB databases.
HsqldbWrapper() - Constructor for class uk.ac.ic.doc.automed.wrappers.HsqldbWrapper
HsqldbWrapper(AccessMethod, String) - Constructor for class uk.ac.ic.doc.automed.wrappers.HsqldbWrapper
  Generate a new wrapper instance from information held in the repository about how to access a data source.
HsqldbWrapperFactory - Class in uk.ac.ic.doc.automed.wrappers
  A lower level wrapper factory for Hsqldb SQL databases conforming to the AutoMed SQL high level wrapper factory.
HsqldbWrapperFactory() - Constructor for class uk.ac.ic.doc.automed.wrappers.HsqldbWrapperFactory
hyphen - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token

## I

icon - Variable in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
  The icon for this object in the Schema Editor
IconAndTipCarrier - Interface in uk.ac.ic.doc.automed.xmlschema.tree
IconAndTipRenderer - Class in uk.ac.ic.doc.automed.xmlschema.tree
IconAndTipRenderer(Icon, Icon, Icon) - Constructor for class uk.ac.ic.doc.automed.xmlschema.tree.IconAndTipRenderer
id() - Method in class uk.ac.bbk.dcs.automed.hdmstore.Span
  Get the id
Id - Class in uk.ac.bbk.dcs.automed.qproc.functions
Id() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Id
ID - Static variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
id - Variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
ident - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
identifier - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
IDENTIFIER_TOKEN - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
identifierSafe(String) - Static method in class uk.ac.ic.doc.automed.reps.Syntax
identifySubGraphs() - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraph
  Discovers the subGraphs in the graph
IdentToken - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.FSym
idNodeExpand(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
  Performs an id Node expand
idNodeExpand(SchemaObject) - Method in class uk.ac.ic.doc.automed.reps.HDMTransformations
  The reverse of an id node merge.
idNodeMerge(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
  Performs an id Node merge
idNodeMerge(SchemaObject) - Method in class uk.ac.ic.doc.automed.reps.HDMTransformations
  ID node merge.
If - Class in uk.ac.bbk.dcs.automed.qproc.functions.logical
If() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.logical.If
IF - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
IGNORABLE_WHITESPACE - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
ignorableWhitespace(char[], int, int) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
IlegleXMLCharacterException - Exception in uk.ac.ic.doc.automed.xml
IlegleXMLCharacterException(String) - Constructor for exception uk.ac.ic.doc.automed.xml.IlegleXMLCharacterException
IllegalOperationException - Exception in uk.ac.ic.doc.automed.reps
IllegalOperationException(String) - Constructor for exception uk.ac.ic.doc.automed.reps.IllegalOperationException
IllegalOperationException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.reps.IllegalOperationException
IllegalReplyException - Exception in uk.ac.ic.doc.automed.p2p
IllegalReplyException() - Constructor for exception uk.ac.ic.doc.automed.p2p.IllegalReplyException
IllegalReplyException(String, String) - Constructor for exception uk.ac.ic.doc.automed.p2p.IllegalReplyException
image - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Token
  The string image of the token.
image - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.Token
  The string image of the token.
image - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.Token
  The string image of the token.
image - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.Token
  The string image of the token.
image - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.Token
  The string image of the token.
implementSchema(String, String) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
importanceLevel(SchemaObject) - Static method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayout
importConstructs(InputStream) - Method in class uk.ac.ic.doc.automed.reps.Model
importFile() - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
importFile() - Method in class uk.ac.ic.doc.automed.editor.Gui
importMenuItem - Variable in class uk.ac.ic.doc.automed.editor.Gui
importSchemaObjects(InputStream) - Method in class uk.ac.ic.doc.automed.reps.Schema
importSchemes(InputStream) - Method in class uk.ac.ic.doc.automed.reps.Construct
importTransformations(InputStream) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
importTransformations(InputStream, String) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
In - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
IN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
inBuf - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
inBuf - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
inBuf - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
inBuf - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
inBuf - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
inclusionExpand(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
  Performs an inclusion expand
inclusionExpand(SchemaObject, SchemaObject) - Method in class uk.ac.ic.doc.automed.reps.HDMTransformations
  Inclusion expand transformation
inclusionMerge(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
  Performs an inclusion merge
inclusionMerge(SchemaObject, SchemaObject) - Method in class uk.ac.ic.doc.automed.reps.HDMTransformations
  Inclusion merge transformation
Incompatibility - Class in uk.ac.ic.doc.automed.matching.relationships
  The Incompatibility class represent the lack of any compatible semantic relationship between `SchemaElement` objects.
IncompleteMessageException - Exception in uk.ac.ic.doc.automed.p2p.messages.abstractlayer
IncompleteMessageException() - Constructor for exception uk.ac.ic.doc.automed.p2p.messages.abstractlayer.IncompleteMessageException
IncompleteMessageException(String) - Constructor for exception uk.ac.ic.doc.automed.p2p.messages.abstractlayer.IncompleteMessageException
IncompleteMessageException(Throwable) - Constructor for exception uk.ac.ic.doc.automed.p2p.messages.abstractlayer.IncompleteMessageException
IncompleteMessageException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.p2p.messages.abstractlayer.IncompleteMessageException
InconsistentException - Exception in uk.ac.ic.doc.automed
  A manipulation of the repository that should always succeed has failed.
InconsistentException(String) - Constructor for exception uk.ac.ic.doc.automed.InconsistentException
InconsistentException(String, Exception) - Constructor for exception uk.ac.ic.doc.automed.InconsistentException
  Creates an InconsistentException when it is acting as a wrapper for other Exceptions.
indeces - Static variable in class uk.ac.ic.doc.automed.matching.SchemaElementPairRelationship
INDENT - Static variable in class uk.ac.ic.doc.automed.editor.DrawNetwork
INDEX - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Compatibility
INDEX - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Disjointness
INDEX - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Equivalence
INDEX - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Incompatibility
INDEX - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Overlapness
INDEX - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Subset
INDEX - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Superset
INDEX - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
  A feature option to model SQL Indexes in any `Schema` the factory generates
IndexOf - Class in uk.ac.bbk.dcs.automed.qproc.functions.string
  Class Task Description
IndexOf() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.string.IndexOf
indexOf(Schema) - Method in class uk.ac.ic.doc.automed.reps.Pathway
  Returns the index of a given `Schema` within the pathway.
INF_QLTY_COMPLETE - Static variable in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
  complete answer
INF_QLTY_PARTIAL - Static variable in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
  partial answer
info(String) - Static method in class uk.ac.ic.doc.automed.util.Logger
info(Class, String, String) - Static method in class uk.ac.ic.doc.automed.util.Logger
  Overloading method to display more information about a message
inform(JFrame, String, String) - Static method in class uk.ac.ic.doc.automed.p2p.gui.P2PGui
informSuccess(JFrame) - Static method in class uk.ac.ic.doc.automed.p2p.gui.P2PGui
init() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractDaemon
init() - Method in class uk.ac.ic.doc.automed.p2p.communication.MulticastServer
  Customise init method to use `MutltiCastSocket`
init() - Method in class uk.ac.ic.doc.automed.p2p.communication.UDPServer
  Initialises the UDP server socket and a `JobHandler` queue to handle messages received by this socket.
init_actions() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.EnvParser
  Action encapsulation object initializer.
init_actions() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.QParser
  Action encapsulation object initializer.
initAuthentication() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Initialise the authentication module
initAutoLayoutObjsTable(Schema) - Static method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutERObject
initAutoLayoutPositionablesTable(Schema) - Static method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutPositionable
  Initialize internal HashMap.
initAutoLayoutPositionablesTable(Schema) - Static method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSchemaObject
initAutoLayoutPositionablesTable(Schema) - Static method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSpringObject
initAutoLayoutPositionablesTable(Schema) - Static method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutTreeObject
initButtons() - Method in class uk.ac.ic.doc.automed.p2p.gui.AllSchemasFrame
initButtons() - Method in class uk.ac.ic.doc.automed.p2p.gui.MySchemasFrame
initButtons() - Method in class uk.ac.ic.doc.automed.p2p.gui.SchemaInfoFrame
initComponents() - Method in class uk.ac.ic.doc.automed.p2p.gui.LoginFrame
initDirectory() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  This special method offers the flexibility of starting a `P2PDirectory`
  object for and 'attaching' it to a peer.
initDirectoryPeerHello() - Method in class uk.ac.ic.doc.rodex.p2p.protocol.HEP
  Initialise hello process for directory service peer
initDirectoryPeerHello(DirectoryServicePeer) - Method in class uk.ac.ic.doc.rodex.p2p.protocol.HEP
  Initialise hello process for directory service peer.
initDirectoryRepository() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  This method allows a peer to indirectly re-initialises the directory repository
  used by the peer's `P2PDirectory` instance
initDirectoryRepository() - Method in class uk.ac.ic.doc.rodex.p2p.DirectoryServicePeer
  This method allows a peer to indirectly re-initialises the directory repository
  used by the peer's `P2PDirectory` instance
initGui() - Method in class uk.ac.ic.doc.automed.p2p.gui.LoginFrame
initGui(JButton[]) - Method in class uk.ac.ic.doc.automed.p2p.gui.MainFrame
initGui() - Method in class uk.ac.ic.doc.rodex.p2p.gui.LoginGui
initHelloProtocol() - Method in class uk.ac.ic.doc.rodex.p2p.DirectoryServicePeer
  Intialise the hello protocol for directory service
initHelloProtocol() - Method in class uk.ac.ic.doc.rodex.p2p.Peer
  Initialise the hello protocol based on the role of this peer on the network.
initialise() - Method in class uk.ac.bbk.dcs.automed.wrappers.IQLTranslator
initialise() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.IQL2XQuery
initialiseCache() - Method in class uk.ac.ic.doc.automed.p2p.PeerCache
initialiseDB() - Method in class uk.ac.ic.doc.automed.tests.p2p.TestDBProcess
initialiseGui() - Method in class uk.ac.ic.doc.automed.editor.Gui
initialiseGui() - Method in class uk.ac.ic.doc.rodex.p2p.gui.GuiApplication
initialisePerformanceVars() - Method in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
initialisePerfVars() - Static method in class uk.ac.bbk.dcs.automed.qproc.functions.internal.CallToWrapper
initialiseRepository(String) - Static method in class uk.ac.ic.doc.automed.editor.layout.RootLayout
initialiseRepository() - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
  A method that indirectly causes the directory repository to be initialised
  .
initialiseRepository() - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
initialiseRepository(String) - Static method in class uk.ac.ic.doc.automed.reps.Utility
  Used by `Utility.initRepository()` to initialise a particulare data source
initialiseWrapper(AccessMethod, String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
initializeMyGraph(ExpandedArrayList) - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSchemaObject
initMessagingPeer() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Start the messaging clients in the background
initModel(AutoMedObject, boolean) - Method in class uk.ac.ic.doc.automed.p2p.tree.ModelObjectBuilder
  An overloading method to initialise a new `Model` object.
initMulticastDaemon(RequestListener) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedMessagingHelper
  Initiate a multicast daemon
initOverlay(int) - Static method in class uk.ac.ic.doc.rodex.p2p.Peer
  One overlay controller is shared among all peers
initOverlay(int, int) - Static method in class uk.ac.ic.doc.rodex.p2p.Peer
  One overlay controller is shared among all peers
initPeer(String, PeerStateHandler) - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
  Intialise peer by creating a singleton object to be used throughout the application
  This method is only invoked by LoginFrame and not by outside classes.
initPeerHello(Peer) - Method in class uk.ac.ic.doc.rodex.p2p.protocol.HEP
  Send hello message to discover other peers.
initQueue() - Method in class uk.ac.ic.doc.automed.p2p.communication.UDPServer
  Create a `QueueWorker` taking this instance as a job handler.
initRegistry() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  This special method offers the flexibility of starting a `P2PRegistry`
  object for and 'attaching' it to a peer.
initRepository() - Static method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Initialise the `AutoMedPeer` repository based on the default configuration file
  loaded at a previous stage
initRepository() - Static method in class uk.ac.ic.doc.automed.reps.Utility
  This method reinitialises the peer's repository assuming that the default configuration
  has been pre-loaded by `DSRConfiguration` in a previous step.
initRewriterEngine(List) - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
  Create a new `QueryWriter` instance from a `List` of cached view `String`s
initRewriterEngine(QueryAnalyser[]) - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
  Create a new `QueryWriter` instance from an array of metadata objects
initRewriterEngine(ASG) - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
  Create a new `QueryWriter` instance for range-based queries
initSchema(AutoMedObject) - Method in class uk.ac.ic.doc.automed.p2p.tree.ObjectBuilder
  Create a new schema object
initSchema(AutoMedObject, Schema) - Method in class uk.ac.ic.doc.automed.p2p.tree.SchemaObjectBuilder
  An overloading method to create a new `Schema` object
initSICP() - Method in class uk.ac.ic.doc.rodex.p2p.DirectoryServicePeer
  Initialises SICP protocol
initSICP() - Method in class uk.ac.ic.doc.rodex.p2p.Peer
  Initialises SICP protocol
input_stream - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SchemesTokenManager
input_stream - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompTokenManager
input_stream - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendTokenManager
input_stream - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusTokenManager
input_stream - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLTokenManager
InputDialog - Class in uk.ac.ic.doc.automed.p2p.gui
InputDialog(JFrame, PeerApplication, String, String[]) - Constructor for class uk.ac.ic.doc.automed.p2p.gui.InputDialog
InputDialog(JFrame, PeerApplication, String, Map, String[]) - Constructor for class uk.ac.ic.doc.automed.p2p.gui.InputDialog
inputStream - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
inputStream - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
inputStream - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
inputStream - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
inputStream - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
inRange(int) - Method in class uk.ac.ic.doc.automed.reps.ConstructScheme
  Determine if a certain number of instances of elements in a scheme matching this ConstructScheme are permissable.
insertDocument(Collection, Document, String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.EXISTWrapper
insertIQL(ASG) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapper
  Take the query and attempt to insert each of the values in the list into the database.
insertIQL(ASG) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.DOMWrapper
insertIQL(ASG) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Execute an IQL insert on the datasource.
insertIQL(ASG) - Method in class uk.ac.ic.doc.automed.wrappers.CSVWrapper
insertIQL(ASG) - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapper
INSIDE - Static variable in class uk.ac.ic.doc.automed.editor.UserActionClass
Instance - Class in uk.ac.ic.doc.automed.matching
  The Instance class represents an instance and its number of appearances.
Instance() - Constructor for class uk.ac.ic.doc.automed.matching.Instance
Instance(String, int) - Constructor for class uk.ac.ic.doc.automed.matching.Instance
  Constructs an `Instance` object.
INSTANCE - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Compatibility
  The singleton instance of the `Incompatibility` class
INSTANCE - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Disjointness
  The singleton instance of the `Disjointncess` class
INSTANCE - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Equivalence
  The singleton instance of the `Equivalence` class
INSTANCE - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Incompatibility
  The singleton instance of the `Incompatibility` class
INSTANCE - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Overlapness
  The singleton instance of the `Overlapness` class
INSTANCE - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Subset
INSTANCE - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Superset
INT_DIVIDE - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
INTEGER - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
  Token to represent the AutoMedWrapper.INTEGER atomic type
INTEGER - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedType
  Type to represent a twos-complement integer atomic type
INTEGER_TOKEN - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
IntegratedSchemaEvolution - Class in uk.ac.bbk.dcs.automed.evolution2.schemaEvolution
IntegratedSchemaEvolution(boolean, Schema, Schema) - Constructor for class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.IntegratedSchemaEvolution
Integrator - Class in uk.ac.ic.doc.automed.matching
  The class that represents the Integrator component in the schema matching architecture.
Integrator() - Constructor for class uk.ac.ic.doc.automed.matching.Integrator
IntegratorException - Exception in uk.ac.ic.doc.automed.matching
IntegratorException(String) - Constructor for exception uk.ac.ic.doc.automed.matching.IntegratorException
IntegratorException() - Constructor for exception uk.ac.ic.doc.automed.matching.IntegratorException
IntegratorException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.matching.IntegratorException
IntegratorException(Throwable) - Constructor for exception uk.ac.ic.doc.automed.matching.IntegratorException
IntegrityException - Exception in uk.ac.ic.doc.automed
  An attempt has be made to alter the repository (or data structure representing it) in a way that would make it inconsistent.
IntegrityException(String, String, int, int) - Constructor for exception uk.ac.ic.doc.automed.IntegrityException
  Creates an IntegrityException, recording details of what operation was being attempted
IntegrityException(String) - Constructor for exception uk.ac.ic.doc.automed.IntegrityException
  A simpler constructor for convenience
IntegrityException(String, String, int, int, int) - Constructor for exception uk.ac.ic.doc.automed.IntegrityException
  Creates an IntegrityException, recording details of what operation was being attempted
Intersect - Class in uk.ac.bbk.dcs.automed.qproc.functions.collections
Intersect() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.collections.Intersect
intersectionByName(Schema) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Return an `SchemaObject` array containing the intersection by name between this schema (s1) and the schema passed as a parameter (s2).
intersectLine(Rectangle, Polygon, int, int, int, int) - Static method in class uk.ac.ic.doc.automed.editor.DrawVertex
  Return the `Point` where a line intersects a `Polygon`
IntToken - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
intType - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
intValue() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedInteger
  Return the value of this AutoMedInteger as an int
InvalidElementException - Exception in uk.ac.ic.doc.automed.matching
InvalidElementException(String) - Constructor for exception uk.ac.ic.doc.automed.matching.InvalidElementException
InvalidElementException() - Constructor for exception uk.ac.ic.doc.automed.matching.InvalidElementException
InvalidElementException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.matching.InvalidElementException
InverseRulesAlgorithm - Class in uk.ac.bbk.dcs.automed.qproc.reformulate
  Implements Inverse Rules algorithm for LAV and BAV query processing as described in the following paper:-
invertRule(Map, int) - Static method in class uk.ac.bbk.dcs.automed.qproc.reformulate.InverseRulesAlgorithm
  Takes a viewMap created by AtomicViewMap class and inverts the rules based on the map contents.
invertRule(ViewKey, Cell, int) - Static method in class uk.ac.bbk.dcs.automed.qproc.reformulate.InverseRulesAlgorithm
  Inverts a rule.
IQL2XQuery - Class in uk.ac.bbk.dcs.automed.xml.wrappers
IQL2XQuery(NXDBWrapper, IQL2XQuery, boolean) - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.IQL2XQuery
IQL_TRUE_CONSTRAINT - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
  Constraint that evaluates to true
IQL_UNION - Static variable in class uk.ac.ic.doc.rodex.qproc.Util
  IQL union operator
iqlArea - Variable in class uk.ac.ic.doc.automed.editor.IQLTool
iqlEvaluate(String) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
iqlEvaluate(Cell) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
IQLEvaluator4DW - Class in uk.ac.bbk.dcs.automed.dataWarehousing.util
IQLEvaluator4DW() - Constructor for class uk.ac.bbk.dcs.automed.dataWarehousing.util.IQLEvaluator4DW
IQLEvaluator4DW(Schema) - Constructor for class uk.ac.bbk.dcs.automed.dataWarehousing.util.IQLEvaluator4DW
IQLEvaluator4DW(String[]) - Constructor for class uk.ac.bbk.dcs.automed.dataWarehousing.util.IQLEvaluator4DW
IQLEvaluator4DW(Schema[]) - Constructor for class uk.ac.bbk.dcs.automed.dataWarehousing.util.IQLEvaluator4DW
IQLEvaluator4DW(Schema[], Schema) - Constructor for class uk.ac.bbk.dcs.automed.dataWarehousing.util.IQLEvaluator4DW
IQLException - Exception in uk.ac.bbk.dcs.automed.qproc.iql
  IQLException
IQLException(String) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.iql.IQLException
  Creates an IQLException when there has been no Exception that caused the error to discovered.
IQLException(String, Exception) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.iql.IQLException
  Creates an IQLException when it is acting as a wrapper for other Exceptions.
IQLfromResult(AutoMedResult) - Method in class uk.ac.bbk.dcs.automed.wrappers.SQLTranslator
IQLfromResult(AutoMedResult) - Method in class uk.ac.bbk.dcs.automed.wrappers.Translator
IQLFunction() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
IQLTool - Class in uk.ac.ic.doc.automed.editor
  A IQLTool instance provides a window in which a user may execute IQL queries
IQLTool(Schema) - Constructor for class uk.ac.ic.doc.automed.editor.IQLTool
IQLTranslator - Class in uk.ac.bbk.dcs.automed.wrappers
  Class Task Description
IQLTranslator() - Constructor for class uk.ac.bbk.dcs.automed.wrappers.IQLTranslator
IQLUtility - Class in uk.ac.bbk.dcs.automed.qproc.iql
  Provides a number of static methods that simplify IQL expressions.
IQLUtility() - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.IQLUtility
IQueryAggregator - Interface in uk.ac.ic.doc.automed.qproc
  IQueryGetter.java
IQueryCache - Interface in uk.ac.ic.doc.automed.qproc.cache
  IQueryCache.java A public interface for query cache.
IQueryMediator - Interface in uk.ac.ic.doc.automed.qproc
  IQueryMediator.java
is$V() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.Lineage
is$Vc() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.Lineage
is$VcTuple() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.Lineage
is$VTuple() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.Lineage
IS1invIS2inv - Class in uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1
  Class Task Description
IS1invIS2inv() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1.IS1invIS2inv
IS1IS1super - Class in uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1
  Class Task Description
IS1IS1super() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1.IS1IS1super
IS1IS2 - Class in uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1
  Class Task Description
IS1IS2() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1.IS1IS2
IS1IS2skolem1 - Class in uk.ac.bbk.dcs.automed.xml.experiments.subclassANDskolem
  Class Task Description
IS1IS2skolem1() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.subclassANDskolem.IS1IS2skolem1
IS1IS2skolem2 - Class in uk.ac.bbk.dcs.automed.xml.experiments.subclassANDskolem
  Class Task Description
IS1IS2skolem2() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.subclassANDskolem.IS1IS2skolem2
isAction(int, int) - Static method in class uk.ac.ic.doc.automed.qproc.cache.CacheTK
  Check if a given real-time cache action (int-type) includes a pre-configured action
isAction(int, int[]) - Static method in class uk.ac.ic.doc.automed.qproc.cache.CacheTK
  Check if a given real-time action is either one of the given events
isAddTransformation(Transformation, Schema) - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
isAdjacent(Node) - Method in class uk.ac.ic.doc.automed.reps.Node
isAEndCell(Cell) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
isAggregateQuery() - Method in class uk.ac.bbk.dcs.automed.wrappers.IQLTranslator
isANotMemberASG(Cell) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
isApply() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if tag is apply
isAtomic() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
  Returns `true` if the schema element is "atomic", `false` otherwise.
isAttribute(String) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.UIDUtility
isBaseType(String) - Static method in class uk.ac.ic.doc.automed.reps.AutoMedToXSDOM
  Checks whether the type is one of the two base types defined for the XML Schema model
isBConsConstructor() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if tag is "BCons"
isBNilConstructor() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if tag is "BNil"
isCDataNestListUID(String) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.UIDUtility
isCDataNode(Node) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
  Returns true if node n is a CData node, false otherwise
isCDataUID(String) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.UIDUtility
isCellEditable(int, int) - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerTableModel
isChangedRefTML() - Method in class uk.ac.ic.doc.automed.tml.TML
isCollectionConstructor() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if tag is "Cons", "BCons" or "SCons"
isCollectionNilConstructor() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if tag is "Nil"
isCollectionQuery() - Method in class uk.ac.bbk.dcs.automed.wrappers.IQLTranslator
isComparableTo(QueryFunction) - Method in class uk.ac.ic.doc.rodex.qproc.QueryFunction
  Check if two functions are comparable, i.e.:
  the associated variables of the functions are mappable
isComplexTuple(Cell) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
isCompWithOnlyGen(String) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
isCompWithOnlyGen(Cell) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
isConsConstructor() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
isConsistentWith(QueryFunction) - Method in class uk.ac.ic.doc.rodex.qproc.QueryFunction
  Check if this functions is consistent with another function.
isConsistentWith(QueryVariable) - Method in class uk.ac.ic.doc.rodex.qproc.QueryVariable
  Two `QueryVariable` objects are consistent if their bound functions (if any)
  are mutually consistent.
isConstant() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if tag is constant
isConstant() - Method in class uk.ac.ic.doc.rodex.qproc.QueryVariable
  Test if this variable is also a query constant, i.e.
isConstructor(String) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
isConstructor() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if tag is constructor
isConstructorOrSysConstructor() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if tag is constructor or system constructor
isConstructRoot(int) - Static method in class uk.ac.ic.doc.automed.MDR
isConstructSchemeKey(int, int) - Static method in class uk.ac.ic.doc.automed.MDR
isContainConstant(Cell) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
isContainVarable(Cell) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
isContractTransformation(Transformation, Schema) - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
isCyclic() - Method in class uk.ac.ic.doc.automed.reps.Network
isDAG(ASG) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
isDAG(Cell) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
isDataEvolution - Variable in class uk.ac.bbk.dcs.automed.evolution1.Evolution
isDataSource() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Deprecated. use `Schema.getType()` instead. Determines whether or not the schema represents an external data source.
isDateTime() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
isDeleteTransformation(Transformation, Schema) - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
isDependent() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSchemaObject
isDependentOn(Transformation) - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Determines whether or not the transformation is dependent on another transformation.
isDirected() - Method in class uk.ac.ic.doc.automed.reps.Network
isDisjointWith(MiniConQueryRewriter.MiniConDescription) - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter.MiniConDescription
  Check if this MCD is disjoint from another MCD, i.e.
isElementNode(Node) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
  Returns true if node n is an element node, false otherwise
isEmpty() - Method in class uk.ac.ic.doc.automed.editor.autolayout.Queue
isEmpty() - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
isEndFragment(byte[]) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  Check if a trunk of bytes form the end-of-fragmentation message.
isExtDB() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Deprecated. use `Schema.getType()` instead. Determines whether or not the schema represents an extentional database.
isExtendontractTransformation(Transformation, Schema) - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
isExtendTransformation(Transformation, Schema) - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
isExtensionListInDescription() - Method in class uk.ac.ic.doc.automed.wrappers.XMLFileFilter
  Returns whether the extension list (.jpg, .gif, etc) should show up in the human readable description.
isExtSchema() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Deprecated. use `Schema.getType()` instead. Determines whether or not the schema is an extentional schema.
isFeatureInUse(int) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
  Test if a certain group of features is being implemented in the representation of the datasource model in the AutoMed repository
isFloat() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
isFunction() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if tag is function
isGlobal() - Method in class uk.ac.ic.doc.automed.p2p.tree.Reference
isHeadVar(QueryVariable) - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
isHidden(Positionable) - Method in class uk.ac.ic.doc.automed.editor.Gui
  Return true if a particular `Positionable` is hidden at present, and hence should not be displayed by the GUI
isHidden(Drawable) - Method in class uk.ac.ic.doc.automed.editor.Gui
  Return true if a particular `Drawable` is hidden, meaning that either the `Positionable` on which it is based is hidden, or one of the `Positionable`s it depends on is hidden
isHide() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutPositionable
  Method return true when object is hidden.
isIdentical(Cell, Cell) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
isIdentTransformation(Transformation, Schema) - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
isInteger() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
isJoinedNetwork() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
isKey() - Method in class uk.ac.ic.doc.automed.reps.ConstructScheme
  Returns whether of not the `ConstructScheme` is part the key of the whole scheme.
isKey() - Method in class uk.ac.ic.doc.automed.reps.Scheme
  Determine if this `Scheme` is part of the set of `Scheme`s that uniquely identify the parent `SchemaObject` in a particular `Schema`
isKey - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
isLambda() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if tag is lambda
isLeaf() - Method in class uk.ac.bbk.dcs.automed.graph.TreeNode
isLeaf() - Method in class uk.ac.ic.doc.automed.reps.Node
  True if (and only if) this node belongs to a directed network and this is a leaf node.
isLegalPeerName(String) - Static method in class uk.ac.ic.doc.automed.p2p.protocol.P2PProtocol
isLegalQuery(String) - Static method in class uk.ac.ic.doc.automed.p2p.protocol.P2PProtocol
isLegalSchemaName(String) - Static method in class uk.ac.ic.doc.automed.p2p.protocol.P2PProtocol
isLinkUp() - Method in class uk.ac.ic.doc.rodex.p2p.protocol.SICP
  Test whether or not the peer's link to the network is up
isLiteral() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedType
  Check if this is a literal type
isLiteral() - Method in class uk.ac.ic.doc.rodex.qproc.QueryFunction
isMapedObject(String) - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.IQLEvaluator4DW
isMappableTo(QuerySubGoal) - Method in class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
  Test for containment mapping to another subgoal.
isMappableTo(QueryVariable) - Method in class uk.ac.ic.doc.rodex.qproc.QueryVariable
  Two `QueryVariable` objects are mappable if they are bound to the
  same field in a query scheme (e.g.
isMappableToHeadVar(QueryVariable) - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
  Check that a query variable object is truly a head var, i.e.
isModelExist(String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  Check if a model exists in the repository
isMutuallyConsistentWith(QueryFunction) - Method in class uk.ac.ic.doc.rodex.qproc.QueryFunction
  Check if two `QueryFunction` objects are mutually consistent
  Basically, this checks that this function is consistent with another function
  (see `QueryFunction.isConsistentWith(QueryFunction qf)`) and the reverse.
isNamespaceAware() - Method in class uk.ac.ic.doc.automed.xml.XMLReader
isNaN() - Method in class uk.ac.ic.doc.automed.matching.BidirectionalDegree
  Returns `true` if one of the similarity degrees is not a number.
isNilConstructor() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if tag is "Nil"
isNode() - Method in class uk.ac.bbk.dcs.automed.hdmstore.Span
  Is this Span a node?
isNull() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedType
  Is this type a null value?
isNum() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Deprecated. use isNumberType() instead
isNumberType() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
isNumeric() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedType
  Check if this is a numeric type
isNumeric() - Method in class uk.ac.ic.doc.rodex.qproc.QueryFunction
isOK() - Method in class uk.ac.ic.doc.automed.p2p.gui.InputDialog
isOnCurrentSchema() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSchemaObject
  Detect whether the SchemaObject object connected to this AutoLayout* is present on the current Schema.
isPathway() - Method in class uk.ac.ic.doc.automed.p2p.protocol.Request
isPathway() - Method in class uk.ac.ic.doc.automed.p2p.protocol.Request.Pathway
isPathwayToSource() - Method in class uk.ac.ic.doc.automed.p2p.protocol.Request
isPathwayToSource() - Method in class uk.ac.ic.doc.automed.p2p.protocol.Request.PathwayToSource
isPCDataNestListUID(String) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.UIDUtility
isPCDataNode(Node) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
  Returns true if node n is a PCData node, false otherwise
isPCDataUID(String) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.UIDUtility
isPort() - Method in class uk.ac.ic.doc.automed.p2p.protocol.Request
isPort() - Method in class uk.ac.ic.doc.automed.p2p.protocol.Request.Port
isPrimaryKeyForeignKey(Schema, SchemaObject) - Static method in class uk.ac.ic.doc.automed.reps.Utility
  Returns whether a foreign-key field SchemaObject is also a primary-key.
isQuery() - Method in class uk.ac.ic.doc.automed.p2p.protocol.Request
isQuery() - Method in class uk.ac.ic.doc.automed.p2p.protocol.Request.Query
isRangeVoidAny(String, Schema, Schema) - Static method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.ExtensionalSchemaEvolution
isReady - Variable in class uk.ac.ic.doc.automed.p2p.communication.AbstractClient
isReady - Variable in class uk.ac.ic.doc.automed.p2p.communication.AbstractServer
isRedundant(Transformation) - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Determines whether or not the transformation and the given tran are redundant, e.g., two transformations are redundant if they transform the same schema object and their action is the opposite of the other (add/delete, extend/contract, etc.).
isRegister() - Method in class uk.ac.ic.doc.automed.p2p.protocol.Request
isRegister() - Method in class uk.ac.ic.doc.automed.p2p.protocol.Request.Register
isRelated(SchemaObject, SchemaObject[], SemanticRelationship, boolean) - Method in class uk.ac.ic.doc.automed.matching.Integrator
  Returns a `SchemaElementPair` array with pairs defined by the specified schema object and the schema object array.
isRemoteLogging() - Static method in class uk.ac.ic.doc.automed.util.Logger
  Check if remote logging is set
isRemove() - Method in class uk.ac.ic.doc.automed.p2p.protocol.Request
isRemove() - Method in class uk.ac.ic.doc.automed.p2p.protocol.Request.Remove
isRenameTransformation(Transformation, Schema) - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
isRepair - Variable in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolution
isRepair - Variable in class uk.ac.bbk.dcs.automed.evolution1.Evolution
isRepair - Variable in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
isRoot() - Method in class uk.ac.bbk.dcs.automed.graph.TreeNode
isRoot() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutTreeObject
  Return true if object label = "root$1"
isRoot() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Returns whether or not the construct is a construct of its underlying model.
isRoot() - Method in class uk.ac.ic.doc.automed.reps.Node
  True if (and only if) this node belongs to a directed network and this is a root node.
isRoot - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
isRunning() - Method in class uk.ac.ic.doc.automed.p2p.directory.FlushTimeHelper
isRunning() - Method in class uk.ac.ic.doc.automed.p2p.directory.HelloTimeHelper
isRunning() - Method in class uk.ac.ic.doc.automed.p2p.directory.HoldTimeHelper
isSchema() - Method in class uk.ac.ic.doc.automed.p2p.protocol.Request
isSchema() - Method in class uk.ac.ic.doc.automed.p2p.protocol.Request.Schema
isSchemaEvolution - Variable in class uk.ac.bbk.dcs.automed.evolution1.Evolution
isSchemaInfoCached(String) - Method in class uk.ac.ic.doc.automed.p2p.PeerCache
isScheme() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if tag is scheme
isSConsConstructor() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if tag is "SCons"
isShared() - Method in class uk.ac.ic.doc.rodex.qproc.QueryVariable
  Test to see if this is a shared variable, i.e.
isSIQL() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.TransfStep
isSNilConstructor() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if tag is "SNil"
isSpecial() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if tag is special
isSpecial(String) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
isStopped() - Method in class uk.ac.ic.doc.automed.util.thread.AsynchThread
  Check if a thread is started or not
isStopped() - Method in class uk.ac.ic.doc.automed.util.thread.TimedThread
  Check if a thread is started or not
isString() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
isString() - Method in class uk.ac.ic.doc.automed.reps.Scheme
  Determine if this `Scheme` defines a `String`, rather than a reference to some other `SchemaObject`
isStronger(SemanticRelationship) - Method in class uk.ac.ic.doc.automed.matching.relationships.SemanticRelationship
  Returns `true` if this object's relationship is stronger that the specified object's relationship.
isSysConstructor(String) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
isSysConstructor() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if tag is system constructor
isSysVariable() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if tag is sysvariable
isTableExist(String) - Method in class uk.ac.ic.doc.automed.util.db.DBAccess
  Checks whether or not a table exists in the database
isTableExist(String) - Method in class uk.ac.ic.doc.automed.util.db.DBEmbedded
  Return a result set of table names for manipulation
isTableExist(String) - Method in class uk.ac.ic.doc.automed.util.db.DBPostgres
  Return a result set of table names for manipulation
isTextNestListUID(String) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.UIDUtility
isTextNode(Node) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
  Returns true if node n is a text node, false otherwise
isTextUID(String) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.UIDUtility
isTokenTypeSupressed(int) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
isTree() - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraph
isTree() - Method in class uk.ac.ic.doc.automed.reps.Network
isUnknown() - Method in class uk.ac.ic.doc.automed.p2p.protocol.Request
isValidating() - Method in class uk.ac.ic.doc.automed.xml.XMLReader
isValidChild(TreeNode) - Method in class uk.ac.ic.doc.automed.p2p.tree.AutoMedObject
isValidChild(TreeNode) - Method in class uk.ac.ic.doc.automed.p2p.tree.CollectionSet
isValidChild(TreeNode) - Method in class uk.ac.ic.doc.automed.p2p.tree.Field
isValidChild(TreeNode) - Method in class uk.ac.ic.doc.automed.p2p.tree.MainObjectClasses
isValidChild(TreeNode) - Method in class uk.ac.ic.doc.automed.p2p.tree.ObjectCollection
isValidChild(TreeNode) - Method in class uk.ac.ic.doc.automed.p2p.tree.Reference
isValidChild(TreeNode) - Method in class uk.ac.ic.doc.automed.p2p.tree.Root
isValidChild(TreeNode) - Method in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
isValidChild(TreeNode) - Method in class uk.ac.ic.doc.automed.p2p.tree.Value
isValidChild(TreeNode) - Method in class uk.ac.ic.doc.automed.p2p.tree.ValueList
isVariable() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if tag is variable
isVarOrSysVar() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if tag is variable or sysvariable
isVirtualConstruct() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.Lineage
isVirtualDate() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.Lineage
isVoid() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.Lineage
isvResult() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.TransfStep
isWellformed() - Method in class uk.ac.ic.doc.automed.reps.Pathway
isYattaModelandSource(Object[]) - Static method in class uk.ac.ic.doc.automed.editor.PatternWritingTool
ITEM - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
ITEM_COLLECTION - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
itemStateChanged(ItemEvent) - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
iteration - Variable in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutERObject
iterator() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGCollection
iterator() - Method in class uk.ac.ic.doc.automed.util.db.QueryCacheSQLAdapter
  Return an iterator of the entry set
iterator() - Method in class uk.ac.ic.doc.automed.util.persist.PersistentDB
  Return an iterator of the entry set
iterator() - Method in interface uk.ac.ic.doc.automed.util.persist.PersistentHandler
  Return an iterator of the entry set

## J

JaccardAtomicExistenceModule - Class in uk.ac.ic.doc.automed.matching.modules.probability.binary
  The module that compares the schema elements by examining if they have common instances
JaccardAtomicExistenceModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.binary.JaccardAtomicExistenceModule
JaccardExistenceModule - Class in uk.ac.ic.doc.automed.matching.modules.intervals
  The module that compares the schema elements by examining if they have common instances
JaccardExistenceModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.intervals.JaccardExistenceModule
JaccardExistenceModule - Class in uk.ac.ic.doc.automed.matching.modules.probability.binary
  The module that compares the schema elements by examining if they have common instances
JaccardExistenceModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.binary.JaccardExistenceModule
JaccardExistenceModule - Class in uk.ac.ic.doc.automed.matching.modules.probability.senary
  The module that compares the schema elements by examining if they have common instances
JaccardExistenceModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.senary.JaccardExistenceModule
JaccardNameModule - Class in uk.ac.ic.doc.automed.matching.modules.intervals
  The module that compares the names of the schema elements
JaccardNameModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.intervals.JaccardNameModule
JaccardNameModule - Class in uk.ac.ic.doc.automed.matching.modules.probability.binary
  The module that compares the names of the schema elements
JaccardNameModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.binary.JaccardNameModule
JaccardNameModule - Class in uk.ac.ic.doc.automed.matching.modules.probability.senary
  The module that compares the names of the schema elements
JaccardNameModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.senary.JaccardNameModule
JaroAtomicExistenceModule - Class in uk.ac.ic.doc.automed.matching.modules.probability.binary
  The module that compares the schema elements by examining if they have common atomic instances
JaroAtomicExistenceModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.binary.JaroAtomicExistenceModule
JaroAtomicExistenceModule - Class in uk.ac.ic.doc.automed.matching.modules.probability.senary
  The module that compares the schema elements by examining if they have common atomic instances
JaroAtomicExistenceModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.senary.JaroAtomicExistenceModule
JaroExistenceModule - Class in uk.ac.ic.doc.automed.matching.modules.intervals
  The module that compares the schema elements by examining if they have common instances
JaroExistenceModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.intervals.JaroExistenceModule
JaroExistenceModule - Class in uk.ac.ic.doc.automed.matching.modules.probability.binary
  The module that compares the schema elements by examining if they have common instances
JaroExistenceModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.binary.JaroExistenceModule
JaroExistenceModule - Class in uk.ac.ic.doc.automed.matching.modules.probability.senary
  The module that compares the schema elements by examining if they have common instances
JaroExistenceModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.senary.JaroExistenceModule
java - package java
java.awt - package java.awt
java.awt.geom - package java.awt.geom
java.lang - package java.lang
JDBCDriverException - Exception in uk.ac.ic.doc.automed.util.db
JDBCDriverException(String) - Constructor for exception uk.ac.ic.doc.automed.util.db.JDBCDriverException
  Creates a new instance of JDBCDriverException
JDBCDriverException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.util.db.JDBCDriverException
jHandler - Variable in class uk.ac.ic.doc.automed.p2p.communication.UDPServer
jj_nt - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
jj_nt - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
jj_nt - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
jj_nt - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
jj_nt - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
jjFillToken() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SchemesTokenManager
jjFillToken() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompTokenManager
jjFillToken() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendTokenManager
jjFillToken() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusTokenManager
jjFillToken() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLTokenManager
jjstrLiteralImages - Static variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SchemesTokenManager
jjstrLiteralImages - Static variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompTokenManager
jjstrLiteralImages - Static variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendTokenManager
jjstrLiteralImages - Static variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusTokenManager
jjstrLiteralImages - Static variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLTokenManager
Job - Class in uk.ac.ic.doc.automed.util.queue
Job(Object, Object, String) - Constructor for class uk.ac.ic.doc.automed.util.queue.Job
  Creates a new instance of Job
JobHandler - Interface in uk.ac.ic.doc.automed.util.queue
join(AutoLayoutTreeObject) - Static method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutTreeObject
  Joins children/siblings together, merging contours.
join() - Method in class uk.ac.ic.doc.rodex.qproc.QueryResultProducer
  Perform the 'join' operation on the specified set of result objects.
joinASGs(List) - Static method in class uk.ac.ic.doc.rodex.qproc.ASGExplore
  This method test creating a new ASG from unioning two ASGs dmle 26/1/2006
joinASGs(String[]) - Static method in class uk.ac.ic.doc.rodex.qproc.ASGExplore
  An overloading method of `ASGExplore.joinASGs(List asgObjs)`
joinButton - Variable in class uk.ac.ic.doc.automed.p2p.gui.LoginFrame
joinGroup() - Method in class uk.ac.ic.doc.automed.p2p.communication.MulticastServer
  Leaves multicast group
joinIQLResult(List) - Static method in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
joinNetwork() - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
joinOverlay(ID, String, String) - Method in class uk.ac.ic.doc.rodex.p2p.Peer
  Initialise an instance of the overlay controller and start a DHT process for this peer
JSomClusterer - Class in uk.ac.ic.doc.automed.matching.modules.bidirectionalmap
JSomClusterer(int) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.JSomClusterer
JSomClusterer(ElementVectorRepresentation[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.JSomClusterer
JTreeTransform - Class in uk.ac.ic.doc.automed.xmlschema
JTreeTransform(Schema) - Constructor for class uk.ac.ic.doc.automed.xmlschema.JTreeTransform
  Creates a new instance of JTreeTransform
justTableName - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory

## K

KA_STATUS_OFF - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Keep alive status: -1 means remote is not responding
KA_STATUS_ON - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Keep alive status: 1 means remote is responding
KEEP_ALIVE - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  Context: keep alive (udp)
KeepAliveMessageHandler - Class in uk.ac.ic.doc.automed.p2p
KeepAliveMessageHandler(AutoMedPeer, boolean) - Constructor for class uk.ac.ic.doc.automed.p2p.KeepAliveMessageHandler
  Creates a new instance of KeepAliveMessageHandler
keyName - Variable in class uk.ac.ic.doc.automed.editor.drawables.DrawRDBForeignKeyVertex
keyref - Variable in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
  Any keyref there might be
keywords - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
kind - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Token
  An integer that describes the kind of this token.
kind - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.Token
  An integer that describes the kind of this token.
kind - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.Token
  An integer that describes the kind of this token.
kind - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.Token
  An integer that describes the kind of this token.
kind - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.Token
  An integer that describes the kind of this token.

## L

l() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns a reference to the left child of the Cell
lambda - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
Lambda - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.FSym
Lambda - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
lambdaCalls - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
lambdaTimeSpent - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
LANG_STANDARD - Static variable in class uk.ac.ic.doc.rodex.qproc.QueryMediator
LANG_XQUERY - Static variable in class uk.ac.ic.doc.rodex.qproc.QueryMediator
LArrow - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
LAST - Static variable in class uk.ac.ic.doc.automed.editor.MatchingTool
LAST_UPDATE - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
lastCharKeyword - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
lastConstructKeyword - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
LastIndexOf - Class in uk.ac.bbk.dcs.automed.qproc.functions.string
  Class Task Description
LastIndexOf() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.string.LastIndexOf
lastKeyword - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
lastModelKeyword - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
lastSchemaKeyword - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
lastSchemeKeyword - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
lastTransformationKeyword - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
launchGui() - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
launchLoginFrame() - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
launchMainFrame() - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
LAVInvRulesViewMap - Class in uk.ac.bbk.dcs.automed.qproc.reformulate
  Class containing LAV composite views between a single source schema and a single target schema.
LAVInvRulesViewMap(Schema, Schema, QueryProcessorConfiguration) - Constructor for class uk.ac.bbk.dcs.automed.qproc.reformulate.LAVInvRulesViewMap
  This constructor is called from CompositeViewMap class getInstance() method.
LAVQueryReformulationException - Exception in uk.ac.bbk.dcs.automed.qproc.reformulate
  LAV queries may not always reformulate.
LAVQueryReformulationException(String) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.reformulate.LAVQueryReformulationException
LAVQueryReformulationException(String, Exception) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.reformulate.LAVQueryReformulationException
layout(AutoLayoutTreeObject) - Static method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutTreeObject
layoutContainer(Container) - Method in class uk.ac.ic.doc.automed.editor.PinBoardLayout
LayoutInterface - Interface in uk.ac.ic.doc.automed.editor.layout
LB - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
LCB - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
LCOMP - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompConstants
LCOMP - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendConstants
LCOMP - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusConstants
LDAB - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.FSym
LDAB - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
leaveGroup() - Method in class uk.ac.ic.doc.automed.p2p.communication.MulticastServer
  Leaves multicast group
LEFT_BRACKET - Static variable in class uk.ac.ic.doc.rodex.qproc.Util
  left bracket for scheme name, default = '<<'
LEFT_VAR_BRACKET - Static variable in class uk.ac.ic.doc.rodex.qproc.Util
leftBrace - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
leftBracket - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
Length - Class in uk.ac.bbk.dcs.automed.qproc.functions.string
  Returns the length of the input string.
Length() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.string.Length
length() - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
  Return the number of view sets in the result
Less - Class in uk.ac.bbk.dcs.automed.qproc.functions.comparison
Less() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.comparison.Less
LESS_THAN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
LESS_THAN_EQUALS - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
LessEqual - Class in uk.ac.bbk.dcs.automed.qproc.functions.comparison
LessEqual() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.comparison.LessEqual
LESSTHAN - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLQuery
LESSTHANEQUAL - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLQuery
Let - Class in uk.ac.bbk.dcs.automed.qproc.functions.internal
Let() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.internal.Let
Let - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
LET - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
letExpr(HashMap) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
LEVEL_ALL - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  All debug information
LEVEL_ERROR - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  Error information
LEVEL_FINE - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  Application operations with some details
LEVEL_FINER - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  Application operations with greater details
LEVEL_FINEST - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  Application operations with finest details
LEVEL_INFO - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  Debug information to let user know what is going on
LEVEL_OFF - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  No debug at all
LEVEL_WARN - Static variable in class uk.ac.ic.doc.automed.util.Debugger
  Warning information
LexicalError(boolean, int, int, int, String, char) - Static method in error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.TokenMgrError
  Returns a detailed message for the Error when it is thrown by the token manager to indicate a lexical error.
LexicalError(boolean, int, int, int, String, char) - Static method in error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.TokenMgrError
  Returns a detailed message for the Error when it is thrown by the token manager to indicate a lexical error.
LexicalError(boolean, int, int, int, String, char) - Static method in error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.TokenMgrError
  Returns a detailed message for the Error when it is thrown by the token manager to indicate a lexical error.
LexicalError(boolean, int, int, int, String, char) - Static method in error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.TokenMgrError
  Returns a detailed message for the Error when it is thrown by the token manager to indicate a lexical error.
LexicalError(boolean, int, int, int, String, char) - Static method in error uk.ac.bbk.dcs.automed.qproc.translators.xquery.TokenMgrError
  Returns a detailed message for the Error when it is thrown by the token manager to indicate a lexical error.
lexStateNames - Static variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SchemesTokenManager
lexStateNames - Static variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompTokenManager
lexStateNames - Static variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendTokenManager
lexStateNames - Static variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusTokenManager
lexStateNames - Static variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLTokenManager
Like - Class in uk.ac.bbk.dcs.automed.qproc.functions.string
Like() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.string.Like
line - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
line - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
line - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
line - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
line - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
line - Variable in class uk.ac.ic.doc.automed.editor.GUITool
Lineage - Class in uk.ac.bbk.dcs.automed.dataWarehousing.dlt
Lineage(ASG, String) - Constructor for class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.Lineage
Lineage(ASG, String, String[], String, boolean, boolean) - Constructor for class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.Lineage
link - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
link_nodal - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
LIST - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
LIST - Static variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
List2Bag - Class in uk.ac.bbk.dcs.automed.qproc.functions.typeConversion
List2Bag() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.typeConversion.List2Bag
List2Set - Class in uk.ac.bbk.dcs.automed.qproc.functions.typeConversion
List2Set() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.typeConversion.List2Set
LIST_SCHEMA_LONG - Static variable in class uk.ac.ic.doc.automed.reps.Schema
  Constant used to indicate where schemes in schemas must be listed with all details, including the OBID as returned by `SchemaObject.getOBID()` SchemaObject}, and the `Construct` as returned by `SchemaObject.getConstruct()`.
LIST_SCHEMA_NORMAL - Static variable in class uk.ac.ic.doc.automed.reps.Schema
  Constant used to indicate where schemes in schemas must be listed with all the type of each `SchemaObject` prefixing the scheme of each object.
LIST_SCHEMA_SHORT - Static variable in class uk.ac.ic.doc.automed.reps.Schema
  Constant used to indicate where schemes in schemas must be listed with the minimum of detail.
listNodes() - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Want to display all the nodes so pass just a wildcard as a the pattern
listNodes(String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  List the instance nodes of the passed nodeType (or wildcard)
listOfSchemes(boolean) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  Returns a list of the schemes used in the ASG as String objects.
listOfSchemes(ASG, boolean) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  Returns a list of the schemes used in the ASG as String objects.
listPathway(Pathway) - Static method in class uk.ac.bbk.dcs.automed.evolution.EvolutionUtility
listPathway(Pathway) - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
listPathway() - Method in class uk.ac.bbk.dcs.automed.xml.relational.TransformationsIssuer
listPathway() - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSRestructurer
listSchema() - Method in class uk.ac.ic.doc.automed.reps.Schema
  List the Schema to the current output in a form designed for human interpretation.
listSchema(PrintStream, int, boolean) - Method in class uk.ac.ic.doc.automed.reps.Schema
  List the Schema to an output stream, using the specified format.
listSchema(PrintStream) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Shorthand for calling listSchema(out,LIST_SCHEMA_NORMAL)
listSchema(PrintStream, int) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Shorthand for calling listSchema(out,LIST_SCHEMA_NORMAL,false)
listSchemaHelp - Static variable in class uk.ac.ic.doc.automed.editor.Editor
listSchemaSyntax - Static variable in class uk.ac.ic.doc.automed.editor.Editor
listTransformationPathway(int, int) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
  Prints out the transformation pathway created by the schema transformation algorithm.
listTuple() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
listTuple() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
listTuple() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
ListUtil - Class in uk.ac.ic.doc.automed.util
  ListUtil.java
LLSB - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
loadBrowseWindow() - Method in class uk.ac.ic.doc.automed.editor.PatternWritingTool
loadDriver(String) - Static method in class uk.ac.ic.doc.automed.util.db.DBAccessFactory
  JDBC driver string to access the data source
LoadFromFile - Class in uk.ac.bbk.dcs.automed.qproc.functions
LoadFromFile() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.LoadFromFile
loadPatternWindow(String) - Method in class uk.ac.ic.doc.automed.editor.PatternWritingTool
loadPeers() - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
  load peers from database
loadSchema(Object[]) - Static method in class uk.ac.ic.doc.automed.editor.XMLSchemaEditor
  Allows an existing Automed XML Schema to be loaded into the schema editor
loArea - Variable in class uk.ac.ic.doc.automed.editor.IQLTool
LOG_FILE - Static variable in class uk.ac.ic.doc.automed.util.LogController
LOG_FILE - Static variable in class uk.ac.ic.doc.automed.util.LogOutputHandler
LogConsole - Class in uk.ac.ic.doc.automed.editor
  LogConsole.java A centralised console for logging messages
LogConsole() - Constructor for class uk.ac.ic.doc.automed.editor.LogConsole
  Creates a new instance of LogConsole
LogController - Class in uk.ac.ic.doc.automed.util
  LogController.java
  Customise logging behaviour: sending all log messages to a file using a customised log format.
LogController(String, String) - Constructor for class uk.ac.ic.doc.automed.util.LogController
  Creates a new instance of LogController
loggedIn() - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
  The application has now logged in to the Directory, so enter "running" state where communication with Directory can be made.
logger - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.StandardQueryAnnotationProvider
logger - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
logger - Variable in class uk.ac.bbk.dcs.automed.qproc.functions.BuiltInFunction
logger - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
logger - Variable in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
logger - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.IQLUtility
logger - Variable in class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
logger - Variable in class uk.ac.bbk.dcs.automed.qproc.optimise.ExperimentalOptimisationProvider
logger - Variable in class uk.ac.bbk.dcs.automed.qproc.optimise.StandardOptimisationProvider
logger - Variable in class uk.ac.bbk.dcs.automed.qproc.reformulate.GAVQueryReformulationProvider
logger - Variable in class uk.ac.bbk.dcs.automed.wrappers.IQLTranslator
logger - Static variable in class uk.ac.bbk.dcs.automed.xml.experiments.crime.CrimeSchemaConform
logger - Static variable in class uk.ac.bbk.dcs.automed.xml.experiments.crime.CrimeSchemaMaterialisation
logger - Static variable in class uk.ac.bbk.dcs.automed.xml.experiments.crime.CrimeSchemaQuery
logger - Static variable in class uk.ac.bbk.dcs.automed.xml.experiments.crime.CrimeSchemaQueryTest
logger - Static variable in class uk.ac.bbk.dcs.automed.xml.experiments.crime.CrimeTest
logger - Static variable in class uk.ac.bbk.dcs.automed.xml.experiments.crime.Test
logger - Static variable in class uk.ac.bbk.dcs.automed.xml.experiments.ws.FormatConversionIPI
logger - Static variable in class uk.ac.bbk.dcs.automed.xml.experiments.ws.WrapInterproOutput
logger - Static variable in class uk.ac.bbk.dcs.automed.xml.experiments.ws.WrapUniProtOutput
logger - Static variable in class uk.ac.bbk.dcs.automed.xml.utilities.UIDUtility
logger - Static variable in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSDOM
logger - Static variable in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSFromAMSchema
logger - Static variable in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSFromDTD
logger - Static variable in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSFromXMLSchema
logger - Static variable in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
logger - Variable in class uk.ac.bbk.dcs.automed.xml.XMLRestructurer
LOGGER - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  Context: logger
Logger - Class in uk.ac.ic.doc.automed.util
Logger() - Constructor for class uk.ac.ic.doc.automed.util.Logger
LOGGER_NAME - Static variable in class uk.ac.bbk.dcs.automed.qproc.QProcLogger
loggingInit() - Method in class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
loggingInit() - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessor
loggingInit() - Method in class uk.ac.bbk.dcs.automed.qproc.TempQueryProcessor
LogicalRootLayout - Class in uk.ac.ic.doc.automed.editor.layout
LogicalRootLayout(Gui, Object[]) - Constructor for class uk.ac.ic.doc.automed.editor.layout.LogicalRootLayout
logicalRootLayout(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.layout.LogicalRootLayout
LoginFrame - Class in uk.ac.ic.doc.automed.p2p.gui
LoginFrame(PeerApplication, PeerStateHandler) - Constructor for class uk.ac.ic.doc.automed.p2p.gui.LoginFrame
LoginGui - Class in uk.ac.ic.doc.rodex.p2p.gui
  LoginGui.java
LoginGui(PeerApplication, PeerStateHandler) - Constructor for class uk.ac.ic.doc.rodex.p2p.gui.LoginGui
  Creates a new instance of LoginGui
logMaps() - Method in class uk.ac.bbk.dcs.automed.wrappers.IQLTranslator
LogOutputHandler - Class in uk.ac.ic.doc.automed.util
  LogOutputHandler.java
LogOutputHandler(int) - Constructor for class uk.ac.ic.doc.automed.util.LogOutputHandler
  Creates a new instance of LogHandler Set default value of append to true
LogOutputHandler(int, boolean) - Constructor for class uk.ac.ic.doc.automed.util.LogOutputHandler
  Creates a new instance of LogHandler
LogServer - Class in uk.ac.ic.doc.automed.util
  LogServer.java
  Represents the logging server
LogServer() - Constructor for class uk.ac.ic.doc.automed.util.LogServer
  Creates a new instance of LogServer
LogServer(RequestListener) - Constructor for class uk.ac.ic.doc.automed.util.LogServer
  Start logger with a custom request listener
LONG_TOKEN - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
longValue() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedInteger
  Return the value of this AutoMedInteger as an long
lookingAhead - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
LOOPBACK_ADDRESS - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  The local host address: 127.0.0.1
LOWER_BOUND - Static variable in class uk.ac.bbk.dcs.automed.qproc.GQP
  Deprecated.
LowerCase - Class in uk.ac.bbk.dcs.automed.qproc.functions.string
  Turns the input string into lowercase.
LowerCase() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.string.LowerCase
LowLevelWrapperHdm - Class in uk.ac.bbk.dcs.automed.hdmstore
  The LowLevelWrapperHdm passes queries to the `HdmStore` and returns the results in the HDM specifc format of a Linked List of `EdgeElements` each representing a tuple.
LowLevelWrapperHdm(HdmStore) - Constructor for class uk.ac.bbk.dcs.automed.hdmstore.LowLevelWrapperHdm
  The constructor is passed the `HdmStore` to be used
LP - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
LRB - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.FSym
LRB - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
LSB - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
LSB - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants

## M

main(String[]) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.DataLineageTracing
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.DemoDLT
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.Lineage
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.TransfStep
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.dltInterface
  This method initializes jPanel
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.GetIQLSource
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.IQLEvaluator4DW
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.QueryDecomposer
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.evolution.EvolutionUtility
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.ExtensionalSchemaEvolution
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStoreCmd
  main creates an HdmStoreCmd and passes the arguments
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGCollection
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGCollectionIterator
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehension
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehensionMiniCon
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGTuple
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.qproc.reformulate.GAVQueryReformulationProvider
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.qproc.reformulate.QueryReformulator
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.qproc.TempQueryProcessor
  Shows how to use the qproc framework
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.crime.CrimeSchemaConform
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.crime.CrimeSchemaMaterialisation
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.crime.CrimeSchemaQuery
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.crime.CrimeSchemaQueryTest
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.crime.CrimeSchemaWrap
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.crime.CrimeTest
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.crime.Test
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set0.SetA100x52
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set0.SetA150x52
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set0.SetA200x52
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set0.SetA250x52
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set0.SetA50x52
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1A100x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1A20x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1A40x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1A60x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1A80x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1B100x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1B20x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1B40x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1B60x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1B80x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1C100x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1C20x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1C40x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1C60x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1C80x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set2.Set2A100x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set2.Set2A20x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set2.Set2A40x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set2.Set2A60x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set2.Set2A80x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set2.Set2B100x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set2.Set2B20x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set2.Set2B40x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set2.Set2B60x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set2.Set2B80x20
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set3.Set3A1000x100
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set3.Set3A100x100
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set3.Set3A200x100
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set3.Set3A300x100
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set3.Set3A400x100
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set3.Set3A500x100
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set3.Set3B100x100
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set3.Set3B100x200
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set3.Set3B100x300
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set3.Set3B100x400
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.other.set3.Set3B100x500
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeICase1
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeICase2
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeICase3
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIICase1
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIICase2
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIICase3
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIIICase1
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIIICase2
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIIICase3
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIIICase4
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIVCase1
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIVCase2
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIVCase3
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIVCase4
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIVCase5
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.subclass.AlgoPerfExp
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1.IS1invIS2inv
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1.IS1IS1super
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1.IS1IS2
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1.RunAll
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1.Set1_121x101
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1.Set1_181x151
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1.Set1_241x201
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1.Set1_301x251
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1.Set1_61x51
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.subclassANDskolem.IS1IS2skolem1
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.subclassANDskolem.IS1IS2skolem2
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.thesis.AlgoPerfExp
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.thesis.Books
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.thesis.Books1
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.thesis.Books1Query
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.thesis.Books2
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.thesis.Books2Query
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.thesis.BooksQuery
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.ws.FormatConversionIPI
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.ws.WrapInterproOutput
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.ws.WrapUniProtOutput
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSFromAMSchema
main(String[]) - Static method in class uk.ac.ic.doc.automed.DSR
  Provides a simple command line interface to enable the configuration file to be checked.
main(String[]) - Static method in class uk.ac.ic.doc.automed.editor.CommandLineDriver
main(String[]) - Static method in class uk.ac.ic.doc.automed.editor.Editor
main(String[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
main(String[]) - Static method in class uk.ac.ic.doc.automed.editor.IQLTool
main(String[]) - Static method in class uk.ac.ic.doc.automed.editor.layout.RootLayout
main(String[]) - Static method in class uk.ac.ic.doc.automed.editor.LogConsole
main(String[]) - Static method in class uk.ac.ic.doc.automed.editor.PatternWritingTool
main(String[]) - Static method in class uk.ac.ic.doc.automed.editor.WrapperTool
main(String[]) - Static method in class uk.ac.ic.doc.automed.editor.XMLSchemaEditor
main(String[]) - Static method in class uk.ac.ic.doc.automed.MDR
  Executing this class invokes this method which supplies a command line interface to the MDR.
main(String[]) - Static method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
  Start directory from command-line
main(String[]) - Static method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
main(String[]) - Static method in class uk.ac.ic.doc.automed.p2p.gui.LoginFrame
main(String[]) - Static method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
main(String[]) - Static method in class uk.ac.ic.doc.automed.p2p.gui.TablePanel
main(String[]) - Static method in class uk.ac.ic.doc.automed.p2p.messages.abstractlayer.AbstractMessage
main(String[]) - Static method in class uk.ac.ic.doc.automed.p2p.overlay.OverlayToolKit
main(String[]) - Static method in class uk.ac.ic.doc.automed.p2p.P2PRegistry
  Start registry from command-line
main(String[]) - Static method in class uk.ac.ic.doc.automed.reps.SchemaMapGenerator
main(String[]) - Static method in class uk.ac.ic.doc.automed.SSMDR
main(String[]) - Static method in class uk.ac.ic.doc.automed.STR
main(String[]) - Static method in class uk.ac.ic.doc.automed.STRMethodTest
main(String[]) - Static method in class uk.ac.ic.doc.automed.tests.p2p.TestDBProcess
  FOR TESTING!
main(String[]) - Static method in class uk.ac.ic.doc.automed.util.DateUtil
main(String[]) - Static method in class uk.ac.ic.doc.automed.util.LogOutputHandler
main(String[]) - Static method in class uk.ac.ic.doc.automed.util.ModuleConnector
main(String[]) - Static method in class uk.ac.ic.doc.automed.wrappers.P2PWrapper
main(String[]) - Static method in class uk.ac.ic.doc.automed.xml.XMLWriter
main(String[]) - Static method in class uk.ac.ic.doc.rodex.p2p.gui.CacheViewerFrame
  testing
main(String[]) - Static method in class uk.ac.ic.doc.rodex.p2p.gui.CacheViewers
main(String[]) - Static method in class uk.ac.ic.doc.rodex.p2p.gui.QueryTool
main(String[]) - Static method in class uk.ac.ic.doc.rodex.p2p.protocol.SICP
main(String[]) - Static method in class uk.ac.ic.doc.rodex.qproc.ASGExplore
MAIN_OBJECT_CLASSES - Static variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
MainFrame - Class in uk.ac.ic.doc.automed.p2p.gui
MainFrame(PeerApplication) - Constructor for class uk.ac.ic.doc.automed.p2p.gui.MainFrame
MainObjectClasses - Class in uk.ac.ic.doc.automed.p2p.tree
MainObjectClasses() - Constructor for class uk.ac.ic.doc.automed.p2p.tree.MainObjectClasses
makeIdentifierSafe(String) - Static method in class uk.ac.ic.doc.automed.reps.Syntax
makeNewPathway(Set, Schema, Schema) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.ExtensionalSchemaEvolution
makeStringSafe(String) - Static method in class uk.ac.ic.doc.automed.reps.Syntax
MalformedMessageException - Exception in uk.ac.ic.doc.automed.p2p.messages.abstractlayer
MalformedMessageException() - Constructor for exception uk.ac.ic.doc.automed.p2p.messages.abstractlayer.MalformedMessageException
MalformedMessageException(String) - Constructor for exception uk.ac.ic.doc.automed.p2p.messages.abstractlayer.MalformedMessageException
MalformedMessageException(Throwable) - Constructor for exception uk.ac.ic.doc.automed.p2p.messages.abstractlayer.MalformedMessageException
MalformedMessageException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.p2p.messages.abstractlayer.MalformedMessageException
manageIntegrityConstraints(Schema, String) - Static method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.ExtensionalSchemaEvolution
Map - Class in uk.ac.bbk.dcs.automed.qproc.functions.collections
Map() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.collections.Map
MapDisplay - Class in uk.ac.ic.doc.automed.matching.modules.bidirectionalmap
MapDisplay(Map, Vectors) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.MapDisplay
  Creates new form MapDisplay
marginWidth - Static variable in class uk.ac.ic.doc.automed.editor.IQLTool
match(Schema) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Return a array of two Schemas, which are formed by extending two conformed schemes such that they are identical.
MatchException - Exception in uk.ac.ic.doc.automed.matching
MatchException(String) - Constructor for exception uk.ac.ic.doc.automed.matching.MatchException
MatchException() - Constructor for exception uk.ac.ic.doc.automed.matching.MatchException
MatchException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.matching.MatchException
MatchingTool - Class in uk.ac.ic.doc.automed.editor
MatchingTool(Schema, Schema) - Constructor for class uk.ac.ic.doc.automed.editor.MatchingTool
MATERIALISED_TYPE - Static variable in class uk.ac.ic.doc.automed.reps.Schema
  In addition to the properties of STORED_TYPE schemas, MATERIALISED_TYPE schemas may have data stored in the repository.
Materialiser - Class in uk.ac.bbk.dcs.automed.xml.materialisation
  Class Task Description
Materialiser(Schema, Schema[], String, String, QueryProcessorConfiguration) - Constructor for class uk.ac.bbk.dcs.automed.xml.materialisation.Materialiser
materialiseSchema() - Method in class uk.ac.bbk.dcs.automed.xml.materialisation.DOMMaterialiser
materialiseSchema() - Method in class uk.ac.bbk.dcs.automed.xml.materialisation.Materialiser
materialiseSchema() - Method in class uk.ac.bbk.dcs.automed.xml.materialisation.XMLDSSDOMMaterialiser
materialiseSchema() - Method in class uk.ac.bbk.dcs.automed.xml.materialisation.XMLDSSMaterialiser
Max - Class in uk.ac.bbk.dcs.automed.qproc.functions.collections
Max() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.collections.Max
MAX_CHARS - Static variable in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.StatisticsModule
  The maximum number of characters of an instance
MAX_CHARS - Static variable in class uk.ac.ic.doc.automed.matching.modules.intervals.StatisticsModule
  The maximum number of characters of an instance
MAX_CHARS - Static variable in class uk.ac.ic.doc.automed.matching.modules.probability.binary.StatisticsModule
  The maximum number of characters of an instance
MAX_CHARS - Static variable in class uk.ac.ic.doc.automed.matching.modules.probability.senary.StatisticsModule
  The maximum number of characters of an instance
MAX_CHARS - Static variable in class uk.ac.ic.doc.automed.matching.SchemaElement
MAX_KEY_SIZE - Static variable in class uk.ac.ic.doc.automed.p2p.overlay.OverlayToolKit
MAX_OCCURS - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
  A feature option to model max occurs in any `Schema` the factory generates
MAX_SIZE_DIFFERENCE - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  max number of bytes of difference b/w `Constants.PACKET_SIZE` and small data datagrams (used to fine-tune datagram fragmentation)
maxNextCharInd - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
maxNextCharInd - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
maxNextCharInd - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
maxNextCharInd - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
maxNextCharInd - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
maxOccurs - Variable in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
mcds - Variable in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter
MDR - Class in uk.ac.ic.doc.automed
  Properties used from the MDR data source
MDR() - Constructor for class uk.ac.ic.doc.automed.MDR
MDR_DataSourceName - Static variable in class uk.ac.ic.doc.automed.MDR
MDRException - Exception in uk.ac.ic.doc.automed
  The class of exceptions generated by `MDR`.
MDRException(String) - Constructor for exception uk.ac.ic.doc.automed.MDRException
measureQuality() - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Measure the quality of this transformation based on the action and range of values involved
Member - Class in uk.ac.bbk.dcs.automed.qproc.functions.collections
Member() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.collections.Member
MEMBER - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
memberMap - Variable in class uk.ac.bbk.dcs.automed.wrappers.IQLTranslator
  Contains subselect statements and the variables assigned to them.
menuBar - Variable in class uk.ac.ic.doc.automed.editor.Gui
merge(Polygon, Polygon) - Static method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutTreeObject
  Merges two polygons together.
merge(Hashtable, Hashtable) - Static method in class uk.ac.ic.doc.automed.matching.SimilarSchemaElementPair
  Returns a `Hashtable` with the merged bidirectional degrees defined in the arguments.
mergeSchemas() - Method in class uk.ac.ic.doc.automed.matching.Integrator
mergeSchemas() - Method in class uk.ac.ic.doc.automed.matching.SQLIntegrator
  Merges the schemas after the naming conflicts have been resolved.
mergeTypeHierarchy(TypeHierarchy) - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Merge a high level type hierarchy with the HDM CTH
mergeViews(Cell, Cell, int) - Static method in class uk.ac.bbk.dcs.automed.qproc.reformulate.ReformulationUtility
  merge: RangexRange -> Range merge (Range e11 e12) (Range e21 e22) = Range (union e11 e21) (intersect e12 e22)
MESSAGE_BODY_DELIMITER - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
MESSAGE_DELIMITER - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
MessageFactory - Class in uk.ac.ic.doc.automed.p2p.messages.abstractlayer
MessageHandler - Class in uk.ac.ic.doc.automed.p2p
MessageHandler(AutoMedPeer) - Constructor for class uk.ac.ic.doc.automed.p2p.MessageHandler
METADATA - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
mimicThisCell(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Copies content of all fields of input Cell to current Cell.
Min - Class in uk.ac.bbk.dcs.automed.qproc.functions.collections
Min() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.collections.Min
MiniConQueryRewriter - Class in uk.ac.ic.doc.rodex.qproc
MiniConQueryRewriter(ASG, List) - Constructor for class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter
  Creates a new instance of MiniConQueryRewriter given only a list of cached views
MiniConQueryRewriter(ASG, QueryAnalyser[]) - Constructor for class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter
  Creates a new instance of MiniConQueryRewriter given a list of metadata objects of cached views
MiniConQueryRewriter.MiniConDescription - Class in uk.ac.ic.doc.rodex.qproc
  A private inner class to represent an MCD
MiniConQueryRewriter.MiniConDescription(QueryAnalyser) - Constructor for class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter.MiniConDescription
MiniConQueryRewriterAdaptive - Class in uk.ac.ic.doc.rodex.qproc
  MiniConQueryRewriterAdaptive.java Differs from `MiniConQueryWriter` in that this considers views which are only partially matched with the join sub-goals of the query.
MiniConQueryRewriterAdaptive(ASG, List) - Constructor for class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriterAdaptive
  Creates a new instance of QueryRewriterForFiltering
MiniConQueryRewriterAdaptive(ASG, QueryAnalyser[]) - Constructor for class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriterAdaptive
MiniConQueryRewriterNonConjunctive - Class in uk.ac.ic.doc.rodex.qproc
  QueryRewriterForFiltering.java
MiniConQueryRewriterNonConjunctive(ASG, List) - Constructor for class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriterNonConjunctive
  Creates a new instance of QueryRewriterForFiltering
MiniConQueryRewriterNonConjunctive(ASG, QueryAnalyser[]) - Constructor for class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriterNonConjunctive
minimumLayoutSize(Container) - Method in class uk.ac.ic.doc.automed.editor.PinBoardLayout
minOccurs - Variable in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
  The minOccurs and maxOccurs value for this object.
Minus - Class in uk.ac.bbk.dcs.automed.qproc.functions.arithmetic
Minus() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.arithmetic.Minus
MINUS - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
MINUTE - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedTime
  Granularity of one minute
Mod - Class in uk.ac.bbk.dcs.automed.qproc.functions.arithmetic
Mod() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.arithmetic.Mod
MOD - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
model - Static variable in class uk.ac.bbk.dcs.automed.rdfs.RDFSConstants
model - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
MODEL - Static variable in class uk.ac.ic.doc.automed.p2p.MessageHandler
MODEL - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  Context: MODEL
Model - Class in uk.ac.ic.doc.automed.reps
  Model.java The Model class represents instances of conceptual modelling languages, such as the relational model, ER, UML, XML, or ORM languages.
model - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
MODEL_ADDED - Static variable in class uk.ac.ic.doc.automed.reps.ModelChangeEvent
MODEL_CHANGED - Static variable in class uk.ac.ic.doc.automed.reps.ModelChangeEvent
MODEL_OBJECTS - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
MODEL_REMOVED - Static variable in class uk.ac.ic.doc.automed.reps.ModelChangeEvent
modelAdded(ModelChangeEvent) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
modelAdded(ModelChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.ModelsListener
modelChanged(ModelChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.ModelChangeListener
ModelChangeEvent - Class in uk.ac.ic.doc.automed.reps
  An instance of this class describes some change has occurred associated with the `Model` class.
ModelChangeEvent(int, Positionable) - Constructor for class uk.ac.ic.doc.automed.reps.ModelChangeEvent
ModelChangeListener - Interface in uk.ac.ic.doc.automed.reps
  An instance of this class describes some class that wants to be informed about changes associated with the `Model` class.
ModelDescription - Class in uk.ac.ic.doc.automed.p2p.directory
ModelDescription(String, String, String) - Constructor for class uk.ac.ic.doc.automed.p2p.directory.ModelDescription
ModelDescription(String, String, String, String[]) - Constructor for class uk.ac.ic.doc.automed.p2p.directory.ModelDescription
ModelDescription(Map) - Constructor for class uk.ac.ic.doc.automed.p2p.directory.ModelDescription
ModelEvolution - Class in uk.ac.bbk.dcs.automed.evolution2.modelEvolution
ModelEvolution() - Constructor for class uk.ac.bbk.dcs.automed.evolution2.modelEvolution.ModelEvolution
ModelEvolutionException - Exception in uk.ac.bbk.dcs.automed.evolution2.modelEvolution
ModelEvolutionException(String) - Constructor for exception uk.ac.bbk.dcs.automed.evolution2.modelEvolution.ModelEvolutionException
modelMap - Variable in class uk.ac.ic.doc.automed.p2p.tree.ObjectBuilder
modelName() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
modelName() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
modelName() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
modelName() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
modelName - Variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
ModelObjectBuilder - Class in uk.ac.ic.doc.automed.p2p.tree
ModelObjectBuilder(Root) - Constructor for class uk.ac.ic.doc.automed.p2p.tree.ModelObjectBuilder
  Creates a new instance of ModelObjectBuilder
modelRemoved(ModelChangeEvent) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
modelRemoved(ModelChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.ModelChangeListener
modelRemoved(ModelChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.ModelsListener
MODELS_STRING - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  Field: MODELS_STRING - store a delimited string of model names
ModelsListener - Interface in uk.ac.ic.doc.automed.reps
  Classes implementing this interface my get notification of any additions or deletions of `Model` instances.
ModifiedArray - Class in uk.ac.bbk.dcs.automed.qproc.functions
ModifiedArray(Cell) - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.ModifiedArray
ModifiedArray() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.ModifiedArray
ModuleConnector - Class in uk.ac.ic.doc.automed.util
  ModuleConnector.java Responsible for loading classes from Rodex project, creating object instances and invoking methods of these instances.
ModuleConnector() - Constructor for class uk.ac.ic.doc.automed.util.ModuleConnector
Monus - Class in uk.ac.bbk.dcs.automed.qproc.functions.collections
Monus() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.collections.Monus
monus(ModifiedArray) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.ModifiedArray
mouseClicked(MouseEvent) - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
mouseEntered(MouseEvent) - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
mouseExited(MouseEvent) - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
mousePressed(MouseEvent) - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
mouseReleased(MouseEvent) - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
move(double, double) - Method in class uk.ac.ic.doc.automed.editor.autolayout.DPoint
move(DPoint) - Method in class uk.ac.ic.doc.automed.editor.autolayout.DPoint
moveInclusion(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
  Moves an inclusion constraint
moveInclusion(SchemaObject, SchemaObject) - Method in class uk.ac.ic.doc.automed.reps.HDMTransformations
  Move an inclusion constraint between 2 identical nodes
MSAccessWrapper - Class in uk.ac.bbk.dcs.automed.wrappers
  A lower level wrapper for the conforming to the AutoMed SQL high level wrapper for Postgres SQL databases.
MSAccessWrapper() - Constructor for class uk.ac.bbk.dcs.automed.wrappers.MSAccessWrapper
MSAccessWrapper(AccessMethod, String) - Constructor for class uk.ac.bbk.dcs.automed.wrappers.MSAccessWrapper
  Generate a new wrapper instance from information held in the repository about how to access a data source.
MSAccessWrapperFactory - Class in uk.ac.bbk.dcs.automed.wrappers
  A lower level wrapper factory for Postgres SQL databases conforming to the AutoMed SQL high level wrapper factory.
MSAccessWrapperFactory() - Constructor for class uk.ac.bbk.dcs.automed.wrappers.MSAccessWrapperFactory
msg(String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.Debug
  Write a normal level message
msg(String, int) - Method in class uk.ac.bbk.dcs.automed.hdmstore.Debug
  Write a message, severity level is a parameter
msgQueue - Variable in class uk.ac.ic.doc.automed.p2p.communication.UDPServer
MULTI - Static variable in class uk.ac.ic.doc.automed.editor.UserActionClass
MULTICAST_ALL_DSP_ADDRESS - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Muticast group address: ALL_DSP (Directory Service Peers)
MULTICAST_ALL_DSP_PORT - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Muticast group port: ALL_DSP (Directory Service Peers)
MULTICAST_HOSTNAME - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Default multicast hostname which must resolve to the address of the interface used for multicast traffic
MulticastServer - Class in uk.ac.ic.doc.automed.p2p.communication
MulticastServer(String, int, RequestListener, int, int, int) - Constructor for class uk.ac.ic.doc.automed.p2p.communication.MulticastServer
  Creates a new instance of MulticastServer
Multiply - Class in uk.ac.bbk.dcs.automed.qproc.functions.arithmetic
Multiply() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.arithmetic.Multiply
multiply(BidirectionalDegree) - Method in class uk.ac.ic.doc.automed.matching.BidirectionalDegree
  Multiplies the specified bidirectional degree to the current degree.
multiply(AutoMedFloat) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedFloat
  Return the multiplication of two AutoMedFloats.
multiply(AutoMedInteger) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedInteger
  Return the multiplication of two AutoMedIntegers.
myGraph - Variable in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayout
myGraph - Static variable in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSchemaObject
myPositionableObj - Variable in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutPositionable
  Positionable object connected to this AutoLayoutPositionable.
mySchemas - Variable in class uk.ac.ic.doc.automed.p2p.PeerCache
MySchemasFrame - Class in uk.ac.ic.doc.automed.p2p.gui
MySchemasFrame(PeerApplication) - Constructor for class uk.ac.ic.doc.automed.p2p.gui.MySchemasFrame
myTable - Variable in class uk.ac.ic.doc.automed.p2p.gui.MainFrame

## N

NaiveBayesModule - Class in uk.ac.ic.doc.automed.matching.modules.bidirectionalmap
  The machine learning module that compares the schema elements by examining their instances.
NaiveBayesModule(SchemaElement[], SchemaElement[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.NaiveBayesModule
  Constructs a `NaiveBayesModule` to compare the specified schema elements in the input arrays.
name() - Method in class uk.ac.bbk.dcs.automed.hdmstore.Edge
  Get the edge name
NAME - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Compatibility
  The name of the `Compatibility` semantic relationship
NAME - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Disjointness
  The name of the `Disjointness` semantic relationship
NAME - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Equivalence
  The name of the `Equivalence` semantic relationship
NAME - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Incompatibility
  The name of the `Incompatibility` semantic relationship
NAME - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Overlapness
  The name of the `Overlapcess` semantic relationship
NAME - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Subset
  The singleton instance of the `Subset` class
NAME - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Superset
  The singleton instance of the `Superset` class
name - Variable in class uk.ac.ic.doc.automed.p2p.AutoMedPeer.PeerProcessDescription
name - Variable in class uk.ac.ic.doc.automed.p2p.directory.ModelDescription
name - Variable in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
name - Variable in class uk.ac.ic.doc.automed.p2p.directory.SchemaDescription
NAME - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
name - Variable in class uk.ac.ic.doc.automed.p2p.protocol.Request.Register
name - Variable in class uk.ac.ic.doc.automed.p2p.protocol.Request.Remove
name - Variable in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
  Object name
name - Variable in class uk.ac.ic.doc.automed.xml.XMLToken
name - Variable in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
nameField - Variable in class uk.ac.ic.doc.automed.p2p.gui.LoginFrame
NCTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
neMenuItem - Variable in class uk.ac.ic.doc.automed.editor.Gui
nestList - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
NestListsFromRDB - Class in uk.ac.bbk.dcs.automed.xml.functions
  Input 1: the unique ID of the parent element of the nestList
  Input 2: the unique ID of the child element of the nestList
  Input 3: the scheme of the relational table
NestListsFromRDB() - Constructor for class uk.ac.bbk.dcs.automed.xml.functions.NestListsFromRDB
Network - Class in uk.ac.ic.doc.automed.reps
Network(Schema[][], int) - Constructor for class uk.ac.ic.doc.automed.reps.Network
  Constructs a directed network from the schema paths supplied.
Network(String, Schema[][], int) - Constructor for class uk.ac.ic.doc.automed.reps.Network
  Constructs a directed network from the schema paths supplied.
Network(String, Schema[][], boolean, boolean, int) - Constructor for class uk.ac.ic.doc.automed.reps.Network
  Constructs a network from the schema paths supplied.
NETWORK_ADDED - Static variable in class uk.ac.ic.doc.automed.reps.NetworkChangeEvent
NETWORK_CHANGED - Static variable in class uk.ac.ic.doc.automed.reps.NetworkChangeEvent
NETWORK_MERGED - Static variable in class uk.ac.ic.doc.automed.reps.NetworkChangeEvent
NETWORK_REMOVED - Static variable in class uk.ac.ic.doc.automed.reps.NetworkChangeEvent
NETWORK_SPLIT - Static variable in class uk.ac.ic.doc.automed.reps.NetworkChangeEvent
networkAdded(NetworkChangeEvent) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
networkAdded(NetworkChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.NetworksListener
networkChanged(NetworkChangeEvent) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
networkChanged(NetworkChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.NetworkChangeListener
networkChanged(NetworkChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.NetworksListener
NetworkChangeEvent - Class in uk.ac.ic.doc.automed.reps
NetworkChangeEvent(int, Object) - Constructor for class uk.ac.ic.doc.automed.reps.NetworkChangeEvent
NetworkChangeListener - Interface in uk.ac.ic.doc.automed.reps
networkMerged(NetworkChangeEvent) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
networkMerged(NetworkChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.NetworkChangeListener
networkRemoved(NetworkChangeEvent) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
networkRemoved(NetworkChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.NetworkChangeListener
networkRemoved(NetworkChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.NetworksListener
NetworksListener - Interface in uk.ac.ic.doc.automed.reps
networkSplit(NetworkChangeEvent) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
networkSplit(NetworkChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.NetworkChangeListener
NEW_PEER - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  Context
NEW_SCHEMA_Y_OFFSET - Static variable in class uk.ac.ic.doc.automed.reps.Schema
  Default distance to place a new schema created by a transformation from the schema it is created from
newapplyExtendTransformation(Construct, String, String, String) - Method in class uk.ac.ic.doc.automed.reps.Schema
newAutoMedPeer(String, PeerStateHandler) - Static method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Create a new `AutoMedPeer` if one does not already exist.
newAutoMedSchema(String) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Returns the `Schema` that represents in the datasource in terms of `SchemaObject`s in an AutoMed oriented manner.
newAutoMedWrapper() - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapperFactory
newAutoMedWrapper() - Method in class uk.ac.bbk.dcs.automed.wrappers.MSAccessWrapperFactory
newAutoMedWrapper(String, String, String, String, String, AutoMedWrapperFactory) - Static method in class uk.ac.bbk.dcs.automed.xml.wrappers.EXISTWrapper
newAutoMedWrapper() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.EXISTWrapperFactory
newAutoMedWrapper(String, String, String, String, String, AutoMedWrapperFactory) - Static method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
newAutoMedWrapper() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapperFactory
newAutoMedWrapper(AccessMethod) - Static method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Deprecated. use getAutoMedWrapper(am) instead
newAutoMedWrapper(String, String, String, String, String, AutoMedWrapperFactory) - Static method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Create an AutoMed `Schema` containing `SchemaObject`s that represent a database, in such a form that queries on that schema can be mapped by executeQuery in the query lanuage of the database.
newAutoMedWrapper(AccessMethod, String) - Static method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Deprecated. use getAutoMedWrapper
newAutoMedWrapper() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
  Create a new empty wrapper instance that this wrapper factory is then able to populate.
newAutoMedWrapper() - Method in class uk.ac.ic.doc.automed.wrappers.CSVWrapperFactory
newAutoMedWrapper() - Method in class uk.ac.ic.doc.automed.wrappers.HDMWrapperFactory
newAutoMedWrapper() - Method in class uk.ac.ic.doc.automed.wrappers.HsqldbWrapperFactory
newAutoMedWrapper(String, String, String, String, String, AutoMedWrapperFactory) - Static method in class uk.ac.ic.doc.automed.wrappers.OracleWrapper
  Create an AutoMed `Schema` containing `SchemaObject`s that represent a database, in such a form that queries on that schema can be mapped by executeQuery in the query lanuage of the database.
newAutoMedWrapper() - Method in class uk.ac.ic.doc.automed.wrappers.OracleWrapperFactory
newAutoMedWrapper() - Method in class uk.ac.ic.doc.automed.wrappers.P2PWrapperFactory
newAutoMedWrapper() - Method in class uk.ac.ic.doc.automed.wrappers.PostgresWrapperFactory
newAutoMedWrapper() - Method in class uk.ac.ic.doc.automed.wrappers.QueryCacheWrapperFactory
  Return a new instance of the `QueryCacheWrapper`
newAutoMedWrapper() - Method in class uk.ac.ic.doc.automed.wrappers.SchemaMatchingSQLWrapperFactory
newAutoMedWrapper() - Method in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
newAutoMedWrapper() - Method in class uk.ac.ic.doc.automed.wrappers.TransactSQLWrapperFactory
newAutoMedWrapper() - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
newAutoMedWrapper() - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapperFactory
newConnection() - Method in class uk.ac.ic.doc.automed.util.db.DBAccess
  Creates a new connection to add to the pool
newConnection() - Method in class uk.ac.ic.doc.automed.util.db.DBEmbedded
newConnection() - Method in class uk.ac.ic.doc.automed.util.db.DBPostgres
newDataSourceException(String, Exception) - Static method in exception uk.ac.ic.doc.automed.wrappers.DataSourceException
  Create a new DataSourceException only if necessary.
newDocument() - Static method in class uk.ac.ic.doc.automed.p2p.util.XmlHandler
newID() - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
newInconsistentException(String, Exception) - Static method in exception uk.ac.ic.doc.automed.InconsistentException
  Create a new InconsistentException only if necessary.
newInstance() - Static method in class uk.ac.ic.doc.automed.p2p.messages.abstractlayer.MessageFactory
newObjectsClass - Static variable in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutPositionable
newPeer(String, PeerStateHandler) - Static method in class uk.ac.ic.doc.rodex.p2p.Peer
  Creates a new instance of Peer
newPeerProcess(String, PeerStateHandler, String) - Static method in class uk.ac.ic.doc.rodex.p2p.Peer
  Create a new peer with a different configuration
newQueryInstance(String) - Static method in class uk.ac.ic.doc.automed.qproc.ASGQuery
  Creates a new instance of ASGQuery
newQueryInstance(Cell) - Static method in class uk.ac.ic.doc.automed.qproc.ASGQuery
  Creates a new instance of ASGQuery
newRequest(String, String[]) - Static method in class uk.ac.ic.doc.automed.p2p.protocol.Request
newToken(int) - Static method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Token
  Returns a new Token object, by default.
newToken(int) - Static method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.Token
  Returns a new Token object, by default.
newToken(int) - Static method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.Token
  Returns a new Token object, by default.
newToken(int) - Static method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.Token
  Returns a new Token object, by default.
newToken(int) - Static method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.Token
  Returns a new Token object, by default.
next - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Token
  A reference to the next regular (non-special) token from the input stream.
next - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.Token
  A reference to the next regular (non-special) token from the input stream.
next - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.Token
  A reference to the next regular (non-special) token from the input stream.
next - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.Token
  A reference to the next regular (non-special) token from the input stream.
next() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGCollectionIterator
next - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.Token
  A reference to the next regular (non-special) token from the input stream.
next() - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
  Implements mandatory methods of the `ListIterator` interface Returns the metadata object of the next cache item
next() - Method in class uk.ac.ic.doc.automed.util.db.DBResultSet
  Return the next
next() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedResult
  Returns true if the cursor can be moved to a next row
next_token() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.EnvLexer
next_token() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.FLexer
nextError() - Method in class uk.ac.ic.doc.automed.xml.XMLReader
  If separateErrors is set to true and nextToken() or peekToken() have (or would on next call) returned return null then getNextError will keep returning errors until the list is exhausted at which point it will return null otherwise it will just return null
nextToken(int, String) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
  throws an XMLReaderException if the next element or its name is not of the expected type
nextToken(int[], String[]) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
nextToken(int) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
nextToken(int[]) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
nextToken() - Method in class uk.ac.ic.doc.automed.xml.XMLReader
nextVal(Connection, String) - Static method in class uk.ac.ic.doc.automed.util.db.SQLFunctions
  Select the next value from a pre-defined sequence
  This method is equivalent to nextval() SQL function.
NO_SERVICE - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
nodal - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
node() - Method in class uk.ac.bbk.dcs.automed.hdmstore.EdgeElement
  is this element a node?
Node - Class in uk.ac.ic.doc.automed.reps
NODE_ADDED - Static variable in class uk.ac.ic.doc.automed.reps.NetworkChangeEvent
NODE_REMOVED - Static variable in class uk.ac.ic.doc.automed.reps.NetworkChangeEvent
nodeAdded(NetworkChangeEvent) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
nodeAdded(NetworkChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.NetworkChangeListener
nodeExists(Span) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  For the node instance specifed in the `Span` data structure check if it exists in the HDM store
nodeExists(String, String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  For the node instance specifed by node type & value, check if it exists in the HDM store
nodeReidentify(SchemaObject, SchemaObject) - Method in class uk.ac.ic.doc.automed.reps.HDMTransformations
  Node reidentify
nodeRemoved(NetworkChangeEvent) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
nodeRemoved(NetworkChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.NetworkChangeListener
nodeSpan - Static variable in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
nodeTypeExists(String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Check whether any instances of this node type are currently stored in the HDM store
nodeValue() - Method in class uk.ac.bbk.dcs.automed.hdmstore.EdgeElement
  get the nodeValue
NONE - Static variable in class uk.ac.bbk.dcs.automed.hdmstore.Debug
NONSCALAR_COMPOUND_KEY - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
NONVIRTUAL_SCHEMA_SEPARATOR - Static variable in class uk.ac.ic.doc.automed.reps.Network
  The string to put between any non-virtual schemas in the network name
NORMAL - Static variable in class uk.ac.bbk.dcs.automed.hdmstore.Debug
Not - Class in uk.ac.bbk.dcs.automed.qproc.functions.logical
Not() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.logical.Not
NOT - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLQuery
NOT_EQUAL - Static variable in exception uk.ac.ic.doc.automed.IntegrityException
  Exception caused by an operation doing some sort comparison where .
NOT_EQUALS - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
NOTATION_DECL - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
notationDecl(String, String, String) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
NotEqual - Class in uk.ac.bbk.dcs.automed.qproc.functions.comparison
NotEqual() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.comparison.NotEqual
NOTEQUAL - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLQuery
NotFoundException - Exception in uk.ac.ic.doc.automed
  A request has be made for details of an object where the object is not present in the repository
NotFoundException(String) - Constructor for exception uk.ac.ic.doc.automed.NotFoundException
  Creates an NotFoundException when there has been no Exception that caused the error to discovered.
NotFoundException(String, Exception) - Constructor for exception uk.ac.ic.doc.automed.NotFoundException
  Creates an NotFoundException when it is acting as a wrapper for other Exceptions.
notifyListeners(String, IQueryCache) - Static method in class uk.ac.ic.doc.automed.qproc.cache.CacheManager
notifyListeners(Cacheable) - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
  Notify listeners to handle a specific event
notifyListeners(Cacheable) - Method in interface uk.ac.ic.doc.automed.util.cache.Cacheable
  Notify listeners to handle a specific event
NotImplementedException - Exception in uk.ac.ic.doc.automed
  Some part of the AutoMed code that should present has not yet been implemented..
NotImplementedException() - Constructor for exception uk.ac.ic.doc.automed.NotImplementedException
  Creates an NotImplementedException with no message
NotImplementedException(String) - Constructor for exception uk.ac.ic.doc.automed.NotImplementedException
  Creates an NotImplementedException detailing what has not been implemented! .
NotOptimisableException - Exception in uk.ac.ic.doc.automed.tml
  A request for optimisatiing a pathway has been made where the pathway is not optimisable
NotOptimisableException(String) - Constructor for exception uk.ac.ic.doc.automed.tml.NotOptimisableException
  Creates an NotOptimisableException when there has been no Exception that caused the error to discovered.
NotOptimisableException(String, Exception) - Constructor for exception uk.ac.ic.doc.automed.tml.NotOptimisableException
  Creates an NotOptimisableException when it is acting as a wrapper for other Exceptions.
NotProcessed(SchemaObject) - Method in class uk.ac.ic.doc.automed.editor.layout.RootLayout
nul - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
NULL_CONSTRAINT - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
  A feature option to model the null/notnull distinction as part of a column in any `Schema` the factory generates
NULL_ID - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
NULL_STR - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedType
  String to use to represent null values
NULL_STRING - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  Null string
NULL_VALUE - Static variable in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
NULL_VALUE - Static variable in class uk.ac.ic.doc.rodex.qproc.QueryDescription
nullAction(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
NUM - Static variable in class uk.ac.ic.doc.automed.matching.SchemaElement
NUM_AUTOMED_TREES - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
NUM_ITEMS - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
NUMBER - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.TypeConstants
NUMBER - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
number - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
NumberInstancesModule - Class in uk.ac.ic.doc.automed.matching.modules.bidirectionalmap
  The module that compares the number of instances of the schema elements
NumberInstancesModule(ArrayList, ArrayList) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.NumberInstancesModule
  Constructs a `NumberInstancesModule` to compare the specified schema elements in the input lists.
NumberInstancesModule(SchemaElement[], SchemaElement[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.NumberInstancesModule
  Constructs a `NumberInstancesModule` to compare the specified schema elements in the input arrays.
NumberInstancesModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.NumberInstancesModule
NumberInstancesModule - Class in uk.ac.ic.doc.automed.matching.modules.intervals
  The module that compares the number of instances of the schema elements
NumberInstancesModule(ArrayList, ArrayList) - Constructor for class uk.ac.ic.doc.automed.matching.modules.intervals.NumberInstancesModule
  Constructs a `NumberInstancesModule` to compare the specified schema elements in the input lists.
NumberInstancesModule(SchemaElement[], SchemaElement[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.intervals.NumberInstancesModule
  Constructs a `NumberInstancesModule` to compare the specified schema elements in the input arrays.
NumberInstancesModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.intervals.NumberInstancesModule
NumberInstancesModule - Class in uk.ac.ic.doc.automed.matching.modules.probability.senary
  The module that compares the number of instances of the schema elements
NumberInstancesModule(ArrayList, ArrayList) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.senary.NumberInstancesModule
  Constructs a `NumberInstancesModule` to compare the specified schema elements in the input lists.
NumberInstancesModule(SchemaElement[], SchemaElement[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.senary.NumberInstancesModule
  Constructs a `NumberInstancesModule` to compare the specified schema elements in the input arrays.
NumberInstancesModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.senary.NumberInstancesModule
numberOfRowsInResultSet(ResultSet) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Given a result set - how many rows are in it?
NumberToolkit - Class in uk.ac.ic.doc.automed.util
  NumberToolkit.java Deals with number manipulation
NUMCHAR - Static variable in class uk.ac.ic.doc.automed.matching.SchemaElement
numOfInstances() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
  Returns the number of distinct instances of this object.
NUMTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SchemesConstants
NUMTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompConstants
NUMTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendConstants
NUMTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusConstants
numWorkers - Variable in class uk.ac.ic.doc.automed.p2p.communication.AbstractServer
nval - Variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
NXDBSchemaManager - Class in uk.ac.bbk.dcs.automed.xml.wrappers
  XMLDSS schemas for Native XML Databases are managed by this class.
NXDBSchemaManager() - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.NXDBSchemaManager
NXDBWrapper - Class in uk.ac.bbk.dcs.automed.xml.wrappers
  Class Task Description
NXDBWrapperFactory - Class in uk.ac.bbk.dcs.automed.xml.wrappers
  Class Task Description
NXDBWrapperFactory() - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.NXDBWrapperFactory

## O

OBJECT - Static variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
OBJECT - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
OBJECT_ADDED - Static variable in class uk.ac.ic.doc.automed.reps.SchemaChangeEvent
OBJECT_CHANGED - Static variable in class uk.ac.ic.doc.automed.reps.SchemaChangeEvent
OBJECT_CHILDREN - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
OBJECT_CHILDREN_RECURSE - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
OBJECT_DEFINITION - Static variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
OBJECT_LIST - Static variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
OBJECT_MEMBER - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
OBJECT_MEMBER_AND_CHILDREN - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
OBJECT_MEMBER_RECURSE - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
OBJECT_REMOVED - Static variable in class uk.ac.ic.doc.automed.reps.SchemaChangeEvent
objectAdded(SchemaChangeEvent) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
objectAdded(SchemaChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.SchemaChangeListener
ObjectBuilder - Class in uk.ac.ic.doc.automed.p2p.tree
ObjectBuilder(Root) - Constructor for class uk.ac.ic.doc.automed.p2p.tree.ObjectBuilder
objectChanged(SchemaChangeEvent) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
objectChanged(SchemaChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.SchemaChangeListener
ObjectCollection - Class in uk.ac.ic.doc.automed.p2p.tree
ObjectCollection(Class) - Constructor for class uk.ac.ic.doc.automed.p2p.tree.ObjectCollection
objectRemoved(SchemaChangeEvent) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
objectRemoved(SchemaChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.SchemaChangeListener
objectToEntry(Object, TupleOutput) - Method in class uk.ac.ic.doc.automed.qproc.cache.CacheObjectBinding
  Write a `CachItem` object to a persistent database
objectToEntry(Object, TupleOutput) - Method in class uk.ac.ic.doc.automed.util.persist.AbstractObjectBinding
  Converts a key or data object to a tuple entry.
ObjectToolKit - Class in uk.ac.ic.doc.automed.util
  ObjectToolKit.java
offset(int, int, int, int, int, int) - Static method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutTreeObject
  Calculates the offset for specified points.
okToAddEdge(Edge) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Given an `Edge` is it OK to add the edge e.g.
OldQueryProcessor - Class in uk.ac.bbk.dcs.automed.qproc
  The query processor class.
OldQueryProcessor() - Constructor for class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
  Constructs a QueryProcessor using `QueryProcessorConfiguration`.
OldQueryProcessor(QueryProcessorConfiguration) - Constructor for class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
  Constructs a QueryProcessor using the input configuration.
OldQueryProcessor(Schema, Schema[]) - Constructor for class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
OldQueryProcessor(Schema, Schema[], QueryProcessorConfiguration) - Constructor for class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
  Constructs a QueryProcessor using the input configuration.
oldRetract() - Method in class uk.ac.ic.doc.automed.reps.Schema
ONEPASS - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
openMainWindow() - Static method in class uk.ac.ic.doc.automed.editor.Gui
  Open/reopen the main window of the Gui, containing initially a network editor window
openMainWindow(PeerApplication) - Static method in class uk.ac.ic.doc.rodex.p2p.gui.GuiApplication
  Open/reopen the main window of the Gui, containing initially a network editor window
openScheme - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
openTag(String) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
  Opening a tag will finish off the opening phase of the previously opend tag if it is still in the opening phase.
operateOnCache(Cacheable) - Method in interface uk.ac.ic.doc.automed.util.cache.CacheListener
  A generic method to operate on cache object when notified
OPERATION - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
OPT_DELETE - Static variable in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.SchemaAccessibility
OPT_HELLO - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Messaging type: hello protocol
OPT_KEEP_ALIVE - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Messaging type: keep-alive
OPT_LOGGING - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Messaging type: logging
OPT_READ - Static variable in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.SchemaAccessibility
OPT_UNREGISTER - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Messaging type: unregistering client from registry and server
OPT_UPDATE_DATA - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Messaging type: data update with directory server
OPT_WRITE - Static variable in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.SchemaAccessibility
optimise(ASG) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.ExperimentalOptimisationProvider
optimise(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.optimisers.ChooseOptimiser
optimise(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.optimisers.CollectionOperatorReorganiser
optimise(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.optimisers.ComprehensionDistributor
optimise(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.optimisers.ComprehensionSimplification
optimise(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.optimisers.ConstantSimplification
optimise(ASG) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.PhysicalOptimiser
optimise(ASG, QueryProcessorConfiguration) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.StandardOptimisationProvider
optimise(ASG, QueryProcessorConfiguration) - Method in interface uk.ac.ic.doc.automed.qproc.opti.QueryOptimisationProvider
  Optimise an IQL query based on a given configuration
optimiseAdvanced(Object[]) - Static method in class uk.ac.ic.doc.automed.editor.PathwayOptimiserTool
optimisedQuery - Variable in class uk.ac.ic.doc.automed.editor.IQLTool
optimisePathway(Pathway, int) - Static method in class uk.ac.ic.doc.automed.tml.PathwayOptimiser
optimisePathway(Pathway, boolean, int) - Static method in class uk.ac.ic.doc.automed.tml.PathwayOptimiser
optimisePathway(Pathway, boolean, PathwayOptimiserTool, int) - Static method in class uk.ac.ic.doc.automed.tml.PathwayOptimiser
OPTION_SCHEMA_NAME - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapper
  An option key setting, the value of which should be the SQL schema which is the only one to be mapped in this wrapping
OPTIONAL - Static variable in class uk.ac.ic.doc.automed.editor.CommandLineDriver
optionKeyProtection - Variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
optionKeys - Variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
optionsMenu - Variable in class uk.ac.ic.doc.automed.editor.Gui
OpToken - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
Or - Class in uk.ac.bbk.dcs.automed.qproc.functions.logical
Or() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.logical.Or
OR - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
OR - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLQuery
  SQL logical OR binary operator for use within WHERE expressions
oracle - Static variable in class uk.ac.bbk.dcs.automed.xml.relational.XMLDSSFromRDB
OracleWrapper - Class in uk.ac.ic.doc.automed.wrappers
  A lower level wrapper for the conforming to the AutoMed SQL high level wrapper for Oracle SQL databases.
OracleWrapper(AccessMethod, String) - Constructor for class uk.ac.ic.doc.automed.wrappers.OracleWrapper
  Generate a new wrapper instance from information held in the repository about how to access a data source.
OracleWrapperFactory - Class in uk.ac.ic.doc.automed.wrappers
  A lower level wrapper factory for Oracle SQL databases conforming to the AutoMed SQL high level wrapper factory.
OracleWrapperFactory() - Constructor for class uk.ac.ic.doc.automed.wrappers.OracleWrapperFactory
OrderPreservedHashing - Class in uk.ac.ic.doc.automed.util.hashing
  OrderPreservedHashing.java Hashes a string but preserves the order, i.e.
OrderPreservedHashing() - Constructor for class uk.ac.ic.doc.automed.util.hashing.OrderPreservedHashing
  Creates a new instance of StructurePreservedHashing
originalSchema - Variable in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolution
otherPeers - Variable in class uk.ac.ic.doc.automed.p2p.PeerCache
output(String) - Method in class uk.ac.ic.doc.automed.reps.XMLSchemaOutputter
  Write the output string to a file
output() - Method in class uk.ac.ic.doc.automed.reps.XMLSchemaOutputter
output(String[]) - Method in class uk.ac.ic.doc.automed.util.LogOutputHandler
  Write log message to normal log file.
output() - Method in class uk.ac.ic.doc.automed.xmlschema.output.XMLOutputter
  Return a string containing the XML that this Schema represents
output(String) - Method in class uk.ac.ic.doc.automed.xmlschema.output.XMLOutputter
  Output the XML that this Schema represents to fileName
output(String, Document) - Method in class uk.ac.ic.doc.automed.xmlschema.output.XMLSchemaOutputter
  Write the output string to a file
output(Document) - Method in class uk.ac.ic.doc.automed.xmlschema.output.XMLSchemaOutputter
OUTPUT_SOCKET - Static variable in class uk.ac.ic.doc.automed.p2p.communication.ResponseHandler
OUTPUT_STREAM - Static variable in class uk.ac.ic.doc.automed.p2p.communication.ResponseHandler
outputConfirm(String, OutputStream) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  Only works with TCP protocol
outputConfirm(String, ResponseHandler) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  Serialise output through a handler object rather than through direct manipulation
  of physical output streams
outputConfirm(String, Map, OutputStream) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  An overloading method of `#outputConfirm()` to output a confirmation message with optional content data
outputConfirm(String, Map, ResponseHandler) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
outputError(String[], Throwable) - Method in class uk.ac.ic.doc.automed.util.LogOutputHandler
  Write errors to error log file.
outputErrorMessage(AbstractMessage, OutputStream) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  Only works with TCP protocol
outputErrorMessage(AbstractMessage, ResponseHandler) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  Serialise output through a handler object rather than through direct manipulation
  of physical output streams
outputErrorMessage(AbstractMessage, String, OutputStream) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  Only works with TCP protocol
outputErrorMessage(AbstractMessage, String, ResponseHandler) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  Serialise output through a handler object rather than through direct manipulation
  of physical output streams
outputFailMessage(AbstractMessage, String, OutputStream) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  Only works with TCP protocol
outputFailMessage(AbstractMessage, OutputStream) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  Only works with TCP protocol
outputFailMessage(AbstractMessage, String, ResponseHandler) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  Serialise output through a handler object rather than through direct manipulation
  of physical output streams
outputFailMessage(AbstractMessage, ResponseHandler) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  Serialise output through a handler object rather than through direct manipulation
  of physical output streams
outputPathway(AbstractMessage, ResponseHandler) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
outputPathwayToSource(AbstractMessage, ResponseHandler) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Deprecated. use `#outputSourcePathways(AbstractMessage request, OutputStream output)`
  to get multiple pathways
outputQuery(AbstractMessage, ResponseHandler) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Use `QEP` protocol to execute the query
outputQuery(AbstractMessage, ResponseHandler) - Method in class uk.ac.ic.doc.rodex.p2p.Peer
  Execute query using `QEP` protocol
outputRelational(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
  Materialises an SQL schema
outputSchema(AbstractMessage, ResponseHandler) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
outputSourcePathways(AbstractMessage, ResponseHandler) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Output all possible pathways to all data sources attached to a given
  public schema
outputUnsuccessfulMessage(AbstractMessage, String, String, OutputStream) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  Deprecated. use `Util.outputUnsuccessfulMessage(AbstractMessage request, String message, String performative, ResponseHandler output)` instead
outputUnsuccessfulMessage(AbstractMessage, String, String, ResponseHandler) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  Serialise output through a handler object rather than through direct manipulation
  of physical output streams
outputXMLSchema(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
  Materialises an XML Schema
overFunction(double) - Method in class uk.ac.ic.doc.automed.matching.BidirectionalDegree
  Returns `true` if the following is true: `forward+backward-c>=0`
Overlapness - Class in uk.ac.ic.doc.automed.matching.relationships
  The Overlapness class represent the overlapness semantic relationship between `SchemaElement` objects.
overlaps - Variable in class uk.ac.ic.doc.automed.matching.Integrator
OverlayController - Class in uk.ac.ic.doc.automed.p2p.overlay
  OverlayController.java
  The main class reponsible for establishing a new [contacting an existing] overlay network.
OverlayException - Exception in uk.ac.ic.doc.automed.p2p.overlay
  OverlayException.java
OverlayException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.p2p.overlay.OverlayException
  Creates a new instance of PersistentDBException
OverlayException(String) - Constructor for exception uk.ac.ic.doc.automed.p2p.overlay.OverlayException
OverlayToolKit - Class in uk.ac.ic.doc.automed.p2p.overlay
  OverlayToolKit.java
  A collection of utility methods

## P

p - Variable in class uk.ac.ic.doc.automed.editor.DrawArc
p - Variable in class uk.ac.ic.doc.automed.editor.DrawVertex
p - Variable in class uk.ac.ic.doc.automed.xmlschema.tree.TreeDropTarget
p2pCloseMenuItem - Variable in class uk.ac.ic.doc.automed.editor.Gui
P2PConstants - Class in uk.ac.ic.doc.automed.p2p.protocol
  This class supplies the names of various fields and tables used in the AutoMed system, plus "psuedo constants" readin from the P2P configuration file
P2PConstants() - Constructor for class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
P2PDirectory - Class in uk.ac.ic.doc.automed.p2p.directory
p2pDirectoryMenuItem - Variable in class uk.ac.ic.doc.automed.editor.Gui
P2PDirectoryObject - Interface in uk.ac.ic.doc.automed.p2p.directory
P2PDirectoryRepository - Class in uk.ac.ic.doc.automed.p2p.directory
P2PException - Exception in uk.ac.ic.doc.automed.p2p
P2PException() - Constructor for exception uk.ac.ic.doc.automed.p2p.P2PException
P2PException(String) - Constructor for exception uk.ac.ic.doc.automed.p2p.P2PException
P2PException(Throwable) - Constructor for exception uk.ac.ic.doc.automed.p2p.P2PException
P2PException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.p2p.P2PException
P2PGui - Class in uk.ac.ic.doc.automed.p2p.gui
  Various dialogue boxes for the PeerApplication to use when informing a user of the result of operations.
P2PGui() - Constructor for class uk.ac.ic.doc.automed.p2p.gui.P2PGui
p2pLoginMenuItem - Variable in class uk.ac.ic.doc.automed.editor.Gui
p2pMenu - Variable in class uk.ac.ic.doc.automed.editor.Gui
P2PProtocol - Class in uk.ac.ic.doc.automed.p2p.protocol
P2PProtocol() - Constructor for class uk.ac.ic.doc.automed.p2p.protocol.P2PProtocol
P2PQueryEvaluator - Class in uk.ac.ic.doc.automed.qproc.eval
  ConstraintEvaluator.java
P2PQueryEvaluator(QueryProcessorConfiguration) - Constructor for class uk.ac.ic.doc.automed.qproc.eval.P2PQueryEvaluator
P2PQueryEvaluator(FunctionTable) - Constructor for class uk.ac.ic.doc.automed.qproc.eval.P2PQueryEvaluator
  Deprecated. use `#Evaluator(QueryProcessorConfiguration)` instead
P2PQueryEvaluator(FunctionTable, int) - Constructor for class uk.ac.ic.doc.automed.qproc.eval.P2PQueryEvaluator
  Deprecated. use `#Evaluator(QueryProcessorConfiguration)` instead
P2PQueryProcessorConfiguration - Class in uk.ac.ic.doc.automed.qproc
  QueryProcessingConfiguration.java A global configuration class that encapsulates different aspects of a query processing 'process'
  Each phase in query processing can provide their own configuration class as long as it extends this class.
P2PQueryProcessorConfiguration() - Constructor for class uk.ac.ic.doc.automed.qproc.P2PQueryProcessorConfiguration
  Creates a new instance of QueryProcessingConfiguration
P2PRegistry - Class in uk.ac.ic.doc.automed.p2p
P2PWrapper - Class in uk.ac.ic.doc.automed.wrappers
  Use the AutoMed P2P package to access other AutoMed repositories (called peers) that contain a common schema.
P2PWrapper() - Constructor for class uk.ac.ic.doc.automed.wrappers.P2PWrapper
P2PWrapper(AccessMethod, String) - Constructor for class uk.ac.ic.doc.automed.wrappers.P2PWrapper
P2PWrapperFactory - Class in uk.ac.ic.doc.automed.wrappers
  A wrapper factory for P2P communication with other AutoMed repositories
P2PWrapperFactory() - Constructor for class uk.ac.ic.doc.automed.wrappers.P2PWrapperFactory
PACKET_SIZE - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Send buffer sized for clients
paint(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.drawables.YattaDrawLinkNodalLink
  Draw a Yatta Arc by linking all parents to child
paint(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.drawables.YattaDrawSequence
  Modify the basic drawing of arcs to set the arc colour based on the foreground colour of the first positionable connected
paintChildren(Graphics) - Method in class uk.ac.ic.doc.automed.editor.EditorPanel
  Paint the arcs within this panel.
paintComponent(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.DefaultDrawConstraintArc
paintComponent(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.DefaultDrawLinkArc
  Modify the basic drawing of arcs to set the arc colour based on the foreground colour of the first positionable connected
paintComponent(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.DefaultDrawLinkNodalArc
  Choose the colour to be that which the first connected Positionable is drawn in
paintComponent(Graphics2D) - Method in interface uk.ac.ic.doc.automed.editor.Drawable
paintComponent(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.drawables.DrawAMRDBForeignKeyArc
  Modify the basic drawing of arcs to set the arc colour based on the foreground colour of the first positionable connected
paintComponent(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.drawables.DrawAMRDBPrimaryKeyArc
  Modify the basic drawing of arcs to set the arc colour based on the foreground colour of the first positionable connected
paintComponent(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.drawables.DrawERGeneralisationArc
paintComponent(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.drawables.DrawERRelationshipArc
paintComponent(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.drawables.DrawHDMArc
paintComponent(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.drawables.DrawRDBForeignKeyArc
  Modify the basic drawing of arcs to set the arc colour based on the foreground colour of the first positionable connected
paintComponent(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.drawables.DrawRDBForeignKeyVertex
  Modify the basic drawing of arcs to set the arc colour based on the foreground colour of the first positionable connected
paintComponent(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.drawables.DrawRDBPrimaryKeyArc
  Modify the basic drawing of arcs to set the arc colour based on the foreground colour of the first positionable connected
paintComponent(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.drawables.DrawRDBPrimaryKeyVertex
  Modify the basic drawing of arcs to set the arc colour based on the foreground colour of the first positionable connected
paintComponent(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.drawables.DrawRDBTableVertex
  Modify the basic drawing of arcs to set the arc colour based on the foreground colour of the first positionable connected
paintComponent(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.drawables.DrawXSArc
paintComponent(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.DrawArc
paintComponent(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.DrawTransformation
paintComponent(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.DrawVertex
paintComponent(Graphics) - Method in class uk.ac.ic.doc.automed.editor.EditorPanel
  Paint the nodes within this panel.
paintSymbol(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.DefaultDrawConstraintVertex
  Draw a rounded box to represent a constraint
paintSymbol(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.DefaultDrawLinkNodalVertex
  Draw a circle to represent the attribute vertex
paintSymbol(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.DefaultDrawLinkVertex
paintSymbol(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.DefaultDrawNodalVertex
  Replace the paintSymbol method of `DrawVertex` with one that draws a rectangle rather that a oval.
paintSymbol(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.drawables.DrawERGeneralisationVertex
  Replace the paintSymbol with one that draws an irregular hexagon
paintSymbol(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.drawables.DrawERRelationshipVertex
  Draw a diamond instead of the standard ellipse.
paintSymbol(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.drawables.DrawRDBForeignKeyVertex
paintSymbol(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.DrawNetwork
paintSymbol(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.DrawVertex
paintText(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.DefaultDrawLinkNodalVertex
paintText(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.drawables.DrawEERAttributeVertex
paintText(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.drawables.DrawRDBForeignKeyVertex
paintText(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.drawables.DrawRDBTableVertex
paintText(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.DrawNetwork
paintText(Graphics2D) - Method in class uk.ac.ic.doc.automed.editor.DrawVertex
PairFirst - Class in uk.ac.bbk.dcs.automed.qproc.functions
PairFirst() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.PairFirst
PairSecond - Class in uk.ac.bbk.dcs.automed.qproc.functions
PairSecond() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.PairSecond
parent - Variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
parent - Variable in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
  Object parent
parentTranslator - Variable in class uk.ac.bbk.dcs.automed.wrappers.IQLTranslator
parse() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.QueryParser
parse() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
parse() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
parse() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
parse() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
parse() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
parseASG(String) - Static method in class uk.ac.ic.doc.rodex.qproc.ASGExplore
  Parse ASGs into variables
ParseException - Exception in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes
  This exception is thrown when parse errors are encountered.
ParseException(Token, int[][], String[]) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.ParseException
  This constructor is used by the method "generateParseException" in the generated parser.
ParseException() - Constructor for exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.ParseException
  The following constructors are for use by you for whatever purpose you can think of.
ParseException(String) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.ParseException
ParseException - Exception in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp
  This exception is thrown when parse errors are encountered.
ParseException(Token, int[][], String[]) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.ParseException
  This constructor is used by the method "generateParseException" in the generated parser.
ParseException() - Constructor for exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.ParseException
  The following constructors are for use by you for whatever purpose you can think of.
ParseException(String) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.ParseException
ParseException - Exception in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend
  This exception is thrown when parse errors are encountered.
ParseException(Token, int[][], String[]) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.ParseException
  This constructor is used by the method "generateParseException" in the generated parser.
ParseException() - Constructor for exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.ParseException
  The following constructors are for use by you for whatever purpose you can think of.
ParseException(String) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.ParseException
ParseException - Exception in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus
  This exception is thrown when parse errors are encountered.
ParseException(Token, int[][], String[]) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.ParseException
  This constructor is used by the method "generateParseException" in the generated parser.
ParseException() - Constructor for exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.ParseException
  The following constructors are for use by you for whatever purpose you can think of.
ParseException(String) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.ParseException
ParseException - Exception in uk.ac.bbk.dcs.automed.qproc.iql
  An exception relating to the QProc package.
ParseException(String) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.iql.ParseException
ParseException(String, Exception) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.iql.ParseException
  Creates a QProcException when it is acting as a wrapper for other Exceptions.
ParseException - Exception in uk.ac.bbk.dcs.automed.qproc.translators.xquery
  This exception is thrown when parse errors are encountered.
ParseException(Token, int[][], String[]) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.translators.xquery.ParseException
  This constructor is used by the method "generateParseException" in the generated parser.
ParseException() - Constructor for exception uk.ac.bbk.dcs.automed.qproc.translators.xquery.ParseException
  The following constructors are for use by you for whatever purpose you can think of.
ParseException(String) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.translators.xquery.ParseException
parseFile(String, boolean) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
  Parses the input file and returns its DOM representation
parseFile(String) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
parseFile(File) - Static method in class uk.ac.ic.doc.automed.p2p.util.XmlHandler
parseFileNS(String, boolean) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
  Parses the input file and returns its DOM representation
parseInputStream(InputStream) - Static method in class uk.ac.ic.doc.automed.p2p.util.XmlHandler
parseRequest(String) - Static method in class uk.ac.ic.doc.automed.p2p.protocol.P2PProtocol
parseString(String, boolean) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
parseString(String) - Static method in class uk.ac.ic.doc.automed.p2p.util.XmlHandler
parseStringNS(String, boolean) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
parts - Variable in class uk.ac.ic.doc.automed.p2p.protocol.Request.Unknown
PASSWORD - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
password - Variable in class uk.ac.ic.doc.automed.util.db.DBAccess
password - Variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
path() - Method in class uk.ac.bbk.dcs.automed.hdmstore.Edge
  Get the edge value as a path of spans
PATH - Static variable in class uk.ac.ic.doc.automed.editor.UserActionClass
PATHATTTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
PATHTEXTTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
PATHTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
PATHWAY - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  Context
Pathway - Class in uk.ac.ic.doc.automed.reps
  The Pathway class
Pathway(Schema[]) - Constructor for class uk.ac.ic.doc.automed.reps.Pathway
  Make this protected for sub-classes to use
PATHWAY_ABSTRACT - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
PathwayAbstraction - Class in uk.ac.ic.doc.automed.reps
  PathwayAbstraction.java A sub-class of `#Pathway` which encapsulates only an abstraction of the transformation pathway from one schema to another.
PathwayAbstraction(String, Schema[]) - Constructor for class uk.ac.ic.doc.automed.reps.PathwayAbstraction
  Creates a new instance of PathwayAbstraction
PathwayAbstractObjectBuilder - Class in uk.ac.ic.doc.automed.p2p.tree
PathwayAbstractObjectBuilder(Root, String, P2PDirectoryRepository) - Constructor for class uk.ac.ic.doc.automed.p2p.tree.PathwayAbstractObjectBuilder
  Creates a new instance of SchemaObjectBuilder
PathwayDescription - Class in uk.ac.ic.doc.automed.p2p
PathwayDescription(AbstractMessage) - Constructor for class uk.ac.ic.doc.automed.p2p.PathwayDescription
  Edited by dmle on 9/11/2005 to cater for cases where there are multiple sets of pathways (i.e.
PathwayDescription(String, String, String, float, String, int) - Constructor for class uk.ac.ic.doc.automed.p2p.PathwayDescription
  A constructor for creating a description of an pathway abstraction
PathwayDescription(String, String, String, float, DataSource) - Constructor for class uk.ac.ic.doc.automed.p2p.PathwayDescription
  Overloading constructor for creating a description of an pathway abstraction
PathwayDescriptionObjectBuilder - Class in uk.ac.ic.doc.automed.p2p.tree
PathwayDescriptionObjectBuilder(Root) - Constructor for class uk.ac.ic.doc.automed.p2p.tree.PathwayDescriptionObjectBuilder
  Creates a new instance of SchemaObjectBuilder
PathwayFinder - Interface in uk.ac.ic.doc.automed.reps.pathway
  PathwayFinder.java Abstracts the different algorithms for finding a pathway from one schema to another
PathwayFinderConfiguration - Class in uk.ac.ic.doc.automed.reps.pathway
  PathwayFinderConfiguration.java
PathwayFinderConfiguration() - Constructor for class uk.ac.ic.doc.automed.reps.pathway.PathwayFinderConfiguration
  Creates a new instance of PathwayFinderConfiguration
PathwayGetter - Class in uk.ac.ic.doc.automed.p2p
PathwayGetter(AutoMedPeer) - Constructor for class uk.ac.ic.doc.automed.p2p.PathwayGetter
PathwayOptimiser - Class in uk.ac.ic.doc.automed.tml
PathwayOptimiser() - Constructor for class uk.ac.ic.doc.automed.tml.PathwayOptimiser
PathwayOptimiserTool - Class in uk.ac.ic.doc.automed.editor
  A PathwayOptimiserTool instance provides a dialog box displaying the result of running pathway optimisation on the given pathway.
Pattern - Class in uk.ac.ic.doc.automed.ssd
  The Pattern class represents a pattern of a semistructured datasource in regular expression.
Pattern(String, String) - Constructor for class uk.ac.ic.doc.automed.ssd.Pattern
Pattern(int) - Constructor for class uk.ac.ic.doc.automed.ssd.Pattern
PatternRule - Class in uk.ac.bbk.dcs.automed.qproc.optimise
PatternRule(String, String) - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.PatternRule
patterns - Variable in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.Clusterer
patternSize - Variable in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.Clusterer
PatternWritingTool - Class in uk.ac.ic.doc.automed.editor
  A PatternWritingTool provides a window in which allows the users to define a yatta schema from a flat file and provides a pattern writing facility to help user in defining regular expression to extract information.
PatternWritingTool(Schema) - Constructor for class uk.ac.ic.doc.automed.editor.PatternWritingTool
PatternWritingTool.DynamicTree - Class in uk.ac.ic.doc.automed.editor
PatternWritingTool.DynamicTree() - Constructor for class uk.ac.ic.doc.automed.editor.PatternWritingTool.DynamicTree
pcdata - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
PCData - Static variable in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphText
peekError() - Method in class uk.ac.ic.doc.automed.xml.XMLReader
peekToken() - Method in class uk.ac.ic.doc.automed.xml.XMLReader
peer - Variable in class uk.ac.ic.doc.automed.editor.Gui
PEER - Static variable in class uk.ac.ic.doc.automed.p2p.MessageHandler
PEER - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
peer - Variable in class uk.ac.ic.doc.automed.p2p.QueryGetter
Peer - Class in uk.ac.ic.doc.rodex.p2p
  Peer.java Represents a functional peer on the network
Peer(String, PeerStateHandler) - Constructor for class uk.ac.ic.doc.rodex.p2p.Peer
PEER_CFG_FILE - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
PEER_DESCRIPTION - Static variable in class uk.ac.ic.doc.automed.p2p.gui.PeerTableModel
PEER_HOST - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  Field: PEER_HOST - represents the network host name of peer
PEER_LIST - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  Context
PEER_LIST_SCHEMA - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  Context
PEER_NAME - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  Field: PEER_NAME - a string of peer name
PEER_REPS_CFG_FILE_PREFIX - Static variable in class uk.ac.ic.doc.automed.p2p.AppToolKit
PEER_STATUS_ACTIVE - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Peer active status
PEER_STATUS_FLUSH - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Peer garbage-collect status
PEER_STATUS_INACTIVE - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Peer inactive status
peerAddress - Variable in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
peerApp - Variable in class uk.ac.ic.doc.automed.editor.Gui
PeerApplication - Class in uk.ac.ic.doc.automed.p2p.gui
PeerApplication() - Constructor for class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
  Equivalent to PeerApplication(null,true)
PeerApplication(Gui, boolean) - Constructor for class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
  Create a GUI application to access the P2P system.
PeerApplication(AutoMedPeer) - Constructor for class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
  Start peer app with a peer
PeerCache - Class in uk.ac.ic.doc.automed.p2p
PeerCache(AutoMedPeer) - Constructor for class uk.ac.ic.doc.automed.p2p.PeerCache
PeerDescription - Class in uk.ac.ic.doc.automed.p2p.directory
  Description of a Peer on the P2P network.
PeerDescription(String, String) - Constructor for class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
PeerDescription(String, String, String, String) - Constructor for class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
PeerDescription(String, String, String, String, String, String, String, String, String) - Constructor for class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
  The full constructor
PeerEnvironment - Class in uk.ac.ic.doc.automed.p2p
  PeerEnvironment.java
  This class is responsible for setting up necessary environment for a peer.
PeerEnvironment(AutoMedPeer) - Constructor for class uk.ac.ic.doc.automed.p2p.PeerEnvironment
  Creates a new instance of PeerEnvironment
PeerEvent - Class in uk.ac.ic.doc.automed.p2p.directory
  PeerEvent.java The event object that encapsulates all peer change events occur in the directory
PeerEvent(int, PeerDescription, Object) - Constructor for class uk.ac.ic.doc.automed.p2p.directory.PeerEvent
  Creates a new instance of PeerEvent
PeerEventListener - Interface in uk.ac.ic.doc.automed.p2p.directory
  PeerEventListener.java An interface for peer registration/update events
peerImplementsSchema(String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
peerName() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
peerName() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
peerName() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
peerName() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
peerName - Variable in class uk.ac.ic.doc.automed.p2p.protocol.Request.Port
PeerStateHandler - Class in uk.ac.ic.doc.automed.p2p.state
PeerStateHandler() - Constructor for class uk.ac.ic.doc.automed.p2p.state.PeerStateHandler
  Creates a new instance of PeerStateHandler
PeerTable - Class in uk.ac.ic.doc.automed.p2p.gui
PeerTable(PeerTableModel) - Constructor for class uk.ac.ic.doc.automed.p2p.gui.PeerTable
PeerTableModel - Class in uk.ac.ic.doc.automed.p2p.gui
PeerTableModel(Collection, int) - Constructor for class uk.ac.ic.doc.automed.p2p.gui.PeerTableModel
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.arithmetic.Div
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.arithmetic.Divide
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.arithmetic.Minus
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.arithmetic.Mod
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.arithmetic.Multiply
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.arithmetic.Plus
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.BuiltInFunction
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Choose
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.collections.Append
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.collections.Average
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.collections.Count
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.collections.Difference
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.collections.Flatmap
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.collections.Foldl
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.collections.Foldr
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.collections.Intersect
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.collections.Map
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.collections.Max
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.collections.Member
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.collections.Min
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.collections.Monus
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.collections.Single
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.collections.SingleBag
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.collections.SingleSet
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.collections.Sort
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.collections.SortDistinct
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.collections.SubCollection
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.collections.Sum
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.collections.Union
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.comparison.Equals
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.comparison.Greater
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.comparison.GreaterEqual
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.comparison.Group
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.comparison.GroupCompute
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.comparison.Less
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.comparison.LessEqual
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.comparison.NotEqual
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.date.GetMonth
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Id
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.internal.BComprehension
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.internal.CallToWrapper
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.internal.Comprehension
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.internal.Let
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.internal.Range
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.internal.SComprehension
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.LoadFromFile
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.logical.And
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.logical.If
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.logical.Not
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.logical.Or
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.PairFirst
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.PairSecond
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.string.Concat
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.string.IndexOf
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.string.LastIndexOf
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.string.Length
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.string.Like
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.string.LowerCase
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.string.Split
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.string.Substring
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.string.UpperCase
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.typeConversion.Bag2List
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.typeConversion.Bag2Set
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.typeConversion.List2Bag
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.typeConversion.List2Set
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.typeConversion.Set2Bag
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.typeConversion.Set2List
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.typeConversion.ToDateTime
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.typeConversion.ToFloat
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.typeConversion.ToInteger
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.typeConversion.ToString
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.xml.experiments.crime.CrimeIQLFun1
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.xml.functions.ElementsFromRDB
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.xml.functions.GenerateElemUID
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.xml.functions.GenerateElemUIDOffSet
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.xml.functions.GenerateNestLists
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.xml.functions.NestListsFromRDB
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.xml.functions.RenameUID
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.xml.functions.SkolemiseEdge
perform(Cell[], Evaluator) - Method in class uk.ac.ic.doc.automed.qproc.functions.internal.Call2Wrapper
perform(Cell[], Evaluator) - Method in class uk.ac.ic.doc.automed.wrappers.ssdfunctions.generateGID
perform(Cell[], Evaluator) - Method in class uk.ac.ic.doc.automed.wrappers.ssdfunctions.generateSID
performAction(PeerEvent) - Method in interface uk.ac.ic.doc.automed.p2p.directory.PeerEventListener
  Perform peer's event
performAction(SchemaEvent) - Method in interface uk.ac.ic.doc.automed.p2p.directory.SchemaEventListener
  Perform schema's event
PERFORMATIVE - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
performCalls - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
performEnd - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
performQuery(String) - Method in class uk.ac.bbk.dcs.automed.xml.materialisation.Materialiser
performQuery(String) - Method in class uk.ac.bbk.dcs.automed.xml.materialisation.XMLDSSMaterialiser
performQuery(QueryDescription, String) - Method in class uk.ac.ic.doc.rodex.qproc.QueryMediator
performQuery(QueryDescription, Schema, Schema[]) - Method in class uk.ac.ic.doc.rodex.qproc.QueryMediator
  Overloading method to perform a query given only the name of the public schema
performStart - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
performStateAction(int) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Implements interface `PeerStateListener`
performStateAction(int) - Method in class uk.ac.ic.doc.automed.p2p.gui.LoginFrame
  Implements interface `PeerStateListener`
performStateAction(int) - Method in interface uk.ac.ic.doc.automed.p2p.state.StateChangedListener
  This method is for listener objects to implement actions when a peer's state
  has been changed.
performTimeSpent - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
persist() - Method in class uk.ac.ic.doc.automed.p2p.directory.ModelDescription
persist() - Method in interface uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryObject
persist() - Method in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
persist() - Method in class uk.ac.ic.doc.automed.p2p.directory.SchemaDescription
persist(Map) - Static method in class uk.ac.ic.doc.automed.reps.SchemaObject
Persistence - Interface in uk.ac.ic.doc.automed.util.persist
  Persistence.java Application classes must implement this interface if they want to be persistent
PersistentDB - Class in uk.ac.ic.doc.automed.util.persist
  PersistentDB.java
  Provide standard method calls for maintaining the SleepCat database
PersistentDB(String, Database, EntryBinding) - Constructor for class uk.ac.ic.doc.automed.util.persist.PersistentDB
  Creates a new instance of PersistentDB
PersistentDBController - Class in uk.ac.ic.doc.automed.util.persist
PersistentDBException - Exception in uk.ac.ic.doc.automed.util.persist
  PersistentDBException.java
PersistentDBException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.util.persist.PersistentDBException
  Creates a new instance of PersistentDBException
PersistentDBException(String) - Constructor for exception uk.ac.ic.doc.automed.util.persist.PersistentDBException
PersistentHandler - Interface in uk.ac.ic.doc.automed.util.persist
  PersistentHandler.java Used by user application code to call appropriate persistent handler object
PersistentKey - Class in uk.ac.ic.doc.automed.reps
PersistentKey(int, Class) - Constructor for class uk.ac.ic.doc.automed.reps.PersistentKey
PersistentKey(String, Class) - Constructor for class uk.ac.ic.doc.automed.reps.PersistentKey
PersistentKey(PersistentKey[], String, Class) - Constructor for class uk.ac.ic.doc.automed.reps.PersistentKey
PersistentKey - Class in uk.ac.ic.doc.automed.util.persist
  PersistentKey.java
  Encapsulates a key to be persisted
PersistentKey(String) - Constructor for class uk.ac.ic.doc.automed.util.persist.PersistentKey
  Creates a new instance of PersistentKey
PersistentObject - Interface in uk.ac.ic.doc.automed.reps
PersistentValue - Class in uk.ac.ic.doc.automed.util.persist
  PersistentValue.java
  Encapsulates the value object to be persisted
PersistentValue(DatabaseEntry, EntryBinding) - Constructor for class uk.ac.ic.doc.automed.util.persist.PersistentValue
  Creates a new instance of PersistentValue
PhysicalOptimiser - Class in uk.ac.bbk.dcs.automed.qproc.optimise
PhysicalOptimiser() - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.PhysicalOptimiser
PI - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
  A feature option to model the PI in any `Schema` the factory generates
PinBoardLayout - Class in uk.ac.ic.doc.automed.editor
PinBoardLayout(Map, Map) - Constructor for class uk.ac.ic.doc.automed.editor.PinBoardLayout
pks - Variable in class uk.ac.ic.doc.automed.matching.SQLRelationshipExtractor
placeChild(TreeNode) - Method in class uk.ac.ic.doc.automed.p2p.tree.Field
placeChild(TreeNode) - Method in class uk.ac.ic.doc.automed.p2p.tree.MainObjectClasses
placeChild(TreeNode) - Method in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
placeChild(TreeNode) - Method in class uk.ac.ic.doc.automed.p2p.tree.ValueList
plantTree() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutTreeObject
  Call this function on the root node to build a tree.
Plus - Class in uk.ac.bbk.dcs.automed.qproc.functions.arithmetic
Plus() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.arithmetic.Plus
PLUS - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
poArea - Variable in class uk.ac.ic.doc.automed.editor.IQLTool
policyBox - Variable in class uk.ac.ic.doc.rodex.p2p.gui.QueryTool
pop() - Method in class uk.ac.ic.doc.automed.editor.autolayout.Queue
populateCompSubCompMap(Cell, Cell) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.IQL2XQuery
populateDatabaseId(char, int) - Method in class uk.ac.bbk.dcs.automed.hdmstore.Span
  Populate the id of the span in the database
populateEdgeValue(String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.Span
  Populate specific values for an edge
populateNodeValue(String, String, String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.Span
  Populate specific values for a node
populateSchema(AutoMedWrapper) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapperFactory
populateSchema(AutoMedWrapper) - Method in class uk.ac.bbk.dcs.automed.wrappers.MSAccessWrapperFactory
populateSchema(AutoMedWrapper) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.NXDBWrapperFactory
populateSchema(AutoMedWrapper) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapperFactory
populateSchema(AutoMedWrapper) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
  Read the metadata from the wrapper connection, and store in existing Schema within the wrapper.
populateSchema(AutoMedWrapper) - Method in class uk.ac.ic.doc.automed.wrappers.CSVWrapperFactory
  Create an AutoMed schema from the CSV file
populateSchema(AutoMedWrapper) - Method in class uk.ac.ic.doc.automed.wrappers.HDMWrapperFactory
populateSchema(AutoMedWrapper) - Method in class uk.ac.ic.doc.automed.wrappers.P2PWrapperFactory
  Edited by Duc Le on 13/11/2005 to populate objects into a `Schema` object
  It uses `SchemaGetter` to do the task.
populateSchema(AutoMedWrapper) - Method in class uk.ac.ic.doc.automed.wrappers.QueryCacheWrapperFactory
  Nothing done here
populateSchema(AutoMedWrapper) - Method in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
populateSchema(AutoMedWrapper) - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
  Translate the XSDOM representation of the XML Schema document into an XML Schema oriented AutoMed schema
populateSchema(AutoMedWrapper) - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapperFactory
  Read the metadata from the wrapper connection, and store in the Schema and SSDFormat within the wrapper.
populateViewMap(Schema) - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.CompositeViewMap
  Populates the LHS of the viewmap with schemes from source schema.
port - Variable in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
PORT - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
port - Variable in class uk.ac.ic.doc.automed.p2p.protocol.Request.Register
port - Variable in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
PortInUseException - Exception in uk.ac.ic.doc.automed.p2p.communication
PortInUseException() - Constructor for exception uk.ac.ic.doc.automed.p2p.communication.PortInUseException
PortInUseException(String) - Constructor for exception uk.ac.ic.doc.automed.p2p.communication.PortInUseException
PortInUseException(Throwable) - Constructor for exception uk.ac.ic.doc.automed.p2p.communication.PortInUseException
PortInUseException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.p2p.communication.PortInUseException
pos - Variable in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutPositionable
  While doing algorithms iterations (method doLayout) objects position is stored in this variable and GUI isn't updated
Positionable - Interface in uk.ac.ic.doc.automed.editor
  Provide an interface that the `Gui` and `EditorPanel` will use for any repository object that it is expected to render by a `DrawVertex` implementation.
postgres - Static variable in class uk.ac.bbk.dcs.automed.xml.relational.XMLDSSFromRDB
PostgresWrapper - Class in uk.ac.ic.doc.automed.wrappers
  A lower level wrapper for the conforming to the AutoMed SQL high level wrapper for Postgres SQL databases.
PostgresWrapper() - Constructor for class uk.ac.ic.doc.automed.wrappers.PostgresWrapper
PostgresWrapper(AccessMethod, String) - Constructor for class uk.ac.ic.doc.automed.wrappers.PostgresWrapper
  Generate a new wrapper instance from information held in the repository about how to access a data source.
PostgresWrapperFactory - Class in uk.ac.ic.doc.automed.wrappers
  A lower level wrapper factory for Postgres SQL databases conforming to the AutoMed SQL high level wrapper factory.
PostgresWrapperFactory() - Constructor for class uk.ac.ic.doc.automed.wrappers.PostgresWrapperFactory
PrecisionModule - Class in uk.ac.ic.doc.automed.matching.modules.bidirectionalmap
  The module that compares the schema elements by examining the precision of their instances
PrecisionModule(ArrayList, ArrayList) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.PrecisionModule
  Constructs a `PrecisionModule` to compare the specified schema elements in the input lists.
PrecisionModule(SchemaElement[], SchemaElement[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.PrecisionModule
  Constructs a `PrecisionModule` to compare the specified schema elements in the input arrays.
PrecisionModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.PrecisionModule
PrecisionModule - Class in uk.ac.ic.doc.automed.matching.modules.intervals
  The module that compares the schema elements by examining the precision of their instances
PrecisionModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.intervals.PrecisionModule
PrecisionModule - Class in uk.ac.ic.doc.automed.matching.modules.probability.binary
  The module that compares the schema elements by examining the precision of their instances
PrecisionModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.binary.PrecisionModule
PrecisionModule - Class in uk.ac.ic.doc.automed.matching.modules.probability.senary
  The module that compares the schema elements by examining the precision of their instances
PrecisionModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.senary.PrecisionModule
predicates - Variable in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehension
PREFER_CACHE_RESULT - Static variable in interface uk.ac.ic.doc.automed.qproc.cache.CachePolicy
PREFER_LIVE_DATA - Static variable in interface uk.ac.ic.doc.automed.qproc.cache.CachePolicy
preferredLayoutSize(Container) - Method in class uk.ac.ic.doc.automed.editor.PinBoardLayout
prefixAllNodalNames(String) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Create a new Schema which contains the same set of constructs as an existing, except each has been renamed to have a common prefix if it is of `Construct` type Nodal.
prefixSchemaObjectName(String, SchemaObject) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Create a new Schema if the `SchemaObject` is a Nodal object, where the SchemaObject has had a prefix applied to the node name,
prepareCallbacks(RoutingService) - Method in class uk.ac.ic.doc.automed.p2p.overlay.EnhancedDHTImpl
  override this method
prettyPrint(Node, String) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.PrintUtility
  Outputs the subtree with root n to System.out with identation, without any respect to the file's original identation.
prettyPrint(Node) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.PrintUtility
  Outputs the subtree with root n to System.out with identation, without any respect to the file's original identation
prevCharIsCR - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
prevCharIsCR - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
prevCharIsCR - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
prevCharIsCR - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
prevCharIsCR - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
prevCharIsLF - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
prevCharIsLF - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
prevCharIsLF - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
prevCharIsLF - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
prevCharIsLF - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
previous() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedResult
  Returns true if the cursor can be moved back to a previous row
primary_key - Variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
PRIMARY_KEY - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
  A feature option to model primary keys in any `Schema` the factory generates
PRIMITIVE - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
PRIMITIVE_CHILDREN - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
PRIMITIVE_CHILDREN_RECURSE - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
PRIMITIVE_MEMBER - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
PRIMITIVE_MEMBER_AND_CHILDREN - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
PRIMITIVE_MEMBER_RECURSE - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
print() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  Prints g in System.out
print(PrintStream) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
print(File) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  Prints g in file f - if f already exists, it is overwritten.
print(File, boolean) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  Prints g in file f - if append is set to true, then printing occurs at the end of the file, otherwise file is overwritten.
print() - Method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.MapDisplay
print() - Method in class uk.ac.ic.doc.automed.tml.TempPathway
print() - Method in class uk.ac.ic.doc.rodex.qproc.ASGExplore
print(Cell) - Method in class uk.ac.ic.doc.rodex.qproc.ASGExplore
printConfiguration() - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
printDate(String) - Static method in class uk.ac.ic.doc.automed.matching.Util
printDocument(Document, File) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.PrintUtility
  Outputs Document doc in File f exactly as it is in the DOM.
printDocument(Document) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.PrintUtility
  Outputs Document doc in System.out exactly as it is in the DOM.
printDocument(Document, PrintStream) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.PrintUtility
  Outputs Document doc in ps exactly as it is in the DOM.
printElements() - Static method in class uk.ac.ic.doc.automed.matching.SchemaElement
printForest() - Method in class uk.ac.bbk.dcs.automed.graph.Forest
printGraph(DirectedGraph) - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraph
printGraphNodes(PrintStream) - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraph
printLineageList(ArrayList) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.Lineage
printList(ArrayList) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
println() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
println(String) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
printNetworkHelp - Static variable in class uk.ac.ic.doc.automed.editor.Editor
printNetworkSyntax - Static variable in class uk.ac.ic.doc.automed.editor.Editor
printObject(Object, OutputStream) - Static method in class uk.ac.ic.doc.automed.Util
printObject(Object, Writer) - Static method in class uk.ac.ic.doc.automed.Util
printResultSet(ResultSet) - Method in class uk.ac.ic.doc.automed.util.db.DBAccess
  A generic implementation of debug-print of a result set
printResultSet(ResultSet) - Method in class uk.ac.ic.doc.automed.util.db.DBEmbedded
  A test method to print in simple tabular form a result set
printResultSet(ResultSet) - Method in class uk.ac.ic.doc.automed.util.db.DBPostgres
  A test method to print in simple tabular form a result set
printResultSet(ResultSet, OutputStream) - Static method in class uk.ac.ic.doc.automed.Util
printResultSet(ResultSet, Writer) - Static method in class uk.ac.ic.doc.automed.Util
printSource(String, Document, Document, Schema) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.ExperimentsUtility
printSource(String, Document, Document, Schema) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.PrintUtility
printSQLFeedback(Object, OutputStream, String) - Static method in class uk.ac.ic.doc.automed.Util
printSQLFeedback(Object, Writer, String) - Static method in class uk.ac.ic.doc.automed.Util
printStackTrace() - Method in exception uk.ac.ic.doc.automed.AutoMedException
  Overrides {#link Exception.printStackTrace()} method to also print source exception details
printStackTrace() - Method in exception uk.ac.ic.doc.automed.InconsistentException
  Overrides {#link Exception.printStackTrace()} method to also print source exception details
printStackTrace() - Method in exception uk.ac.ic.doc.automed.RepositoryAccessException
printStackTrace() - Method in exception uk.ac.ic.doc.automed.reps.AutoRepException
printTree(TreeNode, int) - Method in class uk.ac.bbk.dcs.automed.graph.Forest
printTree(PrintStream) - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraph
PrintUtility - Class in uk.ac.bbk.dcs.automed.xml.utilities
PrintUtility() - Constructor for class uk.ac.bbk.dcs.automed.xml.utilities.PrintUtility
process(Cell, Schema[]) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.FragmentProcessor
  Replaces schemes with wrapper objects in the ASG with root n
process(ASG) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.FragmentProcessor
  Deprecated. use `FragmentProcessor.process(ASG, Schema[])` instead
process(ASG, Schema[]) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.FragmentProcessor
  Replaces schemes with wrapper objects in the given ASG
process(ASG, Schema[]) - Method in interface uk.ac.bbk.dcs.automed.qproc.annotate.QueryAnnotationProvider
  Annotate an IQL query based on a given configuration
process(ASG) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.StandardQueryAnnotationProvider
  Deprecated. use `StandardQueryAnnotationProvider.process(ASG, Schema[])` instead
process(ASG, Schema[]) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.StandardQueryAnnotationProvider
process(String, AutoMedWrapper, QueryProcessorConfiguration) - Method in class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
process(ASG) - Method in class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
  Deprecated. use `OldQueryProcessor.process(ASG, QueryProcessorConfiguration)` instead
process(ASG, QueryProcessorConfiguration) - Method in class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
  Method that processes the input ASG.
process(String, AutoMedWrapper, Schema, Schema[], String, QueryProcessorConfiguration) - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessor
  If the query language is other than IQL, then use this method to process the query.
process(ASG, Schema, Schema[], String, QueryProcessorConfiguration) - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessor
  Main processing method for issuing a query.
process(String, AutoMedWrapper, Schema, Schema[], String, QueryProcessorConfiguration) - Method in class uk.ac.bbk.dcs.automed.qproc.TempQueryProcessor
  If the query language is other than IQL, then use this method to process the query.
process(ASG, Schema, Schema[], String, QueryProcessorConfiguration) - Method in class uk.ac.bbk.dcs.automed.qproc.TempQueryProcessor
  Main processing method for issuing a query.
processAddTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.ExtensionalSchemaEvolution
processAddTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolution
processAddTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.VirtualSchemaEvolution
processAddTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.ExtensionalSchemaEvolution
processAddTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.IntegratedSchemaEvolution
processAddTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
processCommands() - Method in class uk.ac.ic.doc.automed.editor.CommandLineDriver
processCommands(Reader, Writer) - Method in class uk.ac.ic.doc.automed.editor.CommandLineDriver
processConfiguration(QueryProcessorConfiguration) - Method in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
processContractTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.ExtensionalSchemaEvolution
processContractTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolution
processContractTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.VirtualSchemaEvolution
processContractTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.ExtensionalSchemaEvolution
  The other methods does not needs to be overridden, as the default implementation is defined in `SchemaEvolution` class
processContractTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.IntegratedSchemaEvolution
processContractTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
processDeleteTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.ExtensionalSchemaEvolution
processDeleteTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolution
processDeleteTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.VirtualSchemaEvolution
processDeleteTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.ExtensionalSchemaEvolution
processDeleteTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.IntegratedSchemaEvolution
processDeleteTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
processedArea - Variable in class uk.ac.ic.doc.automed.editor.IQLTool
processEvolution() - Method in class uk.ac.bbk.dcs.automed.evolution.dataEvolution.DataEvolution
processEvolution() - Method in interface uk.ac.bbk.dcs.automed.evolution.Evolution
processEvolution() - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolution
processEvolution(Transformation[]) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolution
processEvolution(Object) - Method in interface uk.ac.bbk.dcs.automed.evolution2.Evolution
  Fasade method to transparently do Evolution work
processEvolution(Object) - Method in class uk.ac.bbk.dcs.automed.evolution2.modelEvolution.ModelEvolution
  Fasade method to transparently do Evolution work
processEvolution(Object) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.ExtensionalSchemaEvolution
processEvolution(Object) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.IntegratedSchemaEvolution
  This is the Overridend method of super class.
processEvolution(Pathway) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.IntegratedSchemaEvolution
processEvolution(Object) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
  Fasade method to transparently do Evolution work
processExtendTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.ExtensionalSchemaEvolution
processExtendTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolution
processExtendTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.VirtualSchemaEvolution
processExtendTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.ExtensionalSchemaEvolution
processExtendTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.IntegratedSchemaEvolution
processExtendTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
processFlatmapRange(Cell) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.IQLUtility
  Performs in a top-down manner the following simplification:
PROCESSING_INSTRUCTION - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
processingInstruction(String, String) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
ProcessLinkNode(SchemaObject, int) - Method in class uk.ac.ic.doc.automed.editor.layout.RootLayout
ProcessNode(SchemaObject) - Method in class uk.ac.ic.doc.automed.editor.layout.RootLayout
processRangeArgs(Cell) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.IQLUtility
processRangeInGen(Cell) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.IQLUtility
  Performs in a top-down manner the following simplification:
processRangeRange(Cell) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.IQLUtility
  Performs in a bottom-up manner the following simplifications:
processRenameTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.ExtensionalSchemaEvolution
processRenameTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolution
processRenameTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.VirtualSchemaEvolution
  This is the Overridend method of super class.
processRenameTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.ExtensionalSchemaEvolution
processRenameTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.IntegratedSchemaEvolution
processRenameTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
processTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolution
  Process A Passed Transformation
processTransformation(Transformation) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.IntegratedSchemaEvolution
  Process A Passed Transformation
processTransformation(Schema, Schema) - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.AtomicViewMap
produceIQLResult(List) - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
  Once rewriting is performed, produce the IQL results
production_table() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.EnvParser
  Access to production table.
production_table() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.QParser
  Access to production table.
PROP_AUTO_COMMIT - Static variable in class uk.ac.ic.doc.automed.util.db.Constants
  property auto_commit
PROP_WRITE_DELAY - Static variable in class uk.ac.ic.doc.automed.util.db.Constants
  property write_delay (for HSQLDB)
Property - Static variable in class uk.ac.bbk.dcs.automed.rdfs.RDFSConstants
PROPERTY_AUTOMED_SCHEMA - Static variable in class uk.ac.ic.doc.automed.reps.AccessMethod
  Name to give to a AccessMethod property to hold the name of an AutoMed oriented schema that was produced from the schema associated with this AccessMethod.
PROPERTY_CREATE_TIME - Static variable in class uk.ac.ic.doc.automed.reps.AccessMethod
  Name to give to a AccessMethod property for the time in milliseconds since 1 Jan 1970 that the datasource schema was created in the AutoMed repository.
PROPERTY_IQL_FUNCTION - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
  Name of property used to label IDENT transformations with the IQL function that is used to merge values from either side of the IDENT (i.e.
PROPERTY_IQL_FUNCTION_DEFAULT_VALUE - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
  Default value for `Transformation.PROPERTY_IQL_FUNCTION`
props - Variable in class uk.ac.ic.doc.automed.util.db.DBAccess
PROT_TCP - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Protocol: TCP
PROT_UDP - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Protocol: UDP
PROT_UDP_MULTICAST - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Protocol: UDP Multicast
protect() - Method in class uk.ac.ic.doc.automed.editor.Gui
  Change the protection status of GUI tool bar menus after changes have occurred that alter this protection status.
protectAttributeValue(String) - Static method in class uk.ac.ic.doc.automed.xml.XMLSyntax
  Escapes the characters in value that would otherwise be interpreted as markup meta characters when value is used as an attribute value.
protectCharData(String) - Static method in class uk.ac.ic.doc.automed.xml.XMLSyntax
  Escapes the characters in value that would otherwise be interpreted as markup meta characters when value is used as normal character data content ("]]>" is escaped to "]]>").
protectIdentifier(String) - Static method in class uk.ac.ic.doc.automed.reps.Syntax
protectString(String) - Static method in class uk.ac.ic.doc.automed.reps.Syntax
Protocol - Class in uk.ac.ic.doc.automed.reps
  The Protocol class describes a generic method of accessing data sources, such as JDBC or ODBC.
protocol - Variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
protocolDOM - Static variable in class uk.ac.bbk.dcs.automed.rdfs.RDFSConstants
protocolDOM - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
protocolNXDB - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
protocolSAX - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
ProviderInitialisationException - Exception in uk.ac.bbk.dcs.automed.qproc
  ProviderNotFoundException.java
ProviderInitialisationException(String) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.ProviderInitialisationException
  Creates an NotFoundException when there has been no Exception that caused the error to discovered.
ProviderInitialisationException(String, Exception) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.ProviderInitialisationException
  Creates an NotFoundException when it is acting as a wrapper for other Exceptions.
ProviderNotFoundException - Exception in uk.ac.ic.doc.automed.qproc
  ProviderNotFoundException.java
ProviderNotFoundException(String) - Constructor for exception uk.ac.ic.doc.automed.qproc.ProviderNotFoundException
  Creates an NotFoundException when there has been no Exception that caused the error to discovered.
ProviderNotFoundException(String, Exception) - Constructor for exception uk.ac.ic.doc.automed.qproc.ProviderNotFoundException
  Creates an NotFoundException when it is acting as a wrapper for other Exceptions.
PUBLIC_SCHEMA - Static variable in class uk.ac.ic.doc.automed.p2p.gui.PeerTableModel
PUBLIC_SCHEMA_DIRECTORY_CFG - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  Deprecated. use `P2PConstants.DIRECTORY_SERVER_CFG_FILE` instead
PUBLIC_SCHEMA_DIRECTORY_SERVER_CFG - Static variable in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  Name given to the public schema directory server configuration file
publicSchemas - Variable in class uk.ac.ic.doc.automed.p2p.PeerCache
publishModel(String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
  Store a received model to the directory's repository
publishModel(String, String, String, String[]) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
  An overloading method of {@link #publishModel(name, description, structure) above.
publishModels(Schema, String[]) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
  To transfer all models associated to a schema to P2P directory.
publishSchema(String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
  Save schema to directory service's registry
publishSchema() - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
publishSchema(String, Schema, String) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
  Edited by MDLE on 17,21/10/2005 to:
  (1) include a string of models to send to P2PDirectory for checking
  (2) check reply from P2PDirectory if there are any models that need to be transmitted
  (3) also sends peer's name to directory to remember the peer-schema association
publishSchema(String, String) - Method in class uk.ac.ic.doc.automed.p2p.SchemaPublisher
  Edited by mdle on 21/10/2005 to also publish schema pathway to directory
pureScheme() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
pureScheme() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
pureScheme() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
pureScheme() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
push(int) - Method in class uk.ac.ic.doc.automed.editor.autolayout.Queue
put(PersistentKey, Object) - Method in class uk.ac.ic.doc.automed.util.db.QueryCacheSQLAdapter
  Place a data object into db
put(PersistentKey, Object) - Method in class uk.ac.ic.doc.automed.util.persist.PersistentDB
  Place a data object into db
put(PersistentKey, Object) - Method in interface uk.ac.ic.doc.automed.util.persist.PersistentHandler
  Place a data object into db
put(String, String, long) - Method in class uk.ac.ic.doc.rodex.p2p.Peer
  Put a (key, value) pair to the overlay
put(ID, Serializable, long) - Method in class uk.ac.ic.doc.rodex.p2p.Peer
  Put a real (key, value) pair to the overlay
putLinkNodalObjects(int) - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutERObject
pwQuality - Variable in class uk.ac.ic.doc.rodex.p2p.gui.QueryTool

## Q

QEP - Class in uk.ac.ic.doc.rodex.p2p.protocol
QNAME - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
QParser - Class in uk.ac.bbk.dcs.automed.qproc.iql
  CUP v0.10j generated parser.
QParser() - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.QParser
  Default constructor.
QParser(Scanner) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.QParser
  Constructor which sets the default scanner.
qpc - Variable in class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
QProcException - Exception in uk.ac.bbk.dcs.automed.qproc
  An exception relating to the QProc package.
QProcException(String) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.QProcException
QProcException(String, Exception) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.QProcException
  Creates a QProcException when it is acting as a wrapper for other Exceptions.
QProcException(String, Error) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.QProcException
QProcLogger - Class in uk.ac.bbk.dcs.automed.qproc
QProcLogger() - Constructor for class uk.ac.bbk.dcs.automed.qproc.QProcLogger
qrSchemas - Variable in class uk.ac.ic.doc.automed.editor.IQLTool
QSym - Class in uk.ac.bbk.dcs.automed.qproc.iql
  CUP generated class containing symbol constants.
QSym() - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.QSym
qualifiers - Variable in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehension
QUALITY - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
QualityIndicator - Class in uk.ac.ic.doc.rodex.qproc
QualityIndicator() - Constructor for class uk.ac.ic.doc.rodex.qproc.QualityIndicator
QualityIndicator(boolean) - Constructor for class uk.ac.ic.doc.rodex.qproc.QualityIndicator
QualityIndicator(boolean, float, float, float) - Constructor for class uk.ac.ic.doc.rodex.qproc.QualityIndicator
QualityIndicator(float, float, float, float, int, int, float, boolean, boolean) - Constructor for class uk.ac.ic.doc.rodex.qproc.QualityIndicator
  Creates a new instance of QualityIndicator
query(String, String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.LowLevelWrapperHdm
  The query is given in the form of an string and returned as a Linked List of `EdgeElement`'s
query() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
query(PeerDescription) - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
  Run a query on a peer.
query() - Method in class uk.ac.ic.doc.automed.p2p.gui.SchemaInfoFrame
QUERY - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  Context
query - Variable in class uk.ac.ic.doc.automed.p2p.protocol.Request.Query
query - Variable in class uk.ac.ic.doc.rodex.qproc.QueryRewriter
QUERY_LANGUAGE_IQL - Static variable in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
QUERY_LANGUAGE_XQUERY - Static variable in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
queryAnalyser - Variable in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter
QueryAnalyser - Class in uk.ac.ic.doc.rodex.qproc
QueryAnalyser(ASG) - Constructor for class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
  Creates a new instance of QueryAnalyser
QueryAnnotationConfiguration - Class in uk.ac.bbk.dcs.automed.qproc.annotate
  QueryAnnotationConfiguration Define configuration settings for query annotation
QueryAnnotationConfiguration() - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.QueryAnnotationConfiguration
  Creates a new instance of QueryAnnotationConfiguration
QueryAnnotationException - Exception in uk.ac.bbk.dcs.automed.qproc.annotate
  QueryAnnotationException.java
QueryAnnotationException(String) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.annotate.QueryAnnotationException
  Creates an QueryAnnotationException when there has been no Exception that caused the error to discovered.
QueryAnnotationException(String, Exception) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.annotate.QueryAnnotationException
  Creates an QueryAnnotationException when it is acting as a wrapper for other Exceptions.
QueryAnnotationFactory - Class in uk.ac.bbk.dcs.automed.qproc.annotate
  Responsible for instantiating appropriate `QueryAnnotationProvider` classes.
QueryAnnotationFactory() - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.QueryAnnotationFactory
QueryAnnotationProvider - Interface in uk.ac.bbk.dcs.automed.qproc.annotate
  Defines a set of mandatory behaviours of a query annotator
  Query annotator classes must implement this interface.
queryBuffer - Variable in class uk.ac.ic.doc.automed.editor.IQLTool
QueryCache - Class in uk.ac.ic.doc.rodex.qproc
QueryCacheSQLAdapter - Class in uk.ac.ic.doc.automed.util.db
  QueryCacheSQLAdapter.java Bridges between `PersistentHandler` and `DBEmbedded`
QueryCacheSQLAdapter(String, String, String, Properties) - Constructor for class uk.ac.ic.doc.automed.util.db.QueryCacheSQLAdapter
  Creates a new instance of DBAccessAdapter
QueryCacheWrapper - Class in uk.ac.ic.doc.automed.wrappers
  A high-level, object-type wrapper for a `DefaultQueryCache`.
QueryCacheWrapper() - Constructor for class uk.ac.ic.doc.automed.wrappers.QueryCacheWrapper
QueryCacheWrapper(AccessMethod, String) - Constructor for class uk.ac.ic.doc.automed.wrappers.QueryCacheWrapper
  This method only exists to conform with the `AutoMedWrapper`
QueryCacheWrapperFactory - Class in uk.ac.ic.doc.automed.wrappers
  A high-level wrapper factory for creating `QueryCacheWrapper` instances.
QueryCacheWrapperFactory() - Constructor for class uk.ac.ic.doc.automed.wrappers.QueryCacheWrapperFactory
QueryDecomposer - Class in uk.ac.bbk.dcs.automed.dataWarehousing.util
QueryDecomposer() - Constructor for class uk.ac.bbk.dcs.automed.dataWarehousing.util.QueryDecomposer
queryDecomposer(String, int) - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.QueryDecomposer
queryDecomposer(Cell, int) - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.QueryDecomposer
queryDecomposer(String) - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.QueryDecomposer
queryDecomposer(Cell) - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.QueryDecomposer
QueryDescription - Class in uk.ac.ic.doc.rodex.qproc
QueryDescription(String, String, QualityIndicator) - Constructor for class uk.ac.ic.doc.rodex.qproc.QueryDescription
  Creates a new instance of QueryDescription
QueryDescription(String, String) - Constructor for class uk.ac.ic.doc.rodex.qproc.QueryDescription
  Use this constructor when no quality indicators are used
QueryDescription(String, ASG, QualityIndicator) - Constructor for class uk.ac.ic.doc.rodex.qproc.QueryDescription
QueryEvaluationConfiguration - Class in uk.ac.ic.doc.automed.qproc.eval
  QueryEvaluationConfiguration.java Define configuration settings for query evaluation
QueryEvaluationConfiguration() - Constructor for class uk.ac.ic.doc.automed.qproc.eval.QueryEvaluationConfiguration
  Creates a new instance of QueryEvaluationConfiguration
QueryEvaluationConfiguration(QualityIndicator) - Constructor for class uk.ac.ic.doc.automed.qproc.eval.QueryEvaluationConfiguration
QueryEvaluationException - Exception in uk.ac.ic.doc.automed.qproc.eval
  QueryEvaluationException.java
QueryEvaluationException(String) - Constructor for exception uk.ac.ic.doc.automed.qproc.eval.QueryEvaluationException
  Creates an NotFoundException when there has been no Exception that caused the error to discovered.
QueryEvaluationException(String, Exception) - Constructor for exception uk.ac.ic.doc.automed.qproc.eval.QueryEvaluationException
  Creates an NotFoundException when it is acting as a wrapper for other Exceptions.
QueryEvaluationFactory - Class in uk.ac.bbk.dcs.automed.qproc.evaluate
  Responsible for instantiating appropriate `QueryEvaluationProvider` classes.
QueryEvaluationFactory() - Constructor for class uk.ac.bbk.dcs.automed.qproc.evaluate.QueryEvaluationFactory
QueryEvaluationFactory - Class in uk.ac.ic.doc.automed.qproc.eval
  QueryEvaluationFactory.java Responsible for loading and instantiating appropriate `QueryEvaluationProvider` classes.
QueryEvaluationFactory() - Constructor for class uk.ac.ic.doc.automed.qproc.eval.QueryEvaluationFactory
QueryEvaluationProvider - Interface in uk.ac.ic.doc.automed.qproc.eval
  QueryEvaluationProvider.java Defines a set of mandatory behaviours of a query optimiser
  Query optimiser (logical and physical) classes must implement this interface.
QueryFilter - Class in uk.ac.ic.doc.automed.p2p.overlay
QueryFilter(ASG) - Constructor for class uk.ac.ic.doc.automed.p2p.overlay.QueryFilter
  Creates a new instance of QueryFilter
QueryFormatException - Exception in uk.ac.ic.doc.automed.qproc
QueryFormatException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.qproc.QueryFormatException
  Creates a new instance of QueryIntegrityException
QueryFormatException(String) - Constructor for exception uk.ac.ic.doc.automed.qproc.QueryFormatException
QueryFunction - Class in uk.ac.ic.doc.rodex.qproc
QueryFunction(AutoMedQueryToken, QueryVariable, AutoMedType) - Constructor for class uk.ac.ic.doc.rodex.qproc.QueryFunction
  Creates a new instance of QueryFunction
  Accepts an `AutoMedType` expression
QueryGetter - Class in uk.ac.ic.doc.automed.p2p
QueryGetter(AutoMedPeer) - Constructor for class uk.ac.ic.doc.automed.p2p.QueryGetter
QueryIntegrityException - Exception in uk.ac.ic.doc.rodex.qproc
QueryIntegrityException(String, Throwable) - Constructor for exception uk.ac.ic.doc.rodex.qproc.QueryIntegrityException
  Creates a new instance of QueryIntegrityException
QueryIntegrityException(String) - Constructor for exception uk.ac.ic.doc.rodex.qproc.QueryIntegrityException
queryLanguageModeBox - Variable in class uk.ac.ic.doc.automed.editor.IQLTool
QueryMediator - Class in uk.ac.ic.doc.rodex.qproc
  QueryMediator.java This class is the interface to the query processing and execution engine.
queryNo - Variable in class uk.ac.ic.doc.automed.editor.IQLTool
QueryOptimisationConfiguration - Class in uk.ac.ic.doc.automed.qproc.opti
  QueryOptimisationConfiguration.java Define configuration settings for query optimisation
QueryOptimisationConfiguration() - Constructor for class uk.ac.ic.doc.automed.qproc.opti.QueryOptimisationConfiguration
  Creates a new instance of QueryOptimisationConfiguration
QueryOptimisationException - Exception in uk.ac.ic.doc.automed.qproc.opti
  QueryOptimisationException.java
QueryOptimisationException(String) - Constructor for exception uk.ac.ic.doc.automed.qproc.opti.QueryOptimisationException
  Creates an NotFoundException when there has been no Exception that caused the error to discovered.
QueryOptimisationException(String, Exception) - Constructor for exception uk.ac.ic.doc.automed.qproc.opti.QueryOptimisationException
  Creates an NotFoundException when it is acting as a wrapper for other Exceptions.
QueryOptimisationFactory - Class in uk.ac.bbk.dcs.automed.qproc.optimise
  Responsible for instantiating appropriate `QueryOptimisationProvider` classes.
QueryOptimisationFactory() - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.QueryOptimisationFactory
QueryOptimisationFactory - Class in uk.ac.ic.doc.automed.qproc.opti
  QueryOptimisationFactory.java Responsible for loading and instantiating appropriate `QueryOptimisationProvider` classes.
QueryOptimisationFactory() - Constructor for class uk.ac.ic.doc.automed.qproc.opti.QueryOptimisationFactory
QueryOptimisationProvider - Interface in uk.ac.ic.doc.automed.qproc.opti
  QueryOptimisationProvider.java Defines a set of mandatory behaviours of a query optimiser
  Query optimiser (logical and physical) classes must implement this interface.
QueryParser - Class in uk.ac.bbk.dcs.automed.qproc.annotate.grammars
  Abstracts
QueryParser() - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.QueryParser
QueryProcessingException - Exception in uk.ac.ic.doc.rodex.qproc
QueryProcessingException(String, Throwable) - Constructor for exception uk.ac.ic.doc.rodex.qproc.QueryProcessingException
  Creates a new instance of QueryIntegrityException
QueryProcessingException(String) - Constructor for exception uk.ac.ic.doc.rodex.qproc.QueryProcessingException
QueryProcessor - Class in uk.ac.bbk.dcs.automed.qproc
  The new query processor class provides query reformulation for three techniques - GAV, LAV and BAV.
QueryProcessor() - Constructor for class uk.ac.bbk.dcs.automed.qproc.QueryProcessor
  Create an instance of the Query Processor.
QueryProcessorConfiguration - Class in uk.ac.bbk.dcs.automed.qproc
  QueryProcessingConfiguration.java A global configuration class that encapsulates different aspects of a query processing 'process'
  Each phase in query processing can provide their own configuration class as long as it extends this class.
QueryProcessorConfiguration() - Constructor for class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
  Creates a new instance of QueryProcessingConfiguration
QueryReformulationConfiguration - Class in uk.ac.ic.doc.automed.qproc.refo
  QueryReformulationConfiguration.java Define configuration settings for query reformulation
QueryReformulationConfiguration() - Constructor for class uk.ac.ic.doc.automed.qproc.refo.QueryReformulationConfiguration
  Creates a new instance of QueryReformulationConfiguration
QueryReformulationException - Exception in uk.ac.ic.doc.automed.qproc.refo
  QueryReformulationException.java
QueryReformulationException(String) - Constructor for exception uk.ac.ic.doc.automed.qproc.refo.QueryReformulationException
  Creates an NotFoundException when there has been no Exception that caused the error to discovered.
QueryReformulationException(String, Exception) - Constructor for exception uk.ac.ic.doc.automed.qproc.refo.QueryReformulationException
  Creates an NotFoundException when it is acting as a wrapper for other Exceptions.
QueryReformulationFactory - Class in uk.ac.bbk.dcs.automed.qproc.reformulate
  Responsible for instantiating appropriate `QueryReformulationProvider` classes.
QueryReformulationFactory() - Constructor for class uk.ac.bbk.dcs.automed.qproc.reformulate.QueryReformulationFactory
QueryReformulationProvider - Interface in uk.ac.ic.doc.automed.qproc.refo
  QueryReformulationProvider.java Defines a set of mandatory behaviours of a query reformulator
  Query reformulator classes must implement this interface.
QueryReformulator - Class in uk.ac.bbk.dcs.automed.qproc.reformulate
  Responsible for reformulating a query along AutoMed pathways (GAV, LAV or BAV).
QueryReformulator() - Constructor for class uk.ac.bbk.dcs.automed.qproc.reformulate.QueryReformulator
  Constructs an instance of this class.
QueryResultDescription - Class in uk.ac.ic.doc.automed.p2p
QueryResultDescription(AbstractMessage) - Constructor for class uk.ac.ic.doc.automed.p2p.QueryResultDescription
QueryResultException - Exception in uk.ac.ic.doc.rodex.qproc
QueryResultException(String, Throwable) - Constructor for exception uk.ac.ic.doc.rodex.qproc.QueryResultException
  Creates a new instance of QueryRewriterException
QueryResultException(String) - Constructor for exception uk.ac.ic.doc.rodex.qproc.QueryResultException
QueryResultProducer - Class in uk.ac.ic.doc.rodex.qproc
QueryResultProducer(List) - Constructor for class uk.ac.ic.doc.rodex.qproc.QueryResultProducer
  Creates a new instance of QueryResultProducer
QueryRewritable - Interface in uk.ac.ic.doc.rodex.qproc
  QueryRewritable.java To be implemented by query caches that want to use QueryRewrite service (e.g.
QueryRewriteProcessor - Class in uk.ac.ic.doc.rodex.qproc
QueryRewriteProcessor(Schema, ASG, int) - Constructor for class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
QueryRewriteProcessor(Schema, QueryAnalyser, int) - Constructor for class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
QueryRewriter - Class in uk.ac.ic.doc.rodex.qproc
QueryRewriter() - Constructor for class uk.ac.ic.doc.rodex.qproc.QueryRewriter
  Creates a new instance of QueryRewriter
QueryRewriterException - Exception in uk.ac.ic.doc.rodex.qproc
QueryRewriterException(String, Throwable) - Constructor for exception uk.ac.ic.doc.rodex.qproc.QueryRewriterException
  Creates a new instance of QueryRewriterException
QueryRewriterException(String) - Constructor for exception uk.ac.ic.doc.rodex.qproc.QueryRewriterException
QueryRewriterResult - Class in uk.ac.ic.doc.rodex.qproc
QueryRewriterResult() - Constructor for class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
  Creates a new instance of QueryRewriterResult
querySchema - Variable in class uk.ac.ic.doc.automed.editor.IQLTool
QuerySubGoal - Class in uk.ac.ic.doc.rodex.qproc
QuerySubGoal(String[]) - Constructor for class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
  Creates a new instance of QuerySubGoal
QuerySubGoal(String) - Constructor for class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
  Create a new sub goal from a scheme definition, e.g.
QuerySubGoal(String, String) - Constructor for class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
  Create a new sub goal from a schema name and a short scheme definition, e.g.
QuerySubGoal(String, String[]) - Constructor for class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
  Create a new sub goal from a schema name and scheme elements
QueryTool - Class in uk.ac.ic.doc.rodex.p2p.gui
  QueryTool.java A GUI tool to demonstrate the new query execution
QueryTool(Schema) - Constructor for class uk.ac.ic.doc.rodex.p2p.gui.QueryTool
  Creates a new instance of QueryTool
QueryVariable - Class in uk.ac.ic.doc.rodex.qproc
QueryVariable(String) - Constructor for class uk.ac.ic.doc.rodex.qproc.QueryVariable
  Creates a new instance of QueryVariable
Queue - Class in uk.ac.ic.doc.automed.editor.autolayout
  Class to implement a simple queue of integers.
Queue() - Constructor for class uk.ac.ic.doc.automed.editor.autolayout.Queue
Queue - Class in uk.ac.ic.doc.automed.util.queue
Queue() - Constructor for class uk.ac.ic.doc.automed.util.queue.Queue
  Creates a new instance of Queue
QueueException - Exception in uk.ac.ic.doc.automed.util.queue
QueueException() - Constructor for exception uk.ac.ic.doc.automed.util.queue.QueueException
  Creates a new instance of QueueException
QueueException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.util.queue.QueueException
QueueWorker - Class in uk.ac.ic.doc.automed.util.queue
QueueWorker(Queue, JobHandler) - Constructor for class uk.ac.ic.doc.automed.util.queue.QueueWorker
  Creates a new instance of QueueWorker
quitHelp - Static variable in class uk.ac.ic.doc.automed.editor.CommandLineDriver
quitSyntax - Static variable in class uk.ac.ic.doc.automed.editor.CommandLineDriver

## R

r() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns a reference to the right child of the Cell
random(int) - Static method in class uk.ac.ic.doc.automed.matching.Util
Range - Class in uk.ac.bbk.dcs.automed.qproc.functions.internal
Range() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.internal.Range
Range - Class in uk.ac.ic.doc.automed.matching
Range(Comparable, Comparable) - Constructor for class uk.ac.ic.doc.automed.matching.Range
RANGE_BOTH - Static variable in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
RANGE_LOWER - Static variable in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
RANGE_OBJECT_ANY - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
RANGE_OBJECT_OBJECT - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
RANGE_UPPER - Static variable in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
RANGE_VOID_ANY - Static variable in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.ExtensionalSchemaEvolution
RANGE_VOID_ANY - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
RANGE_VOID_OBJECT - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
RangeBasedQueryRewriter - Class in uk.ac.ic.doc.rodex.qproc
RangeBasedQueryRewriter(ASG, ASG) - Constructor for class uk.ac.ic.doc.rodex.qproc.RangeBasedQueryRewriter
  Creates a new instance of RangeBasedQueryRewriter given only a list of cached views
RangeBasedQueryRewriter(QueryAnalyser, ASG) - Constructor for class uk.ac.ic.doc.rodex.qproc.RangeBasedQueryRewriter
  Creates a new instance of RangeBasedQueryRewriter given only a list of cached views
RangeBasedQueryRewriterResult - Class in uk.ac.ic.doc.rodex.qproc
  RangeBasedQueryRewriterResult.java
RangeBasedQueryRewriterResult() - Constructor for class uk.ac.ic.doc.rodex.qproc.RangeBasedQueryRewriterResult
  Creates a new instance of RangeBasedQueryRewriterResult
rangeDefs - Variable in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
rangeSimplifications(ASG) - Method in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
rangeWeights - Static variable in class uk.ac.ic.doc.automed.reps.Transformation
RArrow - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
RB - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
RCB - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
RCV_BUFFER_SIZE - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Received buffer size used for clients
RDAB - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.FSym
RDAB - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
RDFSConstants - Class in uk.ac.bbk.dcs.automed.rdfs
RDFSConstants() - Constructor for class uk.ac.bbk.dcs.automed.rdfs.RDFSConstants
RDFSModel - Class in uk.ac.bbk.dcs.automed.rdfs
  Defines the AutoMed RDFS Model
RDFSModel() - Constructor for class uk.ac.bbk.dcs.automed.rdfs.RDFSModel
  Creates the RDFS Model in the AutoMed Repository (MDR).
read(InputStream) - Static method in class uk.ac.ic.doc.automed.reps.Model
read(InputStream, String) - Static method in class uk.ac.ic.doc.automed.reps.Model
read(InputStream) - Static method in class uk.ac.ic.doc.automed.reps.Schema
  A variant of `Schema.read(InputStream, String)`, where the name of the new Schema created is taken from that held in the textual description read from the InputStream.
read(InputStream, String) - Static method in class uk.ac.ic.doc.automed.reps.Schema
  Read a schema description held in a textually format (possibly created by `Schema.write()`) into the repository.
read(InputStream) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
readBufferSize - Variable in class uk.ac.ic.doc.automed.p2p.communication.AbstractServer
readBytes(InputStream, int) - Static method in class uk.ac.ic.doc.automed.p2p.communication.TCPClient
  Get bytes array from a TCP input stream
readChar() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
readChar() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
readChar() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
readChar() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
readChar() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
readConfigFile() - Static method in class uk.ac.ic.doc.automed.DSR
  Reads the current configuration file.
readConfigFile(String) - Static method in class uk.ac.ic.doc.automed.DSR
  Reads the directives for the data sources defined in configFile.
readFile(Object, Evaluator, ASG, Map) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.internal.CallToWrapper
readMetaData() - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapper
readScheme(Schema, Construct, Syntax.Tokenizer) - Static method in class uk.ac.ic.doc.automed.reps.SchemaObject
readSchemeDefinition(Construct, String) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Take a String containing the definition of a scheme of a SchemaObject and create an Object array that would be used in creating the SchemaObject
readSchemeRef(Syntax.Tokenizer) - Static method in class uk.ac.ic.doc.automed.reps.SchemaObject
readSchemeTokens(Syntax.Tokenizer) - Static method in class uk.ac.ic.doc.automed.reps.SchemaObject
realWHNFCalls - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
realWrapperCalls - Static variable in class uk.ac.bbk.dcs.automed.qproc.functions.internal.CallToWrapper
receiveDatagram(DatagramSocket) - Static method in class uk.ac.ic.doc.automed.p2p.communication.UDPClient
  Receive response packets in a separate thread
RECEIVER - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
RECOMMEND_ALL - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  performative
RECOMMEND_ONE - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  performative
recoverTracingData(Lineage, ASG) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
RECURSE - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
reduce_table() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.EnvParser
  Access to `reduce_goto` table.
reduce_table() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.QParser
  Access to `reduce_goto` table.
REF - Static variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
Reference - Class in uk.ac.ic.doc.automed.p2p.tree
Reference(PersistentKey, boolean) - Constructor for class uk.ac.ic.doc.automed.p2p.tree.Reference
Reference(PersistentObject, boolean) - Constructor for class uk.ac.ic.doc.automed.p2p.tree.Reference
REFERENCE - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
REFERENCE_CHILDREN - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
REFERENCE_CHILDREN_RECURSE - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
REFERENCE_MEMBER - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
REFERENCE_MEMBER_AND_CHILDREN - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
REFERENCE_MEMBER_RECURSE - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
refineConjunctiveQueries(List, QueryRewriterResult) - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter
  Refine the conjunctive queries by, for example, removing duplicate views or
  sub-goals.
reflectCommandMethods() - Method in class uk.ac.ic.doc.automed.editor.CommandLineDriver
reformulate(ASG, QueryProcessorConfiguration) - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.GAVQueryReformulationProvider
  Reformulates the query represented by the ASG g according to the view defintions it has stored.
reformulate(ASG, Schema, Schema[], String, QueryProcessorConfiguration) - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.QueryReformulator
reformulate(ASG, Schema, Schema[], String, QueryProcessorConfiguration) - Method in interface uk.ac.ic.doc.automed.qproc.refo.QueryReformulationProvider
  Reformulate an IQL query based on a given configuration
reformulatedArea - Variable in class uk.ac.ic.doc.automed.editor.IQLTool
REFORMULATION_BAV - Static variable in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
REFORMULATION_GAV - Static variable in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
REFORMULATION_LAV_INV_RULES - Static variable in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
ReformulationUtility - Class in uk.ac.bbk.dcs.automed.qproc.reformulate
ReformulationUtility() - Constructor for class uk.ac.bbk.dcs.automed.qproc.reformulate.ReformulationUtility
refresh() - Method in class uk.ac.ic.doc.automed.editor.EditorPanel
  Redraw the contents of this editor panel after some change to the AutoMed repository objects it displays.
refresh() - Method in class uk.ac.ic.doc.automed.editor.Gui
  Refresh the contents of all GUI windows.
refresh() - Method in class uk.ac.ic.doc.automed.p2p.gui.MainFrame
refresh(Collection) - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerTable
refresh(Collection) - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerTableModel
refresh() - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
  refresh cache
refresh() - Method in interface uk.ac.ic.doc.automed.util.cache.Cacheable
  Refresh cache content
refreshFor(MainFrame) - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
refreshMySchemas() - Method in class uk.ac.ic.doc.automed.p2p.PeerCache
refreshPeersOf(SchemaDescription) - Method in class uk.ac.ic.doc.automed.p2p.PeerCache
refreshPublicSchemas() - Method in class uk.ac.ic.doc.automed.p2p.PeerCache
REFUSE - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  performative
register() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
registerPeer(String, String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
  dmle 2/11/2005: register peer status as well
registerPeer(String, String, String, String, String, String, String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
  Register peer reachability with domain and authentication
registerPeer(String, String) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
  Register a peer after successful login dmle 2/11/2005: also update peer's status at login
registerPeer(String, String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
  Register a peer with the server at login dmle 2/11/2005: also update peer's status at login
registerWrapper(Class, Protocol, String, String) - Static method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Register an AutoMedWrapper implementation with the AutoMed system.
ReInit(Reader) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.QueryParser
ReInit(InputStream) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
ReInit(Reader) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
ReInit(SchemesTokenManager) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
ReInit(SimpleCharStream) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SchemesTokenManager
ReInit(SimpleCharStream, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SchemesTokenManager
ReInit(Reader, int, int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
ReInit(Reader, int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
ReInit(Reader) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
ReInit(InputStream, int, int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
ReInit(InputStream) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
ReInit(InputStream, int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
ReInit(Reader, int, int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
ReInit(Reader, int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
ReInit(Reader) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
ReInit(InputStream, int, int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
ReInit(InputStream) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
ReInit(InputStream, int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
ReInit(InputStream) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
ReInit(Reader) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
ReInit(SimpleCompTokenManager) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
ReInit(SimpleCharStream) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompTokenManager
ReInit(SimpleCharStream, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompTokenManager
ReInit(Reader, int, int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
ReInit(Reader, int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
ReInit(Reader) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
ReInit(InputStream, int, int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
ReInit(InputStream) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
ReInit(InputStream, int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
ReInit(InputStream) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
ReInit(Reader) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
ReInit(SimpleCompAppendTokenManager) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
ReInit(SimpleCharStream) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendTokenManager
ReInit(SimpleCharStream, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendTokenManager
ReInit(Reader, int, int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
ReInit(Reader, int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
ReInit(Reader) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
ReInit(InputStream, int, int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
ReInit(InputStream) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
ReInit(InputStream, int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
ReInit(InputStream) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
ReInit(Reader) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
ReInit(SimpleCompAppendMonusTokenManager) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
ReInit(SimpleCharStream) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusTokenManager
ReInit(SimpleCharStream, int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusTokenManager
ReInit(Reader, int, int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
ReInit(Reader, int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
ReInit(Reader) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
ReInit(InputStream, int, int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
ReInit(InputStream) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
ReInit(InputStream, int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
ReInit(InputStream) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
ReInit(Reader) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
ReInit(XQuery2IQLTokenManager) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
ReInit(SimpleCharStream) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLTokenManager
ReInit(SimpleCharStream, int) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLTokenManager
reinitialise() - Method in class uk.ac.bbk.dcs.automed.qproc.FunctionTable
  Reinitialises the function table, i.e.
REL_BETWEEN_ELEMENTS - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Compatibility
REL_BETWEEN_ELEMENTS - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Disjointness
REL_BETWEEN_ELEMENTS - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Equivalence
REL_BETWEEN_ELEMENTS - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Incompatibility
REL_BETWEEN_ELEMENTS - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Overlapness
REL_BETWEEN_ELEMENTS - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Subset
REL_BETWEEN_ELEMENTS - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Superset
RelationalOutputter - Class in uk.ac.ic.doc.automed.reps
  Class the materialise an SQL oriented AutoMed schema
RelationalOutputter(Schema) - Constructor for class uk.ac.ic.doc.automed.reps.RelationalOutputter
  Creates a new instance of RelationalOutputter with a default output directory
RelationalOutputter(AutoMedPeer, Schema) - Constructor for class uk.ac.ic.doc.automed.reps.RelationalOutputter
  Creates a new instance of RelationalOutputter with a default output directory for use with an AutoMed peer
RelationalOutputter(Schema, Schema, String, String, String, String) - Constructor for class uk.ac.ic.doc.automed.reps.RelationalOutputter
  Creates a new instance of RelationalOutputter with a given DB url, username and password
RelationshipConflictException - Exception in uk.ac.ic.doc.automed.matching
RelationshipConflictException(String) - Constructor for exception uk.ac.ic.doc.automed.matching.RelationshipConflictException
RelationshipConflictException() - Constructor for exception uk.ac.ic.doc.automed.matching.RelationshipConflictException
RelationshipConflictException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.matching.RelationshipConflictException
RelationshipExtractor - Class in uk.ac.ic.doc.automed.matching
  The class that represents the RelationshipExtractor component in the schema matching architecture.
RelationshipExtractor() - Constructor for class uk.ac.ic.doc.automed.matching.RelationshipExtractor
RelationshipExtractorException - Exception in uk.ac.ic.doc.automed.matching
RelationshipExtractorException(String) - Constructor for exception uk.ac.ic.doc.automed.matching.RelationshipExtractorException
RelationshipExtractorException() - Constructor for exception uk.ac.ic.doc.automed.matching.RelationshipExtractorException
RelationshipExtractorException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.matching.RelationshipExtractorException
RelationshipExtractorException(Throwable) - Constructor for exception uk.ac.ic.doc.automed.matching.RelationshipExtractorException
RelationSKJEliminator - Class in uk.ac.bbk.dcs.automed.qproc.optimise.optimisers
  This class removes self-join of relations over their key arising from the AutoMed relational model encoding For example, [{k1,n,m}|{p1,n}<-[{{k1,..,kn},a1}|{k1,..,kn,a1,a2}<-<>]; {p2,m}<-[{{k1,..,kn},a2}|{k1,..,kn,a1,a2}<-<>]; p1 = p2] becomes: [{{k1,...,kn},a1,a2}|{k1,..,kn,a1,a2}<-<>] Although table <> may contain several key attributes, we assume that {p1,n} and {p2,m} will be pair The steps for the simplification are: 1.
RelationSKJEliminator() - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.optimisers.RelationSKJEliminator
RelativeEuclideanClassifier - Class in uk.ac.ic.doc.automed.matching.modules.bidirectionalmap
RelativeEuclideanClassifier(Cluster[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.RelativeEuclideanClassifier
reloadModels() - Static method in class uk.ac.ic.doc.automed.reps.Model
  This method empties the cached model data and then reloads it from the MDR as if the class had just been loaded.
reloadSchemas() - Static method in class uk.ac.ic.doc.automed.reps.Schema
rels - Static variable in class uk.ac.ic.doc.automed.matching.SchemaElementPairRelationship
REMOTE - Static variable in class uk.ac.ic.doc.automed.util.LogOutputHandler
  Print log messages to a log server
REMOTE_ADDRESS - Static variable in class uk.ac.ic.doc.automed.p2p.communication.ResponseHandler
REMOTE_PORT - Static variable in class uk.ac.ic.doc.automed.p2p.communication.ResponseHandler
remove() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGCollectionIterator
remove() - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
  Implements mandatory methods of the `ListIterator` interface
remove() - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Remove this AccessMethod from the repository.
remove() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Removes the Construct from the repository if it is not being used, and removes all the construct's Scheme elements.
remove() - Method in class uk.ac.ic.doc.automed.reps.Model
  Removes the Model from the repository.
remove(String) - Static method in class uk.ac.ic.doc.automed.reps.Protocol
  Removes the protocol with the given protocolName.
remove(int) - Static method in class uk.ac.ic.doc.automed.reps.Protocol
  Removes the protocol with the given protocol PID.
remove() - Method in class uk.ac.ic.doc.automed.reps.Protocol
remove(String) - Static method in class uk.ac.ic.doc.automed.reps.Schema
  Removes the Schema with the given schemaName.
remove() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Removes the Schema from the repository.
remove() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Remove the `SchemaObject` form the repository.
remove() - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Removes this `Transformation` from the repository.
remove(PersistentKey) - Method in class uk.ac.ic.doc.automed.util.db.QueryCacheSQLAdapter
  Remove a single record identified by a common key from the database
remove(PersistentKey) - Method in class uk.ac.ic.doc.automed.util.persist.PersistentDB
  Remove a single record identified by a common key from the database
remove(PersistentKey) - Method in interface uk.ac.ic.doc.automed.util.persist.PersistentHandler
  Remove a single record identified by a common key from the database
removeAccessMethod(int) - Static method in class uk.ac.ic.doc.automed.STR
  Removes an access method from the STR.
removeAccessMethodBySID(int) - Static method in class uk.ac.ic.doc.automed.STR
  Removes all access methods for the given schema identifier (SID).
removeAccessMethods() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Remove all `AccessMethod`s recorded for this schema.
removeAll() - Method in class uk.ac.ic.doc.automed.util.db.QueryCacheSQLAdapter
  Clear database content
removeAll() - Method in class uk.ac.ic.doc.automed.util.persist.PersistentDB
  Clear database content
removeAll() - Method in interface uk.ac.ic.doc.automed.util.persist.PersistentHandler
  Clear database content
removeAllSchemes(int) - Static method in class uk.ac.ic.doc.automed.STR
  Removes all the schemes associated with the given schema object.
removeAssociationBySFID(int) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Removes all associations for the given ssdformat identifier (SFID).
removeButtons(Component, int) - Method in class uk.ac.ic.doc.automed.editor.DetachedTextEditor
  Remove control buttons (close, maximise, etc.) from dialog (and frame) component Adapted from the code example at http://forum.java.sun.com
removeConstruct(int) - Static method in class uk.ac.ic.doc.automed.MDR
  Remove the construct.
removeConstructFromMap(Construct) - Static method in class uk.ac.ic.doc.automed.reps.Construct
  Deprecated. Remove constructs using @link remove() which will also do the job of this method Removes from the HashMap that holds the CID and ref to all Construct objs.
removeConstructFromMap(String) - Method in class uk.ac.ic.doc.automed.reps.Model
  THIS METHOD DOESN'T DO ANYTHING AT THE MOMENT Sets the content of a particular position of the model's constructs list.
removeConstructScheme(int, int) - Static method in class uk.ac.ic.doc.automed.MDR
  Remove the construct.
removeCurrentNode(DefaultMutableTreeNode) - Method in class uk.ac.ic.doc.automed.editor.PatternWritingTool.DynamicTree
  Remove the currently selected node.
removeDB(String) - Method in class uk.ac.ic.doc.automed.util.persist.PersistentDBController
  Delete database
removeDocument(Collection, Document, String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.EXISTWrapper
removeDuplicates() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.ModifiedArray
removeDuplicates(SchemaElementPair[]) - Method in class uk.ac.ic.doc.automed.matching.Integrator
  Returns a duplicate-free `SchemaElementPair` array.
removeDuplicates(SchemaElementPairRelationship[]) - Method in class uk.ac.ic.doc.automed.matching.RelationshipExtractor
removeDuplicates(PersistentKey) - Method in interface uk.ac.ic.doc.automed.util.persist.DuplicatePersistentHandler
  Remove all entries associated to a key from the database
removeDuplicates(PersistentKey) - Method in class uk.ac.ic.doc.automed.util.persist.PersistentDB
  Remove all entries associated to a key from the database
removeElem(Object) - Method in class uk.ac.ic.doc.automed.editor.autolayout.ExpandedArrayList
removeHighlights(JTextComponent) - Method in class uk.ac.ic.doc.automed.editor.PatternWritingTool
  /* Methods to highlight text in the textarea /
removeInBetweenSchemas() - Static method in class uk.ac.bbk.dcs.automed.evolution.EvolutionUtility
  Retracts schemas in the pathway from s1 to s2, WITHOUT retracting s2.
removeInBetweenSchemas() - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
removeLayoutComponent(Component) - Method in class uk.ac.ic.doc.automed.editor.PinBoardLayout
removeModel(int) - Static method in class uk.ac.ic.doc.automed.MDR
  Remove the modelling language.
removeModel(String) - Static method in class uk.ac.ic.doc.automed.reps.Model
  Removes the Model with the given modelName.
removeModelChangeListener(ModelChangeListener) - Method in class uk.ac.ic.doc.automed.reps.Model
removeModelsListener(ModelsListener) - Static method in class uk.ac.ic.doc.automed.reps.Model
  Remove an instance of any class implementing interface `ModelsListener` such that it will no longer be notified of any adding or deleting of models that may occur.
removeNestTransform(String, String, String, String) - Method in class uk.ac.ic.doc.automed.xmlschema.JTreeTransform
removeNetworkChangeListener(NetworkChangeListener) - Method in class uk.ac.ic.doc.automed.reps.Network
removeNetworksListener(NetworksListener) - Static method in class uk.ac.ic.doc.automed.reps.Network
removePattern(int) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Removes a pattern from the SSMDR.
removePeer(String) - Method in class uk.ac.ic.doc.automed.p2p.P2PRegistry
removePeers(String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  Remove peers at flush-time.
removeProtocol(int) - Static method in class uk.ac.ic.doc.automed.STR
  Removes the name of a protocol from the STR.
removeRecursion(SchemaObject, SchemaObject, String, String) - Method in class uk.ac.ic.doc.automed.reps.HDMTransformations
  Remove recursion
removeSchema(int) - Static method in class uk.ac.ic.doc.automed.STR
  Removes a schema from the STR.
removeSchemaChangeListener(SchemaChangeListener) - Method in class uk.ac.ic.doc.automed.reps.Schema
removeSchemaNames(String) - Static method in class uk.ac.ic.doc.rodex.qproc.Util
  Remove schema names from IQL query string
removeSchemaObject(SchemaObject, SchemaObject[]) - Method in class uk.ac.ic.doc.automed.matching.SQLIntegrator
  Return a `SchemaObject` array by removing the specified object from the input array.
removeSchemaObject(int) - Static method in class uk.ac.ic.doc.automed.STR
  Removes a schema object from the STR.
removeSchemaObjects() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Removes all schema objects that belong to the schema, i.e., the schema's `SchemaObject` list is emptied.
removeSchemasListener(SchemasListener) - Static method in class uk.ac.ic.doc.automed.reps.Schema
  Remove an instance of any class implementing interface `SchemasListener` such that it will no longer be notified of any adding or deleting of schemas that may occur.
removeScheme(int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Removes a particular position of an object's scheme from the STR.
removeSSDFormat(int) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Removes a ssd format from the SSMDR.
removeSupressedTokenType(int) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
removeSupressedTokenTypes(int[]) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
removeTransformation(String, String) - Static method in class uk.ac.ic.doc.automed.reps.Transformation
  Removes the transformation between two given schemas.
removeTransformation(int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Removes a transformation from the STR.
removeXMLDSS(String, String) - Static method in class uk.ac.bbk.dcs.automed.xml.wrappers.NXDBSchemaManager
rename - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
renameCompVars(Cell, Set, HashMap) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.optimisers.UnnestOptimiser
  Renames any variables of the input comprehension that appear in the input set of variables.
RenameUID - Class in uk.ac.bbk.dcs.automed.xml.functions
  Function that produces element UIDs based on the two arguments passed to the function.
RenameUID() - Constructor for class uk.ac.bbk.dcs.automed.xml.functions.RenameUID
repair(boolean) - Static method in class uk.ac.ic.doc.automed.STR
  Perform some operators to repair the STR repository after it has become corrupt.
repairExisting() - Method in class uk.ac.bbk.dcs.automed.evolution1.Evolution
repairExisting() - Method in class uk.ac.bbk.dcs.automed.evolution1.ExtensionalSchemaEvolution
repairExisting() - Method in class uk.ac.bbk.dcs.automed.evolution1.VirtualSchemaEvolution
repairExisting() - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.ExtensionalSchemaEvolution
repairExisting() - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.IntegratedSchemaEvolution
repairExisting() - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
repairExistingOneStep() - Method in class uk.ac.bbk.dcs.automed.evolution1.Evolution
repairExistingOneStep() - Method in class uk.ac.bbk.dcs.automed.evolution1.ExtensionalSchemaEvolution
repairExistingOneStep() - Method in class uk.ac.bbk.dcs.automed.evolution1.VirtualSchemaEvolution
repairExistingOneStep() - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.ExtensionalSchemaEvolution
repairExistingOneStep() - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.IntegratedSchemaEvolution
repairExistingOneStep() - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
repairPathway(Pathway) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolution
repairPathway(Transformation[]) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolution
repairPathway(Pathway) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
repairPathway(Transformation[]) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
replace(String, String) - Static method in class uk.ac.ic.doc.automed.Util
  Returns a new string resulting from replacing all occurences of `substring` in string `s` with `\` followed by `substring`.
replaceAll(String, String, String) - Static method in class uk.ac.ic.doc.automed.Util
  Replace all occurences of a substring with a new string
replaceFunctions(ASG, QueryVariable, List) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehensionMiniCon
  Replace query functions which are mapped to a specific `QueryVariable` with a new set of functions.
replaceString(String, String, String) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
replaceVarWithHashMap(Cell, HashMap) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
replaceVarWithHashMap(Cell, HashMap, boolean) - Static method in class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
REPLY_FAIL - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
REPLY_OK - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
REPLY_UNKNOWN - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
REPLY_UNKNOWN_REQUEST - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
replySODefinition(AbstractMessage, ResponseHandler) - Method in class uk.ac.ic.doc.rodex.p2p.protocol.QEP
  Look up the definition queries for a schema object and return it to the requesting peer.
replyToMessage(AbstractMessage, OutputStream) - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractDaemon
reportException(Exception) - Static method in class uk.ac.ic.doc.automed.editor.GUITool
reportException(String, Exception) - Static method in class uk.ac.ic.doc.automed.editor.GUITool
ReportException - Class in uk.ac.ic.doc.automed.editor
  A Window to display a Java Exception.
ReportException(String, Exception) - Constructor for class uk.ac.ic.doc.automed.editor.ReportException
ReportException() - Constructor for class uk.ac.ic.doc.automed.editor.ReportException
reportException(String, Exception) - Static method in class uk.ac.ic.doc.automed.editor.ReportException
  Provide a single window to share in a JVM for the reporting of all exceptions in that
repository - Variable in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
RepositoryAccessException - Exception in uk.ac.ic.doc.automed
  The class of exceptions generated when executing updates and queries to TTSR, TTR, TER, SMR.
RepositoryAccessException(String) - Constructor for exception uk.ac.ic.doc.automed.RepositoryAccessException
RepositoryAccessException(String, Exception) - Constructor for exception uk.ac.ic.doc.automed.RepositoryAccessException
representsBag() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if the Cell is the root of an ASG representing a bag
representsBagComprehension() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
representsBSingleton() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
representsCollection() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if the Cell is the root of an ASG representing a collection
representsCollectionSingleton() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
representsComprehension() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
representsConstructor() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
representsConstructor(String) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
representsFunction(String, int) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
representsFunction() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
representsGenerator() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if the Cell is the root of an ASG representing a generator
representsLambdaExpression() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
representsLet() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
representsList() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if the Cell is the root of an ASG representing a list
representsListComprehension() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
representsLSingleton() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
representsNestedComprehension() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
representsPair() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if tag is "Tuple2"
representsSet() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns true if the Cell is the root of an ASG representing a set
representsSetComprehension() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
representsSpecial() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
representsSpecial(String, int) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
representsSSingleton() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
representsTuple() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns the arity of the tuple, or -1 if Cell does not represent a tuple
Request - Class in uk.ac.ic.doc.automed.p2p.protocol
Request(String) - Constructor for class uk.ac.ic.doc.automed.p2p.protocol.Request
request - Variable in class uk.ac.ic.doc.automed.p2p.protocol.Request
Request.Pathway - Class in uk.ac.ic.doc.automed.p2p.protocol
Request.Pathway(String, String) - Constructor for class uk.ac.ic.doc.automed.p2p.protocol.Request.Pathway
Request.PathwayToSource - Class in uk.ac.ic.doc.automed.p2p.protocol
Request.PathwayToSource(String) - Constructor for class uk.ac.ic.doc.automed.p2p.protocol.Request.PathwayToSource
Request.Port - Class in uk.ac.ic.doc.automed.p2p.protocol
Request.Port(String) - Constructor for class uk.ac.ic.doc.automed.p2p.protocol.Request.Port
Request.Query - Class in uk.ac.ic.doc.automed.p2p.protocol
Request.Query(String, String) - Constructor for class uk.ac.ic.doc.automed.p2p.protocol.Request.Query
Request.Register - Class in uk.ac.ic.doc.automed.p2p.protocol
Request.Register(String, int) - Constructor for class uk.ac.ic.doc.automed.p2p.protocol.Request.Register
Request.Remove - Class in uk.ac.ic.doc.automed.p2p.protocol
Request.Remove(String) - Constructor for class uk.ac.ic.doc.automed.p2p.protocol.Request.Remove
Request.Schema - Class in uk.ac.ic.doc.automed.p2p.protocol
Request.Schema(String) - Constructor for class uk.ac.ic.doc.automed.p2p.protocol.Request.Schema
Request.Unknown - Class in uk.ac.ic.doc.automed.p2p.protocol
Request.Unknown(String, String[]) - Constructor for class uk.ac.ic.doc.automed.p2p.protocol.Request.Unknown
REQUEST_GET_PORT - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
REQUEST_ID - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
REQUEST_PATHWAY - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
REQUEST_PATHWAY_TO_SOURCE - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
REQUEST_QUERY - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
REQUEST_REGISTER_PEER - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  static{ try { Object[]fileLines = Util.parseFile(PUBLIC_SCHEMA_DIRECTORY_CFG); for (int i=0;i-1 && l.indexOf(COMMENT)!=0) { String kw=l.substring(0,equalPos).trim().toLowerCase(); String val=l.substring(equalPos+1).trim(); if (kw.equals("directory")) { int colonPos=val.indexOf(":"); if (colonPos>-1) { directoryHost= InetAddress.getByName(val.substring(0,colonPos)); directoryPort=Integer.parseInt(val.substring(colonPos+1)); } else directoryHost=InetAddress.getByName(val);; } else if (kw.equals("registryport")) { registryPort=Integer.parseInt(val); } } else if (l.indexOf(COMMENT)!=0 && l.length()>0) { System.out.println("Warning: Incorrect line "+fileLines[i]); } } } catch (Exception e) { Logger.error("ERROR: Unable to set directory/registry", e); throw new InconsistentException("P2P services failed to read valid "+ "Directory and Registry details: Please correct "+ PUBLIC_SCHEMA_DIRECTORY_CFG,e); } }
REQUEST_REMOVE_PEER - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
REQUEST_SCHEMA - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
requestAbstractPathToSource(String) - Method in class uk.ac.ic.doc.rodex.p2p.Peer
  Request abstract pathway to source from directory service
requestAbstractPathwayToSource(String) - Method in class uk.ac.ic.doc.rodex.p2p.protocol.SICP
  Peer->DS: A peer invokes this method to request the directory service about possible pathways to data source for a public schema that the peer knows
requestAdvertise(String, Map) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
RequestListener - Interface in uk.ac.ic.doc.automed.p2p.communication
requestPathToSource(String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
requestPathToSource(String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
requestPathway(String, String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
requestPathway(String, String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
requestQuery(String, String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
requestQuery(String, String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
requestQuery(String, String, String, String) - Method in class uk.ac.ic.doc.rodex.p2p.Peer
  Override request query method
requestSchema(String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
requestSODefinition(QuerySubGoal, AutoMedPeer.PeerProcessDescription) - Method in class uk.ac.ic.doc.rodex.p2p.protocol.QEP
  Request the query definitions for a schema object (represented by a `QuerySubGoal` object
required - Variable in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
  Whether or not this is a required attribute
ReservedTokens - Class in uk.ac.bbk.dcs.automed.qproc.iql
ReservedTokens() - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.ReservedTokens
reset() - Method in class uk.ac.ic.doc.automed.p2p.directory.FlushTimeHelper
  Reset the hold-time process when necessary
reset() - Method in class uk.ac.ic.doc.automed.p2p.directory.HelloTimeHelper
  Reset the hold-time process when necessary
reset() - Method in class uk.ac.ic.doc.automed.p2p.directory.HoldTimeHelper
  Reset the hold-time process when necessary
resetEditor(JTextArea, JCheckBox) - Method in class uk.ac.ic.doc.automed.editor.TextEditor
  Give default settings to text area
resolveDisjoints() - Method in class uk.ac.ic.doc.automed.matching.SQLIntegrator
  Resolves the structural conflicts of the schemas for disjointness relationships.
resolveEntity(String, String) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
resolveNamingConflicts() - Method in class uk.ac.ic.doc.automed.matching.Integrator
resolveNamingConflicts() - Method in class uk.ac.ic.doc.automed.matching.SQLIntegrator
  Resolves the naming conflicts of the schemas.
resolveOverlaps() - Method in class uk.ac.ic.doc.automed.matching.SQLIntegrator
  Resolves the structural conflicts of the schemas for overlapness relationships.
resolveStructuralConflicts() - Method in class uk.ac.ic.doc.automed.matching.Integrator
resolveStructuralConflicts() - Method in class uk.ac.ic.doc.automed.matching.SQLIntegrator
  Resolves the structural conflicts of the schemas.
resolveSubsumptions() - Method in class uk.ac.ic.doc.automed.matching.SQLIntegrator
  Resolves the structural conflicts of the schemas for subsumption relationships.
ResponseHandler - Class in uk.ac.ic.doc.automed.p2p.communication
ResponseHandler(String, Map) - Constructor for class uk.ac.ic.doc.automed.p2p.communication.ResponseHandler
  Creates a new instance of ResponseHandler
restartThread() - Method in class uk.ac.ic.doc.automed.util.thread.AsynchThread
  To restart, stop and start it
restartThread() - Method in class uk.ac.ic.doc.automed.util.thread.TimedThread
  To restart, stop and start it
restructure() - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSRestructurer
  After instantiating the class, this method restructures the source XMLDSS to match the target, by transforming both source and target schemas.
restructure() - Method in class uk.ac.bbk.dcs.automed.xml.XMLRestructurer
  After instantiating the class, this method restructures the source XMLDSS to match the target, by transforming both source and target schemas.
RESULT - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
resultArea - Variable in class uk.ac.ic.doc.automed.editor.IQLTool
resultArea() - Method in class uk.ac.ic.doc.automed.editor.IQLTool
resultList - Variable in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
resultSetToArray(ResultSet) - Static method in class uk.ac.ic.doc.automed.Util
retract(String) - Static method in class uk.ac.bbk.dcs.automed.evolution.EvolutionUtility
retract(String) - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
retract() - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Remove this AccessMethod, and any other classes that are dependent upon its existance.
retract() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Removes the Construct from the repository, and all other objects which depend upon it.
retract() - Method in class uk.ac.ic.doc.automed.reps.Model
  Removes the Model from the repository, together with all associated information --- in particular all Constructs belonging to the model are removed, and hence all SchemaObjects, and hence all Transformations on those objects.
retract() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Removes the Schema from the repository, together with any `SchemaObject`s left in the schema, and any `Transformation`s that link to this schema.
retract(String) - Static method in class uk.ac.ic.doc.automed.reps.Schema
  Removes any Schema with the given name from the repository, together with any `SchemaObject`s left in the schema, and any `Transformation`s that link to this schema.
retract() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Removes the SchemaObject from the repository, and all other objects which depend upon it.
retract() - Method in class uk.ac.ic.doc.automed.reps.Transformation
retract(String) - Static method in class uk.ac.ic.doc.automed.ssd.Pattern
retract(String) - Static method in class uk.ac.ic.doc.automed.ssd.SSDFormat
retractAll() - Static method in class uk.ac.bbk.dcs.automed.evolution.EvolutionUtility
retractAll() - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
retractModel(Model) - Method in class uk.ac.ic.doc.automed.p2p.tree.ObjectBuilder
  Retract model
retractSchema(Schema) - Method in class uk.ac.ic.doc.automed.p2p.tree.ObjectBuilder
RETURN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
returnExpr(HashMap) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
returnGraph(String) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.ModifiedArray
returnInternalSeperators(String) - Static method in class uk.ac.bbk.dcs.automed.hdmstore.Edge
  If commas that are not at the 'top level' have been removed, replace them e.g.
returnInternalSpaces(String) - Static method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStoreCmd
  Changeback any seperators within an edge thats a span to spaces
returnTag(String) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ReservedTokens
reveal(Object) - Method in class uk.ac.ic.doc.automed.editor.Gui
  Reveal an object from the GUI, such that it is displayed it in any of its graphical views of the repository.
reveal(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
revealConstruct(Construct) - Method in class uk.ac.ic.doc.automed.editor.Gui
  Reveal all `SchemaObject` of a certain `Construct` type that have been previously hidden.
revealModel(Model) - Method in class uk.ac.ic.doc.automed.editor.Gui
  Reveal all `SchemaObject` of a certain `Model` type that have been previously hidden.
revealPositionable(Positionable) - Method in class uk.ac.ic.doc.automed.editor.Gui
  Reveal a `Positionable` that has been previously hidden.
reverseKeywords - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
reverseRelationshipPair(SchemaElementPairRelationship) - Method in class uk.ac.ic.doc.automed.matching.RelationshipExtractor
  Returns the reverse relationship for the specified pair.
reverseRelationshipPairs(SchemaElementPairRelationship[]) - Method in class uk.ac.ic.doc.automed.matching.RelationshipExtractor
rewind() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedResult
rewrite(ASG, Schema, int) - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
  Rewrite a query associated to a schema s using the local query cache
rewrite() - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter
  Implements method in `QueryWriter` abstract parent class
  Rewrite query using views based on the MiniCon algorithm following a two-phase process:
rewrite() - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriterAdaptive
rewrite(ASG, Schema, int) - Method in interface uk.ac.ic.doc.rodex.qproc.QueryRewritable
  Rewrite a query associated to a schema s using the local query cache
rewrite() - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
  Rewrite query to produce `QueryRewriterResult` object
rewrite() - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriter
  Rewrite query
rewrite() - Method in class uk.ac.ic.doc.rodex.qproc.RangeBasedQueryRewriter
  Rewrite an existing query into a set of equivalent sub-queries based on range analysis.
RewritingNotExistException - Exception in uk.ac.ic.doc.rodex.qproc
  RewritingNotExistException.java
RewritingNotExistException(String, Throwable) - Constructor for exception uk.ac.ic.doc.rodex.qproc.RewritingNotExistException
  Creates a new instance of QueryRewriterException
RewritingNotExistException(String) - Constructor for exception uk.ac.ic.doc.rodex.qproc.RewritingNotExistException
RIGHT_BRACKET - Static variable in class uk.ac.ic.doc.rodex.qproc.Util
  right bracket for scheme name, default = '>>'
RIGHT_VAR_BRACKET - Static variable in class uk.ac.ic.doc.rodex.qproc.Util
rightBrace - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
rightBracket - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
role - Variable in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
ROLE_AUTOMED_PEER - Static variable in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
ROLE_DSP - Static variable in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
ROLE_PEER - Static variable in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
root - Variable in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
root() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  Returns the root of the ASG
Root - Class in uk.ac.ic.doc.automed.p2p.tree
Root() - Constructor for class uk.ac.ic.doc.automed.p2p.tree.Root
Root(String) - Constructor for class uk.ac.ic.doc.automed.p2p.tree.Root
ROOT_TYPE_NAME - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
RootLayout - Class in uk.ac.ic.doc.automed.editor.layout
RootLayout() - Constructor for class uk.ac.ic.doc.automed.editor.layout.RootLayout
rootNode - Variable in class uk.ac.ic.doc.automed.editor.PatternWritingTool.DynamicTree
round(double) - Static method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutPositionable
  Convert double to int.
row - Variable in class uk.ac.ic.doc.automed.util.db.DBRecord
RP - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
RRB - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.FSym
RRB - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
RSB - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
RSB - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
Rule - Interface in uk.ac.bbk.dcs.automed.qproc.optimise
run(SchemaObject[]) - Method in interface uk.ac.ic.doc.automed.editor.layout.LayoutInterface
run(SchemaObject[]) - Method in class uk.ac.ic.doc.automed.editor.layout.RootLayout
run() - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
run() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractDaemon
run() - Method in class uk.ac.ic.doc.automed.util.thread.AsynchThread
  Implements the thread-running method
run() - Method in class uk.ac.ic.doc.automed.util.thread.TimedThread
  Implements the thread-running method
runAction() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractClient
  Implement communication process
runAction() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractServer
  Implement communication process
runAction() - Method in class uk.ac.ic.doc.automed.p2p.communication.TCPClient
  Implement TCP communication process
runAction() - Method in class uk.ac.ic.doc.automed.p2p.communication.TCPServer
  Implements the runnable action
runAction() - Method in class uk.ac.ic.doc.automed.p2p.communication.UDPClient
  Implement UDP communication process
runAction() - Method in class uk.ac.ic.doc.automed.p2p.communication.UDPServer
  Implements the runnable action
runAction() - Method in class uk.ac.ic.doc.automed.p2p.directory.FlushTimeHelper
  Implements `Theadable` interface This method acts as the background process at the server to update peer
  status.
runAction() - Method in class uk.ac.ic.doc.automed.p2p.directory.HelloTimeHelper
  Implements `Theadable` interface This method acts as the background process at the server to update peer
  status.
runAction() - Method in class uk.ac.ic.doc.automed.p2p.directory.HoldTimeHelper
  Implements `Theadable` interface This method acts as the background process at the server to update peer
  status.
runAction() - Method in class uk.ac.ic.doc.automed.util.queue.QueueWorker
  Get the next job in queue to process
runAction() - Method in interface uk.ac.ic.doc.automed.util.thread.Threadable
RunAll - Class in uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1
  Class Task Description
RunAll() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1.RunAll
runQuery(String) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.thesis.Books1Query
runQuery(String) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.thesis.Books2Query
runQuery(String) - Static method in class uk.ac.bbk.dcs.automed.xml.experiments.thesis.BooksQuery
runScript() - Method in class uk.ac.bbk.dcs.automed.xml.relational.TransformationsIssuer

## S

s - Variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
safeIQL(String) - Static method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
  Process an indentifier to make it safe to use in the IQL language.
safeNextToken() - Method in class uk.ac.ic.doc.automed.reps.Syntax.Tokenizer
safeSQLString(String) - Static method in class uk.ac.ic.doc.automed.Util
  Provide a version of a string that is safe to use in JDBC update statements.
sameScheme(SchemaObject) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Determines whether or not the scheme is the same as that of the given `SchemaObject`.
SATISFIES - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
saveDegrees(String) - Method in class uk.ac.ic.doc.automed.matching.modules.AbstractModule
SAX_ERROR - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
SAXMaterialiser - Class in uk.ac.bbk.dcs.automed.xml.materialisation
  Class Task Description
SAXMaterialiser() - Constructor for class uk.ac.bbk.dcs.automed.xml.materialisation.SAXMaterialiser
SAXWrapper - Class in uk.ac.bbk.dcs.automed.xml.wrappers
  A lower level wrapper that conforms to the XMLWrapper class.
SAXWrapper(AccessMethod, String) - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.SAXWrapper
SAXWrapperFactory - Class in uk.ac.bbk.dcs.automed.xml.wrappers
SAXWrapperFactory() - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.SAXWrapperFactory
SCHEMA - Static variable in class uk.ac.ic.doc.automed.p2p.MessageHandler
SCHEMA - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  Context
schema - Variable in class uk.ac.ic.doc.automed.p2p.protocol.Request.PathwayToSource
schema - Variable in class uk.ac.ic.doc.automed.p2p.protocol.Request.Query
schema - Variable in class uk.ac.ic.doc.automed.p2p.protocol.Request.Schema
Schema - Class in uk.ac.ic.doc.automed.reps
  The Schema class represents a database schema as a set of `SchemaObject`s.
Schema(String) - Constructor for class uk.ac.ic.doc.automed.reps.Schema
  Deprecated. Not the correct way to do things!!!! see `#createSchema()` Just create an empty Schema object with name dmle 9/11/2005
schema - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
SCHEMA_ADDED - Static variable in class uk.ac.ic.doc.automed.reps.SchemaChangeEvent
SCHEMA_AWARE - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
  A feature option to model SQL schemas.
SCHEMA_CHANGED - Static variable in class uk.ac.ic.doc.automed.reps.NetworkChangeEvent
SCHEMA_CHANGED - Static variable in class uk.ac.ic.doc.automed.reps.SchemaChangeEvent
SCHEMA_LIST - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  Context
SCHEMA_MERGING - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
SCHEMA_NAME - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  Field: SCHEMA_NAME - a string of schema name
SCHEMA_NAME_SUFFIX - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
SCHEMA_OBJECT - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
SCHEMA_REGISTRATION - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
SCHEMA_REMOVED - Static variable in class uk.ac.ic.doc.automed.reps.SchemaChangeEvent
SchemaAccessibility - Class in uk.ac.ic.doc.rodex.p2p.messages.applicationlayer
  SchemaAccessibility.java
SchemaAccessibility(String, String, String[], int, int) - Constructor for class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.SchemaAccessibility
  Creates a new instance of SchemaAccessibility
schemaAdded(SchemaChangeEvent) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
schemaAdded(SchemaChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.SchemasListener
SchemaAdvertiser - Class in uk.ac.ic.doc.automed.p2p
SchemaAdvertiser(AutoMedPeer) - Constructor for class uk.ac.ic.doc.automed.p2p.SchemaAdvertiser
SchemaAdvertMsg - Class in uk.ac.ic.doc.rodex.p2p.messages.applicationlayer
  SchemaAdvertMsg.java
  The schema advertisement message sent by a peer to the directory service peer to advertise its public schemas
SchemaAdvertMsg(List) - Constructor for class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.SchemaAdvertMsg
  Creates a new instance of HelloMsg
schemaChanged(NetworkChangeEvent) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
schemaChanged(SchemaChangeEvent) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
schemaChanged(NetworkChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.NetworkChangeListener
schemaChanged(SchemaChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.SchemaChangeListener
SchemaChangeEvent - Class in uk.ac.ic.doc.automed.reps
SchemaChangeEvent(int, Positionable) - Constructor for class uk.ac.ic.doc.automed.reps.SchemaChangeEvent
SchemaChangeListener - Interface in uk.ac.ic.doc.automed.reps
SchemaDescription - Class in uk.ac.ic.doc.automed.p2p.directory
SchemaDescription(String, String, String) - Constructor for class uk.ac.ic.doc.automed.p2p.directory.SchemaDescription
SchemaDescription(String, String, String, String, String) - Constructor for class uk.ac.ic.doc.automed.p2p.directory.SchemaDescription
SchemaDescription(Map) - Constructor for class uk.ac.ic.doc.automed.p2p.directory.SchemaDescription
schemaDoc - Variable in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
SchemaElement - Class in uk.ac.ic.doc.automed.matching
  The SchemaElement class to wrap schema objects in schema matching.
SchemaElement(SchemaObject, boolean) - Constructor for class uk.ac.ic.doc.automed.matching.SchemaElement
  Instantiates a schema element.
SchemaElementPair - Class in uk.ac.ic.doc.automed.matching
  The SchemaElementPair class that represents a pair of schema elements.
SchemaElementPair(SchemaElement, SchemaElement) - Constructor for class uk.ac.ic.doc.automed.matching.SchemaElementPair
  Constructs a `SchemaElementPair` object.
SchemaElementPairRelationship - Class in uk.ac.ic.doc.automed.matching
  The SchemaElementPairRelationship class that represents a pair of schema elements and their relationship.
SchemaElementPairRelationship(SchemaElement, SchemaElement, SemanticRelationship) - Constructor for class uk.ac.ic.doc.automed.matching.SchemaElementPairRelationship
  Constructs a `SchemaElementPairRelationship` object.
SchemaEvent - Class in uk.ac.ic.doc.automed.p2p.directory
  SchemaEvent.java The event object that encapsulates all schema change events occur in the directory
SchemaEvent(int, SchemaDescription, PeerDescription, Object) - Constructor for class uk.ac.ic.doc.automed.p2p.directory.SchemaEvent
  Creates a new instance of PeerEvent
SchemaEventListener - Interface in uk.ac.ic.doc.automed.p2p.directory
  SchemaEventListener.java An interface for listeners of schema registration/update events
SchemaEvolution - Class in uk.ac.bbk.dcs.automed.evolution2.schemaEvolution
SchemaEvolution(int, boolean) - Constructor for class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
SchemaEvolutionException - Exception in uk.ac.bbk.dcs.automed.evolution2.schemaEvolution
SchemaEvolutionException(String) - Constructor for exception uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolutionException
schemaEvolutionType - Variable in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolution
schemaEvolutionType - Variable in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
SchemaGetter - Class in uk.ac.ic.doc.automed.p2p
SchemaGetter(AutoMedPeer) - Constructor for class uk.ac.ic.doc.automed.p2p.SchemaGetter
SchemaInfoFrame - Class in uk.ac.ic.doc.automed.p2p.gui
  A window containing information about peers implementing a single public schema, plus the ability to perform basic operations a peer for the public schema.
SchemaInfoFrame(PeerApplication) - Constructor for class uk.ac.ic.doc.automed.p2p.gui.SchemaInfoFrame
schemaMap - Variable in class uk.ac.ic.doc.automed.p2p.tree.ObjectBuilder
SchemaMapGenerator - Class in uk.ac.ic.doc.automed.reps
SchemaMapGenerator() - Constructor for class uk.ac.ic.doc.automed.reps.SchemaMapGenerator
SchemaMatchingSQLWrapperFactory - Class in uk.ac.ic.doc.automed.wrappers
  An AutoMed high wrapper factory for creating `SQLWrapper` instances.
SchemaMatchingSQLWrapperFactory() - Constructor for class uk.ac.ic.doc.automed.wrappers.SchemaMatchingSQLWrapperFactory
  Constructor.
schemaName(String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Given an HDM store name return the name of the schema it stores data for
schemaName() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
schemaName() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
schemaName() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
schemaName() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
SchemaObject - Class in uk.ac.ic.doc.automed.reps
  The SchemaObject class
SchemaObjectAbstraction - Class in uk.ac.ic.doc.automed.p2p.overlay
  SchemaObjectAbstraction.java
SchemaObjectAbstraction(long, String, String, String[]) - Constructor for class uk.ac.ic.doc.automed.p2p.overlay.SchemaObjectAbstraction
  Creates a new instance of SchemaObjectAbstraction
SchemaObjectBuilder - Class in uk.ac.ic.doc.automed.p2p.tree
SchemaObjectBuilder(Root) - Constructor for class uk.ac.ic.doc.automed.p2p.tree.SchemaObjectBuilder
  Creates a new instance of SchemaObjectBuilder
SchemaPublisher - Class in uk.ac.ic.doc.automed.p2p
SchemaPublisher(AutoMedPeer) - Constructor for class uk.ac.ic.doc.automed.p2p.SchemaPublisher
SchemaRegMsg - Class in uk.ac.ic.doc.rodex.p2p.messages.applicationlayer
  SchemaRegMsg.java
  The Schema Registration sent by directory service peer to a registered peer asking for available schemas.
SchemaRegMsg() - Constructor for class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.SchemaRegMsg
  Creates a new instance of HelloMsg
schemaRemoved(SchemaChangeEvent) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
schemaRemoved(SchemaChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.SchemaChangeListener
schemaRemoved(SchemaChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.SchemasListener
schemas - Variable in class uk.ac.ic.doc.automed.p2p.directory.ModelDescription
SchemasListener - Interface in uk.ac.ic.doc.automed.reps
  Classes implementing this interface my get notification of any additions or deletions of `Schema` instances.
SchemasNotIdenticalException - Exception in uk.ac.ic.doc.automed.reps
  This exception is generated when an attempt to join to transformation pathways via createIdentTransformation() fails due to the schemas' object schemes being different.
SchemasNotIdenticalException(Schema, Schema, SchemaObject[], SchemaObject[]) - Constructor for exception uk.ac.ic.doc.automed.reps.SchemasNotIdenticalException
schemaToEvolve - Variable in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolution
schemaToEvolve - Variable in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
schemaUIDDoc - Variable in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
scheme - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
Scheme - Class in uk.ac.ic.doc.automed.reps
  The Scheme class is used to described each element of the scheme of `SchemaObject`.
Scheme(SchemaObject, int, SchemaObject, boolean, int, boolean) - Constructor for class uk.ac.ic.doc.automed.reps.Scheme
  Creates a new scheme for a schema object.
scheme - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
SCHEME_FIELD_SEPARATOR - Static variable in class uk.ac.ic.doc.rodex.qproc.Util
  seprator between fields, default = ','
SCHEME_HDM_TYPE_C - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated. HDM type of construct scheme - constraints
SCHEME_HDM_TYPE_MAXIMUM - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated.
SCHEME_HDM_TYPE_MINIMUM - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated.
SCHEME_HDM_TYPE_N1 - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated. HDM type of construct scheme - new node at position 1
SCHEME_HDM_TYPE_N2 - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated. HDM type of construct scheme - new node at position 2
SCHEME_HDM_TYPE_P1 - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated. HDM type of construct scheme - pre-existing node at position 1
SCHEME_HDM_TYPE_P2 - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated. HDM type of construct scheme - pre-existing node at position 2
SCHEME_NAME_SEPARATOR - Static variable in class uk.ac.ic.doc.rodex.qproc.Util
  separator b/w schema name and scheme name, default = ':'
SCHEME_TYPE_ALTERNATION - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated. Scheme type of construct scheme
SCHEME_TYPE_CONSTRUCT - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated. Scheme type of construct scheme
SCHEME_TYPE_MAXIMUM - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated.
SCHEME_TYPE_MINIMUM - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated.
SCHEME_TYPE_NAME - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated. Scheme type of construct scheme
SCHEME_TYPE_SEQUENCE - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated. Scheme type of construct scheme
schemeElement() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
schemeElement() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
schemeElement() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
schemeElement() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
SchemeInfo - Class in uk.ac.bbk.dcs.automed.qproc.iql
  Every Cell with tag scheme has a SchemeInfo object in its data field.
SchemeInfo(String, String, String, String, String, String) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
SchemeInfo(String) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
SchemeInfo(String, String) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
SchemeInfo(SchemaObject) - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
SchemeInstances - Class in uk.ac.ic.doc.automed.wrappers
  Provides a representation of the data associated with a scheme in an AutoMed Schema.
SchemeInstances() - Constructor for class uk.ac.ic.doc.automed.wrappers.SchemeInstances
SchemeQuery - Class in uk.ac.ic.doc.automed.wrappers
  A generic representation of query expressions as trees, where each SchemeQuery has an operator type, and 0 or more fields that have a field type
SchemeQuery() - Constructor for class uk.ac.ic.doc.automed.wrappers.SchemeQuery
Schemes - Class in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes
Schemes(InputStream) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
Schemes(Reader) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
Schemes(SchemesTokenManager) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
schemes - Variable in class uk.ac.bbk.dcs.automed.qproc.iql.ASGComprehension
SchemesConstants - Interface in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes
schemeSeq() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
schemeSeq() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
schemeSeq() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
schemeSeq() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
SchemesTokenManager - Class in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes
SchemesTokenManager(SimpleCharStream) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SchemesTokenManager
SchemesTokenManager(SimpleCharStream, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SchemesTokenManager
SCOMP - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompConstants
SCOMP - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendConstants
SCOMP - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusConstants
SComprehension - Class in uk.ac.bbk.dcs.automed.qproc.functions.internal
SComprehension() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.internal.SComprehension
scoreInstance(AbstractStringDistance, String, String[]) - Method in class uk.ac.ic.doc.automed.matching.modules.intervals.JaccardExistenceModule
scoreInstance(AbstractStringDistance, String, String[]) - Method in class uk.ac.ic.doc.automed.matching.modules.intervals.JaroExistenceModule
scoreInstance(AbstractStringDistance, String[], String[][]) - Method in class uk.ac.ic.doc.automed.matching.modules.probability.binary.AttributeJaccardExistenceModule
scoreInstance(AbstractStringDistance, String, String[]) - Method in class uk.ac.ic.doc.automed.matching.modules.probability.binary.JaccardAtomicExistenceModule
scoreInstance(AbstractStringDistance, String, String[]) - Method in class uk.ac.ic.doc.automed.matching.modules.probability.binary.JaccardExistenceModule
scoreInstance(AbstractStringDistance, String, String[]) - Method in class uk.ac.ic.doc.automed.matching.modules.probability.binary.JaroExistenceModule
scoreInstance(AbstractStringDistance, String, String[]) - Method in class uk.ac.ic.doc.automed.matching.modules.probability.senary.JaccardExistenceModule
scoreInstance(AbstractStringDistance, String, String[]) - Method in class uk.ac.ic.doc.automed.matching.modules.probability.senary.JaroExistenceModule
searchAndReplace(Cell, Map[], Set) - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.CompositeViewMap
  Goes through an IQL query and replaces each scheme encountered with its view definition found in the `AtomicViewMap`s
searchAndReplace(Cell, Map[], Set) - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.LAVInvRulesViewMap
  LAV view construction may not find all the constructs in target schema for the constructs in the source schema.
searchDescendants(String, Schema, Schema) - Static method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.ExtensionalSchemaEvolution
SECOND - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedTime
  Granularity of one minute
SECONDPASS - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
SELECT - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLQuery
  The SQL SELECT operator; the first field should contain a SQLQuery with a FROM operator, and the remaining fields should be relation attribute identifiers or constants
selectionModes - Variable in class uk.ac.ic.doc.automed.editor.UserActionClass
selectNewAutoMedWrapper(String, String, Protocol, String, String, String, AutoMedWrapperFactory) - Static method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
selectNewAutoMedWrapper(String, String, Protocol, String, String) - Static method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Using the url and driver information, try to select an appropriate type of AutoMedWrapper to create.
selectNewAutoMedWrapper(String, String, Protocol, String, String, String, AutoMedWrapperFactory) - Static method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Using the url and driver information, try to select an appropriate type of AutoMedWrapper to create.
selectPairs(ArrayList, SchemaElement[], int) - Method in class uk.ac.ic.doc.automed.matching.Integrator
  Returns an array of schema element pairs which contain the specified constraint elements.
selectPairs(ArrayList, ArrayList) - Method in class uk.ac.ic.doc.automed.matching.Integrator
  Returns the maximum `SchemaElementPair` array which contains the constraint pairs.
SemanticException - Exception in uk.ac.ic.doc.automed.editor
SemanticException(String, int) - Constructor for exception uk.ac.ic.doc.automed.editor.SemanticException
semanticMappingNames - Static variable in class uk.ac.ic.doc.automed.matching.modules.AbstractModule
SemanticRelationship - Class in uk.ac.ic.doc.automed.matching.relationships
  The SemanticRelationship class represents the semantic relationship between two schema elements.
SemanticRelationship() - Constructor for class uk.ac.ic.doc.automed.matching.relationships.SemanticRelationship
SemiColon - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
send(BrokerAllQuery, PeerDescription) - Method in class uk.ac.ic.doc.automed.p2p.BrokerRequestSender
send(String, String, PeerDescription) - Method in class uk.ac.ic.doc.automed.p2p.BrokerRequestSender
send(BrokerAllQuery, Collection) - Method in class uk.ac.ic.doc.automed.p2p.BrokerRequestSender
sendDatagram(DatagramSocket, byte[], InetAddress, int) - Static method in class uk.ac.ic.doc.automed.p2p.communication.UDPClient
  An utility method for sending a datagram given a socket.
SENDER - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
sendQuery(QueryDescription, AutoMedPeer.PeerProcessDescription) - Method in class uk.ac.ic.doc.rodex.p2p.protocol.QEP
  Send a query to the network for execution (client-side)
sendRequest(String, String, AbstractMessage) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
separator - Variable in class uk.ac.ic.doc.automed.wrappers.CSVWrapperFactory
  The separator for this file
separator1 - Static variable in class uk.ac.bbk.dcs.automed.xml.utilities.UIDUtility
separator2 - Static variable in class uk.ac.bbk.dcs.automed.xml.utilities.UIDUtility
separator3 - Static variable in class uk.ac.bbk.dcs.automed.xml.utilities.UIDUtility
seqOfVars() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
seqOfVars() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
seqOfVars() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
sequence - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
SEQUENCE_TABLE - Static variable in class uk.ac.ic.doc.automed.util.db.SQLFunctions
serialise(OutputStream) - Method in class uk.ac.ic.doc.automed.p2p.messages.abstractlayer.AbstractMessage
serialise(Object) - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
  Save/synch a cache item object to disk (or database).
serialise(Object) - Method in interface uk.ac.ic.doc.automed.util.persist.Persistence
  Save/synch cache content to disk (or database).
serialiseASG(ASG) - Static method in class uk.ac.ic.doc.rodex.p2p.protocol.QEP
  Serialise an ASG query into XML representation
serialiseASG(List) - Static method in class uk.ac.ic.doc.rodex.p2p.protocol.QEP
  Serialise an ASG query into XML representation
serialiseOutput(AbstractMessage) - Method in class uk.ac.ic.doc.automed.p2p.communication.ResponseHandler
serialiseUDPOutput(byte[]) - Method in class uk.ac.ic.doc.automed.p2p.communication.ResponseHandler
  Serialise bytes
serialize(OutputStream) - Method in class uk.ac.ic.doc.automed.p2p.tree.Root
serialize(Document, OutputStream) - Static method in class uk.ac.ic.doc.automed.p2p.util.XmlHandler
ServerFactory - Class in uk.ac.ic.doc.automed.p2p.communication
ServerFactory() - Constructor for class uk.ac.ic.doc.automed.p2p.communication.ServerFactory
serverHostName - Variable in class uk.ac.ic.doc.automed.p2p.communication.AbstractClient
serverPort - Variable in class uk.ac.ic.doc.automed.p2p.communication.AbstractClient
serverPort - Variable in class uk.ac.ic.doc.automed.p2p.communication.AbstractServer
serverSocket - Variable in class uk.ac.ic.doc.automed.p2p.communication.UDPServer
set(int, Pattern) - Method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.Vectors
Set1 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set1
  Class Task Description
Set1() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1
Set1_121x101 - Class in uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1
  Class Task Description
Set1_121x101() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1.Set1_121x101
Set1_181x151 - Class in uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1
  Class Task Description
Set1_181x151() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1.Set1_181x151
Set1_241x201 - Class in uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1
  Class Task Description
Set1_241x201() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1.Set1_241x201
Set1_301x251 - Class in uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1
  Class Task Description
Set1_301x251() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1.Set1_301x251
Set1_61x51 - Class in uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1
  Class Task Description
Set1_61x51() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1.Set1_61x51
Set1A100x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set1
  Class Task Description
Set1A100x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1A100x20
Set1A20x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set1
  Class Task Description
Set1A20x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1A20x20
Set1A40x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set1
  Class Task Description
Set1A40x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1A40x20
Set1A60x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set1
  Class Task Description
Set1A60x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1A60x20
Set1A80x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set1
  Class Task Description
Set1A80x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1A80x20
Set1B100x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set1
  Class Task Description
Set1B100x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1B100x20
Set1B20x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set1
  Class Task Description
Set1B20x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1B20x20
Set1B40x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set1
  Class Task Description
Set1B40x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1B40x20
Set1B60x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set1
  Class Task Description
Set1B60x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1B60x20
Set1B80x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set1
  Class Task Description
Set1B80x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1B80x20
Set1C100x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set1
  Class Task Description
Set1C100x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1C100x20
Set1C20x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set1
  Class Task Description
Set1C20x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1C20x20
Set1C40x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set1
  Class Task Description
Set1C40x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1C40x20
Set1C60x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set1
  Class Task Description
Set1C60x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1C60x20
Set1C80x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set1
  Class Task Description
Set1C80x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set1.Set1C80x20
Set2A100x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set2
Set2A100x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set2.Set2A100x20
Set2A20x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set2
Set2A20x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set2.Set2A20x20
Set2A40x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set2
Set2A40x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set2.Set2A40x20
Set2A60x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set2
Set2A60x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set2.Set2A60x20
Set2A80x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set2
Set2A80x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set2.Set2A80x20
Set2B100x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set2
  Class Task Description
Set2B100x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set2.Set2B100x20
Set2B20x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set2
  Class Task Description
Set2B20x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set2.Set2B20x20
Set2B40x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set2
  Class Task Description
Set2B40x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set2.Set2B40x20
Set2B60x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set2
  Class Task Description
Set2B60x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set2.Set2B60x20
Set2B80x20 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set2
  Class Task Description
Set2B80x20() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set2.Set2B80x20
Set2Bag - Class in uk.ac.bbk.dcs.automed.qproc.functions.typeConversion
Set2Bag() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.typeConversion.Set2Bag
Set2List - Class in uk.ac.bbk.dcs.automed.qproc.functions.typeConversion
Set2List() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.typeConversion.Set2List
Set3A1000x100 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set3
  Class Task Description
Set3A1000x100() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set3.Set3A1000x100
Set3A100x100 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set3
  Class Task Description
Set3A100x100() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set3.Set3A100x100
Set3A200x100 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set3
  Class Task Description
Set3A200x100() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set3.Set3A200x100
Set3A300x100 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set3
  Class Task Description
Set3A300x100() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set3.Set3A300x100
Set3A400x100 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set3
  Class Task Description
Set3A400x100() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set3.Set3A400x100
Set3A500x100 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set3
  Class Task Description
Set3A500x100() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set3.Set3A500x100
Set3B100x100 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set3
  Class Task Description
Set3B100x100() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set3.Set3B100x100
Set3B100x200 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set3
  Class Task Description
Set3B100x200() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set3.Set3B100x200
Set3B100x300 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set3
  Class Task Description
Set3B100x300() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set3.Set3B100x300
Set3B100x400 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set3
  Class Task Description
Set3B100x400() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set3.Set3B100x400
Set3B100x500 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set3
  Class Task Description
Set3B100x500() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set3.Set3B100x500
set_l(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Sets the reference to the left child of the Cell to n
set_r(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Sets the reference to the left child of the Cell to n
SetA100x52 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set0
  Class Task Description
SetA100x52() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set0.SetA100x52
SetA150x52 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set0
  Class Task Description
SetA150x52() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set0.SetA150x52
SetA200x52 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set0
  Class Task Description
SetA200x52() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set0.SetA200x52
SetA250x52 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set0
  Class Task Description
SetA250x52() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set0.SetA250x52
SetA50x52 - Class in uk.ac.bbk.dcs.automed.xml.experiments.other.set0
  Class Task Description
SetA50x52() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.other.set0.SetA50x52
setAbsolutePosition(int, int) - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSchemaObject
setAbsolutePosition(int, int) - Method in interface uk.ac.ic.doc.automed.editor.Positionable
setAbsolutePosition(int, int) - Method in class uk.ac.ic.doc.automed.reps.Construct
  Same behaviour as `#setPosition()` since `Construct` instances are not placed relative to other `Positionable`s.
setAbsolutePosition(int, int) - Method in class uk.ac.ic.doc.automed.reps.Model
  Same behaviour as `#setPosition()` since `Model` instances are not placed relative to other `Positionable`s.
setAbsolutePosition(int, int) - Method in class uk.ac.ic.doc.automed.reps.Network
  Same behaviour as `#setPosition()` since `Network` instances are not placed relative to other `Positionable`s.
setAbsolutePosition(int, int) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Same behaviour as `#setPosition()` since `Schema` instances are not placed relative to other `Positionable`s.
setAbsolutePosition(int, int) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
setAccessMethodAWFFeatures(int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Sets the AutoMedWrapperFactory featrures of a particular access method.
setAccessMethodDBDriver(int, String) - Static method in class uk.ac.ic.doc.automed.STR
  Sets the database driver of a particular access method.
setAccessMethodPassword(int, String) - Static method in class uk.ac.ic.doc.automed.STR
  Sets the password of a particular access method.
setAccessMethodPID(int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Sets the protocol identifier (PID) of a particular access method.
setAccessMethodProperty(int, String, String) - Static method in class uk.ac.ic.doc.automed.STR
setAccessMethodSID(int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Sets the schema identifier (SID) of a particular access method.
setAccessMethodURL(int, String) - Static method in class uk.ac.ic.doc.automed.STR
  Sets the URL of a particular access method.
setAccessMethodUsername(int, String) - Static method in class uk.ac.ic.doc.automed.STR
  Sets the username of a particular access method.
setAccessMethodWrapper(int, String) - Static method in class uk.ac.ic.doc.automed.STR
  Sets the wrapper of a particular access method.
setAccompanyingSchemaRootName(String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapperFactory
setAccompanyingSchemaURI(String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapperFactory
setAdded() - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.ComplexType
  Set that this has been added to the AutoMed schema
setAddMissingNodes(boolean) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  If you try to add an instance of an edge then all the nodes and edges that are spans of the new edge must already exist in the database.
setAddress(String) - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
setAnnotation(int) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
setAnnotator(String) - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
setArcDrawable(String) - Method in class uk.ac.ic.doc.automed.reps.Construct
  Sets the name of the class used to draw the arc of this `Construct` in any diagram containing it.
setArgCID(String) - Method in class uk.ac.ic.doc.automed.reps.ConstructScheme
  Added to set the argCID value independently when loading models dmle 9/11/2005
setArgConstruct(Construct) - Method in class uk.ac.ic.doc.automed.reps.ConstructScheme
  Sets the `Construct` in the `ConstructScheme`.
setAtomicPairRelationships(SchemaElementPairRelationship[]) - Method in class uk.ac.ic.doc.automed.matching.RelationshipExtractor
  Sets the relationships of pairs of atomic schema elements.
setAtributs(SchemaObject) - Method in class uk.ac.ic.doc.automed.editor.layout.RootLayout
setAttribute(int, AutoMedType) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedTuple
  Set the value of a certain field
setAttribute2ElementSwitch(boolean) - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSRestructurer
setAttribute2ElementSwitch(boolean) - Method in class uk.ac.bbk.dcs.automed.xml.XMLRestructurer
setAttributeDomains(List) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Manually set the domain information for some attributes.
setAttributeDomains(List) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
  Manually set the domain information for some attributes.
setAutoCommit(boolean) - Method in class uk.ac.ic.doc.automed.util.db.DBAccess
  Different data sources understands auto-commit differently.
setAutoCommit(boolean) - Method in class uk.ac.ic.doc.automed.util.db.DBEmbedded
  Different data sources understands auto-commit differently.
setAutoCommit(boolean) - Method in class uk.ac.ic.doc.automed.util.db.DBPostgres
  Different data sources understands auto-commit differently.
setAutoMedWrapperFactoryFeatures(int) - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Sets the password used for connecting to the database.
setBackgroundColor(Color) - Method in interface uk.ac.ic.doc.automed.editor.Positionable
setBackgroundColor(Color) - Method in class uk.ac.ic.doc.automed.reps.Construct
  Set the default background colour to be used from drawing `SchemaObject`s of this `Construct`.
setBackgroundColor(Color) - Method in class uk.ac.ic.doc.automed.reps.Model
  Set the default background colour to be used from drawing `SchemaObject`s of this `Model`.
setBackgroundColor(Color) - Method in class uk.ac.ic.doc.automed.reps.Network
setBackgroundColor(Color) - Method in class uk.ac.ic.doc.automed.reps.Schema
setBackgroundColor(Color) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
setBackwardDegree(double) - Method in class uk.ac.ic.doc.automed.matching.BidirectionalDegree
setBaseType(String) - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.ComplexType
  Set whether or this is being used as a subtype
setBidirectionalDegrees(Hashtable, Hashtable) - Method in class uk.ac.ic.doc.automed.matching.modules.AbstractModule
  Sets the bidirectional degrees of the module.
setCachePolicy(CachePolicy) - Method in class uk.ac.ic.doc.automed.qproc.eval.QueryEvaluationConfiguration
setCacheResultExpiredOK(boolean) - Method in class uk.ac.ic.doc.rodex.qproc.QualityIndicator
setCacheSource(IQueryCache) - Method in class uk.ac.ic.doc.automed.wrappers.QueryCacheWrapper
  Passes a reference to the `IQueryCache` instance
setCacheStatus(boolean) - Method in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
  Deprecated. use `QueryProcessorConfiguration.setCacheStatus` instead
setCacheStatus(boolean) - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
setChildren(LinkedList) - Method in class uk.ac.bbk.dcs.automed.graph.TreeNode
  Sets the children of the node.
setChildren(LinkedList) - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphElement
setClassSubClassSwitch(boolean) - Method in class uk.ac.bbk.dcs.automed.xml.XMLRestructurer
setCloseSchemeBracket(String) - Static method in class uk.ac.ic.doc.automed.STR
  Set the `String`that is used to close a scheme name, such as "<<person>>" or "<<person,name>>" By default it is set to ">>".``
setCommandClass(Class) - Static method in class uk.ac.ic.doc.automed.DSR
setCommandHelp(String[][]) - Static method in class uk.ac.ic.doc.automed.DSR
setConfigFileName(String) - Static method in class uk.ac.ic.doc.automed.DSR
  Sets the name of the file used for data source defintiions, this resets any data cached in the MDR or STR and invalidates all objects returned by them prior to this call.
setConfiguration(PathwayFinderConfiguration) - Method in class uk.ac.ic.doc.automed.reps.pathway.DefaultPathwayFinder
  Set configuration settings
setConfiguration(PathwayFinderConfiguration) - Method in interface uk.ac.ic.doc.automed.reps.pathway.PathwayFinder
  Set configuration settings
setConstraintDefinition(String, String) - Method in class uk.ac.ic.doc.automed.reps.Construct
  Set the definition of a constraint used within this `Construct`.
setConstructClass(int, int) - Static method in class uk.ac.ic.doc.automed.MDR
setConstructClass(int) - Method in class uk.ac.ic.doc.automed.reps.Construct
  Sets the class of the construct.
setConstructConstraint(int, String, String) - Static method in class uk.ac.ic.doc.automed.MDR
setConstructMID(int, int) - Static method in class uk.ac.ic.doc.automed.MDR
  Changes the modelling language that a construct belongs to
setConstructName(String) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
setConstructName(int, String) - Static method in class uk.ac.ic.doc.automed.MDR
setConstructProperty(int, int, String, Integer, String) - Static method in class uk.ac.ic.doc.automed.MDR
setConstructRoot(int, boolean) - Static method in class uk.ac.ic.doc.automed.MDR
setConstructSchemeArgCID(int, int, int) - Static method in class uk.ac.ic.doc.automed.MDR
setConstructSchemeHDMType(int, int, int) - Static method in class uk.ac.ic.doc.automed.MDR
setConstructSchemeKey(int, int, boolean) - Static method in class uk.ac.ic.doc.automed.MDR
setConstructSchemeLowerBound(int, int, int) - Static method in class uk.ac.ic.doc.automed.MDR
setConstructSchemeType(int, int, int) - Static method in class uk.ac.ic.doc.automed.MDR
setConstructSchemeUpperBound(int, int, int) - Static method in class uk.ac.ic.doc.automed.MDR
setConstructType(Construct) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Sets the construct type of the schema object.
setContainmentQuery(String) - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
setData(Object) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Sets the Cell's data
setData(String[], Object[][]) - Method in class uk.ac.ic.doc.automed.util.cache.CacheContentDescription
  Update the cache content description
setDataSource(boolean) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Deprecated. use {@link setType) instead. Sets whether or not the schema represents an external data source.
setDataSourceName(String) - Static method in class uk.ac.ic.doc.automed.MDR
  Sets the name of the repository in the local database.
setDataSourceName(String) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Sets the name of the SemiStructured MetaData Repository in the local database.
setDataSourceName(String) - Static method in class uk.ac.ic.doc.automed.STR
  Sets the name of the Schema Transformation Repository in the local database.
setDataToSend(String, int, byte[], boolean) - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractClient
  Set the data to send (with acknowledgement specified).
setDatatype(String, String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  The meta data for an HDM store is contained in the associated AutoMed schema except for the data type of the nodes in the schema which are set with this method (initially they default to String)
setDataType(int) - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
  Sets the data type of the schema element.
setDateTime(String) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
setDBDriver(String) - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Sets the database driver used for connecting to the database.
setDebug(boolean) - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSRestructurer
setDebug(boolean) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
setDebugLevel(int) - Static method in class uk.ac.ic.doc.automed.editor.XMLSchemaEditor
  Set the debug level for this class.
setDebugLevel(int) - Static method in class uk.ac.ic.doc.automed.STR
  Control the printing of debug information printed on the command line
setDebugLevel(int) - Static method in class uk.ac.ic.doc.automed.util.Debugger
  Control the printing of debug information printed on the command line
setDebugLevel(int) - Static method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Set the debug level for all AutoMed wrappers.
setDebugStream(PrintStream) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SchemesTokenManager
setDebugStream(PrintStream) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompTokenManager
setDebugStream(PrintStream) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendTokenManager
setDebugStream(PrintStream) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusTokenManager
setDebugStream(PrintStream) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLTokenManager
setDeepQuery(boolean) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.NXDBWrapper
setDefaultConfigFileName(String) - Static method in class uk.ac.ic.doc.automed.DSRConfiguration
  Set the default configuration file name.
setDefaultConfigFileName(String[]) - Static method in class uk.ac.ic.doc.automed.DSRConfiguration
  From command-line arguments, identify the -c flag which sets the configuration file name (if any)
setDefaultDataSource(String) - Static method in class uk.ac.ic.doc.automed.DSR
setDefaultEncoding(String) - Static method in class uk.ac.ic.doc.automed.xml.XMLWriter
setDefaultUserName(String) - Static method in class uk.ac.ic.doc.automed.DSR
setDescription(String) - Method in class uk.ac.ic.doc.automed.wrappers.XMLFileFilter
  Sets the human readable description of this filter.
setDifference(Set, Set) - Static method in class uk.ac.ic.doc.automed.util.SetUtil
  Returns a Set containing the result of set1 - set2.
setDisjointIDs(boolean) - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
setDocumentLocator(Locator) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
setDTD(String) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
setElement2AttributeSwitch(boolean) - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSRestructurer
setElement2AttributeSwitch(boolean) - Method in class uk.ac.bbk.dcs.automed.xml.XMLRestructurer
setElements(Map) - Method in class uk.ac.ic.doc.automed.editor.EditorPanel
setEncoding(String) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
setEntryPoint(XMLDSSGraphElement) - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraph
setEvaluationState(int) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
setEvaluator(String) - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
setException(String, Exception) - Method in class uk.ac.ic.doc.automed.editor.ReportException
setExistenceModule(AbstractModule) - Method in class uk.ac.ic.doc.automed.matching.DegreeCombinator
  Sets the `CheckExistenceModule` of this `DegreeCombinator`
setExtDB(boolean) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Deprecated. use {@link setType) instead. Sets whether or not the schema represents an extentional database.
setExtensionListInDescription(boolean) - Method in class uk.ac.ic.doc.automed.wrappers.XMLFileFilter
  Determines whether the extension list (.jpg, .gif, etc) should show up in the human readable description.
setExtSchema(boolean) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Deprecated. use {@link setType) instead. Sets whether or not the schema is an extentional schema.
setFeatures(int) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
  Allows certain features of the `Model` used for `Schema`s generated by this wrapper factory.
setFeatures(int[]) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
  Allows certain features of the `Model` used for `Schema`s generated by this wrapper factory.
setFeatures(int) - Method in class uk.ac.ic.doc.automed.wrappers.CSVWrapperFactory
  Set the features for this instance of the factory
setFeatures(int) - Method in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
  Allows certain features of the SQL92 data model to be represented in the AutoMed repository.
setFeatures(int) - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
  Set the features for this instance of the factory
setField(int, Object) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
  Return a field in the query node.
setFinalPosition() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayout
setFinalPosition() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSchemaObject
  Set position in Automed GUI.
setFinalPosition() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutSpringObject
setFirstElement(SchemaElement) - Method in class uk.ac.ic.doc.automed.matching.SchemaElementPair
setFloat(float) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
setFloat(double) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
setForegroundColor(Color) - Method in interface uk.ac.ic.doc.automed.editor.Positionable
setForegroundColor(Color) - Method in class uk.ac.ic.doc.automed.reps.Construct
  Set the default foreground colour to be used from drawing `SchemaObject`s of this `Construct`.
setForegroundColor(Color) - Method in class uk.ac.ic.doc.automed.reps.Model
  Set the default foreground colour to be used from drawing `SchemaObject`s of this `Model`.
setForegroundColor(Color) - Method in class uk.ac.ic.doc.automed.reps.Network
setForegroundColor(Color) - Method in class uk.ac.ic.doc.automed.reps.Schema
setForegroundColor(Color) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
setFormulatedQuery(ASG) - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
  Setter for formulated query (i.e.
setForwardDegree(double) - Method in class uk.ac.ic.doc.automed.matching.BidirectionalDegree
setFullPatterns() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
setGenerations(int) - Method in class uk.ac.ic.doc.automed.editor.layout.RootLayout
setGenericRoot(boolean) - Method in class uk.ac.bbk.dcs.automed.xml.materialisation.Materialiser
setGenericRoot(boolean) - Method in class uk.ac.bbk.dcs.automed.xml.materialisation.XMLDSSMaterialiser
setGlobal(boolean) - Method in class uk.ac.ic.doc.automed.p2p.tree.Reference
setGlobalName(String) - Method in class uk.ac.ic.doc.automed.reps.Schema
  The original (global) name of a schema as advertised by a peer.
setGui(Gui) - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
  Set a GUI object
setHdmEquiv(int, int) - Static method in class uk.ac.ic.doc.automed.MDR
  Update the hdmEquiv value for a given type
setHDMEquiv(TypeHierarchy, int) - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy.TypeObject
  Set the type id of the HDM equivalent of this type
setHdmStore(HdmStore) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapper
  Set the HdmStore that this wrapper will use
setHDMType(int) - Method in class uk.ac.ic.doc.automed.reps.ConstructScheme
  Sets the HDM type of the `ConstructScheme`.
setIcon(String) - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
setId(String) - Method in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
setID(String) - Method in class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
  Set the id for this sub-goal using the corresponding schema object id from
  the repository
setIDColumn(int) - Method in class uk.ac.ic.doc.automed.util.cache.CacheContentDescription
  The table's ID column
setIndentSize(int) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
setIndex(int) - Method in class uk.ac.ic.doc.automed.util.cache.CacheItem
  Set the temporary cache item index in the storage list for reference
setIndex(int) - Method in class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
  Set the temporary index position of this scheme in a list of schemes
  .
setInstances(ArrayList) - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
setInt(int) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
setIntersection(Set, Set) - Static method in class uk.ac.ic.doc.automed.util.SetUtil
setIsDataEvolution(boolean) - Method in class uk.ac.bbk.dcs.automed.evolution1.Evolution
setIsRepair(boolean) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolution
setIsRepair(boolean) - Method in class uk.ac.bbk.dcs.automed.evolution1.Evolution
setIsRepair(boolean) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
setIsSchemaEvolution(boolean) - Method in class uk.ac.bbk.dcs.automed.evolution1.Evolution
setKey(boolean) - Method in class uk.ac.ic.doc.automed.reps.ConstructScheme
  Sets whether or not the current scheme position is part the key of the whole scheme.
setKeyRef(String) - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
setLabel(String) - Method in interface uk.ac.ic.doc.automed.editor.Positionable
setLabel(String) - Method in class uk.ac.ic.doc.automed.reps.Construct
setLabel(String) - Method in class uk.ac.ic.doc.automed.reps.Model
setLabel(String) - Method in class uk.ac.ic.doc.automed.reps.Network
setLabel(String) - Method in class uk.ac.ic.doc.automed.reps.Schema
setLabel(String) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
setLabelPosition(int, int) - Method in interface uk.ac.ic.doc.automed.editor.Positionable
setLabelPosition(int, int) - Method in class uk.ac.ic.doc.automed.reps.Construct
setLabelPosition(int, int) - Method in class uk.ac.ic.doc.automed.reps.Model
setLabelPosition(int, int) - Method in class uk.ac.ic.doc.automed.reps.Network
setLabelPosition(int, int) - Method in class uk.ac.ic.doc.automed.reps.Schema
setLabelPosition(int, int) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
setLabelXPos(int) - Method in interface uk.ac.ic.doc.automed.editor.Positionable
setLabelXPos(int) - Method in class uk.ac.ic.doc.automed.reps.Construct
setLabelXPos(int) - Method in class uk.ac.ic.doc.automed.reps.Model
setLabelXPos(int) - Method in class uk.ac.ic.doc.automed.reps.Network
setLabelXPos(int) - Method in class uk.ac.ic.doc.automed.reps.Schema
setLabelXPos(int) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
setLabelYPos(int) - Method in interface uk.ac.ic.doc.automed.editor.Positionable
setLabelYPos(int) - Method in class uk.ac.ic.doc.automed.reps.Construct
setLabelYPos(int) - Method in class uk.ac.ic.doc.automed.reps.Model
setLabelYPos(int) - Method in class uk.ac.ic.doc.automed.reps.Network
setLabelYPos(int) - Method in class uk.ac.ic.doc.automed.reps.Schema
setLabelYPos(int) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
setLastUpdate(String) - Method in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
setLower(int) - Method in class uk.ac.ic.doc.automed.reps.ConstructScheme
  Sets the lower bound indicating the minimum occurence of the `ConstructScheme`.
setMaxOccurs(boolean) - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
setMDR_DataSourceName(String) - Static method in class uk.ac.ic.doc.automed.MDR
  Deprecated. use `setDataSourceName()` instead
setMinOccurs(int) - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
setModelBaseName(String) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
  Each implementing class gives a name for the `Model`s that will be generated for `Schema`s.
setModelName(String) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
setModelName(int, String) - Static method in class uk.ac.ic.doc.automed.MDR
setName(String) - Method in class uk.ac.bbk.dcs.automed.graph.TreeNode
setName(String) - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphAttribute
setName(String) - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
  Sets the name of the schema element.
setName(String) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Set a new name for peer
setName(String) - Method in class uk.ac.ic.doc.automed.reps.Construct
  Sets the name of the construct to the given string.
setName(String) - Method in class uk.ac.ic.doc.automed.reps.Model
  Sets the model's name.
setName(String) - Method in class uk.ac.ic.doc.automed.reps.Protocol
  Sets the name of the protocol to the given string.
setName(String) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Set the name of a Schema.
setName(String) - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
  Set the name for this object
setName(String) - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
setNamespaceAware(boolean) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
setNodeLabels(Map) - Method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.MapDisplay
  This method is called from within the constructor to initialize the form.
setNodeName(String) - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphElement
setNonAtomicPairRelationships(SchemaElementPairRelationship[]) - Method in class uk.ac.ic.doc.automed.matching.RelationshipExtractor
  Sets the relationships of pairs of non-atomic schema elements.
setNumberInstancesModule(AbstractModule) - Method in class uk.ac.ic.doc.automed.matching.DegreeCombinator
  Sets the number of instances module of this `DegreeCombinator`
setOffset(int, int) - Method in class uk.ac.ic.doc.automed.editor.layout.RootLayout
setOpenCloseSchemeBracket(String, String) - Static method in class uk.ac.ic.doc.automed.reps.Schema
  Set the `String`s that is used to open and close a scheme name, such as the "<<" and ">>" in "<<person>>" or "<<person,name>>".``
setOpenSchemeBracket(String) - Static method in class uk.ac.ic.doc.automed.STR
  Set the `String`that is used to open a scheme name, such as "<<person>>" or "<<person,name>>".``
setOptimisationAnnotation(int) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
setOptimisationState(boolean) - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
  Set the optimisation state
setOptimisedQuery(ASG) - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
  Store result of query optimisation
setOptimiser(String) - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
setOption(String, String) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Make an option setting.
setOutputHandler(LogOutputHandler) - Static method in class uk.ac.ic.doc.automed.util.Logger
  Change default log handler
setOwner(XMLDSSGraphElement) - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphAttribute
setOwnerGraph(XMLDSSGraph) - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphElement
setParent(TreeNode) - Method in class uk.ac.bbk.dcs.automed.graph.TreeNode
  Sets the parent node.
setParent(XMLDSSGraphElement) - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphElement
setParent(XMLDSSGraphElement) - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphText
setParent(TreeNode) - Method in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
setParent(String) - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
  Set the parent for this object
setPassword(String) - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Sets the password used for connecting to the database.
setPatterns() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
setPatternToSchemaObject(SSDPattern, SchemaObject, int) - Method in class uk.ac.ic.doc.automed.ssd.SSDFormat
setPatternValue(int, String) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Sets the value of the pattern.
setPeerAddress(InetAddress) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
setPeerName(String) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
setPeerState(int) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Return reference to `PeerStateHandler` object
setPersistentHandler(PersistentHandler) - Method in class uk.ac.ic.doc.automed.qproc.cache.DefaultQueryCache
setPersistentHandler(PersistentHandler) - Method in interface uk.ac.ic.doc.automed.util.persist.Persistence
  Implement this method for serialising cache content
setPort(int) - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
setPosition(int, int) - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayout
setPosition(int, int) - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutPositionable
setPosition(int, int) - Method in interface uk.ac.ic.doc.automed.editor.Positionable
setPosition(int, int) - Method in class uk.ac.ic.doc.automed.reps.Construct
setPosition(int, int) - Method in class uk.ac.ic.doc.automed.reps.Model
setPosition(int, int) - Method in class uk.ac.ic.doc.automed.reps.Network
setPosition(int, int) - Method in class uk.ac.ic.doc.automed.reps.Schema
setPosition(int, int) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
setPrecisionModule(AbstractModule) - Method in class uk.ac.ic.doc.automed.matching.DegreeCombinator
  Sets the `PrecisionModule` of this `DegreeCombinator`
setPrettifyAttributes(boolean) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
setPrimaryKey(XSDOMObject) - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.ComplexType
  Set the primary key for this complexType
setPrimaryKey(XSDOMObject) - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.Element
  Set the primary key for this Element
setPrintStream(PrintStream) - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSRestructurer
setProperty(String, String) - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Sets a property associated with this AccessMethod.
setProperty(String, String) - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Sets a property associated with this Transformation.
setProtocol(Protocol) - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Sets the protocol used for connecting to the database.
setProtocolName(int, String) - Static method in class uk.ac.ic.doc.automed.STR
  Sets the name of the protocol specified by the given protocol identifier (PID).
setPublicName(String) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
setPublicSchemas(List) - Method in class uk.ac.ic.doc.automed.p2p.PeerCache
  Assign a list of public schemas (i.e.
setQuality(int) - Method in class uk.ac.ic.doc.automed.reps.pathway.PathwayFinderConfiguration
setQualityIndicator(QualityIndicator) - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
setQuery(String) - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
setQuery(String) - Method in class uk.ac.ic.doc.rodex.qproc.QueryDescription
setQueryASG(ASG) - Method in class uk.ac.ic.doc.rodex.qproc.QueryDescription
setQueryDescription(QueryDescription) - Method in class uk.ac.ic.doc.automed.qproc.ASGQuery
setQueryEvaluationConfig(QueryEvaluationConfiguration) - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
setQueryID(String) - Method in class uk.ac.ic.doc.automed.qproc.ASGQuery
setQueryLanguage(int) - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
  Return the query language
setQueryVariables(String) - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
setQueueWorker(QueueWorker) - Method in class uk.ac.ic.doc.automed.util.queue.Queue
  Register the `QueueWorker` object to update queue
setRangeSemantics(int) - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
  Set range semantics, i.e.
setReadyState(boolean) - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractClient
setReadyState(boolean) - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractServer
setRealObject(PersistentObject) - Method in class uk.ac.ic.doc.automed.p2p.tree.AutoMedObject
setRealObject(PersistentObject) - Method in class uk.ac.ic.doc.automed.p2p.tree.Reference
setReformulationSemantics(int) - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
setReformulator(String) - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
setRelationship(SemanticRelationship) - Method in class uk.ac.ic.doc.automed.matching.SchemaElementPairRelationship
  Sets the semantic relationship between the first and the second element in the pair.
setRelationships(SchemaElementPairRelationship[]) - Method in class uk.ac.ic.doc.automed.matching.Integrator
  Sets the discovered relationships between the schema elements.
setRemainderQuery(String) - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
setResultObjects(List) - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
  A `List` of `ASG` result objects
setResultString(String) - Method in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
  Set the IQL tuple result string
setRoot(boolean) - Method in class uk.ac.ic.doc.automed.reps.Construct
  Sets whether or not the construct is a construct type of its underlying data model.
setRoot(Element) - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.Document
  Return the root element of this document
setRootNode(SchemaObject[]) - Method in class uk.ac.ic.doc.automed.editor.layout.RootLayout
setSchema(String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapper
  Set the value of the schema that this wrapper is for
setSchema(Schema) - Method in class uk.ac.ic.doc.automed.editor.XMLSchemaEditor
  Set the value of the Automed schema for this object
setSchema(Schema) - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Sets the schema that represents the database to which the access method connects.
setSchema(Schema) - Method in class uk.ac.ic.doc.automed.reps.HDMToHighLevel
  Set the schema to transform
setSchema(Schema) - Method in class uk.ac.ic.doc.automed.reps.HDMTransformations
  Set the schema for this object
setSchema(Schema) - Method in class uk.ac.ic.doc.automed.ssd.SSDFormat
setSchema(int, int) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Sets the SID for the ssd format.
setSchema(String) - Method in class uk.ac.ic.doc.automed.wrappers.HDMWrapper
  Set the value of the schema that this wrapper is for
setSchema(Schema) - Method in class uk.ac.ic.doc.automed.xmlschema.tree.TreeDropTarget
  Set the current schema
setSchemaBackgroundColor(int, int) - Static method in class uk.ac.ic.doc.automed.STR
setSchemaForegroundColor(int, int) - Static method in class uk.ac.ic.doc.automed.STR
setSchemaLabelPos(int, int, int) - Static method in class uk.ac.ic.doc.automed.STR
setSchemaName(String) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
setSchemaName(int, String) - Static method in class uk.ac.ic.doc.automed.STR
  Sets the name of schema.
setSchemaName(String) - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
  Set the schema name
setSchemaName(String) - Method in class uk.ac.ic.doc.rodex.qproc.QueryDescription
setSchemaObject(SchemaObject) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
setSchemaObject(SchemaObject) - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
  Set the schema object for this object
setSchemaObjectBackgroundColor(int, int) - Static method in class uk.ac.ic.doc.automed.STR
setSchemaObjectCID(int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Sets the construct identifier (CID) of the schema object.
setSchemaObjectForegroundColor(int, int) - Static method in class uk.ac.ic.doc.automed.STR
setSchemaObjectID(int) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
setSchemaObjectLabelPos(int, int, int) - Static method in class uk.ac.ic.doc.automed.STR
setSchemaObjectPos(int, int, int) - Static method in class uk.ac.ic.doc.automed.STR
setSchemaObjectSID(int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Sets the schema identifier (SID) to which a particular schema object belongs.
setSchemaObjectTextColor(int, int) - Static method in class uk.ac.ic.doc.automed.STR
setSchemaObjectType(int) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Set type_id for schema object
setSchemaObjectType(int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Save type id for schema object
setSchemaObjectValue(int, String) - Static method in class uk.ac.ic.doc.automed.STR
  Sets the name/value of the schema object.
setSchemaPos(int, int, int) - Static method in class uk.ac.ic.doc.automed.STR
setSchemas(Schema[]) - Method in class uk.ac.ic.doc.automed.matching.Integrator
setSchemas(Schema[]) - Method in class uk.ac.ic.doc.automed.matching.RelationshipExtractor
setSchemas(Schema[]) - Method in class uk.ac.ic.doc.automed.matching.SQLIntegrator
  Sets the schemas that are going to be integrated.
setSchemas(Schema[]) - Method in class uk.ac.ic.doc.automed.matching.SQLRelationshipExtractor
  Sets the schemas that are being matched.
setSchemaSubnetSID(int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Sets the subnet SID of a schema.
setSchemaTextColor(int, int) - Static method in class uk.ac.ic.doc.automed.STR
setSchemaType(int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Sets the type of a schema.
setSchemeSOBID(int, int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Sets the referenced schema object in a specific position of the scheme of a schema object.
setSchemeString(String) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
setSchemeType(int) - Method in class uk.ac.ic.doc.automed.reps.ConstructScheme
  Sets the scheme type of the `ConstructScheme`.
setSecondElement(SchemaElement) - Method in class uk.ac.ic.doc.automed.matching.SchemaElementPair
setSectionDebugLevel(int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Set the level of debug info output to the console for a numbered section of code.
setSectionDebugLevel(int, int) - Static method in class uk.ac.ic.doc.automed.util.Debugger
  Set the level of debug info output to the console for a numbered section of code.
setSectionDebugLevel(String[]) - Static method in class uk.ac.ic.doc.automed.util.Debugger
  From command-line arguments, find debug flag and set debug settings accordingly
setSeparateErrors(boolean) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
setServerAddress(String, String) - Method in class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
setServerPort(String, String) - Method in class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
setSimilarityDegree(double) - Method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.SimilarCluster
setSkolemOn(boolean) - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSRestructurer
setSkolemOn(boolean) - Method in class uk.ac.bbk.dcs.automed.xml.XMLRestructurer
setSmartQuoting(boolean) - Static method in class uk.ac.ic.doc.automed.reps.Syntax
setSSDFormatName(int, String) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Sets the name of ssd format.
setSSDPattern(SSDPattern) - Method in class uk.ac.ic.doc.automed.ssd.SSDFormat
setSSMDR_DataSourceName(String) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Deprecated. use setDataSourceName()
setStandAlone(boolean) - Method in class uk.ac.ic.doc.automed.editor.Gui
  Set stand-aloen
setStatus(String) - Method in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
setSTR_DataSourceName(String) - Static method in class uk.ac.ic.doc.automed.STR
  Deprecated. use setDataSourceName()
setSubGoal(int, QuerySubGoal) - Method in class uk.ac.ic.doc.rodex.qproc.QueryAnalyser
  Push a sub-goal object in a pariticular position in the sub goal list
setSubTitle(String) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
setSupressedTokenTypes(int[]) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
setSupressIgnorableWhitespace(boolean) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
setSyntaxChecking(boolean) - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Set if the syntax of transformations is checked as entered into the repository.
setSyntheticSwitch(boolean) - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSRestructurer
setSyntheticSwitch(boolean) - Method in class uk.ac.bbk.dcs.automed.xml.XMLRestructurer
setTag(int) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
setText(String) - Method in class uk.ac.ic.doc.automed.editor.DrawVertex
  Set the text that will be used in this {link @Drawable}, and record its width and height in `textBounds`.
setTextColor(Color) - Method in interface uk.ac.ic.doc.automed.editor.Positionable
setTextColor(Color) - Method in class uk.ac.ic.doc.automed.reps.Construct
  Set the default text colour to be used from drawing `SchemaObject`s of this `Construct`.
setTextColor(Color) - Method in class uk.ac.ic.doc.automed.reps.Model
  Set the default text colour to be used from drawing `SchemaObject`s of this `Model`.
setTextColor(Color) - Method in class uk.ac.ic.doc.automed.reps.Network
setTextColor(Color) - Method in class uk.ac.ic.doc.automed.reps.Schema
setTextColor(Color) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
setThrowErrors(boolean) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
setTitle(String) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
setTitle(String) - Method in class uk.ac.ic.doc.automed.p2p.gui.TablePanel
setTitleAndObjects() - Method in class uk.ac.ic.doc.automed.p2p.gui.MainFrame
setTotalColumns(int) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
setTranAction(int, int, String) - Static method in class uk.ac.ic.doc.automed.STR
  Sets the action of a transformation between two schemas.
setTranConstraint(int, int, String) - Static method in class uk.ac.ic.doc.automed.STR
  Sets the constraint of a transformation between two schemas.
setTranFromObject(int, int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Sets the object identifier (OBID) of the schema object to be transformed in a transformation
setTranFunction(int, int, String) - Static method in class uk.ac.ic.doc.automed.STR
  Sets the function of a transformation between two schemas.
setTransformationProperty(int, int, String, String) - Static method in class uk.ac.ic.doc.automed.STR
setTranToObject(int, int, int) - Static method in class uk.ac.ic.doc.automed.STR
  Sets the object identifier (OBID) of the schema object as a result of a transformation.
setType(String) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
setType(String) - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphAttribute
setType(int) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Set what type of `Schema` this is.
setType(String) - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
  Set the type for this object
setTypeCheckingState(boolean) - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessorConfiguration
  Set the optimisation state
setTypeId(int) - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy.TypeObject
  Set the type id of this object
setUnion(Set, Set) - Static method in class uk.ac.ic.doc.automed.util.SetUtil
setUpper(int) - Method in class uk.ac.ic.doc.automed.reps.ConstructScheme
  Sets the upper bound indicating the maximum occurence of the `ConstructScheme`.
setURL(String) - Method in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
setURL(String) - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Sets the URL of the database to which the access method connects.
setUsername(String) - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Sets the username used for connecting to the database.
setUseSplitCDATA(boolean) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
setUSRs(UncertainSchemaElementPair[]) - Method in class uk.ac.ic.doc.automed.matching.modules.AbstractModule
SetUtil - Class in uk.ac.ic.doc.automed.util
SetUtil() - Constructor for class uk.ac.ic.doc.automed.util.SetUtil
setValidating(boolean) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
setValue(String) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Sets the name/value of the schema object.
setVertexDrawable(String) - Method in class uk.ac.ic.doc.automed.reps.Construct
  Sets the name of the class used to draw the vertex of this `Construct` in any diagram containing it.
setVisible(boolean) - Method in class uk.ac.ic.doc.automed.p2p.gui.InputDialog
setWrapper(String) - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Sets the wrapper asscociated with this.
setXMLDSSExtractionMethod(int) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapperFactory
setXMLDSSSchema(Schema) - Method in class uk.ac.bbk.dcs.automed.xml.relational.XMLDSSFromRDB
setXMLVersion(String) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
setXPos(int) - Method in interface uk.ac.ic.doc.automed.editor.Positionable
setXPos(int) - Method in class uk.ac.ic.doc.automed.reps.Construct
setXPos(int) - Method in class uk.ac.ic.doc.automed.reps.Model
setXPos(int) - Method in class uk.ac.ic.doc.automed.reps.Network
setXPos(int) - Method in class uk.ac.ic.doc.automed.reps.Schema
setXPos(int) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
setYourAddress(String) - Method in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg
  Set the actual peer's address after hello message was received
setYPos(int) - Method in interface uk.ac.ic.doc.automed.editor.Positionable
setYPos(int) - Method in class uk.ac.ic.doc.automed.reps.Construct
setYPos(int) - Method in class uk.ac.ic.doc.automed.reps.Model
setYPos(int) - Method in class uk.ac.ic.doc.automed.reps.Network
setYPos(int) - Method in class uk.ac.ic.doc.automed.reps.Schema
setYPos(int) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
showAllSchemas() - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
showCacheViewer() - Method in class uk.ac.ic.doc.rodex.p2p.gui.GuiApplication
  Show cache viewer frame
showExtent(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
  Displays the extent of a schema object
showInstanceCache() - Static method in class uk.ac.bbk.dcs.automed.qproc.reformulate.AtomicViewMap
showInstanceCache() - Static method in class uk.ac.bbk.dcs.automed.qproc.reformulate.CompositeViewMap
showPathway() - Static method in class uk.ac.bbk.dcs.automed.evolution.EvolutionUtility
showPathway() - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
showPathways(String, String) - Static method in class uk.ac.bbk.dcs.automed.evolution.EvolutionUtility
showPathways(Schema, Schema) - Static method in class uk.ac.bbk.dcs.automed.evolution.EvolutionUtility
showPathways(String, String) - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
showPathways(Schema, Schema) - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
showPerformance() - Method in class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
showPerformance(QueryProcessorConfiguration) - Method in class uk.ac.bbk.dcs.automed.qproc.QueryProcessor
showPerformance(QueryProcessorConfiguration) - Method in class uk.ac.bbk.dcs.automed.qproc.TempQueryProcessor
showPoint(Point) - Static method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayout
showSchema(SchemaDescription) - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
showStep() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.TransfStep
showTree() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutTreeObject
  Same as setFinalPosition() but set position on all object in tree.
showViewMap() - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.AtomicViewMap
showViewMap() - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.CompositeViewMap
shutdown() - Method in class uk.ac.ic.doc.automed.util.db.DBAccess
  Shutdown in-process database, closes current connection to it
shutdown() - Method in class uk.ac.ic.doc.automed.util.db.DBEmbedded
  Shutdown in-process database, closes current connection to it and remove `DBEmbedded` object from the cache of data sources
SICP - Class in uk.ac.ic.doc.rodex.p2p.protocol
  SICP.java
  Schema Information Control Protocol: provides standard interface functions for publishing/obtaining information regarding resources on the P2P network.
SimilarCluster - Class in uk.ac.ic.doc.automed.matching.modules.bidirectionalmap
SimilarCluster(Cluster, double) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.SimilarCluster
SimilarSchemaElementPair - Class in uk.ac.ic.doc.automed.matching
  The class representing a pair of schema elements and its bidirectional similarity degrees.
SimilarSchemaElementPair(SchemaElement, SchemaElement, BidirectionalDegree) - Constructor for class uk.ac.ic.doc.automed.matching.SimilarSchemaElementPair
  Constructs a `SimilarSchemaElementPair` object.
SimilarSchemaElementPair(SchemaElementPair, BidirectionalDegree) - Constructor for class uk.ac.ic.doc.automed.matching.SimilarSchemaElementPair
  Constructs a `SimilarSchemaElementPair` object.
SimpleCharStream - Class in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes
  An implementation of interface CharStream, where the stream is assumed to contain only ASCII characters (without unicode processing).
SimpleCharStream(Reader, int, int, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
SimpleCharStream(Reader, int, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
SimpleCharStream(Reader) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
SimpleCharStream(InputStream, int, int, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
SimpleCharStream(InputStream, int, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
SimpleCharStream(InputStream) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
SimpleCharStream - Class in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp
  An implementation of interface CharStream, where the stream is assumed to contain only ASCII characters (without unicode processing).
SimpleCharStream(Reader, int, int, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
SimpleCharStream(Reader, int, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
SimpleCharStream(Reader) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
SimpleCharStream(InputStream, int, int, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
SimpleCharStream(InputStream, int, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
SimpleCharStream(InputStream) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
SimpleCharStream - Class in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend
  An implementation of interface CharStream, where the stream is assumed to contain only ASCII characters (without unicode processing).
SimpleCharStream(Reader, int, int, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
SimpleCharStream(Reader, int, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
SimpleCharStream(Reader) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
SimpleCharStream(InputStream, int, int, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
SimpleCharStream(InputStream, int, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
SimpleCharStream(InputStream) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
SimpleCharStream - Class in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus
  An implementation of interface CharStream, where the stream is assumed to contain only ASCII characters (without unicode processing).
SimpleCharStream(Reader, int, int, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
SimpleCharStream(Reader, int, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
SimpleCharStream(Reader) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
SimpleCharStream(InputStream, int, int, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
SimpleCharStream(InputStream, int, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
SimpleCharStream(InputStream) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
SimpleCharStream - Class in uk.ac.bbk.dcs.automed.qproc.translators.xquery
  An implementation of interface CharStream, where the stream is assumed to contain only ASCII characters (without unicode processing).
SimpleCharStream(Reader, int, int, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
SimpleCharStream(Reader, int, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
SimpleCharStream(Reader) - Constructor for class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
SimpleCharStream(InputStream, int, int, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
SimpleCharStream(InputStream, int, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
SimpleCharStream(InputStream) - Constructor for class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
SimpleComp - Class in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp
SimpleComp(InputStream) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
SimpleComp(Reader) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
SimpleComp(SimpleCompTokenManager) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
SimpleCompAppend - Class in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend
SimpleCompAppend(InputStream) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
SimpleCompAppend(Reader) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
SimpleCompAppend(SimpleCompAppendTokenManager) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
SimpleCompAppendConstants - Interface in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend
SimpleCompAppendMonus - Class in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus
SimpleCompAppendMonus(InputStream) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
SimpleCompAppendMonus(Reader) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
SimpleCompAppendMonus(SimpleCompAppendMonusTokenManager) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
SimpleCompAppendMonusConstants - Interface in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus
SimpleCompAppendMonusTokenManager - Class in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus
SimpleCompAppendMonusTokenManager(SimpleCharStream) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusTokenManager
SimpleCompAppendMonusTokenManager(SimpleCharStream, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusTokenManager
SimpleCompAppendTokenManager - Class in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend
SimpleCompAppendTokenManager(SimpleCharStream) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendTokenManager
SimpleCompAppendTokenManager(SimpleCharStream, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendTokenManager
SimpleCompConstants - Interface in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp
simpleComprehension() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
simpleComprehension() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
simpleComprehension() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
SimpleCompTokenManager - Class in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp
SimpleCompTokenManager(SimpleCharStream) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompTokenManager
SimpleCompTokenManager(SimpleCharStream, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompTokenManager
simpleFilter() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
simpleFilter() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
simpleFilter() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
simpleGenerator() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
simpleGenerator() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
simpleGenerator() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
simpleList() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
simpleList() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
simpleList() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
simpleListTokens() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
simpleListTokens() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
simpleListTokens() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
SimpleMessageHandler - Class in uk.ac.ic.doc.automed.p2p
SimpleMessageHandler() - Constructor for class uk.ac.ic.doc.automed.p2p.SimpleMessageHandler
  Creates a new instance of SimpleMessageHandler
simpleQuals() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
simpleQuals() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
simpleQuals() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
simpleScheme() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
simpleScheme() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
simpleScheme() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
simpleScheme() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
simpleSchemeOrSimpleComp() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
simpleSchemeOrSimpleComp() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
simpleTuple() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
simpleTuple() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
simpleTuple() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
simplifyBasedOnEquijoins(Cell) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.IQLUtility
  Traverses query and replaces certain comprehensions with [].
simplifyBasedOnQualifiers(Cell) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.IQLUtility
  Performs in a bottom-up manner the following simplifications:
simplifyPathway(Pathway) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolution
  The current implementation of this method is null.
simplifyPathway(Schema, Schema) - Method in class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolution
  This is over loaded method to simplify the pathway between two schemas.
simplifyPathway(Pathway) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
  The current implementation of this method is null.
simplifyPathway(Schema, Schema) - Method in class uk.ac.bbk.dcs.automed.evolution2.schemaEvolution.SchemaEvolution
  This is over loaded method to simplify the pathway between two schemas.
simplifyRange(Cell) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.IQLUtility
simplifyUnionIntersect(Cell) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.IQLUtility
  Simplifies the input query so that union Void Void returns Void and intersect Any Any returns Any
Single - Class in uk.ac.bbk.dcs.automed.qproc.functions.collections
Single() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.collections.Single
SINGLE - Static variable in class uk.ac.ic.doc.automed.editor.UserActionClass
SINGLE_HANDLER_PER_EVENT - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  assume that only one hander is registered for a network event
SINGLE_HANDLER_PER_EVENT - Static variable in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
SingleBag - Class in uk.ac.bbk.dcs.automed.qproc.functions.collections
SingleBag() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.collections.SingleBag
SingleSet - Class in uk.ac.bbk.dcs.automed.qproc.functions.collections
SingleSet() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.collections.SingleSet
singleton() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns the root of an ASG representing an empty list
SINGLETON_METHOD - Static variable in class uk.ac.ic.doc.automed.util.ModuleConnector
size() - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraph
size() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayout
size() - Method in class uk.ac.ic.doc.automed.reps.Pathway
  Returns the number of `Schema`s in the pathway.
size() - Method in class uk.ac.ic.doc.automed.tml.TempPathway
size() - Method in class uk.ac.ic.doc.automed.util.db.DBResultSet
  return the total number of database records
size() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedTuple
SIZE_THRESHOLD - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  true threshold to differentiate b/w single- and multi-fragment UDP trunks
skipTokens(int) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
skipTokens(int[]) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
skipToNextToken(int) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
skipToNextToken(int[]) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
SkolemiseEdge - Class in uk.ac.bbk.dcs.automed.xml.functions
  Function that produces element UIDs based on the two arguments passed to the function.
SkolemiseEdge() - Constructor for class uk.ac.bbk.dcs.automed.xml.functions.SkolemiseEdge
SkolemTypeICase1 - Class in uk.ac.bbk.dcs.automed.xml.experiments.skolem
  Class Task Description
SkolemTypeICase1() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeICase1
SkolemTypeICase2 - Class in uk.ac.bbk.dcs.automed.xml.experiments.skolem
  Class Task Description
SkolemTypeICase2() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeICase2
SkolemTypeICase3 - Class in uk.ac.bbk.dcs.automed.xml.experiments.skolem
  Class Task Description
SkolemTypeICase3() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeICase3
SkolemTypeIICase1 - Class in uk.ac.bbk.dcs.automed.xml.experiments.skolem
  Class Task Description
SkolemTypeIICase1() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIICase1
SkolemTypeIICase2 - Class in uk.ac.bbk.dcs.automed.xml.experiments.skolem
  Class Task Description
SkolemTypeIICase2() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIICase2
SkolemTypeIICase3 - Class in uk.ac.bbk.dcs.automed.xml.experiments.skolem
  Class Task Description
SkolemTypeIICase3() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIICase3
SkolemTypeIIICase1 - Class in uk.ac.bbk.dcs.automed.xml.experiments.skolem
  Class Task Description
SkolemTypeIIICase1() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIIICase1
SkolemTypeIIICase2 - Class in uk.ac.bbk.dcs.automed.xml.experiments.skolem
  Class Task Description
SkolemTypeIIICase2() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIIICase2
SkolemTypeIIICase3 - Class in uk.ac.bbk.dcs.automed.xml.experiments.skolem
  Class Task Description
SkolemTypeIIICase3() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIIICase3
SkolemTypeIIICase4 - Class in uk.ac.bbk.dcs.automed.xml.experiments.skolem
  Class Task Description
SkolemTypeIIICase4() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIIICase4
SkolemTypeIVCase1 - Class in uk.ac.bbk.dcs.automed.xml.experiments.skolem
  Class Task Description
SkolemTypeIVCase1() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIVCase1
SkolemTypeIVCase2 - Class in uk.ac.bbk.dcs.automed.xml.experiments.skolem
  Class Task Description
SkolemTypeIVCase2() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIVCase2
SkolemTypeIVCase3 - Class in uk.ac.bbk.dcs.automed.xml.experiments.skolem
  Class Task Description
SkolemTypeIVCase3() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIVCase3
SkolemTypeIVCase4 - Class in uk.ac.bbk.dcs.automed.xml.experiments.skolem
  Class Task Description
SkolemTypeIVCase4() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIVCase4
SkolemTypeIVCase5 - Class in uk.ac.bbk.dcs.automed.xml.experiments.skolem
  Class Task Description
SkolemTypeIVCase5() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.skolem.SkolemTypeIVCase5
SLASHATTR - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
SLSB - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
SMEvolution - Class in uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution
SMEvolution(int, boolean, Schema, Schema) - Constructor for class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolution
SMEvolutionException - Exception in uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution
SMEvolutionException(String) - Constructor for exception uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.SMEvolutionException
so - Variable in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
  The schema object initially associated with this object
SOME - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
Sort - Class in uk.ac.bbk.dcs.automed.qproc.functions.collections
Sort() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.collections.Sort
sort() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.ModifiedArray
SortDistinct - Class in uk.ac.bbk.dcs.automed.qproc.functions.collections
SortDistinct() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.collections.SortDistinct
sorted() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.ModifiedArray
source_background_colour - Variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
SOURCE_PREFIX - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
  String prefixed to AutoMed oriented Model names in order to obtain source oriented Model names.
sourceSchema - Variable in class uk.ac.bbk.dcs.automed.qproc.reformulate.GAVQueryReformulationProvider
Span - Class in uk.ac.bbk.dcs.automed.hdmstore
  A Span represents one element in a HDM edge.
special - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
Special - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
specialConstructor - Variable in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.ParseException
  This variable determines which constructor was used to create this object and thereby affects the semantics of the "getMessage" method (see below).
specialConstructor - Variable in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.ParseException
  This variable determines which constructor was used to create this object and thereby affects the semantics of the "getMessage" method (see below).
specialConstructor - Variable in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.ParseException
  This variable determines which constructor was used to create this object and thereby affects the semantics of the "getMessage" method (see below).
specialConstructor - Variable in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.ParseException
  This variable determines which constructor was used to create this object and thereby affects the semantics of the "getMessage" method (see below).
specialConstructor - Variable in exception uk.ac.bbk.dcs.automed.qproc.translators.xquery.ParseException
  This variable determines which constructor was used to create this object and thereby affects the semantics of the "getMessage" method (see below).
specialToken - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Token
  This field is used to access special tokens that occur prior to this token, but after the immediately preceding regular (non-special) token.
specialToken - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.Token
  This field is used to access special tokens that occur prior to this token, but after the immediately preceding regular (non-special) token.
specialToken - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.Token
  This field is used to access special tokens that occur prior to this token, but after the immediately preceding regular (non-special) token.
specialToken - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.Token
  This field is used to access special tokens that occur prior to this token, but after the immediately preceding regular (non-special) token.
specialToken - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.Token
  This field is used to access special tokens that occur prior to this token, but after the immediately preceding regular (non-special) token.
Split - Class in uk.ac.bbk.dcs.automed.qproc.functions.string
  Look at the corresponding Java API definition.
Split() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.string.Split
split(String, String, int) - Static method in class uk.ac.ic.doc.automed.Util
  A classic-version of split-string method which does NOT support RegExp
split(String, String) - Static method in class uk.ac.ic.doc.automed.Util
  Split a delimited string dmle 27/2/2006
splitCDATA(String) - Static method in class uk.ac.ic.doc.automed.xml.XMLSyntax
  Thorws XMLSyntaxException if the String is null.
sql - Variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
SQL_MODEL_FOREIGN_KEY - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
SQL_MODEL_INDEX - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
SQL_MODEL_PRIMARY_KEY - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
SQL_MODEL_TABLE - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
  The name of the `Construct` used to represent SQL tables.
SQLFunctions - Class in uk.ac.ic.doc.automed.util.db
SQLFunctions() - Constructor for class uk.ac.ic.doc.automed.util.db.SQLFunctions
SQLIntegrator - Class in uk.ac.ic.doc.automed.matching
  The Integrator of SQL schemas
SQLIntegrator() - Constructor for class uk.ac.ic.doc.automed.matching.SQLIntegrator
SQLQuery - Class in uk.ac.ic.doc.automed.wrappers
  An SQLQuery expression tree that can be generated by the high level wrapper `SQLWrapper` and used by a low level wrapper as the basis for generating SQL queries on a relational database.
SQLQuery(AutoMedQueryToken, Object[]) - Constructor for class uk.ac.ic.doc.automed.wrappers.SQLQuery
SQLQuery(AutoMedQueryToken, Object) - Constructor for class uk.ac.ic.doc.automed.wrappers.SQLQuery
SQLRelationshipExtractor - Class in uk.ac.ic.doc.automed.matching
  The class for the extraction of relationships between SQL schema elements.
SQLRelationshipExtractor() - Constructor for class uk.ac.ic.doc.automed.matching.SQLRelationshipExtractor
SQLResult - Class in uk.ac.ic.doc.automed.wrappers
  Provides a representation of the data associated with a scheme in an AutoMed Schema.
SQLResult(int) - Constructor for class uk.ac.ic.doc.automed.wrappers.SQLResult
  return the instance of the scheme which the cursor currently points at, as an ArrayList of Objects.
SQLTranslator - Class in uk.ac.bbk.dcs.automed.wrappers
SQLTranslator() - Constructor for class uk.ac.bbk.dcs.automed.wrappers.SQLTranslator
SQLWrapper - Class in uk.ac.ic.doc.automed.wrappers
  An AutoMed high wrapper for connecting to SQL databases that have a JBDC driver.
SQLWrapper() - Constructor for class uk.ac.ic.doc.automed.wrappers.SQLWrapper
SQLWrapper(AccessMethod, String) - Constructor for class uk.ac.ic.doc.automed.wrappers.SQLWrapper
SQLWrapperFactory - Class in uk.ac.ic.doc.automed.wrappers
  An AutoMed high wrapper factory for creating `SQLWrapper` instances.
SQLWrapperFactory() - Constructor for class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
SQLWrapperSKJOptimiser - Class in uk.ac.bbk.dcs.automed.qproc.optimise.optimisers
  Removes self-key joins occurring because of the dual layer of schemas that the `SQLWrapperFactory` class introduces.
SQLWrapperSKJOptimiser(Schema[]) - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.optimisers.SQLWrapperSKJOptimiser
  Gathers primary key metadata from the schemas given as input.
src - Variable in class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
SRC_ADDRESS - Static variable in class uk.ac.ic.doc.automed.p2p.communication.ResponseHandler
SRCP - Class in uk.ac.ic.doc.rodex.p2p.protocol
  SRCP.java
  Schema Resource Control Protocol: provides standard interface functions for acquiring schema resources, e.g.
SSDFormat - Class in uk.ac.ic.doc.automed.ssd
  The SSDFormat class represents a format of a particular semistructured datasource as a set of `SSDPattern`s.
SSDFormat(String) - Constructor for class uk.ac.ic.doc.automed.ssd.SSDFormat
SSDFunctionTable - Class in uk.ac.ic.doc.automed.wrappers
SSDFunctionTable() - Constructor for class uk.ac.ic.doc.automed.wrappers.SSDFunctionTable
SSDPattern - Class in uk.ac.ic.doc.automed.ssd
  The SSDPattern class represents a pattern used in a particular `SSDFormat`.
SSDPattern(Pattern) - Constructor for class uk.ac.ic.doc.automed.ssd.SSDPattern
SSDPattern(int) - Constructor for class uk.ac.ic.doc.automed.ssd.SSDPattern
ssingleton() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns the root of an ASG representing an empty set
SSMDR - Class in uk.ac.ic.doc.automed
  The SSMD library<<
SSMDR() - Constructor for class uk.ac.ic.doc.automed.SSMDR
SSMDR_DataSourceName - Static variable in class uk.ac.ic.doc.automed.SSMDR
SSMDRException - Exception in uk.ac.ic.doc.automed
  The class of exceptions generated by `SSMD`.
SSMDRException(String) - Constructor for exception uk.ac.ic.doc.automed.SSMDRException
  Creates a SSMDException.
standalone - Variable in class uk.ac.ic.doc.automed.editor.Gui
StandardFoldFunctionTable - Class in uk.ac.bbk.dcs.automed.qproc.optimise
StandardFoldFunctionTable() - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.StandardFoldFunctionTable
StandardFunctionTable - Class in uk.ac.bbk.dcs.automed.qproc
  Class that creates a FunctionTable containing all currently implemented functions.
StandardFunctionTable() - Constructor for class uk.ac.bbk.dcs.automed.qproc.StandardFunctionTable
StandardOptimisationProvider - Class in uk.ac.bbk.dcs.automed.qproc.optimise
  This class coordinates the application of the logical optimisations.
StandardOptimisationProvider() - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.StandardOptimisationProvider
StandardOptimisationProvider(Schema, Schema[]) - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.StandardOptimisationProvider
StandardQueryAnnotationProvider - Class in uk.ac.bbk.dcs.automed.qproc.annotate
  This class annotates an input IQL query in the form of an ASG by inserting wrapper objects in the original ASG structure.
StandardQueryAnnotationProvider() - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.StandardQueryAnnotationProvider
StandardQueryAnnotationProvider(Schema[]) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.StandardQueryAnnotationProvider
  Deprecated. use `QueryAnnotationFactory` to obtain an instance of this class.
standardStroke - Static variable in class uk.ac.ic.doc.automed.editor.DrawArc
standardStroke - Static variable in class uk.ac.ic.doc.automed.editor.DrawVertex
STAR - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
start(String) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
start(InputSource) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
start() - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
  Output will be appended to the (initially empty) returned supplied StringBuffer
start(OutputStream) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
  Output will be written to your supplied OutputStream using the encoding as returned by getEncoding()
start(Writer) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
  Output will be written to your supplied Writer.
START_DOCUMENT - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
START_ELEMENT - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
start_production() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.EnvParser
  Indicates start production.
start_production() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.QParser
  Indicates start production.
start_state() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.EnvParser
  Indicates start state.
start_state() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.QParser
  Indicates start state.
startApplyInSpine - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
startBuiltIn - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
startDocument() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSSAX
startDocument() - Method in class uk.ac.ic.doc.automed.xml.XMLReader
startElement(String, String, String, Attributes) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSSAX
startElement(String, AttributeList) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
startEval - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
startProcess(ID, String, String) - Method in class uk.ac.ic.doc.automed.p2p.overlay.OverlayController
  Start a DHT host with a pre-configured `ID`
startRL - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
startThread() - Method in class uk.ac.ic.doc.automed.util.thread.AsynchThread
  Start (rather resume) a thread's operation
startThread() - Method in class uk.ac.ic.doc.automed.util.thread.TimedThread
  Start (rather resume) a thread's operation
startWHNF - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
STAT_COLLECTOR_ADDRESS_AND_PORT - Static variable in class uk.ac.ic.doc.automed.p2p.overlay.OverlayController
STATE_HELLO_COMPLETE - Static variable in class uk.ac.ic.doc.automed.p2p.state.PeerStateHandler
STATE_HELLO_INIT - Static variable in class uk.ac.ic.doc.automed.p2p.state.PeerStateHandler
STATE_INIT - Static variable in class uk.ac.ic.doc.automed.p2p.state.PeerStateHandler
STATE_JOINED_GLOBAL - Static variable in class uk.ac.ic.doc.automed.p2p.state.PeerStateHandler
STATE_JOINED_LOCAL - Static variable in class uk.ac.ic.doc.automed.p2p.state.PeerStateHandler
STATE_REGISTER_GLOBAL - Static variable in class uk.ac.ic.doc.automed.p2p.state.PeerStateHandler
STATE_STAND_ALONE - Static variable in class uk.ac.ic.doc.automed.p2p.state.PeerStateHandler
StateChangedException - Exception in uk.ac.ic.doc.automed.p2p.state
StateChangedException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.p2p.state.StateChangedException
  Creates a new instance of StateChangedException
StateChangedException(String) - Constructor for exception uk.ac.ic.doc.automed.p2p.state.StateChangedException
StateChangedListener - Interface in uk.ac.ic.doc.automed.p2p.state
stateHandler - Variable in class uk.ac.ic.doc.automed.p2p.gui.LoginFrame
staticFlag - Static variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
staticFlag - Static variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
staticFlag - Static variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
staticFlag - Static variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
staticFlag - Static variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
StatisticsModule - Class in uk.ac.ic.doc.automed.matching.modules.bidirectionalmap
  The module that compares the schema elements based on statistic information of the appearance of special characters on their instances
StatisticsModule(SchemaElement[], SchemaElement[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.StatisticsModule
  Constructs a `StatisticsModule` to compare the specified schema elements in the input arrays.
StatisticsModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.StatisticsModule
StatisticsModule(ArrayList, ArrayList) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.StatisticsModule
  Constructs a `StatisticsModule` to compare the specified schema elements in the input lists.
StatisticsModule - Class in uk.ac.ic.doc.automed.matching.modules.intervals
  The module that compares the schema elements based on statistic information of the appearance of special characters on their instances
StatisticsModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.intervals.StatisticsModule
StatisticsModule - Class in uk.ac.ic.doc.automed.matching.modules.probability.binary
  The module that compares the schema elements based on statistic information of the appearance of special characters on their instances
StatisticsModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.binary.StatisticsModule
StatisticsModule - Class in uk.ac.ic.doc.automed.matching.modules.probability.senary
  The module that compares the schema elements based on statistic information of the appearance of special characters on their instances
StatisticsModule(SchemaElementPair[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.probability.senary.StatisticsModule
STATUS - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
stopAll() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedMessagingHelper
stopped() - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
stopThread() - Method in class uk.ac.ic.doc.automed.util.thread.AsynchThread
  Stop (rather pause) a thread
stopThread() - Method in class uk.ac.ic.doc.automed.util.thread.TimedThread
  Stop (rather pause) a thread
STORED_TYPE - Static variable in class uk.ac.ic.doc.automed.reps.Schema
  All details about the constructs of STORED_TYPE schemas are held in the repository, and this type my exist in isolation..
STR - Class in uk.ac.ic.doc.automed
  The STR library.
STR() - Constructor for class uk.ac.ic.doc.automed.STR
STR_DataSourceName - Static variable in class uk.ac.ic.doc.automed.STR
STRException - Exception in uk.ac.ic.doc.automed
  The class of exceptions generated by `STR`.
STRException(String) - Constructor for exception uk.ac.ic.doc.automed.STRException
  Creates a STRException.
STRING - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.TypeConstants
string - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
STRING - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
STRING - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedType
  Type to represent an arbitrary length string in the unicode character set.
STRING_TOKEN - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
StringFunctionTable - Class in uk.ac.bbk.dcs.automed.qproc.functions.string
  FunctionTable containing string-related IQL functions.
StringFunctionTable() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.string.StringFunctionTable
StringHash - Interface in uk.ac.ic.doc.automed.util.hashing
  StringHash.java
StringHashFactory - Class in uk.ac.ic.doc.automed.util.hashing
  StringHashProvider.java
stringSafe(String) - Static method in class uk.ac.ic.doc.automed.reps.Syntax
STRINGTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
stringToObject(String, Class) - Static method in class uk.ac.ic.doc.automed.Util
stringType - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
stripUIDs(Document) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.UIDUtility
  This method takes as input an XML document in DOM format, duplicates it, then strips the uids from the duplicated DOM.
STRMethodTest - Class in uk.ac.ic.doc.automed
STRMethodTest() - Constructor for class uk.ac.ic.doc.automed.STRMethodTest
STRTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SchemesConstants
STRTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompConstants
STRTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendConstants
STRTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusConstants
StrToken - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
structure - Variable in class uk.ac.ic.doc.automed.p2p.directory.ModelDescription
structure - Variable in class uk.ac.ic.doc.automed.p2p.directory.SchemaDescription
SubClassOf - Static variable in class uk.ac.bbk.dcs.automed.rdfs.RDFSConstants
SubCollection - Class in uk.ac.bbk.dcs.automed.qproc.functions.collections
SubCollection() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.collections.SubCollection
SubPropertyOf - Static variable in class uk.ac.bbk.dcs.automed.rdfs.RDFSConstants
Subset - Class in uk.ac.ic.doc.automed.matching.relationships
  The Subset class represents the subset semantic relationship between `SchemaElement` objects.
Subset() - Constructor for class uk.ac.ic.doc.automed.matching.relationships.Subset
subsetOf(Set, Set) - Static method in class uk.ac.ic.doc.automed.util.SetUtil
Substring - Class in uk.ac.bbk.dcs.automed.qproc.functions.string
  Returns a substring of the input string based on the two other integer arguments.
Substring() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.string.Substring
substring2(String, String, String) - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
substring3(String, String, String) - Static method in class uk.ac.bbk.dcs.automed.evolution2.EvolutionUtility
Subsumption - Class in uk.ac.ic.doc.automed.matching.relationships
  The Subsumption class represents the subsumption semantic relationship between `SchemaElement` objects.
Subsumption() - Constructor for class uk.ac.ic.doc.automed.matching.relationships.Subsumption
subsumptions - Variable in class uk.ac.ic.doc.automed.matching.Integrator
subtract(AutoMedFloat) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedFloat
  Return the difference of two AutoMedFloats.
subtract(AutoMedInteger) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedInteger
  Return the difference of two AutoMedIntegers.
subtractDate(Date, Date) - Static method in class uk.ac.ic.doc.automed.util.DateUtil
  Subtract `Date`1 from `Date`2 to return the result as an array of numbers of hours, minutes, and seconds
subtractList(List, List) - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter
Sum - Class in uk.ac.bbk.dcs.automed.qproc.functions.collections
Sum() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.collections.Sum
Superset - Class in uk.ac.ic.doc.automed.matching.relationships
  The Superset class represents the superset semantic relationship between `SchemaElement` objects.
Superset() - Constructor for class uk.ac.ic.doc.automed.matching.relationships.Superset
sval - Variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
swap(int, int) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.ModifiedArray
SwitchTo(int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SchemesTokenManager
SwitchTo(int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompTokenManager
SwitchTo(int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendTokenManager
SwitchTo(int) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusTokenManager
SwitchTo(int) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLTokenManager
SYMBOL_TOKEN - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
symbolHeight - Variable in class uk.ac.ic.doc.automed.editor.DrawVertex
symbolWidth - Variable in class uk.ac.ic.doc.automed.editor.DrawVertex
syncWithRepository() - Static method in class uk.ac.ic.doc.automed.reps.Transformation
Syntax - Class in uk.ac.ic.doc.automed.editor
Syntax() - Constructor for class uk.ac.ic.doc.automed.editor.Syntax
Syntax - Class in uk.ac.ic.doc.automed.reps
Syntax() - Constructor for class uk.ac.ic.doc.automed.reps.Syntax
Syntax.Token - Class in uk.ac.ic.doc.automed.reps
Syntax.Tokenizer - Class in uk.ac.ic.doc.automed.reps
Syntax.Tokenizer(Reader) - Constructor for class uk.ac.ic.doc.automed.reps.Syntax.Tokenizer
SyntaxException - Exception in uk.ac.ic.doc.automed.editor
SyntaxException(String, int) - Constructor for exception uk.ac.ic.doc.automed.editor.SyntaxException
SyntaxException - Exception in uk.ac.ic.doc.automed.reps
SyntaxException(String) - Constructor for exception uk.ac.ic.doc.automed.reps.SyntaxException
SyntaxException(String, Exception) - Constructor for exception uk.ac.ic.doc.automed.reps.SyntaxException
SyntaxException(String, int, String, String) - Constructor for exception uk.ac.ic.doc.automed.reps.SyntaxException
synthSuffix - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
SysConsToken - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
sysConstructor - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
SYSTEM - Static variable in class uk.ac.ic.doc.automed.editor.UserActionClass
sysvariable - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
SYSVARTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompConstants
SYSVARTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendConstants
SYSVARTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusConstants
SysVarToken - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym

## T

TABLE - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLQuery
table - Variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
TABLE_ALIAS - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLQuery
TablePanel - Class in uk.ac.ic.doc.automed.p2p.gui
TablePanel(JTable, JButton[], String) - Constructor for class uk.ac.ic.doc.automed.p2p.gui.TablePanel
tables - Variable in class uk.ac.ic.doc.automed.matching.SQLRelationshipExtractor
tableSchemeLength - Variable in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
tag() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns the Cell's tag
targetSchemata - Variable in class uk.ac.bbk.dcs.automed.qproc.reformulate.GAVQueryReformulationProvider
tc - Variable in class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
TCPClient - Class in uk.ac.ic.doc.automed.p2p.communication
TCPClient(String, int, RequestListener, int) - Constructor for class uk.ac.ic.doc.automed.p2p.communication.TCPClient
TCPClient(RequestListener, int) - Constructor for class uk.ac.ic.doc.automed.p2p.communication.TCPClient
TCPServer - Class in uk.ac.ic.doc.automed.p2p.communication
TCPServer(int, RequestListener, int, int, int) - Constructor for class uk.ac.ic.doc.automed.p2p.communication.TCPServer
  Creates a new instance of UDPServer
TELL - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  performative
TELL_BROKER - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
TellBrokerQuery - Class in uk.ac.ic.doc.automed.p2p.messages.applicationlayer
TellBrokerQuery() - Constructor for class uk.ac.ic.doc.automed.p2p.messages.applicationlayer.TellBrokerQuery
TellBrokerQuery(List, List) - Constructor for class uk.ac.ic.doc.automed.p2p.messages.applicationlayer.TellBrokerQuery
TellBrokerQuery(AbstractMessage) - Constructor for class uk.ac.ic.doc.automed.p2p.messages.applicationlayer.TellBrokerQuery
TempPathway - Class in uk.ac.ic.doc.automed.tml
  This class represents a temporary pathway used solely for the purpose of pathway optimisation.
TempQueryProcessor - Class in uk.ac.bbk.dcs.automed.qproc
  The new query processor class provides query reformulation for three techniques - GAV, LAV and BAV.
TempQueryProcessor() - Constructor for class uk.ac.bbk.dcs.automed.qproc.TempQueryProcessor
  Create an instance of the Query Processor.
TempTML - Class in uk.ac.ic.doc.automed.tml
  This class represents a temporary `TML` in a `TempPathway`.
terminateMsgProcess(String, String) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedMessagingHelper
  Terminate an active messaging process
Test - Class in uk.ac.bbk.dcs.automed.xml.experiments.crime
  Class Task Description
Test() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.crime.Test
test() - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
test_AddDate(String, String, long) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  Test adding date values
test_GetDate() - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  Test getting date
TestDBProcess - Class in uk.ac.ic.doc.automed.tests.p2p
TestDBProcess() - Constructor for class uk.ac.ic.doc.automed.tests.p2p.TestDBProcess
testIdenticalSchemas(Schema, Schema) - Method in class uk.ac.ic.doc.automed.tml.TempPathway
text() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
  Returns the string representation of the object contained in the Cell
Text - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.EnvSym
text - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
text - Variable in class uk.ac.ic.doc.automed.editor.DrawVertex
TextEditor - Class in uk.ac.ic.doc.automed.editor
  Cell editor class for cache table.
TextEditor() - Constructor for class uk.ac.ic.doc.automed.editor.TextEditor
TextEditor(JTable) - Constructor for class uk.ac.ic.doc.automed.editor.TextEditor
textHeight - Variable in class uk.ac.ic.doc.automed.editor.DrawVertex
textOBID() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
textQuery() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.DOMWrapper
textQuery() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.NXDBWrapper
textQuery() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.SAXWrapper
textQuery() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
textWidth - Variable in class uk.ac.ic.doc.automed.editor.DrawVertex
tgts - Variable in class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
THEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
thePeer - Static variable in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
thickness - Static variable in class uk.ac.ic.doc.automed.editor.DrawArc
thickness - Static variable in class uk.ac.ic.doc.automed.editor.DrawVertex
thickStroke - Static variable in class uk.ac.ic.doc.automed.editor.DrawArc
thickStroke - Static variable in class uk.ac.ic.doc.automed.editor.DrawVertex
thinStroke - Static variable in class uk.ac.ic.doc.automed.editor.DrawVertex
Threadable - Interface in uk.ac.ic.doc.automed.util.thread
TIME - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
TIME - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedType
  Type to represent a time (on a particular day)
TIME_TOKEN - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
TimedThread - Class in uk.ac.ic.doc.automed.util.thread
TimedThread(String, int, long, Threadable, boolean) - Constructor for class uk.ac.ic.doc.automed.util.thread.TimedThread
  Creates a new instance of TimedThread
TimedThread(String, long, Threadable, boolean) - Constructor for class uk.ac.ic.doc.automed.util.thread.TimedThread
  An overloading constructor for instant running of a thread object
TimedThread(long, Threadable, boolean) - Constructor for class uk.ac.ic.doc.automed.util.thread.TimedThread
  An overloading constructor for instant running of a thread object
TimedThread(Threadable, boolean) - Constructor for class uk.ac.ic.doc.automed.util.thread.TimedThread
  An overloading constructor for instant running of a thread object
timeOut - Variable in class uk.ac.ic.doc.automed.p2p.communication.AbstractServer
timeSpent - Static variable in class uk.ac.bbk.dcs.automed.qproc.functions.collections.Flatmap
title(String) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.PrintUtility
  Prints a line of stars, then the input title centered inside a line of stars, then another line of stars.
TML - Class in uk.ac.ic.doc.automed.tml
  This class represents a `Transformation` in TML notation.
TML(Transformation) - Constructor for class uk.ac.ic.doc.automed.tml.TML
TML(SchemaObject) - Constructor for class uk.ac.ic.doc.automed.tml.TML
TML(TML) - Constructor for class uk.ac.ic.doc.automed.tml.TML
TML(int, Schema, Schema, SchemaObject, SchemaObject, String, String) - Constructor for class uk.ac.ic.doc.automed.tml.TML
TO_SCHEMA - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
toActionString(int) - Method in class uk.ac.ic.doc.automed.tml.TML
toArray() - Method in class uk.ac.ic.doc.automed.editor.autolayout.ExpandedHashMap
toArrayOfSpringObjects() - Method in class uk.ac.ic.doc.automed.editor.autolayout.ExpandedHashMap
toASG(LinkedList) - Static method in class uk.ac.bbk.dcs.automed.hdmstore.EdgeElement
  Convert a `LinkedList` of edge elements and convert to an `ASG`
toASG(LinkedList, boolean) - Static method in class uk.ac.bbk.dcs.automed.hdmstore.EdgeElement
  Convert a `LinkedList` of edge elements and convert to an `ASG` If is true return elements as a list, otherwise as a tuple (so that the ASG returned is a list of tuples)
toASGCollection(ArrayList, String) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  Generates an ASG list from an ArrayList.
toASGList(ArrayList) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  Generates an ASG list from an ArrayList.
toASGTuple(ArrayList) - Static method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  Generates an ASG tuple from an ArrayList.
toAutoLayoutERObjectArray() - Method in class uk.ac.ic.doc.automed.editor.autolayout.ExpandedArrayList
toAutoLayoutSchemaObjectArray() - Method in class uk.ac.ic.doc.automed.editor.autolayout.ExpandedArrayList
ToDateTime - Class in uk.ac.bbk.dcs.automed.qproc.functions.typeConversion
  Class Task Description
ToDateTime() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.typeConversion.ToDateTime
toExtendedString() - Method in class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
  Output a `String` representation of the sub goal with schema name (if any)
ToFloat - Class in uk.ac.bbk.dcs.automed.qproc.functions.typeConversion
  Class Task Description
ToFloat() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.typeConversion.ToFloat
ToInteger - Class in uk.ac.bbk.dcs.automed.qproc.functions.typeConversion
  Class Task Description
ToInteger() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.typeConversion.ToInteger
toIntegerArray(AutoMedType[][]) - Static method in class uk.ac.ic.doc.automed.util.NumberToolkit
  Convert a 2-dimensional `AutoMedIntegerType` array to integer
toInternalString() - Method in class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
  Output a `String` representation of the sub-goal using sub-goal's unique id instead of the scheme name string
toIQLString() - Method in class uk.ac.ic.doc.rodex.qproc.QueryFunction
toIQLString() - Method in class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
  Output a `String` representation of the sub goal with schema name (if any) toIQLString() = "{x,y} ->" + toString()
token - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
Token - Class in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes
  Describes the input token stream.
Token() - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Token
token - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
Token - Class in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp
  Describes the input token stream.
Token() - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.Token
token - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
Token - Class in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend
  Describes the input token stream.
Token() - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.Token
token - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
Token - Class in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus
  Describes the input token stream.
Token() - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.Token
Token - Class in uk.ac.bbk.dcs.automed.qproc.translators.xquery
  Describes the input token stream.
Token() - Constructor for class uk.ac.bbk.dcs.automed.qproc.translators.xquery.Token
token - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
token_source - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
token_source - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
token_source - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
token_source - Variable in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
token_source - Variable in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
tokenImage - Variable in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.ParseException
  This is a reference to the "tokenImage" array of the generated parser within which the parse error occurred.
tokenImage - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SchemesConstants
tokenImage - Variable in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.ParseException
  This is a reference to the "tokenImage" array of the generated parser within which the parse error occurred.
tokenImage - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompConstants
tokenImage - Variable in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.ParseException
  This is a reference to the "tokenImage" array of the generated parser within which the parse error occurred.
tokenImage - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendConstants
tokenImage - Variable in exception uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.ParseException
  This is a reference to the "tokenImage" array of the generated parser within which the parse error occurred.
tokenImage - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusConstants
tokenImage - Variable in exception uk.ac.bbk.dcs.automed.qproc.translators.xquery.ParseException
  This is a reference to the "tokenImage" array of the generated parser within which the parse error occurred.
tokenImage - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
tokenize(String) - Static method in class uk.ac.ic.doc.automed.Util
  Returns the tokens in s (as defined by default StringTokenizer) as an array
TokenMgrError - Error in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes
TokenMgrError() - Constructor for error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.TokenMgrError
TokenMgrError(String, int) - Constructor for error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.TokenMgrError
TokenMgrError(boolean, int, int, int, String, char, int) - Constructor for error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.TokenMgrError
TokenMgrError - Error in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp
TokenMgrError() - Constructor for error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.TokenMgrError
TokenMgrError(String, int) - Constructor for error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.TokenMgrError
TokenMgrError(boolean, int, int, int, String, char, int) - Constructor for error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.TokenMgrError
TokenMgrError - Error in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend
TokenMgrError() - Constructor for error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.TokenMgrError
TokenMgrError(String, int) - Constructor for error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.TokenMgrError
TokenMgrError(boolean, int, int, int, String, char, int) - Constructor for error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.TokenMgrError
TokenMgrError - Error in uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus
TokenMgrError() - Constructor for error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.TokenMgrError
TokenMgrError(String, int) - Constructor for error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.TokenMgrError
TokenMgrError(boolean, int, int, int, String, char, int) - Constructor for error uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.TokenMgrError
TokenMgrError - Error in uk.ac.bbk.dcs.automed.qproc.translators.xquery
TokenMgrError() - Constructor for error uk.ac.bbk.dcs.automed.qproc.translators.xquery.TokenMgrError
TokenMgrError(String, int) - Constructor for error uk.ac.bbk.dcs.automed.qproc.translators.xquery.TokenMgrError
TokenMgrError(boolean, int, int, int, String, char, int) - Constructor for error uk.ac.bbk.dcs.automed.qproc.translators.xquery.TokenMgrError
toLaTeX() - Method in class uk.ac.ic.doc.automed.reps.Pathway
  Returns the `Pathway` in a form that may rendered by the hdm.sty LaTeX package.
toLaTeX() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Returns the `SchemaObject` in a form that may rendered by the hdm.sty LaTeX package.
toLaTeX(Schema) - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns the transformation in a form that may rendered by the hdm.sty LaTeX package.
toolMenu - Variable in class uk.ac.ic.doc.automed.editor.Gui
Tools4DW - Class in uk.ac.bbk.dcs.automed.dataWarehousing.util
Tools4DW() - Constructor for class uk.ac.bbk.dcs.automed.dataWarehousing.util.Tools4DW
toPrintString() - Method in class uk.ac.ic.doc.automed.tml.TML
toSchema - Variable in class uk.ac.ic.doc.automed.p2p.protocol.Request.Pathway
toSchemaObjectArray() - Method in class uk.ac.ic.doc.automed.editor.autolayout.ExpandedArrayList
toString() - Method in class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.Lineage
toString() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Token
  Returns the image.
toString() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.Token
  Returns the image.
toString() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.Token
  Returns the image.
toString() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.Token
  Returns the image.
ToString - Class in uk.ac.bbk.dcs.automed.qproc.functions.typeConversion
  Class Task Description
ToString() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.typeConversion.ToString
toString() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
toString() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
toString() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.SchemeInfo
  Deprecated. use `#getSchemeString(boolean)` instead
toString() - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.ViewKey
toString() - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.Token
  Returns the image.
toString() - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphAttribute
toString() - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphElement
toString() - Method in class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphText
toString() - Method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayout
toString() - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
toString() - Method in class uk.ac.ic.doc.automed.matching.BidirectionalDegree
toString() - Method in class uk.ac.ic.doc.automed.matching.Instance
toString() - Method in class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.Cluster
toString() - Method in class uk.ac.ic.doc.automed.matching.modules.ElementVectorRepresentation
toString() - Method in class uk.ac.ic.doc.automed.matching.Range
toString() - Method in class uk.ac.ic.doc.automed.matching.relationships.Compatibility
toString() - Method in class uk.ac.ic.doc.automed.matching.relationships.Disjointness
toString() - Method in class uk.ac.ic.doc.automed.matching.relationships.Equivalence
toString() - Method in class uk.ac.ic.doc.automed.matching.relationships.Incompatibility
toString() - Method in class uk.ac.ic.doc.automed.matching.relationships.Overlapness
toString() - Method in class uk.ac.ic.doc.automed.matching.relationships.SemanticRelationship
toString() - Method in class uk.ac.ic.doc.automed.matching.relationships.Subset
toString() - Method in class uk.ac.ic.doc.automed.matching.relationships.Superset
toString() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
  Returns a string representation of this `SchemaElement` object.
toString() - Method in class uk.ac.ic.doc.automed.matching.SchemaElementPair
toString() - Method in class uk.ac.ic.doc.automed.matching.SchemaElementPairRelationship
toString() - Method in class uk.ac.ic.doc.automed.matching.SimilarSchemaElementPair
toString() - Method in class uk.ac.ic.doc.automed.matching.UncertainSchemaElementPair
toString(Object) - Method in class uk.ac.ic.doc.automed.p2p.directory.ModelDescription
toString(Object) - Static method in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
toString(Object) - Method in class uk.ac.ic.doc.automed.p2p.directory.SchemaDescription
toString() - Method in class uk.ac.ic.doc.automed.p2p.messages.abstractlayer.AbstractMessage
toString() - Method in class uk.ac.ic.doc.automed.p2p.messages.applicationlayer.TellBrokerQuery
toString(Object) - Static method in class uk.ac.ic.doc.automed.p2p.PathwayDescription
toString() - Method in class uk.ac.ic.doc.automed.p2p.PeerCache
toString() - Method in class uk.ac.ic.doc.automed.p2p.protocol.Request
toString() - Method in class uk.ac.ic.doc.automed.p2p.tree.AbstractNetwork
toString() - Method in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
toString() - Method in class uk.ac.ic.doc.automed.reps.Construct
toString() - Method in class uk.ac.ic.doc.automed.reps.Model
toString() - Method in class uk.ac.ic.doc.automed.reps.Network
toString() - Method in class uk.ac.ic.doc.automed.reps.Node
toString() - Method in class uk.ac.ic.doc.automed.reps.Pathway
toString() - Method in class uk.ac.ic.doc.automed.reps.PersistentKey
toString() - Method in class uk.ac.ic.doc.automed.reps.Schema
toString() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Ensures that instances of this class print in the "correct" AutoMed scheme notation
toString() - Method in class uk.ac.ic.doc.automed.reps.Syntax.Token
toString() - Method in class uk.ac.ic.doc.automed.reps.Transformation
toString() - Method in class uk.ac.ic.doc.automed.tml.TML
toString() - Method in class uk.ac.ic.doc.automed.util.cache.CacheItem
toString() - Method in class uk.ac.ic.doc.automed.util.db.DBRecord
  Print fields and values
toString() - Method in class uk.ac.ic.doc.automed.util.db.DBRecordWithConstraints
  print debug string
toString() - Method in class uk.ac.ic.doc.automed.util.persist.PersistentKey
  Output the key's id
toString() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedBoolean
  Return a string representation of this AutoMedBoolean.
toString() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedFloat
  Return a string representation of this AutoMedFloat.
toString() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedInteger
  Return a string representation of this AutoMedInteger.
toString() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedQueryToken
toString() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedResult
  Produce a string representation of the result set, where {} indicates a set of values, and [] a list of values
toString(StringBuffer) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedResult
  Produce a string representation of the result set in a StringBuffer.
toString() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedString
  Return a string representation of this AutoMedString.
toString() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedTime
  Return a string representation of this AutoMedTime using ISO format.
toString(StringBuffer) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedTuple
  Produce a string representation of the result set, where {} indicates a set of values, and [] a list of values
toString() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedTuple
  Produce a string representation of the AutoMedTuple
toString() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedType
  Return a string representation of this AutoMedType.
toString() - Method in class uk.ac.ic.doc.automed.wrappers.SQLQuery
  Convert this SQLQuery into a text equivalent.
toString() - Method in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
toString() - Method in class uk.ac.ic.doc.automed.xml.XMLToken
toString() - Method in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter.MiniConDescription
  Convert MCD's content to string
toString() - Method in class uk.ac.ic.doc.rodex.qproc.QueryFunction
toString() - Method in class uk.ac.ic.doc.rodex.qproc.QuerySubGoal
  Output a `String` representation of the sub goal
toString() - Method in class uk.ac.ic.doc.rodex.qproc.QueryVariable
  Return a `String` representation of the query variable
toString() - Method in class uk.ac.ic.doc.rodex.reps.AttributeDomain
toStringOBID() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
  Use only for printing purposes in debug settings: works just like `ASG.toString()`, but schemes has an OBID suffix.
toStringType() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
totalEnd - Variable in class uk.ac.bbk.dcs.automed.qproc.functions.internal.CallToWrapper
totalEvaluateCalls - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
totalStart - Variable in class uk.ac.bbk.dcs.automed.qproc.functions.internal.CallToWrapper
totalTimeSpent - Static variable in class uk.ac.bbk.dcs.automed.qproc.functions.internal.CallToWrapper
totalWHNFCalls - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
totalWrapperCalls - Static variable in class uk.ac.bbk.dcs.automed.qproc.functions.internal.CallToWrapper
toUnicodeString(String) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
  Get the Unicode representation of a String
TRAN_ACTION_ADD - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated. Transformation action "add"
TRAN_ACTION_CONTRACT - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated. Transformation action "contract"
TRAN_ACTION_DELETE - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated. Transformation action "delete"
TRAN_ACTION_EXTEND - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated. Transformation action "extend"
TRAN_ACTION_IDENT - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated. Transformation action "ident"
TRAN_ACTION_MAXIMUM - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated.
TRAN_ACTION_MINIMUM - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated.
TRAN_ACTION_RENAME - Static variable in interface uk.ac.ic.doc.automed.Constants
  Deprecated. Transformation action "rename"
trans - Variable in class uk.ac.ic.doc.automed.reps.Pathway
TransactSQLWrapper - Class in uk.ac.ic.doc.automed.wrappers
  A lower level wrapper for the conforming to the AutoMed SQL high level wrapper for TransactSQL SQL databases.
TransactSQLWrapper(AccessMethod, String) - Constructor for class uk.ac.ic.doc.automed.wrappers.TransactSQLWrapper
  Generate a new wrapper instance from information held in the repository about how to access a data source.
TransactSQLWrapper() - Constructor for class uk.ac.ic.doc.automed.wrappers.TransactSQLWrapper
TransactSQLWrapperFactory - Class in uk.ac.ic.doc.automed.wrappers
  A lower level wrapper factory for TransactSQL databases (i.e.
TransactSQLWrapperFactory() - Constructor for class uk.ac.ic.doc.automed.wrappers.TransactSQLWrapperFactory
transformation - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
Transformation - Class in uk.ac.ic.doc.automed.reps
  The Transformation class describes a single premitive transformation that connects a pair of schemas.
Transformation(int, int, int, int, int, String, String, boolean) - Constructor for class uk.ac.ic.doc.automed.reps.Transformation
  Instantiates a transformation.
TRANSFORMATION_ADDED - Static variable in class uk.ac.ic.doc.automed.reps.SchemaChangeEvent
TRANSFORMATION_REMOVED - Static variable in class uk.ac.ic.doc.automed.reps.SchemaChangeEvent
TransformationAbstraction - Class in uk.ac.ic.doc.automed.reps
  TransformationAbstraction.java Represents only an abstraction of the transformation
TransformationAbstraction(Transformation) - Constructor for class uk.ac.ic.doc.automed.reps.TransformationAbstraction
  Creates a new instance of TransformationAbstraction
TransformationAbstractionBuilder - Class in uk.ac.ic.doc.automed.p2p.tree
TransformationAbstractionBuilder(Root) - Constructor for class uk.ac.ic.doc.automed.p2p.tree.TransformationAbstractionBuilder
  Creates a new instance of SchemaObjectBuilder
transformationAdded(SchemaChangeEvent) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
transformationAdded(SchemaChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.SchemaChangeListener
transformationRemoved(SchemaChangeEvent) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
transformationRemoved(SchemaChangeEvent) - Method in interface uk.ac.ic.doc.automed.reps.SchemaChangeListener
TransformationsIssuer - Class in uk.ac.bbk.dcs.automed.xml.relational
  This class reads an input XML file that describe two types of transformations:
TransformationsIssuer(String) - Constructor for class uk.ac.bbk.dcs.automed.xml.relational.TransformationsIssuer
TransformToHDM(String, int) - Method in class uk.ac.ic.doc.automed.reps.HighLevelToHDM
  Transform any high level scehma into an HDM oriented one
TransfStep - Class in uk.ac.bbk.dcs.automed.dataWarehousing.dlt
  Write a description of class TransformationStep here.
TransfStep() - Constructor for class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.TransfStep
  Constructor for objects of class TransformationStep
TransfStep(String, String, ArrayList, boolean[], String, boolean, boolean) - Constructor for class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.TransfStep
TransfStep(Transformation) - Constructor for class uk.ac.bbk.dcs.automed.dataWarehousing.dlt.TransfStep
translate(ASG) - Method in class uk.ac.bbk.dcs.automed.wrappers.IQLTranslator
translate(Cell) - Method in class uk.ac.bbk.dcs.automed.wrappers.IQLTranslator
translate(Cell) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.IQL2XQuery
translate(Document) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSDOMFromXSD
translate(double, double) - Method in class uk.ac.ic.doc.automed.editor.autolayout.DPoint
translatePath(LinkedList, String) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
translateResult(ASG) - Method in interface uk.ac.bbk.dcs.automed.qproc.translators.Translator
translateResult(ASG) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
translateToQueryText(StringBuffer) - Method in class uk.ac.ic.doc.automed.wrappers.SQLQuery
  Insert into a StringBuffer the text equivalent of this SQLQuery.
TranslationException - Exception in uk.ac.bbk.dcs.automed.wrappers
  An exception relating to translating IQL to other query languages.
TranslationException(String) - Constructor for exception uk.ac.bbk.dcs.automed.wrappers.TranslationException
TranslationException(String, Exception) - Constructor for exception uk.ac.bbk.dcs.automed.wrappers.TranslationException
  Creates an TranslationException when it is acting as a wrapper for other Exceptions.
Translator - Interface in uk.ac.bbk.dcs.automed.qproc.translators
  Interface for translators of high-level query languages for use on top of IQL.
Translator - Class in uk.ac.bbk.dcs.automed.wrappers
Translator() - Constructor for class uk.ac.bbk.dcs.automed.wrappers.Translator
transStatus - Variable in class uk.ac.ic.doc.automed.reps.Pathway
tree - Variable in class uk.ac.ic.doc.automed.editor.PatternWritingTool.DynamicTree
tree - Variable in class uk.ac.ic.doc.automed.p2p.tree.ObjectBuilder
TREE_PATH_FLAVOR - Static variable in class uk.ac.ic.doc.automed.xmlschema.tree.TreeDropTarget
TreeBuilder - Class in uk.ac.ic.doc.automed.p2p.tree
TreeBuilder(Element) - Constructor for class uk.ac.ic.doc.automed.p2p.tree.TreeBuilder
TreeBuilder(Document) - Constructor for class uk.ac.ic.doc.automed.p2p.tree.TreeBuilder
TreeDragSource - Class in uk.ac.ic.doc.automed.xmlschema.tree
TreeDragSource(JTree, int) - Constructor for class uk.ac.ic.doc.automed.xmlschema.tree.TreeDragSource
TreeDropTarget - Class in uk.ac.ic.doc.automed.xmlschema.tree
TreeDropTarget(JTree, JTextArea, XMLSchemaEditor) - Constructor for class uk.ac.ic.doc.automed.xmlschema.tree.TreeDropTarget
treeModel - Variable in class uk.ac.ic.doc.automed.editor.PatternWritingTool.DynamicTree
TreeNode - Class in uk.ac.bbk.dcs.automed.graph
  Class that abstracts the node of a tree structure.
TreeNode(String) - Constructor for class uk.ac.bbk.dcs.automed.graph.TreeNode
TreeNode - Class in uk.ac.ic.doc.automed.p2p.tree
TreeNode(Object) - Constructor for class uk.ac.ic.doc.automed.p2p.tree.TreeNode
TUPLE - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedType
  Type to represent a tuple of atomic types
tx - Variable in class uk.ac.ic.doc.automed.editor.DefaultDrawLinkNodalVertex
ty - Variable in class uk.ac.ic.doc.automed.editor.DefaultDrawLinkNodalVertex
TYP_CACHE - Static variable in class uk.ac.ic.doc.automed.reps.DataSource
TYP_SOURCE - Static variable in class uk.ac.ic.doc.automed.reps.DataSource
type() - Method in class uk.ac.bbk.dcs.automed.hdmstore.Edge
  Get the edge type
type() - Method in class uk.ac.bbk.dcs.automed.hdmstore.Span
  Get the type
type() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
type() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
type() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
type() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
TYPE - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
type - Variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
type - Variable in class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
  The type of the object.
type - Variable in class uk.ac.ic.doc.automed.xml.XMLToken
TYPE_ALTERNATION - Static variable in class uk.ac.ic.doc.automed.reps.Scheme
  Deprecated. see `Construct.CLASS_ALTERNATION`
TYPE_APPLY - Static variable in class uk.ac.ic.doc.rodex.qproc.ASGExplore
TYPE_BUCKET - Static variable in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
TYPE_CONS_CONSTRUCTOR - Static variable in class uk.ac.ic.doc.rodex.qproc.ASGExplore
TYPE_CONSTANT - Static variable in class uk.ac.ic.doc.rodex.qproc.ASGExplore
TYPE_CONSTRUCT - Static variable in class uk.ac.ic.doc.automed.reps.Scheme
  Scheme type of construct scheme
TYPE_CONSTRUCTOR - Static variable in class uk.ac.ic.doc.rodex.qproc.ASGExplore
TYPE_EXTRA - Static variable in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.SchemaAccessibility
TYPE_INTRA - Static variable in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.SchemaAccessibility
TYPE_INVERSE_RULE - Static variable in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
TYPE_MAXIMUM - Static variable in class uk.ac.ic.doc.automed.reps.Scheme
TYPE_MINICON - Static variable in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
TYPE_MINICON_ADAPTIVE - Static variable in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
TYPE_MINICON_DISTRIBUTED - Static variable in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
TYPE_MINICON_NONCONJUNCTIVE - Static variable in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
TYPE_MINIMUM - Static variable in class uk.ac.ic.doc.automed.reps.Scheme
TYPE_NAME - Static variable in class uk.ac.ic.doc.automed.reps.Scheme
  Scheme type of construct scheme
TYPE_RANGE_BASED - Static variable in class uk.ac.ic.doc.rodex.qproc.QueryRewriteProcessor
TYPE_SCHEME - Static variable in class uk.ac.ic.doc.rodex.qproc.ASGExplore
TYPE_SEQUENCE - Static variable in class uk.ac.ic.doc.automed.reps.Scheme
  Deprecated. see `Construct.CLASS_SEQUENCE`
typeCheck(ASG) - Method in class uk.ac.bbk.dcs.automed.qproc.iql.TypeChecker
typeCheck(ASG) - Method in class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
TypeChecker - Class in uk.ac.bbk.dcs.automed.qproc.iql
TypeChecker() - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.TypeChecker
TypeConstants - Class in uk.ac.bbk.dcs.automed.qproc.iql
TypeConstants() - Constructor for class uk.ac.bbk.dcs.automed.qproc.iql.TypeConstants
TypeConversionFunctionTable - Class in uk.ac.bbk.dcs.automed.qproc.functions.typeConversion
  Class Task Description
TypeConversionFunctionTable() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.typeConversion.TypeConversionFunctionTable
TypeException - Exception in uk.ac.bbk.dcs.automed.qproc.iql
  Class Task Description
TypeException(String) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.iql.TypeException
TypeException(String, Exception) - Constructor for exception uk.ac.bbk.dcs.automed.qproc.iql.TypeException
  Creates a TypeException when it is acting as a wrapper for other Exceptions.
TypeHierarchy - Class in uk.ac.ic.doc.automed.reps
TypeHierarchy(int) - Constructor for class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Creates a new instance of typeHierarchy for serialisation
TypeHierarchy.TypeObject - Class in uk.ac.ic.doc.automed.reps
  The type object class This class stored information about type objects in a type hierarchy Using the notation in the technical reports on types: hdmEquiv is =, parentName is <
TypeHierarchy.TypeObject(int, int, String, int, int, String, String) - Constructor for class uk.ac.ic.doc.automed.reps.TypeHierarchy.TypeObject
  Construcutor for a new TypeObject
typeList - Variable in class uk.ac.bbk.dcs.automed.qproc.functions.BuiltInFunction
TypeMismatchException - Exception in uk.ac.ic.doc.automed.reps
  The class of exceptions generated by the `uk.ac.ic.doc.automed.reps` package.
TypeMismatchException(String) - Constructor for exception uk.ac.ic.doc.automed.reps.TypeMismatchException

## U

UDPClient - Class in uk.ac.ic.doc.automed.p2p.communication
UDPClient(String, int, RequestListener, byte[]) - Constructor for class uk.ac.ic.doc.automed.p2p.communication.UDPClient
  Creates a new instance of UDPClient
UDPClient(RequestListener) - Constructor for class uk.ac.ic.doc.automed.p2p.communication.UDPClient
UDPClient(String, int, RequestListener) - Constructor for class uk.ac.ic.doc.automed.p2p.communication.UDPClient
  Creates a new instance of UDPClient
UDPOutOfSyncException - Exception in uk.ac.ic.doc.automed.p2p.communication
UDPOutOfSyncException() - Constructor for exception uk.ac.ic.doc.automed.p2p.communication.UDPOutOfSyncException
UDPOutOfSyncException(String) - Constructor for exception uk.ac.ic.doc.automed.p2p.communication.UDPOutOfSyncException
UDPOutOfSyncException(Throwable) - Constructor for exception uk.ac.ic.doc.automed.p2p.communication.UDPOutOfSyncException
UDPOutOfSyncException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.p2p.communication.UDPOutOfSyncException
UDPServer - Class in uk.ac.ic.doc.automed.p2p.communication
UDPServer(int, RequestListener, int, int, int) - Constructor for class uk.ac.ic.doc.automed.p2p.communication.UDPServer
  Creates a new instance of UDPServer
UIDUtility - Class in uk.ac.bbk.dcs.automed.xml.utilities
  This class contains various methods related to the XML unique identifiers (UIDs) used in the AutoMed XML toolkit
UIDUtility() - Constructor for class uk.ac.bbk.dcs.automed.xml.utilities.UIDUtility
uk - package uk
uk.ac - package uk.ac
uk.ac.bbk - package uk.ac.bbk
uk.ac.bbk.dcs - package uk.ac.bbk.dcs
uk.ac.bbk.dcs.automed - package uk.ac.bbk.dcs.automed
uk.ac.bbk.dcs.automed.dataWarehousing - package uk.ac.bbk.dcs.automed.dataWarehousing
uk.ac.bbk.dcs.automed.dataWarehousing.dlt - package uk.ac.bbk.dcs.automed.dataWarehousing.dlt
uk.ac.bbk.dcs.automed.dataWarehousing.util - package uk.ac.bbk.dcs.automed.dataWarehousing.util
uk.ac.bbk.dcs.automed.evolution - package uk.ac.bbk.dcs.automed.evolution
uk.ac.bbk.dcs.automed.evolution.dataEvolution - package uk.ac.bbk.dcs.automed.evolution.dataEvolution
uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution - package uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution
uk.ac.bbk.dcs.automed.evolution1 - package uk.ac.bbk.dcs.automed.evolution1
uk.ac.bbk.dcs.automed.evolution2 - package uk.ac.bbk.dcs.automed.evolution2
uk.ac.bbk.dcs.automed.evolution2.dataEvolution - package uk.ac.bbk.dcs.automed.evolution2.dataEvolution
uk.ac.bbk.dcs.automed.evolution2.modelEvolution - package uk.ac.bbk.dcs.automed.evolution2.modelEvolution
uk.ac.bbk.dcs.automed.evolution2.schemaEvolution - package uk.ac.bbk.dcs.automed.evolution2.schemaEvolution
uk.ac.bbk.dcs.automed.graph - package uk.ac.bbk.dcs.automed.graph
uk.ac.bbk.dcs.automed.hdmstore - package uk.ac.bbk.dcs.automed.hdmstore
uk.ac.bbk.dcs.automed.qproc - package uk.ac.bbk.dcs.automed.qproc
uk.ac.bbk.dcs.automed.qproc.annotate - package uk.ac.bbk.dcs.automed.qproc.annotate
uk.ac.bbk.dcs.automed.qproc.annotate.grammars - package uk.ac.bbk.dcs.automed.qproc.annotate.grammars
uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes - package uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes
uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp - package uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp
uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend - package uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend
uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus - package uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus
uk.ac.bbk.dcs.automed.qproc.evaluate - package uk.ac.bbk.dcs.automed.qproc.evaluate
uk.ac.bbk.dcs.automed.qproc.functions - package uk.ac.bbk.dcs.automed.qproc.functions
uk.ac.bbk.dcs.automed.qproc.functions.arithmetic - package uk.ac.bbk.dcs.automed.qproc.functions.arithmetic
uk.ac.bbk.dcs.automed.qproc.functions.collections - package uk.ac.bbk.dcs.automed.qproc.functions.collections
uk.ac.bbk.dcs.automed.qproc.functions.comparison - package uk.ac.bbk.dcs.automed.qproc.functions.comparison
uk.ac.bbk.dcs.automed.qproc.functions.date - package uk.ac.bbk.dcs.automed.qproc.functions.date
uk.ac.bbk.dcs.automed.qproc.functions.internal - package uk.ac.bbk.dcs.automed.qproc.functions.internal
uk.ac.bbk.dcs.automed.qproc.functions.logical - package uk.ac.bbk.dcs.automed.qproc.functions.logical
uk.ac.bbk.dcs.automed.qproc.functions.string - package uk.ac.bbk.dcs.automed.qproc.functions.string
uk.ac.bbk.dcs.automed.qproc.functions.typeConversion - package uk.ac.bbk.dcs.automed.qproc.functions.typeConversion
uk.ac.bbk.dcs.automed.qproc.iql - package uk.ac.bbk.dcs.automed.qproc.iql
uk.ac.bbk.dcs.automed.qproc.optimise - package uk.ac.bbk.dcs.automed.qproc.optimise
uk.ac.bbk.dcs.automed.qproc.optimise.optimisers - package uk.ac.bbk.dcs.automed.qproc.optimise.optimisers
uk.ac.bbk.dcs.automed.qproc.reformulate - package uk.ac.bbk.dcs.automed.qproc.reformulate
uk.ac.bbk.dcs.automed.qproc.translators - package uk.ac.bbk.dcs.automed.qproc.translators
uk.ac.bbk.dcs.automed.qproc.translators.xquery - package uk.ac.bbk.dcs.automed.qproc.translators.xquery
uk.ac.bbk.dcs.automed.rdfs - package uk.ac.bbk.dcs.automed.rdfs
uk.ac.bbk.dcs.automed.wrappers - package uk.ac.bbk.dcs.automed.wrappers
uk.ac.bbk.dcs.automed.xml - package uk.ac.bbk.dcs.automed.xml
uk.ac.bbk.dcs.automed.xml.experiments - package uk.ac.bbk.dcs.automed.xml.experiments
uk.ac.bbk.dcs.automed.xml.experiments.crime - package uk.ac.bbk.dcs.automed.xml.experiments.crime
uk.ac.bbk.dcs.automed.xml.experiments.other - package uk.ac.bbk.dcs.automed.xml.experiments.other
uk.ac.bbk.dcs.automed.xml.experiments.other.set0 - package uk.ac.bbk.dcs.automed.xml.experiments.other.set0
uk.ac.bbk.dcs.automed.xml.experiments.other.set1 - package uk.ac.bbk.dcs.automed.xml.experiments.other.set1
uk.ac.bbk.dcs.automed.xml.experiments.other.set2 - package uk.ac.bbk.dcs.automed.xml.experiments.other.set2
uk.ac.bbk.dcs.automed.xml.experiments.other.set3 - package uk.ac.bbk.dcs.automed.xml.experiments.other.set3
uk.ac.bbk.dcs.automed.xml.experiments.skolem - package uk.ac.bbk.dcs.automed.xml.experiments.skolem
uk.ac.bbk.dcs.automed.xml.experiments.subclass - package uk.ac.bbk.dcs.automed.xml.experiments.subclass
uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1 - package uk.ac.bbk.dcs.automed.xml.experiments.subclass.set1
uk.ac.bbk.dcs.automed.xml.experiments.subclassANDskolem - package uk.ac.bbk.dcs.automed.xml.experiments.subclassANDskolem
uk.ac.bbk.dcs.automed.xml.experiments.thesis - package uk.ac.bbk.dcs.automed.xml.experiments.thesis
uk.ac.bbk.dcs.automed.xml.experiments.ws - package uk.ac.bbk.dcs.automed.xml.experiments.ws
uk.ac.bbk.dcs.automed.xml.functions - package uk.ac.bbk.dcs.automed.xml.functions
uk.ac.bbk.dcs.automed.xml.materialisation - package uk.ac.bbk.dcs.automed.xml.materialisation
uk.ac.bbk.dcs.automed.xml.relational - package uk.ac.bbk.dcs.automed.xml.relational
uk.ac.bbk.dcs.automed.xml.utilities - package uk.ac.bbk.dcs.automed.xml.utilities
uk.ac.bbk.dcs.automed.xml.wrappers - package uk.ac.bbk.dcs.automed.xml.wrappers
uk.ac.bbk.dcs.automed.xml.xmldssGraph - package uk.ac.bbk.dcs.automed.xml.xmldssGraph
uk.ac.ic - package uk.ac.ic
uk.ac.ic.doc - package uk.ac.ic.doc
uk.ac.ic.doc.automed - package uk.ac.ic.doc.automed
uk.ac.ic.doc.automed.editor - package uk.ac.ic.doc.automed.editor
uk.ac.ic.doc.automed.editor.autolayout - package uk.ac.ic.doc.automed.editor.autolayout
uk.ac.ic.doc.automed.editor.drawables - package uk.ac.ic.doc.automed.editor.drawables
uk.ac.ic.doc.automed.editor.layout - package uk.ac.ic.doc.automed.editor.layout
uk.ac.ic.doc.automed.matching - package uk.ac.ic.doc.automed.matching
uk.ac.ic.doc.automed.matching.modules - package uk.ac.ic.doc.automed.matching.modules
uk.ac.ic.doc.automed.matching.modules.bidirectionalmap - package uk.ac.ic.doc.automed.matching.modules.bidirectionalmap
uk.ac.ic.doc.automed.matching.modules.intervals - package uk.ac.ic.doc.automed.matching.modules.intervals
uk.ac.ic.doc.automed.matching.modules.probability - package uk.ac.ic.doc.automed.matching.modules.probability
uk.ac.ic.doc.automed.matching.modules.probability.binary - package uk.ac.ic.doc.automed.matching.modules.probability.binary
uk.ac.ic.doc.automed.matching.modules.probability.senary - package uk.ac.ic.doc.automed.matching.modules.probability.senary
uk.ac.ic.doc.automed.matching.relationships - package uk.ac.ic.doc.automed.matching.relationships
uk.ac.ic.doc.automed.p2p - package uk.ac.ic.doc.automed.p2p
uk.ac.ic.doc.automed.p2p.communication - package uk.ac.ic.doc.automed.p2p.communication
uk.ac.ic.doc.automed.p2p.directory - package uk.ac.ic.doc.automed.p2p.directory
uk.ac.ic.doc.automed.p2p.gui - package uk.ac.ic.doc.automed.p2p.gui
uk.ac.ic.doc.automed.p2p.messages - package uk.ac.ic.doc.automed.p2p.messages
uk.ac.ic.doc.automed.p2p.messages.abstractlayer - package uk.ac.ic.doc.automed.p2p.messages.abstractlayer
uk.ac.ic.doc.automed.p2p.messages.applicationlayer - package uk.ac.ic.doc.automed.p2p.messages.applicationlayer
uk.ac.ic.doc.automed.p2p.overlay - package uk.ac.ic.doc.automed.p2p.overlay
uk.ac.ic.doc.automed.p2p.protocol - package uk.ac.ic.doc.automed.p2p.protocol
uk.ac.ic.doc.automed.p2p.state - package uk.ac.ic.doc.automed.p2p.state
uk.ac.ic.doc.automed.p2p.tree - package uk.ac.ic.doc.automed.p2p.tree
uk.ac.ic.doc.automed.p2p.util - package uk.ac.ic.doc.automed.p2p.util
uk.ac.ic.doc.automed.qproc - package uk.ac.ic.doc.automed.qproc
uk.ac.ic.doc.automed.qproc.cache - package uk.ac.ic.doc.automed.qproc.cache
uk.ac.ic.doc.automed.qproc.eval - package uk.ac.ic.doc.automed.qproc.eval
uk.ac.ic.doc.automed.qproc.functions - package uk.ac.ic.doc.automed.qproc.functions
uk.ac.ic.doc.automed.qproc.functions.internal - package uk.ac.ic.doc.automed.qproc.functions.internal
uk.ac.ic.doc.automed.qproc.opti - package uk.ac.ic.doc.automed.qproc.opti
uk.ac.ic.doc.automed.qproc.refo - package uk.ac.ic.doc.automed.qproc.refo
uk.ac.ic.doc.automed.reps - package uk.ac.ic.doc.automed.reps
uk.ac.ic.doc.automed.reps.pathway - package uk.ac.ic.doc.automed.reps.pathway
uk.ac.ic.doc.automed.ssd - package uk.ac.ic.doc.automed.ssd
uk.ac.ic.doc.automed.tests - package uk.ac.ic.doc.automed.tests
uk.ac.ic.doc.automed.tests.p2p - package uk.ac.ic.doc.automed.tests.p2p
uk.ac.ic.doc.automed.tml - package uk.ac.ic.doc.automed.tml
uk.ac.ic.doc.automed.util - package uk.ac.ic.doc.automed.util
uk.ac.ic.doc.automed.util.cache - package uk.ac.ic.doc.automed.util.cache
uk.ac.ic.doc.automed.util.db - package uk.ac.ic.doc.automed.util.db
uk.ac.ic.doc.automed.util.hashing - package uk.ac.ic.doc.automed.util.hashing
uk.ac.ic.doc.automed.util.persist - package uk.ac.ic.doc.automed.util.persist
uk.ac.ic.doc.automed.util.queue - package uk.ac.ic.doc.automed.util.queue
uk.ac.ic.doc.automed.util.thread - package uk.ac.ic.doc.automed.util.thread
uk.ac.ic.doc.automed.wrappers - package uk.ac.ic.doc.automed.wrappers
uk.ac.ic.doc.automed.wrappers.ssdfunctions - package uk.ac.ic.doc.automed.wrappers.ssdfunctions
uk.ac.ic.doc.automed.wrappers.xsdomobject - package uk.ac.ic.doc.automed.wrappers.xsdomobject
uk.ac.ic.doc.automed.xml - package uk.ac.ic.doc.automed.xml
uk.ac.ic.doc.automed.xmlschema - package uk.ac.ic.doc.automed.xmlschema
uk.ac.ic.doc.automed.xmlschema.output - package uk.ac.ic.doc.automed.xmlschema.output
uk.ac.ic.doc.automed.xmlschema.tree - package uk.ac.ic.doc.automed.xmlschema.tree
uk.ac.ic.doc.rodex - package uk.ac.ic.doc.rodex
uk.ac.ic.doc.rodex.p2p - package uk.ac.ic.doc.rodex.p2p
uk.ac.ic.doc.rodex.p2p.gui - package uk.ac.ic.doc.rodex.p2p.gui
uk.ac.ic.doc.rodex.p2p.messages - package uk.ac.ic.doc.rodex.p2p.messages
uk.ac.ic.doc.rodex.p2p.messages.applicationlayer - package uk.ac.ic.doc.rodex.p2p.messages.applicationlayer
uk.ac.ic.doc.rodex.p2p.protocol - package uk.ac.ic.doc.rodex.p2p.protocol
uk.ac.ic.doc.rodex.qproc - package uk.ac.ic.doc.rodex.qproc
uk.ac.ic.doc.rodex.reps - package uk.ac.ic.doc.rodex.reps
uMRedirection(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
  Performs a unique mandatory redirection
uMRedirection(SchemaObject, SchemaObject) - Method in class uk.ac.ic.doc.automed.reps.HDMTransformations
  Unique Mandatory redirection
UNARY_CLASS - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
UncertainSchemaElementPair - Class in uk.ac.ic.doc.automed.matching
  The class representing a pair of schema elements and its uncertain semantic relationship.
UncertainSchemaElementPair(SchemaElement, SchemaElement, MassPotential) - Constructor for class uk.ac.ic.doc.automed.matching.UncertainSchemaElementPair
  Constructs a `UncertainSchemaElementPair` object.
UncertainSchemaElementPair(SchemaElementPair, MassPotential) - Constructor for class uk.ac.ic.doc.automed.matching.UncertainSchemaElementPair
  Constructs a `UncertainSchemaElementPair` object.
UnderScore - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
UnexpectedTokenException - Exception in uk.ac.ic.doc.automed.editor
UnexpectedTokenException(int, int, Syntax.Token) - Constructor for exception uk.ac.ic.doc.automed.editor.UnexpectedTokenException
UnexpectedTokenException(int, int, int, Syntax.Token) - Constructor for exception uk.ac.ic.doc.automed.editor.UnexpectedTokenException
UnexpectedTokenException - Exception in uk.ac.ic.doc.automed.reps
  Deprecated. Use SyntaxException instead
UnexpectedTokenException(String) - Constructor for exception uk.ac.ic.doc.automed.reps.UnexpectedTokenException
  Deprecated.
UnexpectedTokenException(int, int, Syntax.Token) - Constructor for exception uk.ac.ic.doc.automed.reps.UnexpectedTokenException
  Deprecated.
UnexpectedTokenException(int, int, int, Syntax.Token) - Constructor for exception uk.ac.ic.doc.automed.reps.UnexpectedTokenException
  Deprecated.
unify() - Method in class uk.ac.bbk.dcs.automed.qproc.iql.ASG
UninstantiatedElementException - Exception in uk.ac.ic.doc.automed.matching
UninstantiatedElementException(String) - Constructor for exception uk.ac.ic.doc.automed.matching.UninstantiatedElementException
UninstantiatedElementException() - Constructor for exception uk.ac.ic.doc.automed.matching.UninstantiatedElementException
UninstantiatedException - Exception in uk.ac.ic.doc.automed.matching
UninstantiatedException(String) - Constructor for exception uk.ac.ic.doc.automed.matching.UninstantiatedException
UninstantiatedException() - Constructor for exception uk.ac.ic.doc.automed.matching.UninstantiatedException
UninstantiatedException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.matching.UninstantiatedException
Union - Class in uk.ac.bbk.dcs.automed.qproc.functions.collections
Union() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.collections.Union
union(Schema) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Return an `Schema` (`su`) containing the union of `SchemaObject`s in this schema (`s1`) and the schema passed as a parameter (`s2`).
UNION - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLQuery
  SQL UNION binary operator
unionByName(Schema) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Return an `SchemaObject` array containing the union by name between this schema (s1) and the schema passed as a parameter (s2).
unlockAllObjects() - Static method in class uk.ac.ic.doc.automed.editor.autolayout.AutoLayoutERObject
UnnestOptimiser - Class in uk.ac.bbk.dcs.automed.qproc.optimise.optimisers
  Unnests comprehensions.
UnnestOptimiser() - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.optimisers.UnnestOptimiser
UNPARSED_ENTITY_DECL - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
unparsedEntityDecl(String, String, String, String) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
unregister() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Notify directory server that this peer is logged out
UNREGISTER_PEER - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  Context: un-registering peer
UnregisterPeerMessageHandler - Class in uk.ac.ic.doc.automed.p2p
UnregisterPeerMessageHandler(AutoMedPeer) - Constructor for class uk.ac.ic.doc.automed.p2p.UnregisterPeerMessageHandler
  Creates a new instance of KeepAliveMessageHandler
UnsuccessfulReplyException - Exception in uk.ac.ic.doc.automed.p2p
UnsuccessfulReplyException() - Constructor for exception uk.ac.ic.doc.automed.p2p.UnsuccessfulReplyException
UnsuccessfulReplyException(String, String) - Constructor for exception uk.ac.ic.doc.automed.p2p.UnsuccessfulReplyException
UnsuccessfulReplyException(AbstractMessage) - Constructor for exception uk.ac.ic.doc.automed.p2p.UnsuccessfulReplyException
UnsuccessfulReplyException(String, Throwable) - Constructor for exception uk.ac.ic.doc.automed.p2p.UnsuccessfulReplyException
unvisit() - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraphNode
  Marks the calling node as unvisited
UPDATE - Static variable in exception uk.ac.ic.doc.automed.IntegrityException
  Exception caused by an operation doing some sort of update on an exisinting object in the repository.
UPDATE_DATA - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  Context: update peer data
updateCache(String, ASG, ASG) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Update query cache as queries are executed over the data source.
UpdateDataMessageHandler - Class in uk.ac.ic.doc.automed.p2p
UpdateDataMessageHandler(AutoMedPeer) - Constructor for class uk.ac.ic.doc.automed.p2p.UpdateDataMessageHandler
  Creates a new instance of UpdateDataMessageHandler
updateFields() - Method in class uk.ac.ic.doc.automed.editor.GUITool
updateFields() - Method in class uk.ac.ic.doc.automed.editor.IQLTool
updateFields() - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
updateFields() - Method in class uk.ac.ic.doc.automed.editor.PathwayOptimiserTool
updateFields() - Method in class uk.ac.ic.doc.automed.editor.ReportException
updateFields() - Method in class uk.ac.ic.doc.automed.editor.WrapperTool
updateFields() - Method in class uk.ac.ic.doc.automed.editor.XMLSchemaEditor
updateFields() - Method in class uk.ac.ic.doc.rodex.p2p.gui.CacheViewerFrame
  Implements GUITool abstract methods
UpdateLineColumn(char) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SimpleCharStream
UpdateLineColumn(char) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCharStream
UpdateLineColumn(char) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCharStream
UpdateLineColumn(char) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCharStream
UpdateLineColumn(char) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.SimpleCharStream
updatePeer(String, String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
  Update peer status
updatePeer(String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
  Update peer using name and url
updatePeer(String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
updatePeer(String, String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  Overloaded method to update peer status
updatePeer(String, String) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
updatePeerAddress(String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
  Update peer's address with a new address
updatePeerAddress(String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  Change peer's address to a new one (peer belongs specific domain)
updatePeersStatus(String, String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  Change inactive peers into flush peers at hold-time
updateSchemaObjectNameHashMap() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Update this Schema's hashmap of how each `SchemaObject` in the schema is named.
updateSchemaRef(Cell, Schema) - Method in class uk.ac.bbk.dcs.automed.qproc.reformulate.CompositeViewMap
  Forces the schema reference for a Cell tree to the given schema.
updateSchemaRef(Cell, Schema) - Static method in class uk.ac.bbk.dcs.automed.qproc.reformulate.ReformulationUtility
  Forces the schema reference for a Cell tree to the given schema.
updateSchemeInfo(SchemeInfo, Schema) - Static method in class uk.ac.bbk.dcs.automed.qproc.reformulate.ReformulationUtility
  Update a Scheme info by contacting low-level SchemaObject API.
updateSchemeInfo(Cell, Schema) - Static method in class uk.ac.bbk.dcs.automed.qproc.reformulate.ReformulationUtility
  Helper method for `ReformulationUtility.updateSchemeInfo(SchemeInfo, Schema)`.
updateSSDPatterns() - Method in class uk.ac.ic.doc.automed.ssd.SSDFormat
updateWrapperSchemaMap(Schema[]) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.StandardQueryAnnotationProvider
UPPER_BOUND - Static variable in class uk.ac.bbk.dcs.automed.qproc.GQP
  Deprecated.
UpperCase - Class in uk.ac.bbk.dcs.automed.qproc.functions.string
  Turns the input string into uppercase.
UpperCase() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.string.UpperCase
url - Variable in class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
url - Variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
usage() - Static method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStoreCmd
  Show the useage message
use(String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Use the named HDM store - subsequent calls to this HdmStore will use this store as default
USE_CACHE_ONLY - Static variable in interface uk.ac.ic.doc.automed.qproc.cache.CachePolicy
USE_LIVE_DATA_ONLY - Static variable in interface uk.ac.ic.doc.automed.qproc.cache.CachePolicy
user - Variable in class uk.ac.ic.doc.automed.util.db.DBAccess
UserAction - Class in uk.ac.ic.doc.automed.editor
UserAction() - Constructor for class uk.ac.ic.doc.automed.editor.UserAction
UserActionClass - Class in uk.ac.ic.doc.automed.editor
UserActionClass(Action) - Constructor for class uk.ac.ic.doc.automed.editor.UserActionClass
userActionNodeReidentify(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.reps.HDMTransformations
  The user action to do a node reidentify
userActionRemoveRecursion(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.reps.HDMTransformations
  The user action to do a node reidentify
UserActionResult - Class in uk.ac.ic.doc.automed.editor
UserActionResult() - Constructor for class uk.ac.ic.doc.automed.editor.UserActionResult
userName - Static variable in class uk.ac.ic.doc.automed.MDR
USERNAME - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
username - Variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
Util - Class in uk.ac.ic.doc.automed.matching
Util() - Constructor for class uk.ac.ic.doc.automed.matching.Util
Util - Class in uk.ac.ic.doc.automed.p2p.util
Util() - Constructor for class uk.ac.ic.doc.automed.p2p.util.Util
Util - Class in uk.ac.ic.doc.automed
Util() - Constructor for class uk.ac.ic.doc.automed.Util
Util - Class in uk.ac.ic.doc.rodex.qproc
Utility - Class in uk.ac.ic.doc.automed.reps
  Class offering utility methods for accessing a SchemaObject's scheme.
Utility() - Constructor for class uk.ac.ic.doc.automed.reps.Utility

## V

validateConstraints(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
  Validate the constraints in an HDM schema
validateConstraints(Schema) - Method in class uk.ac.ic.doc.automed.reps.HighLevelToHDM
  This method verifies that the HDM constraints added to this schema are valid
validateReply(AbstractMessage, String) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
validateSchema(String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLSchemaValidator
VALIDATING - Static variable in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapperFactory
  A feature stating whether the parser of the XML file should validate the file against the accompanying XML Schema/DTD.
validQuery(ASG) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapper
  check that the given ASG is a valid query
value() - Method in class uk.ac.bbk.dcs.automed.hdmstore.Span
  Get the value
VALUE - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
VALUE - Static variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
Value - Class in uk.ac.ic.doc.automed.p2p.tree
Value(String) - Constructor for class uk.ac.ic.doc.automed.p2p.tree.Value
Value(Object) - Constructor for class uk.ac.ic.doc.automed.p2p.tree.Value
VALUE_CLASS - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
  A class of token that represents an atomic value in an expression
VALUE_EQUALS - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
VALUE_GREATER_THAN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
VALUE_GREATER_THAN_EQUALS - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
VALUE_LESS_THAN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
VALUE_LESS_THAN_EQUALS - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
VALUE_NOT_EQUALS - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
ValueList - Class in uk.ac.ic.doc.automed.p2p.tree
ValueList(String) - Constructor for class uk.ac.ic.doc.automed.p2p.tree.ValueList
values - Variable in class uk.ac.ic.doc.automed.p2p.tree.MainObjectClasses
varAsMap - Variable in class uk.ac.bbk.dcs.automed.wrappers.IQLTranslator
  Contains mapping between variables and the AS SQL names of the constructs that the variables point to.
varConsMap - Variable in class uk.ac.bbk.dcs.automed.wrappers.IQLTranslator
  Contains mapping between variables and SQL constructs.
variable() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
variable() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
variable() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
variable - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.Cell
varOrCons() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.Schemes
varOrCons() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleComp
varOrCons() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppend
varOrCons() - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonus
VARTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SchemesConstants
VARTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompConstants
VARTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendConstants
VARTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusConstants
VarToken - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.EnvSym
VarToken - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QSym
VARTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
Vectors - Class in uk.ac.ic.doc.automed.matching.modules.bidirectionalmap
Vectors(List) - Constructor for class uk.ac.ic.doc.automed.matching.modules.bidirectionalmap.Vectors
VERBOSE - Static variable in class uk.ac.bbk.dcs.automed.hdmstore.Debug
viewAnalysers - Variable in class uk.ac.ic.doc.rodex.qproc.MiniConQueryRewriter
ViewKey - Class in uk.ac.bbk.dcs.automed.qproc.reformulate
  Implements the key functionality for the atomic and composite views.
ViewKey(SchemeInfo) - Constructor for class uk.ac.bbk.dcs.automed.qproc.reformulate.ViewKey
viewmap - Variable in class uk.ac.bbk.dcs.automed.qproc.reformulate.GAVQueryReformulationProvider
  Viewmap contains the constructs of the source schema in the LHS and the IQL view of each construct of the LHS in the RHS.
views - Variable in class uk.ac.ic.doc.rodex.qproc.QueryRewriter
views - Variable in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
VIRTUAL_TYPE - Static variable in class uk.ac.ic.doc.automed.reps.Schema
  No details are held in the repository about VIRTUAL_TYPE schemas, other than the name of schema.
VirtualSchemaEvolution - Class in uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution
VirtualSchemaEvolution(boolean, Schema, Schema) - Constructor for class uk.ac.bbk.dcs.automed.evolution.schemaModelEvolution.VirtualSchemaEvolution
VirtualSchemaEvolution - Class in uk.ac.bbk.dcs.automed.evolution1
visited() - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraphNode
  Marks the calling node as visited.

## W

waffle(String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.Debug
  Write a verbose level message
WAIT_BEFORE_ACCESS - Static variable in class uk.ac.ic.doc.automed.p2p.overlay.OverlayController
WAIT_NEXT_RECEIVE - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Time to wait (in millisecs) for receival of next fragment in the same trunk (used in UDP transmission involved package fragmentation)
WAIT_NEXT_SEND - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Time to wait (in millisecs) for next send of fragment in the same trunk (used in UDP transmission involved package fragmentation)
waitBeforeAccess() - Static method in class uk.ac.ic.doc.automed.p2p.overlay.OverlayController
  Wait a bit before access (call this method before each call to put() inside a loop)
warn(String) - Static method in class uk.ac.ic.doc.automed.util.Logger
WARNING - Static variable in interface uk.ac.ic.doc.automed.xml.XMLifyConstants
warning(SAXParseException) - Method in class uk.ac.ic.doc.automed.xml.XMLReader
wasVisited() - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraphNode
weakHeadNF(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
  Evaluates the input ASG to weak head normal form.
WHERE - Static variable in interface uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLConstants
WHERE - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLQuery
  The only field should contain a logical operator or a comparison
whereExpr(LinkedList) - Method in class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
WHITESPACE_COLLAPSE - Static variable in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapperFactory
  A feature stating that after the processing implied by replace, contiguous sequences of #x20's are collapsed to a single #x20, and leading and trailing #x20's are removed.
WHITESPACE_REPLACE - Static variable in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapperFactory
  A feature stating that all occurrences of #x9 (tab), #xA (line feed) and #xD (carriage return) are replaced with #x20 (space).
whnfTimeSpent - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
window - Variable in class uk.ac.ic.doc.automed.editor.GUITool
wLayout - Variable in class uk.ac.ic.doc.automed.editor.GUITool
wrap(PeerDescription) - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
  Store the details of a PeerDescription as an AccessMethod in the local repository.
wrap() - Method in class uk.ac.ic.doc.automed.p2p.gui.SchemaInfoFrame
  Store the details from the P2PRegistry as an AccessMethod in the local repository.
WrapInterproOutput - Class in uk.ac.bbk.dcs.automed.xml.experiments.ws
WrapInterproOutput() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.ws.WrapInterproOutput
WRAPPERTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.schemes.SchemesConstants
WRAPPERTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleComp.SimpleCompConstants
WRAPPERTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppend.SimpleCompAppendConstants
WRAPPERTOKEN - Static variable in interface uk.ac.bbk.dcs.automed.qproc.annotate.grammars.simpleCompAppendMonus.SimpleCompAppendMonusConstants
WrapperTool - Class in uk.ac.ic.doc.automed.editor
  A WrapperTool instance provides a window in which as user may enter the details required to create an AccessMethod describing a data source, and then calls an AutoMedWrapper class to create a source oriented schema in the AutoMed repository that represents the data source.
WrapperTool(Gui) - Constructor for class uk.ac.ic.doc.automed.editor.WrapperTool
WrapUniProtOutput - Class in uk.ac.bbk.dcs.automed.xml.experiments.ws
WrapUniProtOutput() - Constructor for class uk.ac.bbk.dcs.automed.xml.experiments.ws.WrapUniProtOutput
write(OutputStream, int) - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
write(OutputStream) - Method in class uk.ac.ic.doc.automed.reps.Construct
write(PrintWriter) - Method in class uk.ac.ic.doc.automed.reps.Construct
write(OutputStream) - Method in class uk.ac.ic.doc.automed.reps.ConstructScheme
write(PrintWriter) - Method in class uk.ac.ic.doc.automed.reps.ConstructScheme
write(OutputStream) - Method in class uk.ac.ic.doc.automed.reps.Model
write(PrintWriter) - Method in class uk.ac.ic.doc.automed.reps.Model
write() - Method in class uk.ac.ic.doc.automed.reps.Pathway
  Write out the series of transformations found in this pathway to the standard output in a human readable form
write(OutputStream) - Method in class uk.ac.ic.doc.automed.reps.Pathway
write(PrintWriter, String) - Method in class uk.ac.ic.doc.automed.reps.Pathway
write(OutputStream, int) - Method in class uk.ac.ic.doc.automed.reps.Pathway
write() - Method in class uk.ac.ic.doc.automed.reps.Schema
  Write to the standard out a text representation of this Schema object, in a form suitable for human interpretation, and suitable for being used as the input to `#read()`
write(OutputStream) - Method in class uk.ac.ic.doc.automed.reps.Schema
write(OutputStream, int) - Method in class uk.ac.ic.doc.automed.reps.Schema
write(PrintWriter) - Method in class uk.ac.ic.doc.automed.reps.Schema
write(OutputStream) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
write(PrintWriter) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
write() - Method in class uk.ac.ic.doc.automed.reps.Transformation
write(OutputStream) - Method in class uk.ac.ic.doc.automed.reps.Transformation
write(PrintWriter) - Method in class uk.ac.ic.doc.automed.reps.Transformation
write(PrintWriter, String) - Method in class uk.ac.ic.doc.automed.reps.Transformation
WRITE_DELAY - Static variable in class uk.ac.ic.doc.automed.util.db.Constants
  default write_delay value for HSQLDB
writeAttribute(String, boolean) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
writeAttribute(String, byte) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
writeAttribute(String, char) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
writeAttribute(String, double) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
writeAttribute(String, int) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
writeAttribute(String, float) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
writeAttribute(String, long) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
writeAttribute(String, short) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
writeAttribute(String, Object) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
writeAttribute(String, String) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
writeCDATA(String) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
writeCharData(String) - Method in class uk.ac.ic.doc.automed.xml.XMLWriter
writeDOM(Document, File) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
writeDOM(Node, File) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
writeDOM(Document, String) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
  Serializes the input DOM representation into file "url".
writeDOM(Document, String, String) - Static method in class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
  Serializes the input DOM representation into file "fileName" in path "filePath".
writeInFile(AbstractMessage) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
writeSimilarSchemaElementPairs(String, SimilarSchemaElementPair[]) - Static method in class uk.ac.ic.doc.automed.matching.SimilarSchemaElementPair
writeToRepository() - Method in class uk.ac.ic.doc.automed.tml.TempPathway
writeToRepository(boolean) - Method in class uk.ac.ic.doc.automed.tml.TempPathway
  Write an optimised pathway to the repository
WRONG_FORMAT - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants

## X

x - Variable in class uk.ac.ic.doc.automed.editor.autolayout.DPoint
xInset - Static variable in class uk.ac.ic.doc.automed.editor.DrawVertex
XML_COLOUR - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_MODEL_CONS - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_MODEL_PREFIX - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_COLOUR - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_ICON_ATTRIBUTE - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_ICON_COLLAPSED - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_ICON_DERIVED_TYPE - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_ICON_DIRECTORY - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
  Icon filenames
XML_SCHEMA_ICON_ELEMENT - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_ICON_EXPANDED - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_ICON_KEYREF - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_ICON_PRIMARY_KEY - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_INTEGER - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_MODEL_ATTRIBUTE - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_MODEL_COMPLEX_ELEMENT - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_MODEL_DEFAULT_KEY - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_MODEL_FK_SUFFIX - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_MODEL_KEYREF - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_MODEL_NAME - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
  Constants
XML_SCHEMA_MODEL_PARENT - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_MODEL_PK_SUFFIX - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_MODEL_PREFIX - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_MODEL_PRIMARY_KEY - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_MODEL_ROOT - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_MODEL_SIMPLE_ELEMENT - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_MODEL_TYPE_SUFFIX - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_PI - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_UNBOUNDED - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_VALUE_DELIMITER - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
XMLConstants - Class in uk.ac.bbk.dcs.automed.xml
XMLConstants() - Constructor for class uk.ac.bbk.dcs.automed.xml.XMLConstants
XMLDSSDOM - Class in uk.ac.bbk.dcs.automed.xml.wrappers
  The XMLDataSourceSchema class represents the DataSource Schema of an XML file using DOM.
XMLDSSDOMFromXSD - Class in uk.ac.bbk.dcs.automed.xml.wrappers
  Parses an XML Schema and creates the corresponding XMLDSS in DOM format.
XMLDSSDOMFromXSD(String, String, boolean) - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSDOMFromXSD
XMLDSSDOMFromXSD(String, String) - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSDOMFromXSD
XMLDSSDOMMaterialiser - Class in uk.ac.bbk.dcs.automed.xml.materialisation
XMLDSSDOMMaterialiser(Schema, Schema[], String, String, QueryProcessorConfiguration) - Constructor for class uk.ac.bbk.dcs.automed.xml.materialisation.XMLDSSDOMMaterialiser
xmldssExtractionMethod - Variable in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapperFactory
XMLDSSFromAMSchema - Class in uk.ac.bbk.dcs.automed.xml.wrappers
  Class that creates a DOM XMLDSS schema from an underlying AutoMed XMLDSS schema.
XMLDSSFromAMSchema() - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSFromAMSchema
XMLDSSFromDTD - Class in uk.ac.bbk.dcs.automed.xml.wrappers
XMLDSSFromDTD() - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSFromDTD
XMLDSSFromRDB - Class in uk.ac.bbk.dcs.automed.xml.relational
  Create graph
XMLDSSFromRDB(String, String, String, String, String, String) - Constructor for class uk.ac.bbk.dcs.automed.xml.relational.XMLDSSFromRDB
XMLDSSFromXMLSchema - Class in uk.ac.bbk.dcs.automed.xml.wrappers
  Parses an XML Schema and creates the corresponding XMLDSS in DOM format.
XMLDSSGraph - Class in uk.ac.bbk.dcs.automed.xml.xmldssGraph
  Class Task Description
XMLDSSGraph(Document) - Constructor for class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraph
XMLDSSGraphAttribute - Class in uk.ac.bbk.dcs.automed.xml.xmldssGraph
  Class Task Description
XMLDSSGraphElement - Class in uk.ac.bbk.dcs.automed.xml.xmldssGraph
  Class Task Description
XMLDSSGraphException - Exception in uk.ac.bbk.dcs.automed.xml.xmldssGraph
  Class Task Description
XMLDSSGraphException(String) - Constructor for exception uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphException
XMLDSSGraphException(String, Exception) - Constructor for exception uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSGraphException
  Creates an XMLException when it is acting as a wrapper for other Exceptions.
XMLDSSGraphText - Class in uk.ac.bbk.dcs.automed.xml.xmldssGraph
  Class Task Description
XMLDSSMaterialiser - Class in uk.ac.bbk.dcs.automed.xml.materialisation
  Class Task Description
XMLDSSMaterialiser(Schema, Schema[], String, String, QueryProcessorConfiguration) - Constructor for class uk.ac.bbk.dcs.automed.xml.materialisation.XMLDSSMaterialiser
XMLDSSNXDB - Class in uk.ac.bbk.dcs.automed.xml.wrappers
  Class Task Description
XMLDSSRestructurer - Class in uk.ac.bbk.dcs.automed.xml.xmldssGraph
  Class that automatically integrates two fully conformed AutoMed XML DataSource Schemas S1 and S2.
XMLDSSRestructurer(Schema, Document, Schema, Document) - Constructor for class uk.ac.bbk.dcs.automed.xml.xmldssGraph.XMLDSSRestructurer
XMLDSSSAX - Class in uk.ac.bbk.dcs.automed.xml.wrappers
  The XMLDataSourceSchema class represents the DataSource Schema of an XML file using SAX.
XMLDSSSAXMaterialiser - Class in uk.ac.bbk.dcs.automed.xml.materialisation
  Class Task Description
XMLDSSSAXMaterialiser() - Constructor for class uk.ac.bbk.dcs.automed.xml.materialisation.XMLDSSSAXMaterialiser
XMLException - Exception in uk.ac.bbk.dcs.automed.xml
  An exception relating to the XML package.
XMLException(String) - Constructor for exception uk.ac.bbk.dcs.automed.xml.XMLException
XMLException(String, Exception) - Constructor for exception uk.ac.bbk.dcs.automed.xml.XMLException
  Creates an XMLException when it is acting as a wrapper for other Exceptions.
XMLException - Exception in uk.ac.ic.doc.automed.xml
XMLException(String) - Constructor for exception uk.ac.ic.doc.automed.xml.XMLException
xmlExtension - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
XMLFileFilter - Class in uk.ac.ic.doc.automed.wrappers
  A convenience implementation of FileFilter that filters out all files except for those type extensions that it knows about.
XMLFileFilter() - Constructor for class uk.ac.ic.doc.automed.wrappers.XMLFileFilter
  Creates a file filter.
XMLFileFilter(String) - Constructor for class uk.ac.ic.doc.automed.wrappers.XMLFileFilter
  Creates a file filter that accepts files with the given extension.
XMLFileFilter(String, String) - Constructor for class uk.ac.ic.doc.automed.wrappers.XMLFileFilter
  Creates a file filter that accepts the given file type.
XMLFileFilter(String[]) - Constructor for class uk.ac.ic.doc.automed.wrappers.XMLFileFilter
  Creates a file filter from the given string array.
XMLFileFilter(String[], String) - Constructor for class uk.ac.ic.doc.automed.wrappers.XMLFileFilter
  Creates a file filter from the given string array and description.
XMLFunctionTable - Class in uk.ac.bbk.dcs.automed.xml.functions
  FunctionTable containing XML-related IQL functions.
XMLFunctionTable() - Constructor for class uk.ac.bbk.dcs.automed.xml.functions.XMLFunctionTable
XmlHandler - Class in uk.ac.ic.doc.automed.p2p.util
XmlHandler() - Constructor for class uk.ac.ic.doc.automed.p2p.util.XmlHandler
XMLifyConstants - Interface in uk.ac.ic.doc.automed.xml
XMLifyConstants.IgnoreNextElementException - Exception in uk.ac.ic.doc.automed.xml
XMLifyConstants.IgnoreNextElementException() - Constructor for exception uk.ac.ic.doc.automed.xml.XMLifyConstants.IgnoreNextElementException
XMLMaterialisationException - Exception in uk.ac.bbk.dcs.automed.xml.materialisation
  An exception relating to the XML package.
XMLMaterialisationException(String) - Constructor for exception uk.ac.bbk.dcs.automed.xml.materialisation.XMLMaterialisationException
XMLMaterialisationException(String, Exception) - Constructor for exception uk.ac.bbk.dcs.automed.xml.materialisation.XMLMaterialisationException
  Creates an XMLException when it is acting as a wrapper for other Exceptions.
XMLNotFoundException - Exception in uk.ac.bbk.dcs.automed.xml
  An exception relating to something not found in an XML context.
XMLNotFoundException(String) - Constructor for exception uk.ac.bbk.dcs.automed.xml.XMLNotFoundException
XMLNotFoundException(String, Exception) - Constructor for exception uk.ac.bbk.dcs.automed.xml.XMLNotFoundException
  Creates an XMLNotFoundException when it is acting as a wrapper for other Exceptions.
XMLOutputter - Class in uk.ac.ic.doc.automed.xmlschema.output
XMLOutputter(Document, GAVQueryReformulationProvider, String) - Constructor for class uk.ac.ic.doc.automed.xmlschema.output.XMLOutputter
  Creates a new instance of XMLOutputter
XMLQPConfiguration - Class in uk.ac.bbk.dcs.automed.xml
XMLQPConfiguration() - Constructor for class uk.ac.bbk.dcs.automed.xml.XMLQPConfiguration
XMLReader - Class in uk.ac.ic.doc.automed.xml
XMLReader() - Constructor for class uk.ac.ic.doc.automed.xml.XMLReader
XMLReader(int) - Constructor for class uk.ac.ic.doc.automed.xml.XMLReader
XMLReaderException - Exception in uk.ac.ic.doc.automed.xml
XMLReaderException(String) - Constructor for exception uk.ac.ic.doc.automed.xml.XMLReaderException
XMLRestructurer - Class in uk.ac.bbk.dcs.automed.xml
  Class that automatically integrates two fully conformed AutoMed XML DataSource Schemas S1 and S2.
XMLRestructurer(Schema, Document, Schema, Document, Document) - Constructor for class uk.ac.bbk.dcs.automed.xml.XMLRestructurer
XMLRestructuringException - Exception in uk.ac.bbk.dcs.automed.xml
  Class Task Description
XMLRestructuringException(String) - Constructor for exception uk.ac.bbk.dcs.automed.xml.XMLRestructuringException
XMLRestructuringException(String, Exception) - Constructor for exception uk.ac.bbk.dcs.automed.xml.XMLRestructuringException
XMLSchemaBuilder - Class in uk.ac.ic.doc.automed.xmlschema
XMLSchemaBuilder(Schema) - Constructor for class uk.ac.ic.doc.automed.xmlschema.XMLSchemaBuilder
  Creates a new instance of XMLSchemaBuilder based on schema
XMLSchemaEditor - Class in uk.ac.ic.doc.automed.editor
XMLSchemaEditor() - Constructor for class uk.ac.ic.doc.automed.editor.XMLSchemaEditor
  Creates new form XMLSchemaEditor
XMLSchemaEditor(Schema, Document) - Constructor for class uk.ac.ic.doc.automed.editor.XMLSchemaEditor
  Creates new XMLSchemaEditor if we have the doc and schema already
XMLSchemaOutputter - Class in uk.ac.ic.doc.automed.reps
XMLSchemaOutputter(Document) - Constructor for class uk.ac.ic.doc.automed.reps.XMLSchemaOutputter
  Creates a new instance of XMLSchemaOutputter
XMLSchemaOutputter - Class in uk.ac.ic.doc.automed.xmlschema.output
XMLSchemaOutputter(String) - Constructor for class uk.ac.ic.doc.automed.xmlschema.output.XMLSchemaOutputter
  Creates a new instance of XMLSchemaOutputter
XMLSchemaToXSDOM() - Method in class uk.ac.ic.doc.automed.reps.AutoMedToXSDOM
XMLSchemaValidator - Class in uk.ac.bbk.dcs.automed.xml.wrappers
  Class Task Description
XMLSchemaValidator() - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.XMLSchemaValidator
XMLSchemaWrapper - Class in uk.ac.ic.doc.automed.wrappers
XMLSchemaWrapper() - Constructor for class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapper
  Creates a new, empty instance of XMLSchemaWrapper
XMLSchemaWrapper(AccessMethod, String) - Constructor for class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapper
  This constructor is used when querying the schema
XMLSchemaWrapperFactory - Class in uk.ac.ic.doc.automed.wrappers
XMLSchemaWrapperFactory() - Constructor for class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
  Creates a new instance of XMLSchemaWrapperFactory
XMLSyntax - Class in uk.ac.ic.doc.automed.xml
XMLSyntax() - Constructor for class uk.ac.ic.doc.automed.xml.XMLSyntax
XMLSyntaxException - Exception in uk.ac.ic.doc.automed.xml
XMLSyntaxException(String) - Constructor for exception uk.ac.ic.doc.automed.xml.XMLSyntaxException
XMLToken - Class in uk.ac.ic.doc.automed.xml
XMLToken(Locator, int, String, Object) - Constructor for class uk.ac.ic.doc.automed.xml.XMLToken
XMLUtilities - Class in uk.ac.bbk.dcs.automed.xml.utilities
  Implements useful operation on nodes.
XMLUtilities() - Constructor for class uk.ac.bbk.dcs.automed.xml.utilities.XMLUtilities
XMLWrapper - Class in uk.ac.bbk.dcs.automed.xml.wrappers
  XMLWrapper class is a wrapper class for the AutoMed Repository.
XMLWrapperFactory - Class in uk.ac.bbk.dcs.automed.xml.wrappers
  XMLWrapperFactory class.
XMLWrapperFactory() - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapperFactory
  Creates a new XMLWrapperFactory and sets the model name.
XMLWriter - Class in uk.ac.ic.doc.automed.xml
XMLWriter() - Constructor for class uk.ac.ic.doc.automed.xml.XMLWriter
XMLWriterException - Exception in uk.ac.ic.doc.automed.xml
XMLWriterException(String) - Constructor for exception uk.ac.ic.doc.automed.xml.XMLWriterException
xpathForAttributeQuery(Document, String, String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
xpathForElementQuery(Document, String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
xpathForTextQuery(Document, String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
XPathSelector - Class in uk.ac.ic.doc.automed.xmlschema.output
XPathSelector(String, String) - Constructor for class uk.ac.ic.doc.automed.xmlschema.output.XPathSelector
  Creates a new instance of XPathSelector
XPathSelector(String, String, String) - Constructor for class uk.ac.ic.doc.automed.xmlschema.output.XPathSelector
  Creates a new instance of XPathSelector for a keyref with a refers element
XQuery2IQL - Class in uk.ac.bbk.dcs.automed.qproc.translators.xquery
XQuery2IQL(StringReader, Document) - Constructor for class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
XQuery2IQL(InputStream) - Constructor for class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
XQuery2IQL(Reader) - Constructor for class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
XQuery2IQL(XQuery2IQLTokenManager) - Constructor for class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQL
XQuery2IQLConstants - Interface in uk.ac.bbk.dcs.automed.qproc.translators.xquery
XQuery2IQLTokenManager - Class in uk.ac.bbk.dcs.automed.qproc.translators.xquery
XQuery2IQLTokenManager(SimpleCharStream) - Constructor for class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLTokenManager
XQuery2IQLTokenManager(SimpleCharStream, int) - Constructor for class uk.ac.bbk.dcs.automed.qproc.translators.xquery.XQuery2IQLTokenManager
XSDOMObject - Class in uk.ac.ic.doc.automed.wrappers.xsdomobject
XSDOMObject() - Constructor for class uk.ac.ic.doc.automed.wrappers.xsdomobject.XSDOMObject
  Creates a new instance of XSDOMObject

## Y

y - Variable in class uk.ac.ic.doc.automed.editor.autolayout.DPoint
YATTA_MODEL_ROOTNODE - Static variable in class uk.ac.ic.doc.automed.wrappers.YattaWrapperFactory
YATTA_MODEL_ROOTORYATTA - Static variable in class uk.ac.ic.doc.automed.wrappers.YattaWrapperFactory
YATTA_MODEL_SEQUENCE - Static variable in class uk.ac.ic.doc.automed.wrappers.YattaWrapperFactory
YATTA_MODEL_YATTANODE - Static variable in class uk.ac.ic.doc.automed.wrappers.YattaWrapperFactory
YattaDrawLinkNodalLink - Class in uk.ac.ic.doc.automed.editor.drawables
YattaDrawLinkNodalLink(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.drawables.YattaDrawLinkNodalLink
YattaDrawSequence - Class in uk.ac.ic.doc.automed.editor.drawables
YattaDrawSequence(EditorPanel, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.drawables.YattaDrawSequence
YattaDrawSequence(EditorPanel, Positionable, Positionable[]) - Constructor for class uk.ac.ic.doc.automed.editor.drawables.YattaDrawSequence
YattaQuery - Class in uk.ac.ic.doc.automed.wrappers
YattaQuery(Object[], String) - Constructor for class uk.ac.ic.doc.automed.wrappers.YattaQuery
YattaQueryResult - Class in uk.ac.ic.doc.automed.wrappers
YattaQueryResult(int) - Constructor for class uk.ac.ic.doc.automed.wrappers.YattaQueryResult
YattaWrapper - Class in uk.ac.ic.doc.automed.wrappers
  A YATTA wrapper for semistructured data source.
YattaWrapper() - Constructor for class uk.ac.ic.doc.automed.wrappers.YattaWrapper
YattaWrapper(AccessMethod, String) - Constructor for class uk.ac.ic.doc.automed.wrappers.YattaWrapper
YattaWrapperFactory - Class in uk.ac.ic.doc.automed.wrappers
  A YattaWrapperFactory class able to produce YattaWrapper instances, together with any data (schema, ssdformat, etc.) that the wrapper requires to be present in the repository.
YattaWrapperFactory() - Constructor for class uk.ac.ic.doc.automed.wrappers.YattaWrapperFactory
yInset - Static variable in class uk.ac.ic.doc.automed.editor.DrawVertex
YOUR_ADDRESS - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
yourAddress - Variable in class uk.ac.ic.doc.rodex.p2p.messages.applicationlayer.HelloMsg

## Z

zeroOffset - Static variable in class uk.ac.ic.doc.automed.editor.DrawVertex

## _

_action_table - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.EnvParser
  Parse-action table.
_action_table - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QParser
  Parse-action table.
_annProvider - Variable in class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
_cache - Static variable in class uk.ac.bbk.dcs.automed.qproc.QueryProcessor
_cacheOn - Variable in class uk.ac.bbk.dcs.automed.qproc.QueryProcessor
_containmentQuery - Variable in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
_dataSourceSchemas - Variable in class uk.ac.bbk.dcs.automed.xml.materialisation.Materialiser
_dataSourceSchemas - Variable in class uk.ac.bbk.dcs.automed.xml.materialisation.XMLDSSMaterialiser
_evalProvider - Variable in class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
_file - Variable in class uk.ac.bbk.dcs.automed.xml.materialisation.Materialiser
_file - Variable in class uk.ac.bbk.dcs.automed.xml.materialisation.XMLDSSMaterialiser
_ft - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
_globalSchema - Variable in class uk.ac.bbk.dcs.automed.xml.materialisation.Materialiser
_globalSchema - Variable in class uk.ac.bbk.dcs.automed.xml.materialisation.XMLDSSMaterialiser
_instanceCache - Static variable in class uk.ac.bbk.dcs.automed.qproc.reformulate.AtomicViewMap
_instanceCache - Static variable in class uk.ac.bbk.dcs.automed.qproc.reformulate.CompositeViewMap
_logger - Variable in class uk.ac.bbk.dcs.automed.qproc.QueryProcessor
_logger - Static variable in class uk.ac.bbk.dcs.automed.qproc.reformulate.AtomicViewMap
_logger - Static variable in class uk.ac.bbk.dcs.automed.qproc.reformulate.CompositeViewMap
_logger - Variable in class uk.ac.bbk.dcs.automed.qproc.reformulate.QueryReformulator
_logger - Variable in class uk.ac.bbk.dcs.automed.qproc.TempQueryProcessor
_logger - Variable in class uk.ac.bbk.dcs.automed.xml.materialisation.Materialiser
_logger - Variable in class uk.ac.bbk.dcs.automed.xml.materialisation.XMLDSSMaterialiser
_logger - Variable in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapperFactory
_name - Variable in class uk.ac.bbk.dcs.automed.qproc.reformulate.AtomicViewMap
_name - Variable in class uk.ac.bbk.dcs.automed.qproc.reformulate.CompositeViewMap
_optProvider - Variable in class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
_outputQuery - Variable in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
_production_table - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.EnvParser
  Production table.
_production_table - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QParser
  Production table.
_qa - Variable in class uk.ac.ic.doc.rodex.qproc.QueryRewriter
_qp - Variable in class uk.ac.bbk.dcs.automed.xml.materialisation.Materialiser
_qp - Variable in class uk.ac.bbk.dcs.automed.xml.materialisation.XMLDSSMaterialiser
_qpc - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
_qpc - Variable in class uk.ac.bbk.dcs.automed.qproc.reformulate.AtomicViewMap
_qpc - Variable in class uk.ac.bbk.dcs.automed.qproc.reformulate.CompositeViewMap
_qpc - Variable in class uk.ac.bbk.dcs.automed.xml.materialisation.Materialiser
_qpc - Variable in class uk.ac.bbk.dcs.automed.xml.materialisation.XMLDSSMaterialiser
_qpCache - Variable in class uk.ac.bbk.dcs.automed.qproc.evaluate.Evaluator
_reduce_table - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.EnvParser
  `reduce_goto` table.
_reduce_table - Static variable in class uk.ac.bbk.dcs.automed.qproc.iql.QParser
  `reduce_goto` table.
_refProvider - Variable in class uk.ac.bbk.dcs.automed.qproc.OldQueryProcessor
_remainderQuery - Variable in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
_resultObjs - Variable in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
_resultQuery - Variable in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
_resultStr - Variable in class uk.ac.ic.doc.rodex.qproc.QueryRewriterResult
_schemaUIDDoc - Variable in class uk.ac.bbk.dcs.automed.xml.materialisation.Materialiser
_schemaUIDDoc - Variable in class uk.ac.bbk.dcs.automed.xml.materialisation.XMLDSSMaterialiser
_sicp - Variable in class uk.ac.ic.doc.rodex.p2p.Peer
_sourceSchema - Variable in class uk.ac.bbk.dcs.automed.qproc.reformulate.AtomicViewMap
_sourceSchema - Variable in class uk.ac.bbk.dcs.automed.qproc.reformulate.CompositeViewMap
_targetSchema - Variable in class uk.ac.bbk.dcs.automed.qproc.reformulate.AtomicViewMap
_targetSchema - Variable in class uk.ac.bbk.dcs.automed.qproc.reformulate.CompositeViewMap
_useGenericRoot - Variable in class uk.ac.bbk.dcs.automed.xml.materialisation.Materialiser
_useGenericRoot - Variable in class uk.ac.bbk.dcs.automed.xml.materialisation.XMLDSSMaterialiser
_viewMap - Variable in class uk.ac.bbk.dcs.automed.qproc.reformulate.AtomicViewMap
_viewMap - Variable in class uk.ac.bbk.dcs.automed.qproc.reformulate.CompositeViewMap

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