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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
AbsoluteEuclideanClassifier(Cluster[], double) - Constructor for class uk.ac.ic.doc.automed.matching.modules.AbsoluteEuclideanClassifier
AbstractClient - Class in uk.ac.ic.doc.automed.p2p.communication
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() - Constructor for class uk.ac.ic.doc.automed.p2p.communication.AbstractDaemon
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
AbstractPeer - Class in uk.ac.ic.doc.automed.p2p.communication
AbstractPeer(RequestListener) - Constructor for class uk.ac.ic.doc.automed.p2p.communication.AbstractPeer
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(RequestListener) - Constructor for class uk.ac.ic.doc.automed.p2p.communication.AbstractServer
AbstractServer(RequestListener, int, int, int, int) - 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`.
Accessories - Class in uk.ac.ic.doc.automed.templates.gui
Accessories() - Constructor for class uk.ac.ic.doc.automed.templates.gui.Accessories
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.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.EnvParser
  Instance of action encapsulation class.
action_obj - Variable in class uk.ac.bbk.dcs.automed.qproc.QParser
  Instance of action encapsulation class.
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.EnvParser
  Access to parse-action table.
action_table() - Method in class uk.ac.bbk.dcs.automed.qproc.QParser
  Access to parse-action table.
actionARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
actionARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.RemovingStatement
actionARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.RenameStatement
actionName - Variable in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
actionName - Variable in class uk.ac.ic.doc.automed.templates.wrapper.RemovingStatement
actionName - Variable in class uk.ac.ic.doc.automed.templates.wrapper.RenameStatement
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.XMLSchemaEditor
actionPerformed(ActionEvent) - Method in class uk.ac.ic.doc.automed.gui.ArgPane
actionPerformed(ActionEvent) - Method in class uk.ac.ic.doc.automed.gui.ArgumentsDialog
actionPerformed(ActionEvent) - Method in class uk.ac.ic.doc.automed.gui.IntegrateDialog
actionPerformed(ActionEvent) - Method in class uk.ac.ic.doc.automed.gui.LoadDialog
actionPerformed(ActionEvent) - Method in class uk.ac.ic.doc.automed.gui.SchemaTool
actionPerformed(ActionEvent) - Method in class uk.ac.ic.doc.automed.p2p.gui.CacheViewerFrame
  Implements `ActionListener` interface
actionPerformed(ActionEvent) - Method in class uk.ac.ic.doc.automed.p2p.gui.LoginFrame
actionPerformed(ActionEvent) - Method in class uk.ac.ic.doc.automed.templates.gui.LoadDialog
actionPerformed(ActionEvent) - Method in class uk.ac.ic.doc.automed.templates.gui.SchemaFrame
actionPerformed(ActionEvent) - Method in class uk.ac.ic.doc.automed.templates.gui.TemplateDialogueLauncher
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(int, ModelingStatement) - Method in class uk.ac.ic.doc.automed.reps.ModelingProgram
  Inserts the specified statement at the specified position(program counter) in this program.
add(ModelingStatement) - Method in class uk.ac.ic.doc.automed.reps.ModelingProgram
  Appends the specified statement to the end of this ModelingProgram.
add - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
ADD(Construct, Object[], TemplateCompilerSimulator.FUNCTION, TemplateCompilerSimulator.CONSTRAINTS) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
ADD(Construct, Object[]) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
ADD(Construct, Object[], TemplateCompilerSimulator.FUNCTION) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
ADD(Construct, Object[], TemplateCompilerSimulator.CONSTRAINTS) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
ADD(Construct, Object[], TemplateCompilerSimulator.CONSTRAINTS, TemplateCompilerSimulator.FUNCTION) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
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.
addArgument(Schema) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgumentList
addArgument(SchemaObject) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgumentList
addArgument(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgumentList
addArgument(String[]) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgumentList
addArgument(SchemaObject[]) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgumentList
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.
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`
addChild(TreeNode) - Method in class uk.ac.bbk.dcs.automed.graph.TreeNode
  Adds a node to the set of children of the node
addChild(TreeNode) - Method in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
addChild(Element) - Method in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.ComplexType
  Add a child element
addChild(ArrayList) - Method in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.ComplexType
  Add a list of child elements
addChildAttribute(Attribute) - Method in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.ComplexType
  Add a child Attribute
addChildAttributes(ArrayList) - Method in class uk.ac.ic.doc.automed.xmlschema.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.
addConstraint(HDMConstraint) - Method in class uk.ac.ic.doc.automed.reps.HDMNetwork
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
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(ElementVectorRepresentation) - Method in class uk.ac.ic.doc.automed.matching.modules.Cluster
addElement(ElementVectorRepresentation) - Method in class uk.ac.ic.doc.automed.matching.modules.Clusterer
addElement(HDMElement) - Method in class uk.ac.ic.doc.automed.reps.HDMNetwork
addElements(ElementVectorRepresentation[]) - Method in class uk.ac.ic.doc.automed.matching.modules.Clusterer
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
  Adds a string and function pair to the table.
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.
addInstance(String) - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
  Appends the specified instance to the instances of this `SchemaElement` object.
addKey(XSDOMObject, XSDOMObject) - Method in class uk.ac.ic.doc.automed.xmlschema.transform.XMLSchemaTransform
addKeyRef(XSDOMObject, XSDOMObject, XSDOMObject, XSDOMObject) - Method in class uk.ac.ic.doc.automed.xmlschema.transform.XMLSchemaTransform
  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(CacheListener) - Method in class uk.ac.ic.doc.automed.p2p.QueryCache
  Register a listener for handling cache-related events
addListener(StateChangedListener) - Method in class uk.ac.ic.doc.automed.p2p.state.PeerStateHandler
  Register an interested listener
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
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.transform.XMLSchemaTransform
  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
addNewInputItem(boolean, int) - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
addNewInputItemAndRedisplay(boolean, int) - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
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.
addPeer(String[]) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
addPeer(String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
addPeerSchema(String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
addPI(String) - Method in class uk.ac.ic.doc.automed.xmlschema.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
addQuery(String, Object) - Method in class uk.ac.ic.doc.automed.p2p.QueryCache
  Add a new query to cache.
addQuerySchemaObjectsToConditions(ArrayList) - Method in class uk.ac.ic.doc.automed.tml.TML
addReferencedArgument(TTemplateInputArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
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
ADDRESS - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
addRootType(ComplexType) - Method in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.Document
  Add a single root type
addRootTypes(ArrayList) - Method in class uk.ac.ic.doc.automed.xmlschema.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
addSchemeProfile(String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  Add schema-model-peer association
AddStatement - Class in uk.ac.ic.doc.automed.templates.wrapper
AddStatement() - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.AddStatement
addSubGraph(DirectedGraph) - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraph
  Adds a subGraph in the set of subGraphs.
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
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
addVertex(HDMElement) - Method in class uk.ac.ic.doc.automed.reps.HDMEdge
ADVANCED_ALGORITHM - Static variable in class uk.ac.ic.doc.automed.tml.PathwayOptimiser
ADVERTISE - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
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
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.
ALIAS(TemplateCompilerSimulator.ITEM, String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
aliases - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
ALL - Static variable in class uk.ac.ic.doc.automed.editor.MatchingTool
allArguments - Variable in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
allArgumentsSet - Variable in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
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
AMQfromIQL(ASG) - Method in class uk.ac.bbk.dcs.automed.wrappers.SQLTranslator
AMQfromIQL(ASG) - Method in class uk.ac.bbk.dcs.automed.wrappers.Translator
And - Class in uk.ac.bbk.dcs.automed.qproc.functions
And() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.And
AND - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLQuery
  SQL logical AND binary operator for use within WHERE expressions
ANNOTATION_COMP_ARG - Static variable in class uk.ac.bbk.dcs.automed.qproc.Cell
ANNOTATION_COMP_ROOT - Static variable in class uk.ac.bbk.dcs.automed.qproc.Cell
ANNOTATION_NEITHER - Static variable in class uk.ac.bbk.dcs.automed.qproc.Cell
ANNOTATION_UNKNOWN - Static variable in class uk.ac.bbk.dcs.automed.qproc.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
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 - Class in uk.ac.bbk.dcs.automed.qproc.functions
Append() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Append
AppendMonusReorganiser - Class in uk.ac.bbk.dcs.automed.qproc.optimise
application - Variable in class uk.ac.ic.doc.automed.p2p.gui.MainFrame
apply - Static variable in class uk.ac.bbk.dcs.automed.qproc.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.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
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.
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
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.
Arc - Class in uk.ac.ic.doc.automed.gui
Arc() - Constructor for class uk.ac.ic.doc.automed.gui.Arc
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
ARG_ACTION_IN_PRIMITIVE - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the PRIMITIVE_TRANSFORMATION_STATEMENT for action
ARG_ARGSEQUENCES_IN_FOREACH - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the FOREACH_STATEMENT for argument sequence ID of the lists to iterate
ARG_ARGSINGLETONS_IN_FOREACH - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the FOREACH_STATEMENT for argument sequence ID of singleton arguments
ARG_ARGUMENTS_IN_INVOCATION - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the INVOCATION_STATEMENT for the argument sequnce ID
ARG_CID_IN_NEWOBJECT - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the NEW_OBJECT_STATEMENT for CID(Construct ID)
ARG_CONCATENATIONOP_IN_DEFINE_STRING - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position int the DEFINE_STRING statement for concatenation operator of the list of string fragments.
ARG_CONSTRAINTS_IN_PRIMITIVE - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the PRIMITIVE_TRANSFORMATION_STATEMENT for constraints
ARG_FROMOBJ_IN_PRIMITIVE - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the PRIMITIVE_TRANSFORMATION_STATEMENT for FromObject OBID
ARG_FROMSCHEMA_IN_CONTRACT - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the CONTRACT_STATEMENT for the initial schema ID
ARG_FROMSCHEMA_IN_PRIMITIVE - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the PRIMITIVE_TRANSFORMATION_STATEMENT for FromSchema SID
ARG_FUNCTION_IN_PRIMITIVE - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the PRIMITIVE_TRANSFORMATION_STATEMENT for function
ARG_INDEX_IN_INDEX_LIST - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
ARG_ISTEMP_IN_NEWOBJECT - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the NEW_OBJECT_STATEMENT for IsTemp
ARG_LIST_IN_INDEX_LIST - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
ARG_LISTPOINTER_IN_CREATE_LIST - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
ARG_LISTPOINTER_IN_DEFINE_STRING - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the DEFINE_STRING statement for the (pointer to the) list of string fragments that will make up the resulting string when concatenated
ARG_OBID_IN_NEWOBJECT - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the NEW_OBJECT_STATEMENT for OBID(Object ID)
ARG_OBID_IN_SCHEMELIST - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
ARG_OBJECT_IN_CONTRACT - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the CONTRACT_STATEMENT for object ID
ARG_RESULT_IN_DEFINE_STRING - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the DEFINE_STRING statement for the resulting string
ARG_RESULT_IN_INDEX_LIST - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
ARG_RESULT_IN_SCHEMELIST - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
ARG_RETURNED_ARGS_START_IN_FOREACH - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the FOREACH_STATEMENT where the returned argument sequences start
ARG_SCHEMA_IN_CREATE_LIST - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
ARG_SCHEMA_IN_DEFINE_STRING - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position int the DEFINE_STRING statement for the initial and final schema.
ARG_SCHEMA_IN_FOREACH - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the FOREACH_STATEMENT for current schema SID
ARG_SCHEMA_IN_INDEX_LIST - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
ARG_SCHEMA_IN_SCHEMELIST - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
ARG_SCHEME_IN_NEWOBJECT - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the NEW_OBJECT_STATEMENT for the argument sequence ID of the object's scheme
ARG_SCHEMEID_IN_EXTGENSCHEME - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the EXTGENSCHEME_STATEMENT for the argument sequence ID of the generalisation's scheme
ARG_SCHEMEPOS_IN_EXTGENSCHEME - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the EXTGENSCHEME_STATEMENT for the position in the scheme where to start extending
ARG_SID_IN_NEWOBJECT - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the NEW_OBJECT_STATEMENT for SID(Schema ID)
ARG_SUBENTITIES_IN_EXTGENSCHEME - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the EXTGENSCHEME_STATEMENT for the argument sequence ID of the sub-entities
ARG_TOOBJ_IN_PRIMITIVE - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the PRIMITIVE_TRANSFORMATION_STATEMENT for ToObject OBID
ARG_TOSCHEMA_IN_CONTRACT - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the CONTRACT_STATEMENT for the final schema ID
ARG_TOSCHEMA_IN_PRIMITIVE - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the PRIMITIVE_TRANSFORMATION_STATEMENT for ToSchema SID
ARG_TRANS_IN_FOREACH - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the FOREACH_STATEMENT for template transformation ID
ARG_TRANSFORMATION_IN_INVOCATION - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the INVOCATION_STATEMENT for the template transformation's ID
ARG_VALUE_IN_NEWOBJECT - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Position in the NEW_OBJECT_STATEMENT for the object's value
ArgPane - Class in uk.ac.ic.doc.automed.gui
  Panel for defining an argument sequence.
ArgPane(String[]) - Constructor for class uk.ac.ic.doc.automed.gui.ArgPane
  Creates a new ArgPane.
ArgumentsDialog - Class in uk.ac.ic.doc.automed.gui
  A dialog that can be used for the argument assignment.
ArgumentsDialog(Frame, ActionListener, String, boolean, String[]) - Constructor for class uk.ac.ic.doc.automed.gui.ArgumentsDialog
  Creates a new ArgumentsDialog.
ArrowIcon - Class in uk.ac.ic.doc.automed.gui
  An icon that's a picture of an arrow.
ArrowIcon(int) - Constructor for class uk.ac.ic.doc.automed.gui.ArrowIcon
ASG - Class in uk.ac.bbk.dcs.automed.qproc
  Every IQL query is internally represented as an Abstract Syntax Graph (ASG).
ASG(Cell) - Constructor for class uk.ac.bbk.dcs.automed.qproc.ASG
ASG(String) - Constructor for class uk.ac.bbk.dcs.automed.qproc.ASG
ASG(File) - Constructor for class uk.ac.bbk.dcs.automed.qproc.ASG
ASK - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
askForConstraints(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
askForConstraintsList(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
askForConstraintsList(String, TemplateCompilerSimulator.LIST) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
askForFunction(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
askForFunctionList(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
askForFunctionList(String, TemplateCompilerSimulator.LIST) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
askForName(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
askForNameList(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
askForNameList(String, TemplateCompilerSimulator.LIST) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
askForObject(String, Construct) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
askForObject(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
askForObjectList(String, Construct) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
askForObjectList(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
askForObjectList(String, Construct, TemplateCompilerSimulator.LIST) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
askForObjectList(String, TemplateCompilerSimulator.LIST) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
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(int, String) - Static method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  This method checks whether @param typeName exists in the type hierarchy for Model @param mid and if not it creates it
asString(Document) - Static method in class uk.ac.ic.doc.automed.p2p.util.XmlHandler
at(int) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.ModifiedArray
AT_LEAST_ONE - Static variable in class uk.ac.ic.doc.automed.editor.CommandLineDriver
atDebugLevel(int) - Static method in class uk.ac.bbk.dcs.automed.xml.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.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.wrappers.AutoMedWrapper
  Determine is debug is at or above a certain level.
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.
attribute - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
Attribute - Class in uk.ac.ic.doc.automed.xmlschema.xsdomobject
Attribute(String, String) - Constructor for class uk.ac.ic.doc.automed.xmlschema.xsdomobject.Attribute
  Creates a new instance of Attribute
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_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
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
  Creates an AutoMedException.
AutoMedException() - 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(BigDecimal) - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedFloat
  Create a new AutoMedFloat from a BigDecimal.
AutoMedFloat() - Constructor for class uk.ac.ic.doc.automed.wrappers.AutoMedFloat
  Create a new AutoMedFloat that is null in value
AutoMedID - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
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.
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.xmlschema
AutoMedToXSDOM(Schema) - Constructor for class uk.ac.ic.doc.automed.xmlschema.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
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
Average() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.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.templates.wrapper.TemplateCompilerSimulator
awf - Variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper

## B

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.
BagIntersect - Class in uk.ac.bbk.dcs.automed.qproc.functions
BagIntersect() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.BagIntersect
Bar - Static variable in class uk.ac.bbk.dcs.automed.qproc.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
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
blockStatements - Variable in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
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 class uk.ac.bbk.dcs.automed.qproc.QSym
bounds - Variable in class uk.ac.ic.doc.automed.editor.DrawVertex
Box - Class in uk.ac.ic.doc.automed.gui
Box() - Constructor for class uk.ac.ic.doc.automed.gui.Box
BREAK_ICON - Static variable in class uk.ac.ic.doc.automed.templates.gui.Accessories
breakList() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
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
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
build(String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapperFactory
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(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
buildTemplate() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
buildTree() - Method in class uk.ac.ic.doc.automed.p2p.tree.TreeBuilder
BuiltInFunction - Interface in uk.ac.bbk.dcs.automed.qproc
  Interface class for all functions.

## C

cacheRefreshed() - Method in class uk.ac.ic.doc.automed.p2p.gui.CacheViewerFrame
  Implements `CacheListener` interface.
CacheViewerFrame - Class in uk.ac.ic.doc.automed.p2p.gui
CacheViewerFrame(String, Cacheable) - Constructor for class uk.ac.ic.doc.automed.p2p.gui.CacheViewerFrame
  Creates a new instance of CacheViewerFrame.
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.p2p.gui.CacheViewerFrame
  Get the estimated length of a text string painted on a component
callConfirmMessagePane(String) - Method in class uk.ac.ic.doc.automed.editor.PatternWritingTool
callErrorMessagePane(String) - Method in class uk.ac.ic.doc.automed.editor.PatternWritingTool
CallToWrapper - Class in uk.ac.bbk.dcs.automed.qproc.functions
CallToWrapper() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.CallToWrapper
cancelButton - Variable in class uk.ac.ic.doc.automed.templates.gui.TemplateDialogueLauncher
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.
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
Cell - Class in uk.ac.bbk.dcs.automed.qproc
  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.Cell
Cell(int, Object, Object) - Constructor for class uk.ac.bbk.dcs.automed.qproc.Cell
Cell(int, Object) - Constructor for class uk.ac.bbk.dcs.automed.qproc.Cell
Cell(Object, Object) - Constructor for class uk.ac.bbk.dcs.automed.qproc.Cell
Cell(String) - Constructor for class uk.ac.bbk.dcs.automed.qproc.Cell
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
  .
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
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
  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.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.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.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.
checkSchemaName(StringBuffer) - Static method in class uk.ac.ic.doc.automed.reps.Schema
  Check if a given schema name already been assigned.
children - Variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
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
chooseTextColor(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
cid - Variable in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
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.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
classify(ElementVectorRepresentation) - Method in class uk.ac.ic.doc.automed.matching.modules.AbsoluteEuclideanClassifier
classify(ElementVectorRepresentation) - Method in interface uk.ac.ic.doc.automed.matching.modules.Classifier
classify(ElementVectorRepresentation) - Method in class uk.ac.ic.doc.automed.matching.modules.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.p2p.QueryCache
  Clear the cache
clear() - Method in class uk.ac.ic.doc.automed.reps.ModelingProgram
  Removes all of the statements from this ModelingProgram.
clearAccessMethods() - Static method in class uk.ac.ic.doc.automed.reps.AccessMethod
clearCache() - Method in class uk.ac.ic.doc.automed.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.
clone() - Method in class uk.ac.ic.doc.automed.matching.SchemaElementPairRelationship
  Creates a clone of the `SchemaElementPairRelationship` object.
clone() - Method in class uk.ac.ic.doc.automed.reps.ModelingProgram
  Returns a deep copy of this `ModelingProgram` instance.
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.gui.PeerApplication
  Close the AutoMedPeer, and allow to register as a new peer
closeScheme - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
Cluster - Class in uk.ac.ic.doc.automed.matching.modules
Cluster() - Constructor for class uk.ac.ic.doc.automed.matching.modules.Cluster
Clusterer - Class in uk.ac.ic.doc.automed.matching.modules
Clusterer() - Constructor for class uk.ac.ic.doc.automed.matching.modules.Clusterer
ClustererClassifier - Class in uk.ac.ic.doc.automed.matching.modules
ClustererClassifier() - Constructor for class uk.ac.ic.doc.automed.matching.modules.ClustererClassifier
clusters - Variable in class uk.ac.ic.doc.automed.matching.modules.Clusterer
COLLECTING - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
COLLECTION - Static variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
COLLECTION_SET - Static variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
CollectionSet - Class in uk.ac.ic.doc.automed.p2p.tree
CollectionSet() - Constructor for class uk.ac.ic.doc.automed.p2p.tree.CollectionSet
COLLECTS(TemplateCompilerSimulator.ITEM) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
Colon - Static variable in class uk.ac.bbk.dcs.automed.qproc.FSym
Colon - Static variable in class uk.ac.bbk.dcs.automed.qproc.QSym
colon - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
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 class uk.ac.bbk.dcs.automed.qproc.FSym
Comma - Static variable in class uk.ac.bbk.dcs.automed.qproc.QSym
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.templates.wrapper.TTemplate
CommonSubexpressionEliminator - Class in uk.ac.bbk.dcs.automed.qproc.optimise
  Class Task Description
CommonSubexpressionEliminator() - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.CommonSubexpressionEliminator
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
ComparableExact - Interface in uk.ac.ic.doc.automed.matching.modules
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
compareNodes(Cell, Cell) - Static method in class uk.ac.bbk.dcs.automed.qproc.functions.Comparisons
compareRange(ComparableExact, ComparableExact, ComparableExact, ComparableExact) - Static method in class uk.ac.ic.doc.automed.matching.modules.PrecisionModule
compareTo(Object) - Method in interface uk.ac.ic.doc.automed.matching.modules.ComparableExact
compareTo(Object) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
compareTo(Object) - Method in class uk.ac.ic.doc.automed.reps.Transformation
Comparisons - Class in uk.ac.bbk.dcs.automed.qproc.functions
Comparisons() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Comparisons
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.xmlschema.xsdomobject
  Define the internal representation for an XMLSchema complexType
ComplexType(String) - Constructor for class uk.ac.ic.doc.automed.xmlschema.xsdomobject.ComplexType
  Creates a new instance of ComplexType
CompOptimiser - Class in uk.ac.bbk.dcs.automed.qproc.optimise
CompOptimiser() - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.CompOptimiser
compositeDescription - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
compositeName - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
CompositeTransformation - Class in uk.ac.ic.doc.automed.templates
  The CompositeTransformation class.
CompositeTransformation(String, String, boolean) - Constructor for class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Constructs a new CompositeTransformation without any argument definitions nor program.
CompositeTransformationRecord - Class in uk.ac.ic.doc.automed.templates
CompositeTransformationRecord() - Constructor for class uk.ac.ic.doc.automed.templates.CompositeTransformationRecord
CompositeTransformationRecord(Schema, Vector) - Constructor for class uk.ac.ic.doc.automed.templates.CompositeTransformationRecord
Comprehension - Class in uk.ac.bbk.dcs.automed.qproc.functions
Comprehension() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Comprehension
Concat - Class in uk.ac.bbk.dcs.automed.qproc.functions.string
  Concatenates a list of string in a single string.
Concat() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.string.Concat
concat(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefineStringStatement
concat(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefineStringStatement
concat(Object[]) - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefineStringStatement
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
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
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.XindiceWrapper
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.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.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.
connected() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Determine if the current JVM is a peer on the P2P.
connectToDB() - Method in class uk.ac.ic.doc.automed.xmlschema.output.RelationalOutputter
  Connect to the local database
constant - Static variable in class uk.ac.bbk.dcs.automed.qproc.Cell
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.communication
Constants - Class in uk.ac.ic.doc.automed.p2p
Constants() - Constructor for class uk.ac.ic.doc.automed.p2p.Constants
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_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_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
CONSTRAINTS - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TConstants
constraintsARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
constraintsARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.RemovingStatement
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 - Variable in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
CONSTRUCT - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TConstants
CONSTRUCT - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
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_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
ConstructAny - Static variable in class uk.ac.ic.doc.automed.reps.Construct
constructARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
ConstructArray - Static variable in class uk.ac.ic.doc.automed.reps.Construct
constructor - Static variable in class uk.ac.bbk.dcs.automed.qproc.Cell
ConstructReference - Static variable in class uk.ac.ic.doc.automed.reps.Construct
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
ConstructWithModelingProgram - Class in uk.ac.ic.doc.automed.reps
  The class describing Construct objects together with their graphical representations/ModelingProgram objects
ConstructWithModelingProgram(Model, int, String, int, boolean) - Constructor for class uk.ac.ic.doc.automed.reps.ConstructWithModelingProgram
  Creates a new Construct.
ConstToken - Static variable in class uk.ac.bbk.dcs.automed.qproc.FSym
contains(Point) - Method in class uk.ac.ic.doc.automed.gui.Arc
contains(Point) - Method in class uk.ac.ic.doc.automed.gui.GraphicSchemaObject
contains(Point) - Method in class uk.ac.ic.doc.automed.gui.Rhombus
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`
containsGraphNode(DirectedGraphNode) - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraph
containsInstance(String) - 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
  Determine if the `SchemaObject` that has the supplied name exists in this `Schema`
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
CONTRACT(TemplateCompilerSimulator.OBJECT, TemplateCompilerSimulator.FUNCTION, TemplateCompilerSimulator.CONSTRAINTS) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
CONTRACT(TemplateCompilerSimulator.OBJECT, TemplateCompilerSimulator.FUNCTION) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
CONTRACT(TemplateCompilerSimulator.OBJECT, TemplateCompilerSimulator.CONSTRAINTS) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
CONTRACT(TemplateCompilerSimulator.OBJECT, TemplateCompilerSimulator.CONSTRAINTS, TemplateCompilerSimulator.FUNCTION) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
CONTRACT(TemplateCompilerSimulator.OBJECT) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
CONTRACT(TemplateCompilerSimulator.FUNCTION) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.OBJECT
CONTRACT(TemplateCompilerSimulator.CONSTRAINTS) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.OBJECT
CONTRACT(TemplateCompilerSimulator.FUNCTION, TemplateCompilerSimulator.CONSTRAINTS) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.OBJECT
CONTRACT() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.OBJECT
CONTRACT_STATEMENT - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Statement to contract an object
ContractStatement - Class in uk.ac.ic.doc.automed.templates.wrapper
ContractStatement() - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.ContractStatement
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
copyOfASG() - Method in class uk.ac.bbk.dcs.automed.qproc.ASG
  Creates and returns an exact copy of the ASG.
copyOfGraph() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
  Returns an exact copy of the ASG
Count - Class in uk.ac.bbk.dcs.automed.qproc.functions
Count() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Count
count() - Method in class uk.ac.ic.doc.automed.matching.modules.Vectors
countAppearances(String, char) - Static method in class uk.ac.ic.doc.automed.matching.Util
CREATE_LIST(TemplateCompilerSimulator.ITEM[]) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
CREATE_LIST_STATEMENT - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
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.
createArc() - Static method in class uk.ac.ic.doc.automed.gui.SchemaManager
createArgument(int, int, String) - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Adds a new argument to a sequence of arguments
createArgument(int, String) - Method in class uk.ac.ic.doc.automed.templates.RuntimeArgumentSequence
  Constructs a new RuntimeArgument and adds it to this RuntimeArgumentSequence.
createArgument(int, String) - Method in class uk.ac.ic.doc.automed.templates.TemplateArgumentSequence
  Constructs a new TemplateArgument and adds it to this TemplateArgumentSequence.
createArgument(int, TemplateArgumentSequence, int) - Method in class uk.ac.ic.doc.automed.templates.TemplateArgumentSequence
  Constructs a new TemplateArgument and adds it to this TemplateArgumentSequence.
createArgument(int, TemplateArgument) - Method in class uk.ac.ic.doc.automed.templates.TemplateArgumentSequence
  Constructs a new TemplateArgument and adds it to this TemplateArgumentSequence.
createArgument(int, int) - Method in class uk.ac.ic.doc.automed.templates.TemplateArgumentSequence
  Constructs a new TemplateArgument and adds it to this TemplateArgumentSequence.
createArgument(int, int, int, int, String) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Adds a new argument to a sequence of arguments
createArgumentDefinition(int, String, String, String, boolean) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Defines an argument for this CompositeTransformation.
createArgumentDefinition(int, String, boolean, int, int, int, int) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Defines an argument for this CompositeTransformation.
createArgumentDefinition(int, String, boolean) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Defines an argument for this CompositeTransformation.
createArgumentDefinition(int, String, String, String) - Method in class uk.ac.ic.doc.automed.templates.Statement
  Defines an argument for this Statement.
createArgumentInRepository() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
createArgumentSequence(Vector) - Method in class uk.ac.ic.doc.automed.gui.SchemaTool
createArgumentSequence(Vector) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgumentList
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..
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(Schema) - Method in class uk.ac.ic.doc.automed.p2p.tree.SchemaObjectBuilder
  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.XindiceWrapperFactory
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.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.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 This will involve transforming the XML Schema oriented model into an XML one.
createAutoMedSchema(AutoMedWrapper, String) - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapperFactory
  Create an AutoMed oriented schema from the source oriented schema.
createBox() - Static method in class uk.ac.ic.doc.automed.gui.SchemaManager
createClusters() - Method in class uk.ac.ic.doc.automed.matching.modules.Clusterer
createClusters() - Method in class uk.ac.ic.doc.automed.matching.modules.JSomClusterer
createClusters() - Method in class uk.ac.ic.doc.automed.matching.modules.MapDisplay
createCompositeArgument(CompositeTransformation) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateArgument
createCompositeTransformation(String, String, boolean) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Adds a new composite transformation to the TTR.
createCompositeTransformationDefinition(int, int, String, String, String, boolean) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Adds a new argument to the composite transformation's definition of arguments.
createCompositeTransformationDefinition(int, int, String, boolean, int, int, int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
createCompositeTransformationExecution(int, int, int, int) - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Adds a statement to the composite transformation's execution
createCompositeTransformationInvocation(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Creates a composite transformation's invocation
createCompositeTransformationProgram(int, int, int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Adds a new statement to a composite transformation's program
createCompositeTransformationReturnedValuesDefinition(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Defines where the transformation's returned values are stored.
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.
createConstructModeling(int, int, String) - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Adds a new method invocation to a construct's modeling program
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.
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.
createdObject - Variable in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
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.
createExecutionStatement(int, CompositeTransformation) - Method in class uk.ac.ic.doc.automed.templates.wrapper.CreateListStatement
createExecutionStatement(int, CompositeTransformation) - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefineStringStatement
createExecutionStatement(int, CompositeTransformation) - Method in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
createExecutionStatement(int, CompositeTransformation) - Method in class uk.ac.ic.doc.automed.templates.wrapper.IndexListStatement
createExecutionStatement(int, CompositeTransformation) - Method in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
createExecutionStatement(int, CompositeTransformation) - Method in class uk.ac.ic.doc.automed.templates.wrapper.RemovingStatement
createExecutionStatement(int, CompositeTransformation) - Method in class uk.ac.ic.doc.automed.templates.wrapper.RenameStatement
createExecutionStatement(int, CompositeTransformation) - Method in class uk.ac.ic.doc.automed.templates.wrapper.SchemeListStatement
createExecutionStatement(int, CompositeTransformation) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatement
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.XMLSchemaEditor
createFields() - Method in class uk.ac.ic.doc.automed.p2p.gui.CacheViewerFrame
  Implements GUITool abstract methods
createFirstArgument(int, String) - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Creates a new sequence of arguments and adds a new argument to the sequence
createFirstArgument(int, String, Vector) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Creates a new sequence of arguments and adds a new argument to the sequence
createFirstArgument(int, int, int, String) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Creates a new sequence of arguments and adds a new argument to the sequence
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
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, 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.
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
createLine() - Static method in class uk.ac.ic.doc.automed.gui.SchemaManager
CreateListStatement - Class in uk.ac.ic.doc.automed.templates.wrapper
CreateListStatement() - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.CreateListStatement
createMessagingClient(String, boolean) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedMessagingHelper
  Create a one-off client to send a message to server (no thread is needed)
createMethod(String, String) - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Adds a new method to the SMR.
createMethodArgument(int, int, String) - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Adds a new argument to the method's arguments.
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.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
createObjectNode(PersistentObject) - Static method in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
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
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.
createPrimitiveTransformation(int, String[], String[], Vector) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Creates a primitive transformation and appends it in the STR.
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.
createRelationalTables() - Method in class uk.ac.ic.doc.automed.xmlschema.output.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.
createResidentMessagingClient(String, String, String, boolean) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedMessagingHelper
  Create a new messanging client using a specified protocol which runs periodically in memory
createReturnArgument(TemplateArgumentSequence) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateArgument
createReturnedArgumentsDefinition(TemplateArgumentSequence) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Defines the values of the arguments that store returned values after the transformation's invocation.
createRhombus() - Static method in class uk.ac.ic.doc.automed.gui.SchemaManager
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[]) - 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.
createStatement(String) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
  Adds a new statement to the TTSR.
createStatementDefinition(int, int, String, String, String) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
  Adds a new argument definition to the statement's definitions of arguments.
createStatementExecution(int, Statement, TemplateArgumentSequence) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Defines the statement to be invoked at a particular program counter.
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
createType(int, String, int, int) - Static method in class uk.ac.ic.doc.automed.MDR
  Create a new record in type hierarchy table
createType(int, String, int, int) - Static method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Create a new `TypeHierarchy` object in the database
createTypeHierarchy() - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapperFactory
createTypeHierarchy() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.DOMWrapperFactory
createTypeHierarchy() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.SAXWrapperFactory
createTypeHierarchy() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XindiceWrapperFactory
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.
currentArgumentPosition - Variable in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
currentForeachVariables - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
currentKey - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
currentlyDisplayedSchema - Variable in class uk.ac.ic.doc.automed.templates.gui.SchemaFrame
currentScopeStack - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
cx - Variable in class uk.ac.ic.doc.automed.editor.DefaultDrawLinkNodalVertex
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.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
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.
DataSourceReorganiser - Class in uk.ac.bbk.dcs.automed.qproc.optimise
  Class Task Description
DataSourceReorganiser() - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.DataSourceReorganiser
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
  The module that compares the data types of the schema elements
DataTypeModule(ArrayList, ArrayList) - Constructor for class uk.ac.ic.doc.automed.matching.modules.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.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.DataTypeModule
DATE_TOKEN - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
dateValue() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedTime
DAY - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedTime
  Granularity of one day
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.p2p.util.Logger
debug(Object) - Static method in class uk.ac.ic.doc.automed.p2p.util.Logger
debug(Class, String, String) - Static method in class uk.ac.ic.doc.automed.p2p.util.Logger
  Overloading method to display more information about a debug message
debug - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
DEBUG_GENERAL - Static variable in class uk.ac.ic.doc.automed.STR
DEBUG_GUI - Static variable in class uk.ac.ic.doc.automed.STR
  Debug information from the gui package
DEBUG_LEVEL_ERROR - Static variable in class uk.ac.ic.doc.automed.STR
  Debug section packet (used in combination with e.g.
DEBUG_P2P - Static variable in class uk.ac.ic.doc.automed.STR
  Debug information from the p2p package
DEBUG_PATHWAY - Static variable in class uk.ac.ic.doc.automed.STR
  Debug information about pathway manipulations in the reps package
DEBUG_WRAPPER - Static variable in class uk.ac.ic.doc.automed.STR
  Debug information from the wrappers package
Debugger - Class in uk.ac.bbk.dcs.automed.xml
  Control the printing of debug information (related to the XML compontents of the Birkbeck package) printed on the command line.
Debugger() - Constructor for class uk.ac.bbk.dcs.automed.xml.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
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
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
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
defaultModel() - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefaultTemplate
defaultModel - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
defaultModel() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
  Return the AutoMed `Model` that the template transformation will generate or delete `SchemaObject`s in
DefaultTemplate - Class in uk.ac.ic.doc.automed.templates.wrapper
  The DefaultTemplate class enables the definition of template transformations at run-time.
DefaultTemplate(Model, String, String) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.DefaultTemplate
  Instantiates a template transformation.
DefaultTemplate() - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.DefaultTemplate
  Instantiates a template transformation.
DEFINE_CONSTRAINTS(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DEFINE_CONSTRAINTS(Object[]) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DEFINE_CONSTRAINTS(String, String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DEFINE_CONSTRAINTS(Object[], String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DEFINE_FUNCTION(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DEFINE_FUNCTION(Object[]) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DEFINE_FUNCTION(String, String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DEFINE_FUNCTION(Object[], String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DEFINE_NAME(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DEFINE_NAME(Object[]) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DEFINE_NAME(String, String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DEFINE_NAME(Object[], String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DEFINE_STRING(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DEFINE_STRING(Object[]) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DEFINE_STRING(String, String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DEFINE_STRING(Object[], String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DEFINE_STRING(TemplateCompilerSimulator.STRINGLIST) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DEFINE_STRING(TemplateCompilerSimulator.STRINGLIST, String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DEFINE_STRING_STATEMENT - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Statement to defined dynamic strings, used for functions, constraints definitions and more
DefineStringStatement - Class in uk.ac.ic.doc.automed.templates.wrapper
DefineStringStatement(int) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.DefineStringStatement
defineTemplate() - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefaultTemplate
defineTemplate() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DEFINING_FOREACH_VARIABLES - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DEFINING_IF_VALRIABLES - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DEFINING_INPUT_VARIABLES - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
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
DELETE(TemplateCompilerSimulator.OBJECT, TemplateCompilerSimulator.FUNCTION, TemplateCompilerSimulator.CONSTRAINTS) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DELETE(TemplateCompilerSimulator.OBJECT, TemplateCompilerSimulator.FUNCTION) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DELETE(TemplateCompilerSimulator.OBJECT, TemplateCompilerSimulator.CONSTRAINTS) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DELETE(TemplateCompilerSimulator.OBJECT, TemplateCompilerSimulator.CONSTRAINTS, TemplateCompilerSimulator.FUNCTION) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DELETE(TemplateCompilerSimulator.OBJECT) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
DELETE(TemplateCompilerSimulator.FUNCTION, TemplateCompilerSimulator.CONSTRAINTS) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.OBJECT
DELETE(TemplateCompilerSimulator.FUNCTION) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.OBJECT
DELETE(TemplateCompilerSimulator.CONSTRAINTS) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.OBJECT
DELETE(TemplateCompilerSimulator.CONSTRAINTS, TemplateCompilerSimulator.FUNCTION) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.OBJECT
DELETE() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.OBJECT
DELETE_ICON - Static variable in class uk.ac.ic.doc.automed.templates.gui.Accessories
deleteButtonClicked(InputItem) - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
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
deleteIQL(ASG) - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapper
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.
DeleteStatement - Class in uk.ac.ic.doc.automed.templates.wrapper
DeleteStatement() - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.DeleteStatement
dependent - Variable in class uk.ac.ic.doc.automed.editor.DrawVertex
describeTransformations(Vector) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Returns a `String` describing the transformations executed in the Vector given as a parameter
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
description - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateArgument
descriptionPane - Variable in class uk.ac.ic.doc.automed.templates.gui.TemplateDialogueLauncher
descriptions - Variable in class uk.ac.ic.doc.automed.templates.gui.TemplateDialogueLauncher
descriptionScroller - Variable in class uk.ac.ic.doc.automed.templates.gui.TemplateDialogueLauncher
dialogueFinished(CompositeTransformationRecord) - Method in interface uk.ac.ic.doc.automed.templates.gui.DialogueLauncher
DialogueLauncher - Interface in uk.ac.ic.doc.automed.templates.gui
DialogueManager - Interface in uk.ac.ic.doc.automed.templates.gui
Difference - Class in uk.ac.bbk.dcs.automed.qproc.functions
Difference() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.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
disableAll() - Method in interface uk.ac.ic.doc.automed.templates.gui.InteractiveSchemaDisplay
disableAll() - Method in class uk.ac.ic.doc.automed.templates.gui.SchemaPanel
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
Disjunction - Class in uk.ac.bbk.dcs.automed.qproc.functions
Disjunction() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Disjunction
DisjunctionOptimiser - Class in uk.ac.bbk.dcs.automed.qproc.optimise
DisjunctionOptimiser() - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.DisjunctionOptimiser
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() - Method in class uk.ac.ic.doc.automed.editor.GUITool
display() - Method in class uk.ac.ic.doc.automed.p2p.gui.CacheViewerFrame
  display the frame
displayCurrentInputForm() - Method in class uk.ac.ic.doc.automed.templates.gui.TemplateInputDialogue
displayReferenceLists() - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
Divide - Class in uk.ac.bbk.dcs.automed.qproc.functions
Divide() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Divide
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.
DO() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
do_action(int, lr_parser, Stack, int) - Method in class uk.ac.bbk.dcs.automed.qproc.EnvParser
  Invoke a user supplied parse action.
do_action(int, lr_parser, Stack, int) - Method in class uk.ac.bbk.dcs.automed.qproc.QParser
  Invoke a user supplied parse action.
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
Document - Class in uk.ac.ic.doc.automed.xmlschema.xsdomobject
  Define the internal representation for an XMLSchema document
Document(Element) - Constructor for class uk.ac.ic.doc.automed.xmlschema.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.xmlschema.xsdomobject.Document
  A new document with one or more types defined at the root level
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
doesReference() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
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
doListSchemaCommand(String[]) - Method in class uk.ac.ic.doc.automed.editor.Editor
domDriver - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
DOMMaterialiser - Class in uk.ac.bbk.dcs.automed.xml
  TODO: Informed repository that global schema is an external data source, TODO: should I do something else (inform location of data source)? TODO: investigate what happens to text in mixed elements
DOMMaterialiser(DOMWrapper, String, String, String[]) - Constructor for class uk.ac.bbk.dcs.automed.xml.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
  A lower level wrapper factory for accessing XML files using DOM.
DOMWrapperFactory() - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.DOMWrapperFactory
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
doSetCommand(String[]) - Static method in class uk.ac.ic.doc.automed.DSR
Dot - Static variable in class uk.ac.bbk.dcs.automed.qproc.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.
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
draw() - Method in class uk.ac.ic.doc.automed.gui.Arc
draw() - Method in class uk.ac.ic.doc.automed.gui.Box
draw() - Method in class uk.ac.ic.doc.automed.gui.Line
draw() - Method in class uk.ac.ic.doc.automed.gui.Rhombus
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
DrawingObject - Class in uk.ac.ic.doc.automed.templates.gui
DrawingObject(int) - Constructor for class uk.ac.ic.doc.automed.templates.gui.DrawingObject
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
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
driver - Variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
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
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.
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
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.xmlschema.xsdomobject
  Define the internal representation for an XMLSchema element
Element(String, String) - Constructor for class uk.ac.ic.doc.automed.xmlschema.xsdomobject.Element
  Creates a new instance of Element
Element(String, String, int, boolean) - Constructor for class uk.ac.ic.doc.automed.xmlschema.xsdomobject.Element
  Creates a new instance of Element with a type and a boundedness
ELEMENT_AT(int, int) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.LIST
ELEMENT_AT(int, Construct) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.LIST
elementArgSeq - Variable in class uk.ac.ic.doc.automed.templates.wrapper.CreateListStatement
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.SAXWrapper
elementAttributeQuery(String, String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
elementElementQuery(String, String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.DOMWrapper
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.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.SAXWrapper
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
  The module that compares the names of the schema elements
ElementNameModule(ArrayList, ArrayList) - Constructor for class uk.ac.ic.doc.automed.matching.modules.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.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.ElementNameModule
elementOrAttribute - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
elementOrPCData - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
elementPCDataQuery(String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.DOMWrapper
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.SAXWrapper
elementPCDataQuery(String) - 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.SAXWrapper
elementQuery(String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
ElementsFromRDB - Class in uk.ac.bbk.dcs.automed.qproc.functions.xml
  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.qproc.functions.xml.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 class uk.ac.ic.doc.automed.matching.SchemaElement
empty - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapperFactory
emptyKeyProtection - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
emptyKeys - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
emptyQuery() - Static method in class uk.ac.bbk.dcs.automed.qproc.ASG
  Returns the ASG representation of the empty query.
enabled - Variable in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
END() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
endDocument() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSSAX
endElement(String, String, String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSSAX
ENDFOREACH() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
Environment - Class in uk.ac.bbk.dcs.automed.qproc
Environment() - Constructor for class uk.ac.bbk.dcs.automed.qproc.Environment
Environment(String) - Constructor for class uk.ac.bbk.dcs.automed.qproc.Environment
Environment(File) - Constructor for class uk.ac.bbk.dcs.automed.qproc.Environment
EnvLexer - Class in uk.ac.bbk.dcs.automed.qproc
EnvLexer(Reader) - Constructor for class uk.ac.bbk.dcs.automed.qproc.EnvLexer
EnvLexer(InputStream) - Constructor for class uk.ac.bbk.dcs.automed.qproc.EnvLexer
EnvParser - Class in uk.ac.bbk.dcs.automed.qproc
  CUP v0.10j generated parser.
EnvParser() - Constructor for class uk.ac.bbk.dcs.automed.qproc.EnvParser
  Default constructor.
EnvParser(Scanner) - Constructor for class uk.ac.bbk.dcs.automed.qproc.EnvParser
  Constructor which sets the default scanner.
EnvSym - Class in uk.ac.bbk.dcs.automed.qproc
  CUP generated class containing symbol constants.
EnvSym() - Constructor for class uk.ac.bbk.dcs.automed.qproc.EnvSym
EOF - Static variable in class uk.ac.bbk.dcs.automed.qproc.EnvSym
EOF - Static variable in class uk.ac.bbk.dcs.automed.qproc.FSym
EOF - Static variable in class uk.ac.bbk.dcs.automed.qproc.QSym
EOF - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
EOF_sym() - Method in class uk.ac.bbk.dcs.automed.qproc.EnvParser
  `EOF` Symbol index.
EOF_sym() - Method in class uk.ac.bbk.dcs.automed.qproc.QParser
  `EOF` Symbol index.
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
Equal - Static variable in class uk.ac.bbk.dcs.automed.qproc.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
Equals() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Equals
equals(Object) - Method in class uk.ac.bbk.dcs.automed.qproc.SchemeInfo
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.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(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.
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.EnvSym
error - Static variable in class uk.ac.bbk.dcs.automed.qproc.FSym
error - Static variable in class uk.ac.bbk.dcs.automed.qproc.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
error(String) - Static method in class uk.ac.ic.doc.automed.p2p.util.Logger
error(String, Throwable) - Static method in class uk.ac.ic.doc.automed.p2p.util.Logger
error(Throwable) - Static method in class uk.ac.ic.doc.automed.p2p.util.Logger
error_sym() - Method in class uk.ac.bbk.dcs.automed.qproc.EnvParser
  `error` Symbol index.
error_sym() - Method in class uk.ac.bbk.dcs.automed.qproc.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.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.
evaluate(ASG) - Method in class uk.ac.bbk.dcs.automed.qproc.Evaluator
  Evaluates g to normal form.
evaluate(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.Evaluator
  Evaluates the graph of which root is the root to normal form.
evaluateSize() - Method in class uk.ac.ic.doc.automed.templates.gui.SchemaPanel
Evaluator - Class in uk.ac.bbk.dcs.automed.qproc
  The class that coordinates the evaluation of IQL queries.
Evaluator(FunctionTable) - Constructor for class uk.ac.bbk.dcs.automed.qproc.Evaluator
  Constructs an Evaluator object that will use the ft for the evaluation of built-in functions.
exactlyTwo(Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
EXECUTE_ICON - Static variable in class uk.ac.ic.doc.automed.templates.gui.Accessories
executeCreateListStatement(int, int, int, String[], HashMap, int, String[], String[], Vector, Vector) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Executes a `CREATE_LIST` statement.
executeDefineStringStatement(int, int, int, String[], HashMap, int, String[], String[], Vector, Vector) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Executes a `DEFINE_STRING` statement.
executedStatementNR - Variable in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
executedStatements - Variable in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
executedStatementsArguments - Variable in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
executeForEachStatement(int, int, int, String[], HashMap, int, String[], String[], Vector, Vector) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Executes a `foreach` statement.
executeIndexListStatement(int, int, int, String[], HashMap, int, String[], String[], Vector, Vector) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
executeInvocationStatement(int, int, int, String[], HashMap, int, String[], String[], Vector, Vector) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Executes a `transformation_invocation` statement.
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.XindiceWrapper
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) - Method in class uk.ac.ic.doc.automed.wrappers.HDMWrapper
  Takes `ASG` query and passes it to a `LowLevelWrapperHdm` for processing.
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.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.XMLSchemaWrapper
executeLocalQuery(AutoMedQuery) - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapper
executeNewObjectStatement(int, int, int, String[], HashMap, int, String[], String[], Vector, Vector) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Executes a `new_object` statement.
executePrimitiveTransformationStatement(int, int, int, String[], HashMap, int, String[], String[], Vector, Vector) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Executes a `primitive_transformation` statement.
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`
executeSchemeListStatement(int, int, int, String[], HashMap, int, String[], String[], Vector, Vector) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
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, 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
executeTransformation(int, int, String[], HashMap, int, String[], String[], Vector, Vector) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Main method which executes a composite transformation.
executeTransformation(int, int, Frame) - Static method in class uk.ac.ic.doc.automed.templates.gui.TemplateInputDialogue
executeTransformation(int, int, InteractiveSchemaDisplay, Frame) - Static method in class uk.ac.ic.doc.automed.templates.gui.TemplateInputDialogue
executeTransformation(int, InteractiveSchemaDisplay, Frame) - Static method in class uk.ac.ic.doc.automed.templates.gui.TemplateInputDialogue
executeTransformation() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgumentList
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 using DOM, 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 using DOM, 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
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.
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
exitSyntax - Static variable in class uk.ac.ic.doc.automed.editor.CommandLineDriver
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
EXTEND(Construct, Object[], TemplateCompilerSimulator.FUNCTION, TemplateCompilerSimulator.CONSTRAINTS) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
EXTEND(Construct, Object[]) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
EXTEND(Construct, Object[], TemplateCompilerSimulator.FUNCTION) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
EXTEND(Construct, Object[], TemplateCompilerSimulator.CONSTRAINTS) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
EXTEND(Construct, Object[], TemplateCompilerSimulator.CONSTRAINTS, TemplateCompilerSimulator.FUNCTION) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
extendEnvironment(String) - Method in class uk.ac.bbk.dcs.automed.qproc.Environment
extendEnvironment(File) - Method in class uk.ac.bbk.dcs.automed.qproc.Environment
ExtendStatement - Class in uk.ac.ic.doc.automed.templates.wrapper
ExtendStatement() - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.ExtendStatement
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.
EXTGENSCHEME_STATEMENT - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Statement to extend an ER generalization's scheme

## 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
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
features - Static variable in class uk.ac.ic.doc.automed.matching.modules.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
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`.
finalize() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XindiceWrapper
finalize() - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
findAllPathways(Schema, Schema) - Static method in class uk.ac.ic.doc.automed.reps.Pathway
  Return all possible pathways to a data source dmle 9/11/2005
findAllPathways(Schema) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Return all transformation pathways to a 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.
findAutoMedFile(String) - Static method in class uk.ac.ic.doc.automed.Util
findFile(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.Max
findmin(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Min
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.
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.
FINISHED - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
First - Class in uk.ac.bbk.dcs.automed.qproc.functions
First() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.First
firstCharKeyword - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
Flatmap - Class in uk.ac.bbk.dcs.automed.qproc.functions
Flatmap() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.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
FLexer(Reader) - Constructor for class uk.ac.bbk.dcs.automed.qproc.FLexer
FLexer(InputStream) - Constructor for class uk.ac.bbk.dcs.automed.qproc.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
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
fm - Static variable in class uk.ac.ic.doc.automed.editor.DrawArc
fm - Static variable in class uk.ac.ic.doc.automed.editor.DrawVertex
focusItem(InputItem) - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
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
Foldl() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.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
Foldr() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Foldr
FOREACH() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
FOREACH_STATEMENT - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Statement to iterate on lists
foreachArgSeq - Variable in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
foreachBlock - Variable in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
foreachStack - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
ForeachStatement - Class in uk.ac.ic.doc.automed.templates.wrapper
ForeachStatement() - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
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.
formattedString(ASG) - Static method in class uk.ac.bbk.dcs.automed.qproc.ASG
  If g is an ASG list the string returned has each element separated by carriage returns for more legible output.
formattedString(Cell) - Static method in class uk.ac.bbk.dcs.automed.qproc.ASG
  If n is the root of an ASG that represents a list, the string returned has each element separated by carriage returns for more legible output.
formattedString() - Method in class uk.ac.bbk.dcs.automed.qproc.ASG
  Given that the ASG represents a list the string returned has each element separated by carriage returns for more legible output.
FragmentProcessor - Class in uk.ac.bbk.dcs.automed.qproc
  The purpose of this class is to replace all schemes with wrapper objects.
FragmentProcessor() - Constructor for class uk.ac.bbk.dcs.automed.qproc.FragmentProcessor
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.ASG
  Returns the text IQL of g.
fromASG(Cell) - Static method in class uk.ac.bbk.dcs.automed.qproc.ASG
  returns the text IQL of the abstract syntax graph of which n is the root.
fromASGList(ASG) - Static method in class uk.ac.bbk.dcs.automed.qproc.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.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.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.ASG
  If n is the root of an ASG that represents a tuple, this returns an ArrayList of its Cells.
fromObjectARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
fromObjectARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.RemovingStatement
fromObjectARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.RenameStatement
fromSchema - Variable in class uk.ac.ic.doc.automed.p2p.protocol.Request.Pathway
fromSchemaARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TStatement
FSym - Class in uk.ac.bbk.dcs.automed.qproc
  CUP generated class containing symbol constants.
FSym() - Constructor for class uk.ac.bbk.dcs.automed.qproc.FSym
function - Static variable in class uk.ac.bbk.dcs.automed.qproc.Cell
Function - Static variable in class uk.ac.bbk.dcs.automed.qproc.EnvSym
FUNCTION - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TConstants
functionARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
functionARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.RemovingStatement
functionARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.RenameStatement
FunctionTable - Class in uk.ac.bbk.dcs.automed.qproc
  Class containing a HashMap that keeps the function names.
FunctionTable() - Constructor for class uk.ac.bbk.dcs.automed.qproc.FunctionTable
  Constructs a FunctionTable object representing an empty table.
FunctionTable(BuiltInFunction[], String[]) - Constructor for class uk.ac.bbk.dcs.automed.qproc.FunctionTable
  Constructs a FunctionTable object.

## G

GenerateElemUID - Class in uk.ac.bbk.dcs.automed.qproc.functions.xml
  Function that produces element UIDs based on the two arguments passed to the function.
GenerateElemUID() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.xml.GenerateElemUID
generateGID - Class in uk.ac.ic.doc.automed.wrappers.ssdfunctions
generateGID() - Constructor for class uk.ac.ic.doc.automed.wrappers.ssdfunctions.generateGID
generateSID - Class in uk.ac.ic.doc.automed.wrappers.ssdfunctions
generateSID() - Constructor for class uk.ac.ic.doc.automed.wrappers.ssdfunctions.generateSID
genericRootName - Static variable in class uk.ac.bbk.dcs.automed.graph.Forest
get(int) - Method in class uk.ac.ic.doc.automed.matching.modules.Vectors
get(int) - Method in class uk.ac.ic.doc.automed.reps.Pathway
  Returns the `Schema` at the given index of the pathway.
getAbsoluteDegrees(ArrayList, ArrayList) - Static method in class uk.ac.ic.doc.automed.matching.modules.ClustererClassifier
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.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
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.
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.
getActionNameFrom(Schema) - Method in class uk.ac.ic.doc.automed.reps.Transformation
getActionNameTo(Schema) - 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.
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, 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
getAllCompositeTransformations() - Static method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Returns an array of all CompositeTransformation objects.
getAllNodes() - Method in class uk.ac.ic.doc.automed.reps.Network
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
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.
getAllTrans() - Static method in class uk.ac.ic.doc.automed.reps.Transformation
getAllTypes() - 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
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.Cell
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.
getArcs() - Method in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
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`.
getArgument() - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
getArgument() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.ITEM
getArgumentAt(int) - Method in class uk.ac.ic.doc.automed.templates.RuntimeArgumentSequence
  Returns a particular RuntimeArgument in this RuntimeArgumentSequence.
getArgumentAt(int) - Method in class uk.ac.ic.doc.automed.templates.TemplateArgumentSequence
  Returns a particular TemplateArgument in this TemplateArgumentSequence.
getArgumentDefinitionAt(int) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Returns a particular TransformationArgumentDefinition in the CompositeTransformations's argument definition list.
getArgumentDefinitionAt(int) - Method in class uk.ac.ic.doc.automed.templates.Statement
  Returns a particular StatementArgumentDefinition in the Statements's argument definition list.
getArgumentDefinitions() - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Returns an array of all the TransformationArgumentDefinition objects in this CompositeTransformation.
getArgumentDefinitions(boolean) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Returns an array of TransformationArgumentDefinition objects.
getArgumentDefinitions() - Method in class uk.ac.ic.doc.automed.templates.Statement
  Returns an array of all the StatementArgumentDefinition objects of this Statement.
getArgumentDefinitionsForStatement(int) - Static method in class uk.ac.ic.doc.automed.templates.StatementArgumentDefinition
  Returns all the StatementArgumentDefinition objects of the specified statement.
getArgumentDefinitionsForTransformation(int) - Static method in class uk.ac.ic.doc.automed.templates.TransformationArgumentDefinition
  Returns all the TransformationArgumentDefinition objects of the specified transformation.
getArgumentDescription(TStatementArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.CreateListStatement
getArgumentDescription(TStatementArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefineStringStatement
getArgumentDescription(TStatementArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
getArgumentDescription(TStatementArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.IndexListStatement
getArgumentDescription(TStatementArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
getArgumentDescription(TStatementArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.RemovingStatement
getArgumentDescription(TStatementArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.RenameStatement
getArgumentDescription(TStatementArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.SchemeListStatement
getArgumentDescription(TStatementArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatement
getArguments() - Method in class uk.ac.ic.doc.automed.gui.ArgPane
  Returns the arguments defined by the user in this ArgPane.
getArguments() - Method in class uk.ac.ic.doc.automed.gui.ArgumentsDialog
  Returns the values for the argument sequence.
getArguments() - Method in class uk.ac.ic.doc.automed.templates.RuntimeArgumentSequence
  Returns an array of all the RuntimeArguments in this RuntimeArgumentSequence.
getArguments() - Method in class uk.ac.ic.doc.automed.templates.TemplateArgumentSequence
  Returns an array of all the TemplateArguments in this TemplateArgumentSequence.
getArgumentsArgIdList() - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Returns a list of identifiers of all the sequences of arguments
getArgumentsArgIdList() - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns a list of identifiers of all the sequences of arguments
getArgumentsArgIdRef(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns a particular argument's `arg_id_ref` field
getArgumentsArgIdRefList(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns a particular's sequence of arguments list of `arg_id_ref` fields.
getArgumentsArgPosList(int) - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Returns a particular's sequence of arguments list of positions.
getArgumentsArgPosList(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns a particular's sequence of arguments list of positions.
getArgumentsArgPosRef(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns a particular argument's `arg_pos_ref` field
getArgumentsArgPosRefList(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns a particular's sequence of arguments list of `arg_pos_ref` fields.
getArgumentSequence() - Method in class uk.ac.ic.doc.automed.templates.StatementExecution
  Returns the TemplateArgumentSequence of this StatementExecution.
getArgumentSequence() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
getArgumentsForSequence(int) - Static method in class uk.ac.ic.doc.automed.templates.RuntimeArgument
  Returns all RuntimeArgument objects of the specified sequence of arguments.
getArgumentsForSequence(int) - Static method in class uk.ac.ic.doc.automed.templates.TemplateArgument
  Returns all the TemplateArgument objects of the specified sequence of arguments.
getArgumentsValue(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Returns a particular argument's `value` field
getArgumentsValue(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns a particular argument's `value` field
getArgumentsValueList(int) - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Returns a particular's sequence of arguments list of `value` fields.
getArgumentsValueList(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns a particular's sequence of arguments list of values.
getArgumentValues() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
getArity() - Method in interface uk.ac.bbk.dcs.automed.qproc.BuiltInFunction
  Returns the arity of the function.
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.And
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Append
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Average
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.BagIntersect
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.CallToWrapper
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Comprehension
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Count
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Difference
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Disjunction
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Divide
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Equals
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.First
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Flatmap
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Foldl
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Foldr
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Greater
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.GreaterEqual
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Group
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.GroupCompute
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Id
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.If
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Less
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.LessEqual
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Let
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.LoadListFromFile
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Map
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Max
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Member
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Min
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Minus
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Monus
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Multiply
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Not
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.NotEqual
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Or
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Plus
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Second
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.SetUnion
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Single
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Sort
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.SortDistinct
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.string.Concat
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.string.Length
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.string.LowerCase
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.string.Split
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.string.Substring
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.string.Substring2
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.string.UpperCase
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.SubBag
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Sum
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.xml.ElementsFromRDB
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.xml.GenerateElemUID
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.xml.NestListsFromRDB
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.xml.NewElemUID
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.functions.xml.NewNestLists
getArity() - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.FoldFunction
getArity() - Method in class uk.ac.ic.doc.automed.wrappers.ssdfunctions.generateGID
getArity() - Method in class uk.ac.ic.doc.automed.wrappers.ssdfunctions.generateSID
getAskRequest(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
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.
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(int) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedTuple
  Return a particular attribute from a tuple (counting from one)
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
getAutoMedFile(String) - Static method in class uk.ac.ic.doc.automed.Util
getAutoMedModel() - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapperFactory
getAutoMedModel() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XindiceWrapperFactory
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.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.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
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.xmlschema.xsdomobject.ComplexType
  Return whether or not this has been used as a subtype
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`
getBoundingBox() - Method in class uk.ac.ic.doc.automed.gui.Arc
getBoundingBox() - Method in class uk.ac.ic.doc.automed.gui.Box
getBoundingBox() - Method in class uk.ac.ic.doc.automed.gui.GraphicSchemaObject
getBoundingBox() - Method in class uk.ac.ic.doc.automed.gui.Rhombus
getBoundingBox() - Method in class uk.ac.ic.doc.automed.gui.SchemaManager
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
getBufferSize() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractDaemon
getBufferSize() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractServer
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.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.p2p.QueryCache
  Return all queries in the cache
getCause() - Method in exception uk.ac.ic.doc.automed.gui.GUIException
getCause() - Method in exception uk.ac.ic.doc.automed.RepositoryAccessException
getCause() - Method in exception uk.ac.ic.doc.automed.reps.AutoRepException
getCause() - Method in exception uk.ac.ic.doc.automed.templates.wrapper.TemplateDefinitionException
getCenter() - Method in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
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
getChildAttributes() - Method in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.ComplexType
  Return any child attributes
getChildren() - Method in class uk.ac.bbk.dcs.automed.graph.TreeNode
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.xmlschema.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
getCID() - Method in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
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.
getClassName(int) - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Returns the class name of the method specified by `meth_id`
getClassNameList() - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Returns the class names of all the methods found in the SMR
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.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
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
getCompatibles(double) - Method in class uk.ac.ic.doc.automed.matching.Filter
  Returns an array of `SimilarSchemaElementPair` objects that define compatible pairs.
getCompositeTransformation(String) - Static method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Returns a reference to a CompositeTransformation.
getCompositeTransformation(int) - Static method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Returns a reference to a CompositeTransformation.
getCompositeTransformationByName(String) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns the ID (`trans_id`) of the composite transformation specified by name
getCompositeTransformationDefinitionArgPosList(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns a particular transformation's list of argument positions.
getCompositeTransformationDefinitionArgPosList(int, boolean) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns a particular transformation's list of argument positions.
getCompositeTransformationDefinitionDescription(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns a particular transformation's argument definition (only the `description` field).
getCompositeTransformationDefinitionDescriptionList(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns a particular transformation's list of argument definitions (only the `description` field).
getCompositeTransformationDefinitionDescriptionList(int, boolean) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns a particular transformation's list of argument definitions (only the `description` field).
getCompositeTransformationDefinitionElementNR(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepositoryExtension
getCompositeTransformationDefinitionFieldName(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns a particular transformation's argument definition (only the `field_name` field).
getCompositeTransformationDefinitionFieldNameList(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns a particular transformation's list of argument definitions (only the `field_name` field).
getCompositeTransformationDefinitionFieldNameList(int, boolean) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns a particular transformation's list of argument definitions (only the `field_name` field).
getCompositeTransformationDefinitionIsReturnedValue(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns whether a particular transformation's argument stores a returned value after the transformation's invocation, or not.
getCompositeTransformationDefinitionIsReturnedValueList(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns a particular transformation's list of argument types (if they store a returned value or not).
getCompositeTransformationDefinitionRefPos(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepositoryExtension
getCompositeTransformationDefinitionTableName(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns a particular transformation's argument definition (only the `table_name` field).
getCompositeTransformationDefinitionTableNameList(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns a particular transformation's list of argument definitions (only the `table_name` field).
getCompositeTransformationDefinitionTableNameList(int, boolean) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns a particular transformation's list of argument definitions (only the `table_name` field).
getCompositeTransformationDefinitionType(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepositoryExtension
getCompositeTransformationDefinitionTypeInstance(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepositoryExtension
getCompositeTransformationDescription(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns the description of the composite transformation specified by `trans_id`
getCompositeTransformationExecutionArgId(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Returns a sequence of arguments ID in the execution of a particular composite transformation
getCompositeTransformationExecutionArgIdList(int) - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Returns a list of sequence of arguments identifiers of a particular composite transformation's execution
getCompositeTransformationExecutionPcList(int) - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Returns a list of program counters of a particular composite transformation's execution.
getCompositeTransformationExecutionStId(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Returns the statement ID in the execution of a particular composite transformation
getCompositeTransformationExecutionStIdList(int) - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Returns a list of statement identifiers of a particular composite transformation's execution.
getCompositeTransformationExecutionTransIdList() - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Returns a list of sequence of transformation identifiers that are being executed
getCompositeTransformationInvocationArgIdList() - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Returns a list of sequence of arguments identifiers in the invocation of transformations
getCompositeTransformationName(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns the name of the composite transformation specified by `trans_id`
getCompositeTransformationPreservesEquivalence(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns whether the composite transformation specified by `trans_id` preserves schema equivalence.
getCompositeTransformationProgramArgId(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns the sequence of arguments ID that is going to be used at the specified pc of a transformation's template program.
getCompositeTransformationProgramArgIdList(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns a list of sequence of arguments identifiers of a particular composite transformation's template program, ie the sequences of arguments that are going to be used at each program counter.
getCompositeTransformationProgramPcList(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns a list of program counters of a particular composite transformation's template program.
getCompositeTransformationProgramStId(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns the statement ID of the statement that is going to be executed at the specified pc of a transformation's template program.
getCompositeTransformationProgramStIdList(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns a list of statement identifiers of a particular composite transformation's template program, ie the statements that are going to be executed at each program counter.
getCompositeTransformationRecord() - Method in class uk.ac.ic.doc.automed.templates.gui.TemplateInputDialogue
getCompositeTransformationReturnedValuesDefinitionArgId(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns the sequence of arguments ID that defines the returned values of the transformation
getCompositeTransformations(boolean) - Static method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Returns an array of CompositeTransformation objects.
getCompositeTransformationsDescriptionList() - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns the descriptions of all the composite transformations found in the TTR
getCompositeTransformationsDescriptionList(boolean) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns the descriptions of all the composite transformations found in the TTR that preserve schema equivalence
getCompositeTransformationsNameList() - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns the names of all the composite transformations found in the TTR
getCompositeTransformationsNameList(boolean) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns the names of all the composite transformations found in the TTR that preserve schema equivalence
getCompositeTransformationsPreservesEquivalenceList() - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns the `preserves_equivalence` field of all the composite transformations found in the TTR
getCompositeTransformationsTransIdList() - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns the IDs of all the composite transformations found in the TTR
getCompositeTransformationsTransIdList(boolean) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns the IDs of all the composite transformations found in the TTR that preserve schema equivalence
getConcatenationOp() - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefineStringStatement
getConfig(String) - Static method in class uk.ac.ic.doc.automed.p2p.AppToolKit
  Return the P2PDirectory config
getConfig() - Static method in class uk.ac.ic.doc.automed.p2p.AppToolKit
  Return the P2PDirectory config.
getConfigFileName() - Static method in class uk.ac.ic.doc.automed.DSR
  Returns the name of the file used for data source definitions.
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
getCons() - Method in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.ComplexType
  Return the type when used as a constraint
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`
getConstraints() - Method in class uk.ac.ic.doc.automed.reps.HDMNetwork
getConstruct() - Method in class uk.ac.ic.doc.automed.gui.GraphicSchemaObject
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.
getConstruct() - Method in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
getConstruct() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
getConstructByCID(int) - Static method in class uk.ac.ic.doc.automed.reps.ConstructWithModelingProgram
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
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
getConstructModelingProgramMethod(int, int) - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Returns the method that is going to be invoked at the specified pc of a construct's modeling program.
getConstructModelingProgramMethodList(int) - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Returns a list of method invocations of a particular construct's modeling program, ie the methods that are going to be invoked at each program counter.
getConstructModelingProgramPcList(int) - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Returns a list of program counters of a particular construct's modeling program.
getConstructName(int) - Static method in class uk.ac.ic.doc.automed.MDR
getConstructNames(int) - Static method in class uk.ac.ic.doc.automed.MDR
  Gets a list of all construct names for a modelling language
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.ic.doc.automed.reps.SchemaObject
getContent() - Method in class uk.ac.ic.doc.automed.p2p.QueryCache
  Implements interface `Cacheable`.
getContentObject() - Method in class uk.ac.ic.doc.automed.p2p.QueryCache
  Return the cache data bag
getContext() - Method in exception uk.ac.ic.doc.automed.p2p.UnsuccessfulReplyException
getCurrent(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
getCurrentModelSyntax - Static variable in class uk.ac.ic.doc.automed.editor.Editor
getCurrentSchema() - Method in class uk.ac.ic.doc.automed.templates.gui.SchemaPanel
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
getData() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedTuple
  Return all the attributes of this tuple as an array
getDatafromYattaData(Vector) - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapper
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.SchemaModelingRepository
  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.
getDataSourceName() - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Returns the name of the repository in the local database.
getDataSourceName() - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Returns the name of the repository in the local database.
getDataSourceName() - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
  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.
getDBDriver() - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Returns the database driver used for connecting to the database.
getDebugLevel() - Static method in class uk.ac.bbk.dcs.automed.xml.Debugger
  Return the value of the debug level at set by `Debugger.setDebugLevel(int)`
getDebugLevel() - Static method in class uk.ac.ic.doc.automed.STR
  Return the value of the debug level at set by `STR.setDebugLevel(int)`
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
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.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.SAXWrapper
  Returns a new instance of the default wrapper factory for this wrapper
getDefaultWrapperFactory() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XindiceWrapper
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.HDMWrapper
  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.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
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.NetworkChangeEvent
getDelta() - Method in class uk.ac.ic.doc.automed.reps.SchemaChangeEvent
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.
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.templates.CompositeTransformation
  Returns the description of this CompositeTransformation.
getDescription() - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
getDescription() - Method in class uk.ac.ic.doc.automed.templates.StatementArgumentDefinition
  Returns the description of this StatementArgumentDefinition.
getDescription() - Method in class uk.ac.ic.doc.automed.templates.TransformationArgumentDefinition
  Returns the description of this TransformationArgumentDefinition.
getDescription() - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefaultTemplate
  Returns the description of the template transformation
getDescription() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
getDescription() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateArgument
getDescription() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
getDescription() - Method in class uk.ac.ic.doc.automed.wrappers.XMLFileFilter
  Returns the human readable description of this filter.
getDesiredPort() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractDaemon
getDesiredPort() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractServer
getDistinctInstances() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
  Returns an array of the distinct instances of the `SchemaElement` object.
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
getDoc() - Method in class uk.ac.ic.doc.automed.xmlschema.AutoMedToXSDOM
getDouble() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
  Returns the value of the double contained in the Cell
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`.
getDrawingObject(int) - Static method in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
getDrawingObject(SchemaObject, Construct) - Static method in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
getDrawingObjectRepresenting(SchemaObject) - Method in class uk.ac.ic.doc.automed.templates.gui.SchemaPanel
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
getDtPattern() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
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.
getEdgePosition(Point) - Method in class uk.ac.ic.doc.automed.gui.Arc
getEdgePosition(Point) - Method in class uk.ac.ic.doc.automed.gui.Box
getEdgePosition(Point) - Method in class uk.ac.ic.doc.automed.gui.Line
getEdgePosition(Point) - Method in class uk.ac.ic.doc.automed.gui.Rhombus
getEdges() - Method in class uk.ac.ic.doc.automed.reps.HDMNetwork
getEditorPanel() - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
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.
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.Cluster
getElements() - Method in class uk.ac.ic.doc.automed.matching.modules.Clusterer
getElements() - Method in class uk.ac.ic.doc.automed.matching.modules.SimilarCluster
getElements() - Method in class uk.ac.ic.doc.automed.reps.HDMNetwork
getEntityEdgePosition(Point) - Method in class uk.ac.ic.doc.automed.gui.Rhombus
getEnvironment() - Method in class uk.ac.bbk.dcs.automed.qproc.Evaluator
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
getExpression() - Method in class uk.ac.ic.doc.automed.reps.HDMConstraint
getExtend(boolean) - Method in class uk.ac.ic.doc.automed.gui.SchemaManager
getExtension(File) - Method in class uk.ac.ic.doc.automed.wrappers.XMLFileFilter
  Return the extension portion of the file's name .
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.XindiceWrapperFactory
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.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
getFieldName() - Method in class uk.ac.ic.doc.automed.templates.StatementArgumentDefinition
  Returns the fieldname of this StatementArgumentDefinition.
getFieldName() - Method in class uk.ac.ic.doc.automed.templates.TransformationArgumentDefinition
  Returns the fieldname of this TransformationArgumentDefinition.
getFieldValue(String) - Method in class uk.ac.ic.doc.automed.p2p.tree.AutoMedObject
getFile(String) - Static method in class uk.ac.ic.doc.automed.Util
getFinalDoc() - Method in class uk.ac.bbk.dcs.automed.xml.XMLTransformer
getFinalSchema() - Method in class uk.ac.bbk.dcs.automed.xml.XMLTransformer
getFinalSchema() - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformationRecord
getFinalSchemaName() - Method in class uk.ac.bbk.dcs.automed.xml.XMLTransformer
getFirstElement() - Method in class uk.ac.ic.doc.automed.matching.SchemaElementPair
  Returns the first `SchemaElement` object of the pair.
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
getForwardDegree() - Method in class uk.ac.ic.doc.automed.matching.BidirectionalDegree
  Returns the forward similarity degree.
getFrame() - Method in class uk.ac.ic.doc.automed.editor.Gui
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.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.tml.TML
getFromSID() - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns the schema identifier (SID) of the originating schema.
getFunction(String) - Method in class uk.ac.bbk.dcs.automed.qproc.Environment
getFunction(String) - Method in class uk.ac.bbk.dcs.automed.qproc.FunctionTable
  Returns the BuiltInFunction corresponding to the string name.
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
getGenEdgePosition() - Method in class uk.ac.ic.doc.automed.gui.Rhombus
getGeneralConstruct() - Method in class uk.ac.ic.doc.automed.gui.GraphicSchemaObject
getGeneralConstruct(SchemaObject) - Static method in class uk.ac.ic.doc.automed.reps.Utility
  Returns a SchemaObject corresponding to the "general" entity of a generalization.
getGeneralisationExtend() - Method in class uk.ac.ic.doc.automed.gui.SchemaManager
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
getGraphicObject(SchemaObject) - Method in class uk.ac.ic.doc.automed.gui.SchemaManager
getGraphics() - Method in class uk.ac.ic.doc.automed.gui.SchemaManager
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
getHDMEquiv() - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Get the type id of the HDM equivalent of this type
getHDMNetwork() - Method in class uk.ac.ic.doc.automed.reps.Schema
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
getIcon(String) - Static method in class uk.ac.ic.doc.automed.templates.gui.Accessories
getIcon() - Method in interface uk.ac.ic.doc.automed.xmlschema.tree.IconAndTipCarrier
getIcon() - Method in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObject
getIconHeight() - Method in class uk.ac.ic.doc.automed.gui.ArrowIcon
getIconWidth() - Method in class uk.ac.ic.doc.automed.gui.ArrowIcon
getId() - Method in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
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
getIncomingEdges() - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraphNode
getInput(int) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
getInput(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
getInputArguments() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgumentList
getInputDoc() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.DOMWrapper
getInputItems() - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
getInsertableSQLValue(Object, int) - Static method in class uk.ac.ic.doc.automed.Util
getInstance(long) - Static method in class uk.ac.ic.doc.automed.p2p.QueryCache
  A singleton method to make sure that there is only one instance of query cache per peer
getInstancesSorted() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
  Returns the sorted array of the instances of this `SchemaElement` object.
getInstanceUIDDoc() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.DOMWrapper
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
getIntegratedSchema() - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
getIntProperty(String, String) - Method in class uk.ac.ic.doc.automed.p2p.AppToolKit.NodeConfig
getIPAddress(String) - Static method in class uk.ac.ic.doc.automed.p2p.communication.UDPServer
  A static utility method to perform reverse name lookup
getIsReturnedValue() - Method in class uk.ac.ic.doc.automed.templates.TransformationArgumentDefinition
  Returns the type of this TransformationArgumentDefinition.
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.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.ConstructScheme
  Implements `PersistentObject` interface Added by mdle on 20/10/2005
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 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.TypeHierarchy
  Implements the `PersistentObject` interface
getKey(XSDOMObject, XSDOMObject) - Method in class uk.ac.ic.doc.automed.xmlschema.transform.XMLSchemaTransform
getKeyId() - Method in class uk.ac.ic.doc.automed.reps.PersistentKey
getKeyRef() - Method in interface uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObj
getKeyRef() - Method in class uk.ac.ic.doc.automed.xmlschema.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 interface uk.ac.ic.doc.automed.editor.Positionable
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.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.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.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.
getLeafs() - Method in class uk.ac.ic.doc.automed.reps.Network
getLengthRange() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
getListElement() - Method in class uk.ac.ic.doc.automed.templates.wrapper.IndexListStatement
getLocalId() - Method in class uk.ac.ic.doc.automed.reps.PersistentKey
getLocalPort() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  public boolean isRegistered() { return this.registered; }
getLocation() - Method in class uk.ac.ic.doc.automed.gui.GraphicSchemaObject
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
getManager() - Method in class uk.ac.ic.doc.automed.gui.GraphicSchemaObject
getMassPotential() - Method in class uk.ac.ic.doc.automed.matching.UncertainSchemaElementPair
  Returns the mass potential of this pair.
getMax() - Method in class uk.ac.ic.doc.automed.matching.Range
getMaximalQuery(String) - Method in class uk.ac.ic.doc.automed.p2p.QueryCache
  Unlike `#getQuery(query)` which performs an exact query match, this method
  attempts to perform a maximal query rewriting against the
  existing views/queries in the cache and aggregate the results of the found views
  .
getMaximum(double[]) - Static method in class uk.ac.ic.doc.automed.matching.Util
getMaxOccurs() - Method in interface uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObj
getMaxOccurs() - Method in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObject
getMDR_DataSourceName() - Static method in class uk.ac.ic.doc.automed.MDR
  Deprecated. use `MDR.getDataSourceName()` instead
getMedium(double[]) - Static method in class uk.ac.ic.doc.automed.matching.Util
getMessage(String, String, Map) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
getMessageBytes(String, String, Map) - Static method in class uk.ac.ic.doc.automed.p2p.MessageHandler
  An utility method to get byte-representation of an XML message
  This method is used in UDP communication
getMessageBytes(String, String, Map) - 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 `Util.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
getMessageHandler(String) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
  A method to get a message handler for a message
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
getMethodArgumentsPosList(int) - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Returns a particular methods's list of argument positions.
getMethodArgumentsType(int, int) - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Returns a particular method's argument type.
getMethodArgumentsTypeList(int) - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Returns a particular methods's list of argument types.
getMethodByName(String, String) - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Returns the ID (`meth_id`) of the method specified by name and class, or `-1` if a method with the specified name doesn't exist in the specified class.
getMethodCall() - Method in class uk.ac.ic.doc.automed.reps.ModelingStatement
  Returns the method to be called by this ModelingStatement.
getMethodName(int) - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Returns the name of the method specified by `meth_id`
getMethodsMethIdList() - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Returns the IDs of all the methods found in the SMR
getMethodsNameList() - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Returns the names of all the methods found in the SMR
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
  Get the id of the model the type comes from
getMin() - Method in class uk.ac.ic.doc.automed.matching.Range
getMinimum(double[]) - Static method in class uk.ac.ic.doc.automed.matching.Util
getMinOccurs() - Method in interface uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObj
getMinOccurs() - Method in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObject
getModel() - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmWrapperFactory
getModel() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XindiceWrapperFactory
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.templates.wrapper.DefaultTemplate
  Returns the model of the template transformation
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.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
getModelingProgram() - Method in class uk.ac.ic.doc.automed.reps.ConstructWithModelingProgram
  Returns the ModelingProgram that defines the graphical representation of this Construct.
getModelingProgramByCID(int) - Static method in class uk.ac.ic.doc.automed.reps.ModelingProgram
  Returns the ModelingProgram of a Construct.
getModelingStatementAt(int) - Method in class uk.ac.ic.doc.automed.reps.ModelingProgram
  Returns the statement at the specified program counter in this program.
getModelingStatements() - Method in class uk.ac.ic.doc.automed.reps.ModelingProgram
  Returns an array containing all of the statements in this program in the correct order.
getModelMap() - Method in class uk.ac.ic.doc.automed.p2p.tree.ObjectBuilder
  Getter for model map object
getModelName(int) - Static method in class uk.ac.ic.doc.automed.MDR
getModelName() - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
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
getModelTree() - Method in class uk.ac.ic.doc.automed.p2p.PathwayDescription
  Return the models tree dmle 14/11/2005
getMySchemas() - Method in class uk.ac.ic.doc.automed.p2p.PeerCache
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.optimise.FoldFunction
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.Subsumption
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.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 class uk.ac.ic.doc.automed.reps.Construct
  Returns the name of the construct.
getName() - Method in class uk.ac.ic.doc.automed.reps.HDMElement
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
  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.templates.CompositeTransformation
  Returns the name of this CompositeTransformation.
getName() - Method in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
getName() - Method in class uk.ac.ic.doc.automed.templates.Statement
  Returns the name of this Statement.
getName() - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefaultTemplate
  Returns the name of the template transformation
getName() - Method in interface uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObj
  Get the name of this object
getName() - Method in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObject
  Get the name of this object
getNegativePostconditions() - Method in class uk.ac.ic.doc.automed.tml.TML
getNegativePreconditions() - Method in class uk.ac.ic.doc.automed.tml.TML
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() - Static method in class uk.ac.ic.doc.automed.reps.Network
  Return a List that contains all Networks held in the repository.
getNetworks(boolean) - 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
getNextItemInList(InputItem) - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
getNextKey() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
getNextRow() - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
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
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
getNodes() - Method in class uk.ac.ic.doc.automed.reps.HDMNetwork
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
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
getNumbers(String[]) - Static method in class uk.ac.ic.doc.automed.matching.Util
getNumCharRange() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
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.
getOBID() - Method in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
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
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
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.
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.
getOperator() - Method in class uk.ac.ic.doc.automed.wrappers.SchemeQuery
  Return the operator type that this query node represents.
getOption(String) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Return an option setting.
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
getOutput(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
getOutput(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
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.ic.doc.automed.reps.TypeHierarchy
  Get the type id of the parent of this 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.
getParentType(int) - Static method in class uk.ac.ic.doc.automed.MDR
getParserType(ASG) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.DOMWrapper
getPassword() - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Returns the password of the user, if it exists
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
getPathwayRequest(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
getPathwayToSourceRequest(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.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.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.
getPc() - Method in class uk.ac.ic.doc.automed.templates.StatementExecution
  Returns the program counter of this StatementExecution.
getPeerAddress() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Added by dmle 27/10/2005 to get a peer's IP address
getPeerApplication() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Return the reference to the actual `PeerApplication`
getPeerCache() - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
  Return the reference to `PeerCache` object which stores peer data
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
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.
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
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.ConstructScheme
  Implements `PersistentObject` interface Added by mdle on 20/10/2005
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 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.TypeHierarchy
  Implements the `PersistentObject` interface
getPI() - Method in class uk.ac.ic.doc.automed.xmlschema.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.communication.AbstractDaemon
getPort() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractPeer
getPortRequest(String) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
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.Network
getPosition() - Method in class uk.ac.ic.doc.automed.reps.Schema
getPosition() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
getPosition() - Method in class uk.ac.ic.doc.automed.templates.RuntimeArgument
  Returns the position of this RuntimeArgument.
getPosition() - Method in class uk.ac.ic.doc.automed.templates.StatementArgumentDefinition
  Returns the position in the statement's argument definition list of this StatementArgumentDefinition.
getPosition() - Method in class uk.ac.ic.doc.automed.templates.TemplateArgument
  Returns the position of this TemplateArgument.
getPosition() - Method in class uk.ac.ic.doc.automed.templates.TransformationArgumentDefinition
  Returns the position in the transformation's argument definition list of this TransformationArgumentDefinition.
getPosition() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TArgument
getPosition() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
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.Network
getPositionedRelativeTo() - Method in class uk.ac.ic.doc.automed.reps.Schema
getPositionedRelativeTo() - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
getPositionInReferencedArgumentSequence() - Method in class uk.ac.ic.doc.automed.templates.TemplateArgument
  Returns the position in the referenced arguments sequence.
getPositivePostconditions() - Method in class uk.ac.ic.doc.automed.tml.TML
getPositivePreconditions() - Method in class uk.ac.ic.doc.automed.tml.TML
getPreferredSize() - Method in class uk.ac.ic.doc.automed.gui.ToolTip
getPrimaryKey() - Method in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.ComplexType
  Get the primary key for this complexType
getPrimaryKeyOfTable(Schema, SchemaObject) - Static method in class uk.ac.ic.doc.automed.reps.Utility
  Returns the primary key of a table SchemaObject.
getProjected() - Method in class uk.ac.ic.doc.automed.matching.modules.MapDisplay
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.SAXWrapper
  The name of the `Protocol`in the repository used to represent JDBC connections.
getProtocolName() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XindiceWrapper
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.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.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.
getPublicSchema(String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
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
getQuality() - Method in class uk.ac.ic.doc.automed.p2p.PathwayDescription
getQualityMeasure() - Method in class uk.ac.ic.doc.automed.reps.Pathway
getQuery(String) - Method in class uk.ac.ic.doc.automed.p2p.QueryCache
  Check in the cache for an exact query match.
  If so return the associated result object; otherwise return null
getQueryCache() - Static method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Get query cache object
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.SQLWrapper
getQueryRequest(String, String) - 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
  Fetch the results of a query from a peer
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
getQueryVariables() - Method in class uk.ac.ic.doc.automed.wrappers.YattaQuery
getRandomInstance() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
  Returns a random instance of the `SchemaElement` object.
getRDBDSSchema() - Method in class uk.ac.bbk.dcs.automed.xml.relational.XMLDSSFromRDB
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
getRecommendOneRequest(String, Map) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
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
getReferencedArgumentsAsArray() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
getReferencedArgumentsAsVector() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
getReferencedArgumentSequence() - Method in class uk.ac.ic.doc.automed.templates.TemplateArgument
  Returns the TemplateArgumentSequence this TemplateArgument refers to.
getReferencedConstruct() - Method in class uk.ac.ic.doc.automed.gui.GraphicSchemaObject
getReferencedConstruct(SchemaObject) - Static method in class uk.ac.ic.doc.automed.reps.Utility
  Returns the object a SchemaObject is attached to.
getReferencedConstructs() - Method in class uk.ac.ic.doc.automed.gui.GraphicSchemaObject
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() - Method in class uk.ac.ic.doc.automed.gui.GraphicSchemaObject
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() - Method in class uk.ac.ic.doc.automed.gui.GraphicSchemaObject
getReferencedTable(SchemaObject) - Static method in class uk.ac.ic.doc.automed.reps.Utility
  Returns the table of a primary key SchemaObject.
getReferencePosition() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
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
getRefPos() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
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
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.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.ClustererClassifier
getRenamedObject() - Method in class uk.ac.ic.doc.automed.templates.wrapper.RenameStatement
getReply(AbstractMessage, String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
getReplyForRequest(AbstractMessage, InetAddress, int) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
getReplyForRequest(AbstractMessage, InetAddress, int) - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractPeer
getReplyForRequest(AbstractMessage, InetAddress, int) - Static method in class uk.ac.ic.doc.automed.p2p.communication.TCPClient
  A deprecated method: use `TCPClient.runAction()` instead
getRepObject() - Method in interface uk.ac.ic.doc.automed.editor.Positionable
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
getRepTran() - Method in class uk.ac.ic.doc.automed.tml.TML
getRequiredNumberOfElements() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
getResponseHandler(String) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
  Return the same MessageHandler object that also acts as the handler for
  reponse resulted from the client's message
getResult() - Method in class uk.ac.ic.doc.automed.p2p.QueryResultDescription
getResult() - Method in class uk.ac.ic.doc.automed.templates.wrapper.CreateListStatement
getResultFromRepository() - Method in class uk.ac.ic.doc.automed.p2p.BrokerRequestReceiver
getReturnedArgumentsDefinition() - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Returns the arguments that store returned values after the transformation's invocation.
getReverseTransformation() - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns the reverse transformation of the given transformation.
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.xmlschema.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.xmlschema.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.xmlschema.xsdomobject.Document
  Return any root types
getRowCount() - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerTableModel
getRuntimeArgumentSequence(int) - Static method in class uk.ac.ic.doc.automed.templates.RuntimeArgumentSequence
  Returns the reference to the RuntimeArgumentSequence with the given ID.
getRuntimeArgumentSequences() - Static method in class uk.ac.ic.doc.automed.templates.RuntimeArgumentSequence
  Returns an array of all RuntimeArgumentSequence objects that have RuntimeArgument objects.
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.PathwayDescription
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.
getSchemaDoc() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSDOMFromXSD
getSchemaDoc() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSFromAMSchema
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.
getSchemaForegroundColor(int) - Static method in class uk.ac.ic.doc.automed.STR
getSchemaId() - Method in interface uk.ac.ic.doc.automed.templates.gui.InteractiveSchemaDisplay
getSchemaId() - Method in class uk.ac.ic.doc.automed.templates.gui.SchemaPanel
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.xml.wrappers.XMLWrapper
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.automed.templates.gui.SchemaPanel
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.
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
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.
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 id 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) - 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.XMLDSSSAX
getSchemaUIDDoc() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
getScheme() - Method in class uk.ac.ic.doc.automed.reps.Construct
  Returns an array of `ConstructScheme` objects representing the scheme of the construct.
getSchemeArray(Construct, String[]) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  This method is used to retrieve the Object [] which defines the schema of a newly added object.
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.
getSchemeList() - Method in class uk.ac.ic.doc.automed.templates.wrapper.SchemeListStatement
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() - 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
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.
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
getSecondElement() - Method in class uk.ac.ic.doc.automed.matching.SchemaElementPair
  Returns the second `SchemaElement` object of the pair.
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.
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
getSequenceId() - Method in class uk.ac.ic.doc.automed.templates.RuntimeArgument
  Returns the sequence identifier of this RuntimeArgument.
getSequenceId() - Method in class uk.ac.ic.doc.automed.templates.RuntimeArgumentSequence
  Returns the sequence ID of this RuntimeArgumentSequence.
getSequenceId() - Method in class uk.ac.ic.doc.automed.templates.TemplateArgument
  Returns the sequence identifier of this TemplateArgument.
getSequenceId() - Method in class uk.ac.ic.doc.automed.templates.TemplateArgumentSequence
  Returns the sequence ID of this TemplateArgumentSequence.
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).
getShape() - Method in class uk.ac.ic.doc.automed.gui.GraphicSchemaObject
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.SimilarCluster
getSize() - Method in class uk.ac.ic.doc.automed.matching.modules.ElementVectorRepresentation
getSmartQuoting() - Static method in class uk.ac.ic.doc.automed.reps.Syntax
getSMR_DataSourceName() - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Deprecated, use getDataSourceName instead
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
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.
getSpecEdgePosition() - Method in class uk.ac.ic.doc.automed.gui.Rhombus
getSpecialConstructs() - Method in class uk.ac.ic.doc.automed.gui.GraphicSchemaObject
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()
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.gui.PeerApplication
  Return the peer-wise state handler object.
getStatement(String) - Static method in class uk.ac.ic.doc.automed.templates.Statement
  Returns a reference to a Statement.
getStatement(int) - Static method in class uk.ac.ic.doc.automed.templates.Statement
  Returns a reference to a Statement.
getStatement() - Method in class uk.ac.ic.doc.automed.templates.StatementExecution
  Returns the Statement of this StatementExecution.
getStatementByName(String) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
  Returns the ID (`st_id`) of the statement specified by name, or `-1` if a statement with the specified name doesn't exist in the TTSR.
getStatementDefinitionArgPosList(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
  Returns a particular statement's list of argument positions.
getStatementDefinitionDescription(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
  Returns a particular statement's argument definition (only the `description` field).
getStatementDefinitionDescriptionList(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
  Returns a particular statement's list of argument definitions (only the `description` field).
getStatementDefinitionFieldName(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
  Returns a particular statement's argument definition (only the `field_name` field).
getStatementDefinitionFieldNameList(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
  Returns a particular statement's list of argument definitions (only the `field_name` field).
getStatementDefinitionTableName(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
  Returns a particular statement's argument definition (only the `table_name` field).
getStatementDefinitionTableNameList(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
  Returns a particular statement's list of argument definitions (only the `table_name` field).
getStatementDescription() - Method in class uk.ac.ic.doc.automed.templates.wrapper.CreateListStatement
getStatementDescription() - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefineStringStatement
getStatementDescription() - Method in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
getStatementDescription() - Method in class uk.ac.ic.doc.automed.templates.wrapper.IndexListStatement
getStatementDescription() - Method in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
getStatementDescription() - Method in class uk.ac.ic.doc.automed.templates.wrapper.RemovingStatement
getStatementDescription() - Method in class uk.ac.ic.doc.automed.templates.wrapper.RenameStatement
getStatementDescription() - Method in class uk.ac.ic.doc.automed.templates.wrapper.SchemeListStatement
getStatementDescription() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatement
getStatementExecutionAt(int) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Returns a particular StatementExecution in the CompositeTransformations's template program.
getStatementExecutions() - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Returns an array of all the StatementExecution objects in this CompositeTransformation.
getStatementExecutionsForTransformation(int) - Static method in class uk.ac.ic.doc.automed.templates.StatementExecution
  Returns all the StatementExecution objects of the specified composite transformation.
getStatementName(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
  Returns the name of the statement specified by `st_id`
getStatements() - Static method in class uk.ac.ic.doc.automed.templates.Statement
  Returns an array of all Statement objects.
getStatementsNameList() - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
  Returns the names of all the statements found in the TTSR
getStatementsStIdList() - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
  Returns the IDs of all the statements found in the TTSR
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
getStId() - Method in class uk.ac.ic.doc.automed.templates.Statement
  Returns the ID of this Statement.
getStId() - Method in class uk.ac.ic.doc.automed.templates.StatementArgumentDefinition
  Returns the statement identifier defining which statement this StatementArgumentDefinition belongs to.
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.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() - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefineStringStatement
getString() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.CONSTRAINTS
getString() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.FUNCTION
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
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.
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() - Method in class uk.ac.ic.doc.automed.gui.GraphicSchemaObject
getTableForeignKeyPoints(SchemaObject) - Static method in class uk.ac.ic.doc.automed.reps.Utility
  Returns the table that a foreign key SchemaObject points.
getTableName() - Method in class uk.ac.ic.doc.automed.templates.StatementArgumentDefinition
  Returns the tablename of this StatementArgumentDefinition.
getTableName() - Method in class uk.ac.ic.doc.automed.templates.TransformationArgumentDefinition
  Returns the tablename of this TransformationArgumentDefinition.
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() - Method in class uk.ac.ic.doc.automed.gui.GraphicSchemaObject
getTableWithForeignKey(SchemaObject) - Static method in class uk.ac.ic.doc.automed.reps.Utility
  Returns the table of a foreign key SchemaObject.
getTemplateArgumentSequence(int) - Static method in class uk.ac.ic.doc.automed.templates.TemplateArgumentSequence
  Returns the reference to the TemplateArgumentSequence with the given ID.
getTemplateArgumentSequences() - Static method in class uk.ac.ic.doc.automed.templates.TemplateArgumentSequence
  Returns an array of all TemplateArgumentSequence objects that have TemplateArgument objects.
getTemplateName() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgumentList
getTempPathway(Pathway) - Static method in class uk.ac.ic.doc.automed.tml.TempPathway
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
getTimeOut() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractDaemon
getTimeOut() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractServer
getTimeOut() - Method in class uk.ac.ic.doc.automed.p2p.P2PRegistry
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
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.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(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.
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.tml.TML
getToSID() - Method in class uk.ac.ic.doc.automed.reps.Transformation
  Returns the schema identifier (SID) of the resultant schema.
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.
getTransferData(DataFlavor) - Method in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObject
getTransferDataFlavors() - Method in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObject
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.
getTransformationObject(int) - Static method in class uk.ac.ic.doc.automed.reps.SchemaObject
getTransformationProperty(int, int, String) - Static method in class uk.ac.ic.doc.automed.STR
  Transformation Property
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
getTransformations() - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformationRecord
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.
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.
getTransId() - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Returns the ID of this CompositeTransformation.
getTransId() - Method in class uk.ac.ic.doc.automed.templates.StatementExecution
  Returns the transformation identifier of the composite transformation this StatementExecution belongs to.
getTransId() - Method in class uk.ac.ic.doc.automed.templates.TransformationArgumentDefinition
  Returns the composite transformation identifier defining which transformation this TransformationArgumentDefinition belongs to.
getTransId() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
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
getType() - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraphNode
getType() - Static method in class uk.ac.ic.doc.automed.p2p.KeepAliveMessageHandler
  Return this class type
getType() - Static method in class uk.ac.ic.doc.automed.p2p.UnregisterPeerMessageHandler
  Return this class type
getType() - Static method in class uk.ac.ic.doc.automed.p2p.UpdateDataMessageHandler
  Return this class type
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(int) - Static method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Get the type object identified by tid
getType(String, String) - Static method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Retrieve a `TypeHierarchy` object from database based on name and model
getType(TStatementArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
getType(TStatementArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.RemovingStatement
getType() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TArgument
getType() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
getType() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateArgument
getType() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
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.xmlschema.xsdomobject.ComplexType
  Return the type
getType() - Method in interface uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObj
  Get the type of this object
getType() - Method in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObject
  Get the type of this object
getTypeHierarchy() - Method in class uk.ac.ic.doc.automed.reps.Model
  Get a list of `TypeHierarchy` objects associated to this model
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
  Get the type object identified by tid
getTypeId() - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Get the type of this object
getTypeID() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TArgument
getTypeID() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
getTypeID() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateArgument
getTypeID() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
getTypeIds() - Static method in class uk.ac.ic.doc.automed.MDR
  Get the type id of @param type_name in model @param mid
getTypeInstance() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TArgument
getTypeInstance() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
getTypeInstance() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateArgument
getTypeInstance() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
getTypeMID(int) - Static method in class uk.ac.ic.doc.automed.MDR
getTypeName(int) - Static method in class uk.ac.ic.doc.automed.MDR
getTypes() - Static method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Returns an array of all types.
getTypesForModel(String) - Static method in class uk.ac.ic.doc.automed.MDR
  Get the complete rows of `TypeHierarchy` objects for a specific
  `Model`.
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.XMLSchemaWrapper
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.
getUsername() - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Returns the username used for connecting to the database.
getUSRs() - Method in class uk.ac.ic.doc.automed.matching.modules.AbstractModule
getValue() - Method in class uk.ac.ic.doc.automed.gui.GraphicSchemaObject
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
getValue() - Method in class uk.ac.ic.doc.automed.templates.RuntimeArgument
  Returns this RuntimeArgument's value field.
getValue() - Method in class uk.ac.ic.doc.automed.templates.TemplateArgument
  Returns this TemplateArgument's value field.
getValueAt(int, int) - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerTableModel
getValueForTemplateArgument(int, int, String, String[], HashMap) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Returns the value for a template argument.
getValueForTemplateArgumentPointingToArgId(int, int, String, String[], HashMap, Vector, boolean) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  .
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.
getValuesDisplaying() - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
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.
getVertices() - Method in class uk.ac.ic.doc.automed.reps.HDMEdge
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
getWorkersNumber() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractServer
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.tree.Root
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() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
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
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
getXPos() - Method in interface uk.ac.ic.doc.automed.editor.Positionable
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
getXPos() - Method in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
getXSD() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSDOMFromXSD
getYattaRootNode(Schema) - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapper
getYPos() - Method in interface uk.ac.ic.doc.automed.editor.Positionable
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
getYPos() - Method in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
GLOBAL - Static variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
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.
GraphicSchemaObject - Class in uk.ac.ic.doc.automed.gui
GraphicSchemaObject(GraphicManager, Schema, SchemaObject) - Constructor for class uk.ac.ic.doc.automed.gui.GraphicSchemaObject
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
Greater() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Greater
GreaterEqual - Class in uk.ac.bbk.dcs.automed.qproc.functions
GreaterEqual() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.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
Group() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Group
GroupCompute - Class in uk.ac.bbk.dcs.automed.qproc.functions
GroupCompute() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.GroupCompute
grouplist(ModifiedArray) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Group
Gui - Class in uk.ac.ic.doc.automed.editor
  Provide a GUI into the AutoMed repositories.
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.
GUIException - Exception in uk.ac.ic.doc.automed.gui
  The class of exceptions generated by the GUI.
GUIException(String) - Constructor for exception uk.ac.ic.doc.automed.gui.GUIException
GUIException(String, Exception) - Constructor for exception uk.ac.ic.doc.automed.gui.GUIException
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.TCPClient
  Handle thread's interrupted action
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.
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 class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryUDPHelper
  Implement `JobHandler` interface.
  This method is invoked by every job thread to handle UDP requests from clients
handleMessage(Map) - Method in class uk.ac.ic.doc.automed.p2p.KeepAliveMessageHandler
  Implements the `MessageHandlable` interface
handleMessage(Map) - Method in interface uk.ac.ic.doc.automed.p2p.MessageHandlable
  Handle a message passwd to it
handleMessage(Map) - Method in class uk.ac.ic.doc.automed.p2p.UnregisterPeerMessageHandler
  Implements the `MessageHandlable` interface
handleMessage(Map) - Method in class uk.ac.ic.doc.automed.p2p.UpdateDataMessageHandler
  Implements the `MessageHandlable` interface
handleNonStatementArgument(int, String[], HashMap, Vector, boolean) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Creates an execution argument sequence according to a template argument sequence.
handler - Variable in class uk.ac.ic.doc.automed.p2p.communication.AbstractClient
handleRequest(AbstractMessage, OutputStream) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
handleRequest(OutputStream) - Method in class uk.ac.ic.doc.automed.p2p.BrokerRequestReceiver
handleRequest(AbstractMessage, OutputStream) - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractRequestListener
  Handle TCP-type requests
handleRequest(byte[]) - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractRequestListener
handleRequest(AbstractMessage, OutputStream) - Method in interface uk.ac.ic.doc.automed.p2p.communication.RequestListener
  Handle TCP-type requests
handleRequest(byte[]) - Method in interface uk.ac.ic.doc.automed.p2p.communication.RequestListener
  Another handler for TCP-type requests
handleRequest(AbstractMessage, OutputStream) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
handleRequest(AbstractMessage, OutputStream) - Method in class uk.ac.ic.doc.automed.p2p.P2PRegistry
handleRequest(byte[]) - 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
  Handle UDP requests
handleUDPRequest(String, int, byte[]) - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractRequestListener
handleUDPRequest(InetAddress, int, byte[]) - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractRequestListener
handleUDPRequest(byte[]) - Method in interface uk.ac.ic.doc.automed.p2p.communication.RequestListener
  Added by mdle on 25/10/2005 to handle UDP request
handleUDPRequest(String, int, byte[]) - Method in interface uk.ac.ic.doc.automed.p2p.communication.RequestListener
handleUDPRequest(InetAddress, int, byte[]) - Method in interface uk.ac.ic.doc.automed.p2p.communication.RequestListener
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.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
hasObject(SchemaObject) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Determines if the schema contains the given schema object.
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.HDMWrapperFactory
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.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.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_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
HDMConstraint - Class in uk.ac.ic.doc.automed.reps
HDMConstraint() - Constructor for class uk.ac.ic.doc.automed.reps.HDMConstraint
HDMConstraint(String) - Constructor for class uk.ac.ic.doc.automed.reps.HDMConstraint
HDMEdge - Class in uk.ac.ic.doc.automed.reps
HDMEdge() - Constructor for class uk.ac.ic.doc.automed.reps.HDMEdge
HDMEdge(String) - Constructor for class uk.ac.ic.doc.automed.reps.HDMEdge
HDMEdge(String, HDMElement[]) - Constructor for class uk.ac.ic.doc.automed.reps.HDMEdge
HDMElement - Class in uk.ac.ic.doc.automed.reps
HDMElement() - Constructor for class uk.ac.ic.doc.automed.reps.HDMElement
HDMElement(String) - Constructor for class uk.ac.ic.doc.automed.reps.HDMElement
HDMNetwork - Class in uk.ac.ic.doc.automed.reps
HDMNetwork() - Constructor for class uk.ac.ic.doc.automed.reps.HDMNetwork
HDMNode - Class in uk.ac.ic.doc.automed.reps
HDMNode() - Constructor for class uk.ac.ic.doc.automed.reps.HDMNode
HDMNode(String) - Constructor for class uk.ac.ic.doc.automed.reps.HDMNode
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?
hdmToHighLevelTypeLookup(int, String) - Static 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.xmlschema.transform.XMLSchemaTransform
  Transform the HDM elements in this schema into XMLSchema 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
hdmToXML() - Method in class uk.ac.ic.doc.automed.xmlschema.transform.XMLSchemaTransform
  Transform the HDM elements in this schema into XMLSchema elements
hdmToXMLSchema() - Method in class uk.ac.ic.doc.automed.xmlschema.transform.XMLSchemaTransform
  Transform the HDM elements in this schema into XMLSchema elements
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
heartBeat(String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
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
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
hidden - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.ITEM
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.
hide() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.ITEM
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.xmlschema.transform
HighLevelToHDM(Schema) - Constructor for class uk.ac.ic.doc.automed.xmlschema.transform.HighLevelToHDM
  Creates a new instance of HighLevelToHDM
highLevelToHDMTypeLookup(int) - Static method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Method to return the HDM type equivalent to to the high level type @param tid
highlighted - Variable in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
highlightElseDisableObjectsWithCID(int) - Method in interface uk.ac.ic.doc.automed.templates.gui.InteractiveSchemaDisplay
highlightElseDisableObjectsWithCID(int) - Method in class uk.ac.ic.doc.automed.templates.gui.SchemaPanel
highlightObjectsWithCID(int) - Method in class uk.ac.ic.doc.automed.templates.gui.SchemaPanel
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
HORIZONTAL_EXT - Static variable in class uk.ac.ic.doc.automed.gui.Rhombus
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
hyphen - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token

## I

icon - Variable in class uk.ac.ic.doc.automed.xmlschema.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.FSym
If - Class in uk.ac.bbk.dcs.automed.qproc.functions
If() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.If
ifStack - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
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
implementCompositeTransformation(int, InteractiveSchemaDisplay, Frame) - Static method in class uk.ac.ic.doc.automed.templates.gui.TemplateDialogueLauncher
implementCompositeTransformation(InteractiveSchemaDisplay, Frame) - Static method in class uk.ac.ic.doc.automed.templates.gui.TemplateDialogueLauncher
implementSchema(String, String) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
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
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.QSym
IN(TemplateCompilerSimulator.NAMELIST) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
IN(TemplateCompilerSimulator.OBJECTLIST) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
IN(TemplateCompilerSimulator.FUNCTIONLIST) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
IN(TemplateCompilerSimulator.CONSTRAINTSLIST) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
IN(TemplateCompilerSimulator.FUNCTION) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
IN(TemplateCompilerSimulator.CONSTRAINTS) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
IN_ROW - Static variable in class uk.ac.ic.doc.automed.gui.SchemaManager
Incompatibility - Class in uk.ac.ic.doc.automed.matching.relationships
  The Incompatibility class represent the lack of any compatible semantic relationship between `SchemaElement` objects.
inconsistent - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
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
  Creates an InconsistentException when there has been no Exception that caused the error to discovered.
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.
INDENT - Static variable in class uk.ac.ic.doc.automed.editor.DrawNetwork
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
INDEX_LIST_STATEMENT - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
IndexListStatement - Class in uk.ac.ic.doc.automed.templates.wrapper
IndexListStatement() - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.IndexListStatement
indexOf(Schema) - Method in class uk.ac.ic.doc.automed.reps.Pathway
  Returns the index of a given `Schema` within the pathway.
info(String) - Static method in class uk.ac.ic.doc.automed.p2p.util.Logger
info(Class, String, String) - Static method in class uk.ac.ic.doc.automed.p2p.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_actions() - Method in class uk.ac.bbk.dcs.automed.qproc.EnvParser
  Action encapsulation object initializer.
init_actions() - Method in class uk.ac.bbk.dcs.automed.qproc.QParser
  Action encapsulation object initializer.
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
initGui(JButton[]) - Method in class uk.ac.ic.doc.automed.p2p.gui.MainFrame
initialise() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
initialiseArguments() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgumentList
initialiseCache() - Method in class uk.ac.ic.doc.automed.p2p.PeerCache
initialiseRepository() - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
initialiseToolbars() - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
initialSchemaKey - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
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.
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
initSchema(AutoMedObject) - Method in class uk.ac.ic.doc.automed.p2p.tree.ObjectBuilder
  Edited by dmle on 13/11/2005 to change the scope to package-level
initSchema(AutoMedObject, Schema) - Method in class uk.ac.ic.doc.automed.p2p.tree.SchemaObjectBuilder
  An overloading method to create a new `Schema` object
inputData(int, String) - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
inputData(String, String) - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
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
InputForm - Class in uk.ac.ic.doc.automed.templates.gui
InputForm(TTemplateInputArgument) - Constructor for class uk.ac.ic.doc.automed.templates.gui.InputForm
InputForm(boolean, boolean) - Constructor for class uk.ac.ic.doc.automed.templates.gui.InputForm
InputForm(int, boolean) - Constructor for class uk.ac.ic.doc.automed.templates.gui.InputForm
inputObjectToTemplate(int, String) - Method in interface uk.ac.ic.doc.automed.templates.gui.DialogueManager
inputObjectToTemplate(int, String) - Method in class uk.ac.ic.doc.automed.templates.gui.TemplateInputDialogue
INPUTS() - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefaultTemplate
INPUTS() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
inputs - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
inputVariables - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
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.
InsertingStatement - Class in uk.ac.ic.doc.automed.templates.wrapper
InsertingStatement() - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
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.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.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
  The singleton instance of the `Subset` class
INSTANCE - Static variable in class uk.ac.ic.doc.automed.matching.relationships.Superset
  The singleton instance of the `Superset` class
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
IntegrateDialog - Class in uk.ac.ic.doc.automed.gui
  A dialog that can be used for schema integration by name.
IntegrateDialog(Frame, String, boolean) - Constructor for class uk.ac.ic.doc.automed.gui.IntegrateDialog
integrateSchemas(Schema, Schema) - Static method in class uk.ac.ic.doc.automed.gui.IntegrateDialog
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, String, int, int, int) - Constructor for exception uk.ac.ic.doc.automed.IntegrityException
  Creates an IntegrityException, recording details of what operation was being attempted
InteractiveSchemaDisplay - Interface in uk.ac.ic.doc.automed.templates.gui
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`
intValue() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedInteger
  Return the value of this AutoMedInteger as an int
INVALID_TYPE - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TConstants
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
INVOCATION_STATEMENT - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Statement to inve other template transformations
invoke(RuntimeArgumentSequence) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Invokes this CompositeTransformation with the specified RuntimeArgumentSequence as arguments.
IQLfromResult(AutoMedResult) - Method in class uk.ac.bbk.dcs.automed.wrappers.SQLTranslator
IQLfromResult(AutoMedResult) - Method in class uk.ac.bbk.dcs.automed.wrappers.Translator
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
IS(TemplateCompilerSimulator.CONSTRAINTS) - Static method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.CONSTRAINTS
IS(String) - Static method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.CONSTRAINTS
IS(Construct) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.CONSTRUCT
IS(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.CONSTRUCT
IS(TemplateCompilerSimulator.FUNCTION) - Static method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.FUNCTION
IS(String) - Static method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.FUNCTION
IS(Object[]) - Static method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.SCHEME
isAdjacent(Node) - Method in class uk.ac.ic.doc.automed.reps.Node
isApply() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
  Returns true if tag is apply
isArgument - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.CONSTRAINTS
isArgument - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.FUNCTION
isAtomic() - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
  Returns `true` if the schema element is "atomic", `false` otherwise.
isBaseType(String) - Static method in class uk.ac.ic.doc.automed.xmlschema.AutoMedToXSDOM
  Checks whether the type is one of the two base types defined for the XML Schema model
isBaseType(String) - Static method in class uk.ac.ic.doc.automed.xmlschema.transform.XMLSchemaTransform
isBeingDisplayed() - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
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
isComplete() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
isConsConstructor() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
  Returns true if tag is "Cons"
isConstant() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
  Returns true if tag is constant
isConstraints() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TArgument
isConstraints() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
isConstraints() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateArgument
isConstraints() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
isConstructor() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
  Returns true if tag is 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
isCyclic() - Method in class uk.ac.ic.doc.automed.reps.Network
isDataFlavorSupported(DataFlavor) - Method in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObject
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.
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
isEmpty() - Method in class uk.ac.ic.doc.automed.reps.ModelingProgram
  Tests if this program is empty.
isEnabled() - Method in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
isExecuted() - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Returns false if the specified transformation is not currently being executed, true otherwise.
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.
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
isFunction() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
  Returns true if tag is function
isFunction() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TArgument
isFunction() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
isFunction() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateArgument
isFunction() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
isGlobal() - Method in class uk.ac.ic.doc.automed.p2p.tree.Reference
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
isHidden() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.ITEM
isHighlighted() - Method in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
isInRepository() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
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.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
isList() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TArgument
isList() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
isList() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateArgument
isList() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
isModelExist(String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryRepository
  Check if a model exists in the repository
isName() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TArgument
isName() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
isName() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateArgument
isName() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
isNaN() - Method in class uk.ac.ic.doc.automed.matching.BidirectionalDegree
  Returns `true` if one of the similarity degrees is not a number.
isNew() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
isNewTemplate - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
isNilConstructor() - Method in class uk.ac.bbk.dcs.automed.qproc.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.Cell
  Returns true if the Cell contains a double
isObject() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TArgument
isObject() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
isObject() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateArgument
isObject() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
isOK() - Method in class uk.ac.ic.doc.automed.p2p.gui.InputDialog
isOutput() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateArgument
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
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() - Method in class uk.ac.ic.doc.automed.gui.GraphicSchemaObject
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
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.
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
isReturn - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateArgument
isRoot() - Method in class uk.ac.bbk.dcs.automed.graph.TreeNode
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
isSchema() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TArgument
isSchema() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
isSchema() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateArgument
isSchema() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
isSchemaInfoCached(String) - Method in class uk.ac.ic.doc.automed.p2p.PeerCache
isScheme() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
  Returns true if tag is scheme
isSet() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
isSpecial() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
  Returns true if tag is special
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`
isString() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TArgument
isString - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.CONSTRAINTS
isString - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.FUNCTION
isString() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
isString() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateArgument
isString() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
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.
isSysVariable() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
  Returns true if tag is sysvariable
isTempARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
isTree() - Method in class uk.ac.ic.doc.automed.reps.Network
isUndefined() - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformationRecord
isUnknown() - Method in class uk.ac.ic.doc.automed.p2p.protocol.Request
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
isValidMethId(int) - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  This method determines if a method with the specified `meth_id` exists in the SMR.
isValidStId(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
  This method determines if a statement with the specified `st_id` exists in the TTSR.
isValidTransId(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  This method determines if a composite transformation with the specified `trans_id` exists in the TTR.
isVariable() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
  Returns true if tag is variable
isWellformed() - Method in class uk.ac.ic.doc.automed.reps.Pathway
isXMLDoc() - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapper
  Was the original document read in an XML document or just a Schema document
isYattaModelandSource(Object[]) - Static method in class uk.ac.ic.doc.automed.editor.PatternWritingTool
itemGotFocus(InputItem) - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
itemPosition(InputItem) - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
itemStateChanged(ItemEvent) - Method in class uk.ac.ic.doc.automed.editor.MatchingTool

## J

JSomClusterer - Class in uk.ac.ic.doc.automed.matching.modules
JSomClusterer(int) - Constructor for class uk.ac.ic.doc.automed.matching.modules.JSomClusterer
JSomClusterer(ElementVectorRepresentation[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.JSomClusterer
justDragged - Variable in class uk.ac.ic.doc.automed.templates.gui.DrawingObject

## K

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() - 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.xmlschema.xsdomobject.XSDOMObject
  Any keyref there might be
keywords - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token

## L

l() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
  Returns a reference to the left child of the Cell
lambda - Static variable in class uk.ac.bbk.dcs.automed.qproc.Cell
Lambda - Static variable in class uk.ac.bbk.dcs.automed.qproc.FSym
Lambda - Static variable in class uk.ac.bbk.dcs.automed.qproc.QSym
LArrow - Static variable in class uk.ac.bbk.dcs.automed.qproc.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
lastArgumentPosition - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
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
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
lastSchema - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
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
layDownAllInputItems() - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
layoutContainer(Container) - Method in class uk.ac.ic.doc.automed.editor.PinBoardLayout
LCB - Static variable in class uk.ac.bbk.dcs.automed.qproc.QSym
LDAB - Static variable in class uk.ac.bbk.dcs.automed.qproc.FSym
LDAB - Static variable in class uk.ac.bbk.dcs.automed.qproc.QSym
LEFT_ARROW_ICON - Static variable in class uk.ac.ic.doc.automed.templates.gui.Accessories
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
Less - Class in uk.ac.bbk.dcs.automed.qproc.functions
Less() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Less
LessEqual - Class in uk.ac.bbk.dcs.automed.qproc.functions
LessEqual() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.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
Let() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Let
Let - Static variable in class uk.ac.bbk.dcs.automed.qproc.QSym
line - Variable in class uk.ac.ic.doc.automed.editor.GUITool
Line - Class in uk.ac.ic.doc.automed.gui
Line() - Constructor for class uk.ac.ic.doc.automed.gui.Line
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
list - Variable in class uk.ac.ic.doc.automed.templates.gui.TemplateDialogueLauncher
LIST - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TConstants
LIST_ICON - Static variable in class uk.ac.ic.doc.automed.templates.gui.Accessories
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.
LIST_TYPE - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TConstants
listArgSeq - Variable in class uk.ac.ic.doc.automed.templates.wrapper.DefineStringStatement
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(ASG) - Static method in class uk.ac.bbk.dcs.automed.qproc.ASG
  Returns a list of the schemes used in the ASG as String objects.
listOfSchemes() - Method in class uk.ac.bbk.dcs.automed.qproc.ASG
  Returns a list of the schemes used in the ASG as String objects.
listPathway() - Method in class uk.ac.bbk.dcs.automed.xml.relational.TransformationsIssuer
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
listScroller - Variable in class uk.ac.ic.doc.automed.templates.gui.TemplateDialogueLauncher
listTransformationPathway() - Method in class uk.ac.bbk.dcs.automed.xml.XMLTransformer
load(Schema) - Method in class uk.ac.ic.doc.automed.gui.SchemaManager
  Loads the schema specified into this SchemaManager.
loadAllTypes() - Static method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Load ALL types.
loadBrowseWindow() - Method in class uk.ac.ic.doc.automed.editor.PatternWritingTool
LoadDialog - Class in uk.ac.ic.doc.automed.gui
LoadDialog(Frame, String, boolean) - Constructor for class uk.ac.ic.doc.automed.gui.LoadDialog
LoadDialog - Class in uk.ac.ic.doc.automed.templates.gui
LoadDialog(Frame, String, boolean) - Constructor for class uk.ac.ic.doc.automed.templates.gui.LoadDialog
loadedSchemas - Variable in class uk.ac.ic.doc.automed.templates.gui.SchemaFrame
LoadListFromFile - Class in uk.ac.bbk.dcs.automed.qproc.functions
LoadListFromFile() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.LoadListFromFile
loadPatternWindow(String) - Method in class uk.ac.ic.doc.automed.editor.PatternWritingTool
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
loadSchema(int) - Method in interface uk.ac.ic.doc.automed.templates.gui.InteractiveSchemaDisplay
loadSchema(Schema) - Method in class uk.ac.ic.doc.automed.templates.gui.SchemaPanel
loadSchema(int) - Method in class uk.ac.ic.doc.automed.templates.gui.SchemaPanel
loadTypes() - Static method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Load all the type information from the repository into the types hash map
loadTypes(String) - Static method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Load types for a specific model
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 - Class in uk.ac.ic.doc.automed.p2p.util
Logger() - Constructor for class uk.ac.ic.doc.automed.p2p.util.Logger
LogicalOptimiser - Class in uk.ac.bbk.dcs.automed.qproc.optimise
  This class coordinates the application of the logical optimisations.
LogicalOptimiser() - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.LogicalOptimiser
LoginFrame - Class in uk.ac.ic.doc.automed.p2p.gui
LoginFrame(PeerApplication, PeerStateHandler) - Constructor for class uk.ac.ic.doc.automed.p2p.gui.LoginFrame
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
loopStatementsStack - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
lowerBound - Static variable in class uk.ac.bbk.dcs.automed.qproc.QueryReformulator
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
LRB - Static variable in class uk.ac.bbk.dcs.automed.qproc.FSym
LRB - Static variable in class uk.ac.bbk.dcs.automed.qproc.QSym
LSB - Static variable in class uk.ac.bbk.dcs.automed.qproc.QSym

## M

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.annotate.QueryAnnotator
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.qproc.optimise.AppendMonusReorganiser
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.qproc.optimise.CompOptimiser
main(String[]) - Static method in class uk.ac.bbk.dcs.automed.qproc.optimise.PhysicalOptimiser
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.PatternWritingTool
main(String[]) - Static method in class uk.ac.ic.doc.automed.editor.XMLSchemaEditor
main(String[]) - Static method in class uk.ac.ic.doc.automed.gui.SchemaTool
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
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.P2PRegistry
main(String[]) - Static method in class uk.ac.ic.doc.automed.reps.SchemaMapGenerator
main(String[]) - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
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.TemplateExecutionRepository
main(String[]) - Static method in class uk.ac.ic.doc.automed.templates.gui.Run
main(String[]) - Static method in class uk.ac.ic.doc.automed.templates.gui.SchemaFrame
main(String[]) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
main(String[]) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
main(String[]) - Static method in class uk.ac.ic.doc.automed.wrappers.P2PWrapper
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
mainPanel - Variable in class uk.ac.ic.doc.automed.templates.gui.SchemaFrame
mainTemplate - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
makeIdentifierSafe(String) - Static method in class uk.ac.ic.doc.automed.reps.Syntax
makeQuery(String) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
makeStringSafe(String) - Static method in class uk.ac.ic.doc.automed.reps.Syntax
makeUpdate(String) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
Map - Class in uk.ac.bbk.dcs.automed.qproc.functions
Map() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Map
MapDisplay - Class in uk.ac.ic.doc.automed.matching.modules
MapDisplay(Map, Vectors) - Constructor for class uk.ac.ic.doc.automed.matching.modules.MapDisplay
  Creates new form MapDisplay
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.
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.
materialiseSchema(Document) - Method in class uk.ac.bbk.dcs.automed.xml.DOMMaterialiser
Max - Class in uk.ac.bbk.dcs.automed.qproc.functions
Max() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Max
MAX_CHARS - Static variable in class uk.ac.ic.doc.automed.matching.modules.StatisticsModule
  The maximum number of characters of an instance
MAX_CHARS - Static variable in class uk.ac.ic.doc.automed.matching.SchemaElement
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
maxOccurs - Variable in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObject
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
Member - Class in uk.ac.bbk.dcs.automed.qproc.functions
Member() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Member
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.
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
MessageHandlable - Interface in uk.ac.ic.doc.automed.p2p
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
METHOD_PREFIX - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  A character that prefixes the method calls in the DEFINE_STRING statement.
METHOD_PREFIX - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
mimicThisCell(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
  Returns an exact copy of the input Cell.
Min - Class in uk.ac.bbk.dcs.automed.qproc.functions
Min() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Min
minimumLayoutSize(Container) - Method in class uk.ac.ic.doc.automed.editor.PinBoardLayout
minOccurs - Variable in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObject
  The minOccurs and maxOccurs value for this object.
Minus - Class in uk.ac.bbk.dcs.automed.qproc.functions
Minus() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Minus
MINUTE - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedTime
  Granularity of one minute
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
  The Model class
model - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
MODEL_OBJECTS - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
ModelDefinitionsRepository - Class in uk.ac.ic.doc.automed
ModelDefinitionsRepository() - Constructor for class uk.ac.ic.doc.automed.ModelDefinitionsRepository
ModelDefinitionsRepositoryException - Exception in uk.ac.ic.doc.automed
ModelDefinitionsRepositoryException(String) - Constructor for exception uk.ac.ic.doc.automed.ModelDefinitionsRepositoryException
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
ModelingProgram - Class in uk.ac.ic.doc.automed.reps
  Class representing the graphical representation of a Construct.
ModelingProgram() - Constructor for class uk.ac.ic.doc.automed.reps.ModelingProgram
  Constructs a new, empty ModelingProgram
ModelingStatement - Class in uk.ac.ic.doc.automed.reps
  Class that defines the statement/method-call that can be used in a construct's graphical representation.
ModelingStatement(String) - Constructor for class uk.ac.ic.doc.automed.reps.ModelingStatement
  Constructs a new ModelingStatement.
modelMap - Variable in class uk.ac.ic.doc.automed.p2p.tree.ObjectBuilder
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
MODELS_STRING - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  Field: MODELS_STRING - store a delimited string of model names
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
Monus - Class in uk.ac.bbk.dcs.automed.qproc.functions
Monus() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Monus
monus(ModifiedArray, ModifiedArray) - Static method in class uk.ac.bbk.dcs.automed.qproc.functions.Utilities
mouseClicked(MouseEvent) - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
mouseClicked(MouseEvent) - Method in class uk.ac.ic.doc.automed.gui.SchemaCanvas
mouseDragged(MouseEvent) - Method in class uk.ac.ic.doc.automed.gui.SchemaCanvas
mouseEntered(MouseEvent) - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
mouseEntered(MouseEvent) - Method in class uk.ac.ic.doc.automed.gui.SchemaCanvas
mouseExited(MouseEvent) - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
mouseExited(MouseEvent) - Method in class uk.ac.ic.doc.automed.gui.SchemaCanvas
mouseMoved(MouseEvent) - Method in class uk.ac.ic.doc.automed.gui.SchemaCanvas
mousePressed(MouseEvent) - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
mousePressed(MouseEvent) - Method in class uk.ac.ic.doc.automed.gui.SchemaCanvas
mouseReleased(MouseEvent) - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
mouseReleased(MouseEvent) - Method in class uk.ac.ic.doc.automed.gui.SchemaCanvas
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
MULTI - Static variable in class uk.ac.ic.doc.automed.editor.UserActionClass
Multiply - Class in uk.ac.bbk.dcs.automed.qproc.functions
Multiply() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.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.
my(TemplateCompilerSimulator.NAME) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
myArgument - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.ITEM
myCompiler - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.ITEM
mySchemaObject - Variable in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
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
myStatements - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
myTable - Variable in class uk.ac.ic.doc.automed.p2p.gui.MainFrame
myTrans - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
myType - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateArgument

## N

NaiveBayesModule - Class in uk.ac.ic.doc.automed.matching.modules
  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.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 - Variable in class uk.ac.ic.doc.automed.matching.relationships.Disjointness
  The name of the `Disjointness` semantic relationship
NAME - Variable in class uk.ac.ic.doc.automed.matching.relationships.Equivalence
  The name of the `Equivalence` semantic relationship
NAME - Variable in class uk.ac.ic.doc.automed.matching.relationships.Incompatibility
  The name of the `Incompatibility` semantic relationship
NAME - Variable in class uk.ac.ic.doc.automed.matching.relationships.Overlapness
  The name of the `Overlapcess` semantic relationship
NAME - Variable in class uk.ac.ic.doc.automed.matching.relationships.Subsumption
  The name of the `Subsumption` semantic relationship
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.templates.gui.DrawingObject
NAME - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TConstants
name - Variable in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObject
  Object name
nameDimensions - Variable in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
names - Variable in class uk.ac.ic.doc.automed.templates.gui.TemplateDialogueLauncher
nestList - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
NestListsFromRDB - Class in uk.ac.bbk.dcs.automed.qproc.functions.xml
  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.qproc.functions.xml.NestListsFromRDB
Network - Class in uk.ac.ic.doc.automed.reps
Network(Schema[][]) - Constructor for class uk.ac.ic.doc.automed.reps.Network
  Constructs a directed network from the schema paths supplied.
Network(String, Schema[][]) - Constructor for class uk.ac.ic.doc.automed.reps.Network
  Constructs a directed network from the schema paths supplied.
Network(String, Schema[][], boolean, boolean) - 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_OBJECT_STATEMENT - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Statement to create new objects
NEW_PEER - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
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, PeerApplication, 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(String, String, String, String, String, AutoMedWrapperFactory) - Static method in class uk.ac.bbk.dcs.automed.xml.wrappers.DOMWrapper
newAutoMedWrapper() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.DOMWrapperFactory
newAutoMedWrapper(String, String, String, String, String, AutoMedWrapperFactory) - Static method in class uk.ac.bbk.dcs.automed.xml.wrappers.SAXWrapper
newAutoMedWrapper() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.SAXWrapperFactory
newAutoMedWrapper(String, String, String, String, String, AutoMedWrapperFactory) - Static method in class uk.ac.bbk.dcs.automed.xml.wrappers.XindiceWrapper
newAutoMedWrapper() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XindiceWrapperFactory
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.HDMWrapperFactory
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.SchemaMatchingSQLWrapperFactory
newAutoMedWrapper() - Method in class uk.ac.ic.doc.automed.wrappers.SQLWrapperFactory
newAutoMedWrapper() - Method in class uk.ac.ic.doc.automed.wrappers.TransactSQLWrapperFactory
newAutoMedWrapper(String, String, String, String, String, AutoMedWrapperFactory) - Static method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapper
  This should be called once per schema file, to configure the repository.
newAutoMedWrapper() - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
newAutoMedWrapper() - Method in class uk.ac.ic.doc.automed.wrappers.YattaWrapperFactory
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
NewElemUID - Class in uk.ac.bbk.dcs.automed.qproc.functions.xml
  Function that produces element UIDs based on the two arguments passed to the function.
NewElemUID() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.xml.NewElemUID
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.
newInput(TemplateCompilerSimulator.ITEM) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
newNameARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.RenameStatement
NewNestLists - Class in uk.ac.bbk.dcs.automed.qproc.functions.xml
  Function that produces element UIDs based on the two arguments passed to the function.
NewNestLists() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.xml.NewNestLists
newObjectArgSeq - Variable in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
newRequest(String, String[]) - Static method in class uk.ac.ic.doc.automed.p2p.protocol.Request
newScope() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
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.EnvLexer
next_token() - Method in class uk.ac.bbk.dcs.automed.qproc.FLexer
next_token() - Method in class uk.ac.bbk.dcs.automed.qproc.QLexer
nextStatement(TStatement) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
NilOptimiser - Class in uk.ac.bbk.dcs.automed.qproc.optimise
NilOptimiser() - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.NilOptimiser
NO_EXT - Static variable in class uk.ac.ic.doc.automed.gui.Rhombus
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
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
Not() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.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 .
NotEqual - Class in uk.ac.bbk.dcs.automed.qproc.functions
NotEqual() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.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(Cacheable) - Method in class uk.ac.ic.doc.automed.p2p.QueryCache
  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.
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_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
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
number - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
NumberInstancesModule - Class in uk.ac.ic.doc.automed.matching.modules
  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.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.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.NumberInstancesModule
numberOfElements(TStatementArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.CreateListStatement
numberOfElements(TStatementArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefineStringStatement
numberOfElements(TStatementArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
numberOfElements(TStatementArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.IndexListStatement
numberOfElements(TStatementArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
numberOfElements(TStatementArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.RemovingStatement
numberOfElements(TStatementArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.RenameStatement
numberOfElements(TStatementArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.SchemeListStatement
numberOfElements() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TArgument
numberOfElements(TStatementArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatement
numberOfElements() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
numberOfElements() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateArgument
numberOfElements() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
numberOfReturns - Variable in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
numberOfRowsInResultSet(ResultSet) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Given a result set - how many rows are in it?
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 class uk.ac.bbk.dcs.automed.qproc.QSym
nval - Variable in class uk.ac.ic.doc.automed.reps.Syntax.Token

## O

obid - Variable in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
OBJECT - Static variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
OBJECT - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TConstants
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_DEFINITION - Static variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
OBJECT_HDISTANCE - Static variable in class uk.ac.ic.doc.automed.gui.SchemaManager
OBJECT_LIST - Static variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
OBJECT_REMOVED - Static variable in class uk.ac.ic.doc.automed.reps.SchemaChangeEvent
OBJECT_VDISTANCE - Static variable in class uk.ac.ic.doc.automed.gui.SchemaManager
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
objectClicked(int, String) - Method in class uk.ac.ic.doc.automed.templates.gui.SchemaPanel
ObjectCollection - Class in uk.ac.ic.doc.automed.p2p.tree
ObjectCollection(Class) - Constructor for class uk.ac.ic.doc.automed.p2p.tree.ObjectCollection
objectMovedAt(DrawingObject, int, int) - Method in class uk.ac.ic.doc.automed.templates.gui.SchemaPanel
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
okButton - Variable in class uk.ac.ic.doc.automed.templates.gui.TemplateDialogueLauncher
okToAddEdge(Edge) - Method in class uk.ac.bbk.dcs.automed.hdmstore.HdmStore
  Given an `Edge` is it OK to add the edge e.g.
oldRetract() - Method in class uk.ac.ic.doc.automed.reps.Schema
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
openScheme - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
operateOnCache(Cacheable) - Method in class uk.ac.ic.doc.automed.p2p.gui.CacheViewerFrame
  Implements `CacheListener` interface.
  This event is fired when cache content is updated which should also update
  the cache view
OPT_KEEP_ALIVE - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Handler type: keep-alive
OPT_UNREGISTER - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Handler type: unregistering client from registry and server
OPT_UPDATE_DATA - Static variable in class uk.ac.ic.doc.automed.p2p.Constants
  Handler type: data update with directory server
optimise(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.AppendMonusReorganiser
optimise(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.CompOptimiser
optimise(ASG) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.DisjunctionOptimiser
optimise(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.DisjunctionOptimiser
optimise(ASG) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.LogicalOptimiser
optimise(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.NilOptimiser
optimise(ASG) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.PhysicalOptimiser
optimise(ASG) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.QueryOptimiser
optimise() - Method in class uk.ac.ic.doc.automed.reps.Pathway
optimise(int) - Method in class uk.ac.ic.doc.automed.reps.Pathway
optimise(boolean) - Method in class uk.ac.ic.doc.automed.reps.Pathway
optimise(boolean, int) - Method in class uk.ac.ic.doc.automed.reps.Pathway
optimise(boolean, PathwayOptimiserTool) - Method in class uk.ac.ic.doc.automed.reps.Pathway
optimise(boolean, PathwayOptimiserTool, int) - Method in class uk.ac.ic.doc.automed.reps.Pathway
optimiseAdvanced(Object[]) - Static method in class uk.ac.ic.doc.automed.editor.PathwayOptimiserTool
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
OpToken - Static variable in class uk.ac.bbk.dcs.automed.qproc.QSym
Or - Class in uk.ac.bbk.dcs.automed.qproc.functions
Or() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Or
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
otherPeers - Variable in class uk.ac.ic.doc.automed.p2p.PeerCache
outerMostVariables - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
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
outputConfirm(String, OutputStream) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
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
outputErrorMessage(AbstractMessage, OutputStream) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
outputErrorMessage(AbstractMessage, String, OutputStream) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
outputFailMessage(AbstractMessage, String, OutputStream) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
outputFailMessage(AbstractMessage, OutputStream) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
outputPathway(AbstractMessage, OutputStream) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
outputPathwayToSource(AbstractMessage, OutputStream) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Deprecated. use `AutoMedPeer.outputSourcePathways(AbstractMessage request, OutputStream output)`
  to get multiple pathways
outputQuery(AbstractMessage, OutputStream) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
outputRelational(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
  Materialises an SQL schema
outputs - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
outputSchema(AbstractMessage, OutputStream) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
outputSourcePathways(AbstractMessage, OutputStream) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
  Output all possible pathways to all data sources attached to a given
  public schema dmle 9/11/2005
outputUnsuccessfulMessage(AbstractMessage, String, String, OutputStream) - Static method in class uk.ac.ic.doc.automed.p2p.util.Util
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
owner - Variable in class uk.ac.ic.doc.automed.templates.gui.TemplateDialogueLauncher

## 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.xsdomobject.XSDOMObject
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
P2PDirectory() - Constructor for class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
P2PDirectoryObject - Interface in uk.ac.ic.doc.automed.p2p.directory
P2PDirectoryRepository - Class in uk.ac.ic.doc.automed.p2p.directory
P2PDirectoryUDPHelper - Class in uk.ac.ic.doc.automed.p2p.directory
P2PDirectoryUDPHelper(P2PDirectory, int) - Constructor for class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryUDPHelper
  Creates a new instance of P2PDirectoryUDPHelper
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
P2PProtocol - Class in uk.ac.ic.doc.automed.p2p.protocol
P2PProtocol() - Constructor for class uk.ac.ic.doc.automed.p2p.protocol.P2PProtocol
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.communication.Constants
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
paint(Graphics) - Method in class uk.ac.ic.doc.automed.gui.ToolTip
paintArcs(Graphics2D) - Method in class uk.ac.ic.doc.automed.templates.gui.SchemaPanel
paintChildren(Graphics) - Method in class uk.ac.ic.doc.automed.editor.EditorPanel
  Paint the arcs within this panel.
paintChildren(Graphics) - Method in class uk.ac.ic.doc.automed.templates.gui.SchemaPanel
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.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.
paintComponent(Graphics) - Method in class uk.ac.ic.doc.automed.gui.SchemaCanvas
paintComponent(Graphics) - Method in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
paintIcon(Component, Graphics, int, int) - Method in class uk.ac.ic.doc.automed.gui.ArrowIcon
paintSpecificShapes(Graphics) - Method in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
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.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
panelsOfSchemas - Variable in class uk.ac.ic.doc.automed.templates.gui.SchemaFrame
parent - Variable in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
parent - Variable in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
parentStatement() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
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
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) - Static method in class uk.ac.ic.doc.automed.p2p.util.XmlHandler
parts - Variable in class uk.ac.ic.doc.automed.p2p.protocol.Request.Unknown
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
PATHWAY - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
Pathway - Class in uk.ac.ic.doc.automed.reps
  The Pathway class
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.
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.Clusterer
patternSize - Variable in class uk.ac.ic.doc.automed.matching.modules.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
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_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
PEER_LIST_SCHEMA - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
PEER_NAME - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
  Field: PEER_NAME - a string of peer name
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.
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(Map) - Constructor for class uk.ac.ic.doc.automed.p2p.directory.PeerDescription
peerImplementsSchema(String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
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 interface uk.ac.bbk.dcs.automed.qproc.BuiltInFunction
  Returns a Cell object that is the root of a graph that represents the result of applying the built-in function to the arguments args.
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.And
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Append
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Average
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.BagIntersect
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.CallToWrapper
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Comprehension
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Count
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Difference
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Disjunction
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Divide
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Equals
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.First
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Flatmap
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Foldl
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Foldr
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Greater
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.GreaterEqual
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Group
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.GroupCompute
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.If
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Less
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.LessEqual
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Let
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.LoadListFromFile
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Map
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Max
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Member
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Min
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Minus
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Monus
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Multiply
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Not
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.NotEqual
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Or
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Plus
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Second
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.SetUnion
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Single
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Sort
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.SortDistinct
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.Length
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.Substring2
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.SubBag
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.Sum
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.xml.ElementsFromRDB
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.xml.GenerateElemUID
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.xml.NestListsFromRDB
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.xml.NewElemUID
perform(Cell[], Evaluator) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.xml.NewNestLists
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
PERFORMATIVE - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
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.
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
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
PersistentObject - Interface in uk.ac.ic.doc.automed.reps
PhysicalOptimiser - Class in uk.ac.bbk.dcs.automed.qproc.optimise
  This class coordinates the application of the physical optimisations.
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 SQL Indexes 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
Plus - Class in uk.ac.bbk.dcs.automed.qproc.functions
Plus() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Plus
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.xml.wrappers.DOMWrapperFactory
populateSchema(AutoMedWrapper) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.SAXWrapperFactory
populateSchema(AutoMedWrapper) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XindiceWrapperFactory
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.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.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.
POPUP_ICON - Static variable in class uk.ac.ic.doc.automed.templates.gui.Accessories
popUpArgumentValues(TTemplateInputArgument[]) - Method in class uk.ac.ic.doc.automed.templates.gui.TemplateInputDialogue
popupSchema(Schema) - Static method in class uk.ac.ic.doc.automed.templates.gui.SchemaPanel
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
position - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TArgument
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
  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.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.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.PrecisionModule
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,
preservesEq - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
preservesEquivalence() - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Returns whether this CompositeTransformation preserves schema equivalence.
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 - 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_TRANSFORMATION_STATEMENT - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Statement to execute primitive transformations
primitiveArgSeq - Variable in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
primitiveArgSeq - Variable in class uk.ac.ic.doc.automed.templates.wrapper.RemovingStatement
primitiveArgSeq - Variable in class uk.ac.ic.doc.automed.templates.wrapper.RenameStatement
print() - Method in class uk.ac.ic.doc.automed.matching.modules.MapDisplay
print() - Method in class uk.ac.ic.doc.automed.reps.ModelingProgram
print() - Method in class uk.ac.ic.doc.automed.templates.RuntimeArgument
print() - Method in class uk.ac.ic.doc.automed.templates.RuntimeArgumentSequence
print() - Method in class uk.ac.ic.doc.automed.templates.Statement
print() - Method in class uk.ac.ic.doc.automed.templates.StatementArgumentDefinition
print() - Method in class uk.ac.ic.doc.automed.templates.StatementExecution
print() - Method in class uk.ac.ic.doc.automed.templates.TemplateArgument
print() - Method in class uk.ac.ic.doc.automed.templates.TemplateArgumentSequence
print() - Method in class uk.ac.ic.doc.automed.templates.TransformationArgumentDefinition
print() - Method in class uk.ac.ic.doc.automed.tml.TempPathway
printDate(String) - Static method in class uk.ac.ic.doc.automed.matching.Util
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
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, OutputStream) - Static method in class uk.ac.ic.doc.automed.Util
printResultSet(ResultSet, Writer) - Static method in class uk.ac.ic.doc.automed.Util
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.gui.GUIException
printStackTrace() - Method in exception uk.ac.ic.doc.automed.RepositoryAccessException
printStackTrace() - Method in exception uk.ac.ic.doc.automed.reps.AutoRepException
printStackTrace() - Method in exception uk.ac.ic.doc.automed.templates.wrapper.TemplateDefinitionException
printTree(TreeNode, int) - Method in class uk.ac.bbk.dcs.automed.graph.Forest
process(ASG) - Method in class uk.ac.bbk.dcs.automed.qproc.annotate.QueryAnnotator
  Processes the input query: checks and finds the largest possible subtrees that can be translated by wrappers & contain schemes from the same data source, then inserts the necessary wrapper objects.
process(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.FragmentProcessor
  Replaces schemes with wrapper objects in the ASG with root n
process(ASG) - Method in class uk.ac.bbk.dcs.automed.qproc.FragmentProcessor
  Replaces schemes with wrapper objects in the given ASG
processCommands() - Method in class uk.ac.ic.doc.automed.editor.CommandLineDriver
processCommands(Reader, Writer) - Method in class uk.ac.ic.doc.automed.editor.CommandLineDriver
processResultSet() - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
production_table() - Method in class uk.ac.bbk.dcs.automed.qproc.EnvParser
  Access to production table.
production_table() - Method in class uk.ac.bbk.dcs.automed.qproc.QParser
  Access to production table.
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`
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
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.
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.xml.XMLConstants
protocolSAX - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
protocolXindice - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
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
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

## Q

QLexer - Class in uk.ac.bbk.dcs.automed.qproc
QLexer(Reader) - Constructor for class uk.ac.bbk.dcs.automed.qproc.QLexer
QLexer(InputStream) - Constructor for class uk.ac.bbk.dcs.automed.qproc.QLexer
QParser - Class in uk.ac.bbk.dcs.automed.qproc
  CUP v0.10j generated parser.
QParser() - Constructor for class uk.ac.bbk.dcs.automed.qproc.QParser
  Default constructor.
QParser(Scanner) - Constructor for class uk.ac.bbk.dcs.automed.qproc.QParser
  Constructor which sets the default scanner.
QSym - Class in uk.ac.bbk.dcs.automed.qproc
  CUP generated class containing symbol constants.
QSym() - Constructor for class uk.ac.bbk.dcs.automed.qproc.QSym
QUALITY - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
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(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
query - Variable in class uk.ac.ic.doc.automed.p2p.protocol.Request.Query
QueryAnnotator - 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.
QueryAnnotator(boolean, Schema[]) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.QueryAnnotator
QueryAnnotator(Schema[]) - Constructor for class uk.ac.bbk.dcs.automed.qproc.annotate.QueryAnnotator
  Create a new Annotator object
QueryCache - Class in uk.ac.ic.doc.automed.p2p
QueryGetter - Class in uk.ac.ic.doc.automed.p2p
QueryGetter(AutoMedPeer) - Constructor for class uk.ac.ic.doc.automed.p2p.QueryGetter
queryList - Variable in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
QueryOptimiser - Class in uk.ac.bbk.dcs.automed.qproc.optimise
  This class coordinates the application of the optimisations.
QueryOptimiser() - Constructor for class uk.ac.bbk.dcs.automed.qproc.optimise.QueryOptimiser
QueryReformulator - Class in uk.ac.bbk.dcs.automed.qproc
  The class that goes through an ASG that applies to a global schema and reformulates the ASG so that it applies to all local schemas
QueryReformulator() - Constructor for class uk.ac.bbk.dcs.automed.qproc.QueryReformulator
QueryReformulator(Schema, Schema[]) - Constructor for class uk.ac.bbk.dcs.automed.qproc.QueryReformulator
QueryReformulator(Schema, Schema[], String) - Constructor for class uk.ac.bbk.dcs.automed.qproc.QueryReformulator
  Constructs a QueryReformulator object containing view definitions for the constructs of source in terms of the constructs of targets assuming the appropriate transformation pathways exist.
QueryResultDescription - Class in uk.ac.ic.doc.automed.p2p
QueryResultDescription(AbstractMessage) - Constructor for class uk.ac.ic.doc.automed.p2p.QueryResultDescription
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.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.ic.doc.automed.matching
Range(Comparable, Comparable) - Constructor for class uk.ac.ic.doc.automed.matching.Range
RCB - Static variable in class uk.ac.bbk.dcs.automed.qproc.QSym
RDAB - Static variable in class uk.ac.bbk.dcs.automed.qproc.FSym
RDAB - Static variable in class uk.ac.bbk.dcs.automed.qproc.QSym
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
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.
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
reAssignPositions() - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
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
RECOMMEND_ONE - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
reduce_table() - Method in class uk.ac.bbk.dcs.automed.qproc.EnvParser
  Access to `reduce_goto` table.
reduce_table() - Method in class uk.ac.bbk.dcs.automed.qproc.QParser
  Access to `reduce_goto` table.
reEvaluateRequiredNumberOfElements() - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
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
referenceHasFinalised(int) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
reflectCommandMethods() - Method in class uk.ac.ic.doc.automed.editor.CommandLineDriver
reformulate(ASG) - Method in class uk.ac.bbk.dcs.automed.qproc.QueryReformulator
  Reformulates the query represented by the ASG g according to the view defintions it has stored.
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.p2p.QueryCache
  refresh cache
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
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) - 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.
REL_BETWEEN_ELEMENTS - Variable in class uk.ac.ic.doc.automed.matching.relationships.Disjointness
REL_BETWEEN_ELEMENTS - Variable in class uk.ac.ic.doc.automed.matching.relationships.Equivalence
REL_BETWEEN_ELEMENTS - Variable in class uk.ac.ic.doc.automed.matching.relationships.Incompatibility
REL_BETWEEN_ELEMENTS - Variable in class uk.ac.ic.doc.automed.matching.relationships.Overlapness
REL_BETWEEN_ELEMENTS - Variable in class uk.ac.ic.doc.automed.matching.relationships.Subsumption
RelationalOutputter - Class in uk.ac.ic.doc.automed.xmlschema.output
  Class the materialise an SQL oriented AutoMed schema
RelationalOutputter(Schema, Schema, boolean) - Constructor for class uk.ac.ic.doc.automed.xmlschema.output.RelationalOutputter
  Creates a new instance of RelationalOutputter
RelationalOutputter(Schema, Schema, String, boolean, String, String, String) - Constructor for class uk.ac.ic.doc.automed.xmlschema.output.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
RelativeEuclideanClassifier - Class in uk.ac.ic.doc.automed.matching.modules
RelativeEuclideanClassifier(Cluster[]) - Constructor for class uk.ac.ic.doc.automed.matching.modules.RelativeEuclideanClassifier
reloadComponents() - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
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
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.ConstructWithModelingProgram
  Removes this ConstructWithModelingProgram object.
remove() - Method in class uk.ac.ic.doc.automed.reps.Model
  Removes the Model from the repository.
remove(int) - Method in class uk.ac.ic.doc.automed.reps.ModelingProgram
  Removes the stamement at the specified program counter in this program.
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() - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Removes this CompositeTransformation
remove() - Method in class uk.ac.ic.doc.automed.templates.RuntimeArgument
  Removes this RuntimeArgument from the TER.
remove() - Method in class uk.ac.ic.doc.automed.templates.RuntimeArgumentSequence
  Removes this RuntimeArgumentSequence.
remove() - Method in class uk.ac.ic.doc.automed.templates.Statement
  Removes this Statement
remove() - Method in class uk.ac.ic.doc.automed.templates.StatementArgumentDefinition
  Removes this StatementArgumentDefinition from the TTSR.
remove() - Method in class uk.ac.ic.doc.automed.templates.StatementExecution
  Removes this StatementExecution from the TTR.
remove() - Method in class uk.ac.ic.doc.automed.templates.TemplateArgument
  Removes this TemplateArgument from the TTR.
remove() - Method in class uk.ac.ic.doc.automed.templates.TemplateArgumentSequence
  Removes this TemplateArgumentSequence.
remove() - Method in class uk.ac.ic.doc.automed.templates.TransformationArgumentDefinition
  Removes this TransformationArgumentDefinition from the TTR.
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.
removeAllItems() - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
removeAllSchemes(int) - Static method in class uk.ac.ic.doc.automed.STR
  Removes all the schemes associated with the given schema object.
removeArgument(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Removes a particular position from a sequence of arguments
removeArgument(int) - Method in class uk.ac.ic.doc.automed.templates.RuntimeArgumentSequence
  Removes a particular argument from this RuntimeArgumentSequence.
removeArgument(int) - Method in class uk.ac.ic.doc.automed.templates.TemplateArgumentSequence
  Removes a particular argument from this TemplateArgumentSequence.
removeArgument(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Removes a particular position from a sequence of arguments
removeArgumentDefinition(int) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Removes a particular argument definition from this CompositeTransformation's argument definition list.
removeArgumentDefinition(int) - Method in class uk.ac.ic.doc.automed.templates.Statement
  Removes a particular argument definition from this Statements's argument definition list.
removeArguments(int) - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Removes a particular sequence of arguments
removeArguments(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Removes a particular sequence of arguments
removeArgumentSequences() - Method in class uk.ac.ic.doc.automed.gui.SchemaTool
removeAssociationBySFID(int) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Removes all associations for the given ssdformat identifier (SFID).
removeCompositeTransformation(String) - Static method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Removes a CompositeTransformation
removeCompositeTransformation(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Removes a composite transformation from the TTR `comp_transformations` table
removeCompositeTransformationDefinition(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Removes a particular position of a transformation's sequence of arguments
removeCompositeTransformationDefinition(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Removes all arguments definitions of a particular composite transformation
removeCompositeTransformationExecution(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Removes a particular program counter of a template transformation's execution
removeCompositeTransformationExecution(int) - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Removes a template transformation's execution
removeCompositeTransformationInvocation(int) - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Removes a composite transformation's invocation
removeCompositeTransformationProgram(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Removes a particular program counter of a transformation's template program
removeCompositeTransformationProgram(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Removes a particular template transformation's program
removeCompositeTransformationReturnedValuesArgumentDefinition(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Removes a composite transformation returned values definition
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.
removeConstructModelingProgram(int, int) - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Removes a particular program counter of a constrcut's modeling program
removeConstructModelingProgram(int) - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Removes a particular construct's modeling program
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.
removeDuplicates(ModifiedArray) - Method in class uk.ac.bbk.dcs.automed.qproc.functions.SortDistinct
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
removeExecutionTrace(int, Vector) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Removes the trace of a composite transformation's executionfrom the TER.
removeFromScope(TemplateCompilerSimulator.ITEM) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
removeHighlights(JTextComponent) - Method in class uk.ac.ic.doc.automed.editor.PatternWritingTool
  /* Methods to highlight text in the textarea /
removeItem(InputItem) - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
removeLayoutComponent(Component) - Method in class uk.ac.ic.doc.automed.editor.PinBoardLayout
removeMethod(int) - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Removes the method from the SMR `methods` table.
removeMethodArgument(int, int) - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Removes a particular position of a methods's arguments
removeMethodArgument(int) - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Removes all arguments of a particular method
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.
removeModelingProgram() - Method in class uk.ac.ic.doc.automed.reps.ConstructWithModelingProgram
  Remove the ModelingProgram from this Construct.
removeNestTransform(String, String, String, String) - Method in class uk.ac.ic.doc.automed.xmlschema.transform.XMLSchemaTransform
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.
removeReturnedArgumentsDefinition() - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Removes the definitions of this transformation's returned arguments.
removeRuntimeArgumentSequence(int) - Static method in class uk.ac.ic.doc.automed.templates.RuntimeArgumentSequence
  Removes a RuntimeArgumentSequence.
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
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
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.
removeStatement(String) - Static method in class uk.ac.ic.doc.automed.templates.Statement
  Removes a Statement
removeStatement(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
  Removes the statement from the TTSR `statements` table.
removeStatementDefinition(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
  Removes a particular position of a statement's sequence of arguments
removeStatementDefinition(int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
  Removes all arguments definitions of a particular statement
removeStatementExecution(int) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Removes a particular statement execution from this CompositeTransformations's template program
removeTemplateArgumentSequence(int) - Static method in class uk.ac.ic.doc.automed.templates.TemplateArgumentSequence
  Removes a TemplateArgumentSequence.
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.
removeVertex(HDMElement) - Method in class uk.ac.ic.doc.automed.reps.HDMEdge
RemovingStatement - Class in uk.ac.ic.doc.automed.templates.wrapper
RemovingStatement() - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.RemovingStatement
rename - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
RENAME(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.OBJECT
RENAME(TemplateCompilerSimulator.NAME) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.OBJECT
RenameStatement - Class in uk.ac.ic.doc.automed.templates.wrapper
RenameStatement() - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.RenameStatement
repaint(Graphics, boolean) - Method in class uk.ac.ic.doc.automed.gui.SchemaManager
repaint() - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
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.
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`.
replaceAllSchemaRefs(ASG, Schema) - Static method in class uk.ac.bbk.dcs.automed.qproc.ASG
  Replaces all references to Schemas within g by references to s.
replaceNullSchemaRefs(ASG, Schema) - Static method in class uk.ac.bbk.dcs.automed.qproc.ASG
  Replaces all references to a null Schema object in g with references to s.
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
replyToMessage(AbstractMessage, OutputStream) - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractDaemon
replyToMessage(AbstractMessage, OutputStream) - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractServer
reportClick() - Method in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
reportDragging() - Method in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
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 - Static 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
representsComprehension() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
  Returns true if the Cell is the root of an ASG representing a comprehension
representsFunction(String, int) - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
representsFunction(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.optimise.CommonSubexpressionEliminator
representsGenerator() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
  Returns true if the Cell is the root of an ASG representing a generator
representsList() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
  Returns true if the Cell is the root of an ASG representing a list
representsPair() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
  Returns true if tag is "Tuple2"
representsSingleton() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
representsTuple() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
  Returns true if the Cell is the root of an ASG representing 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
requestAdvertise(String, Map) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
requestCancel() - Method in class uk.ac.ic.doc.automed.templates.gui.TemplateInputDialogue
requestFinish() - Method in class uk.ac.ic.doc.automed.templates.gui.TemplateInputDialogue
RequestListener - Interface in uk.ac.ic.doc.automed.p2p.communication
requestNext() - Method in class uk.ac.ic.doc.automed.templates.gui.TemplateInputDialogue
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
requestPrevious() - Method in class uk.ac.ic.doc.automed.templates.gui.TemplateInputDialogue
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
requestSchema(String, String, String) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
ReservedTokens - Class in uk.ac.bbk.dcs.automed.qproc
ReservedTokens() - Constructor for class uk.ac.bbk.dcs.automed.qproc.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
resetArgumentSequence(TemplateArgumentSequence) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
reSetToolbars() - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
resolveDisjoints() - Method in class uk.ac.ic.doc.automed.matching.SQLIntegrator
  Resolves the structural conflicts of the schemas for disjointness relationships.
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.
RESULT - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
resultingObject() - Method in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
resultingSchema() - Method in class uk.ac.ic.doc.automed.templates.wrapper.CreateListStatement
resultingSchema() - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefineStringStatement
resultingSchema() - Method in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
resultingSchema() - Method in class uk.ac.ic.doc.automed.templates.wrapper.IndexListStatement
resultingSchema() - Method in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
resultingSchema() - Method in class uk.ac.ic.doc.automed.templates.wrapper.RemovingStatement
resultingSchema() - Method in class uk.ac.ic.doc.automed.templates.wrapper.RenameStatement
resultingSchema() - Method in class uk.ac.ic.doc.automed.templates.wrapper.SchemeListStatement
resultingSchema() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatement
resultList - Static variable in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
resultSetToArray(ResultSet) - Static method in class uk.ac.ic.doc.automed.Util
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
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
returnGraph() - 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
returnMAP - Variable in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
returnTag(String) - Method in class uk.ac.bbk.dcs.automed.qproc.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
reverseTransformations(Gui, Object[]) - Static method in class uk.ac.ic.doc.automed.editor.Gui
  Reverses the transformations on an HDM model
reverseTransformations(Schema, Schema) - Static method in class uk.ac.ic.doc.automed.xmlschema.transform.HighLevelToHDM
rewind() - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedResult
Rhombus - Class in uk.ac.ic.doc.automed.gui
Rhombus() - Constructor for class uk.ac.ic.doc.automed.gui.Rhombus
RIGHT_ARROW_ICON - Static variable in class uk.ac.ic.doc.automed.templates.gui.Accessories
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
rollback() - Method in class uk.ac.ic.doc.automed.templates.wrapper.CreateListStatement
rollback() - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefineStringStatement
rollback() - Method in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
rollback() - Method in class uk.ac.ic.doc.automed.templates.wrapper.IndexListStatement
rollback() - Method in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
rollback() - Method in class uk.ac.ic.doc.automed.templates.wrapper.RemovingStatement
rollback() - Method in class uk.ac.ic.doc.automed.templates.wrapper.RenameStatement
rollback() - Method in class uk.ac.ic.doc.automed.templates.wrapper.SchemeListStatement
rollback() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatement
rollback(CompositeTransformation) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
rollbackSTR(Vector) - Static method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Removes the trace of a composite transformation's execution for the STR.
root() - Method in class uk.ac.bbk.dcs.automed.qproc.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
rootNode - Variable in class uk.ac.ic.doc.automed.editor.PatternWritingTool.DynamicTree
RRB - Static variable in class uk.ac.bbk.dcs.automed.qproc.FSym
RRB - Static variable in class uk.ac.bbk.dcs.automed.qproc.QSym
RSB - Static variable in class uk.ac.bbk.dcs.automed.qproc.QSym
Rule - Interface in uk.ac.bbk.dcs.automed.qproc.optimise
run() - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
run() - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractDaemon
Run - Class in uk.ac.ic.doc.automed.templates.gui
Run() - Constructor for class uk.ac.ic.doc.automed.templates.gui.Run
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.TCPClient
  Implement TCP communication process
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.
runPeerMonitorProcesses() - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryUDPHelper
  Execute two separate background processes for monitoring peers' status:
  (1) one process runs every hold_time interval to move in-active peers to gabage-collectible (2) another runs every flush_time interval to delete gabage-collectible peers
runScript() - Method in class uk.ac.bbk.dcs.automed.xml.relational.TransformationsIssuer
RuntimeArgument - Class in uk.ac.ic.doc.automed.templates
  The class to create run-time (during a template composite transformation's execution) arguments
RuntimeArgument(int, int, String) - Constructor for class uk.ac.ic.doc.automed.templates.RuntimeArgument
  Constructs a new RuntimeArgument storing the specified value.
RuntimeArgument(int, String) - Constructor for class uk.ac.ic.doc.automed.templates.RuntimeArgument
  Constructs a new RuntimeArgument storing the specified value and creates a new sequence of arguments.
RuntimeArgumentSequence - Class in uk.ac.ic.doc.automed.templates
  The class to create run-time (during a template composite transformation's execution) argument sequences
RuntimeArgumentSequence() - Constructor for class uk.ac.ic.doc.automed.templates.RuntimeArgumentSequence
  Constructs a new RuntimeArgumentSequence without any RuntimeArgument objects
runUDPServer() - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectoryUDPHelper
  Create UDP server with loads of worker threads

## 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`.
saveDegrees(String) - Method in class uk.ac.ic.doc.automed.matching.modules.AbstractModule
saveObjectPosition() - Method in class uk.ac.ic.doc.automed.templates.gui.SchemaPanel
savePosition() - Method in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
saxDriver - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
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
  A lower level wrapper factory for accessing XML files using SAX.
SAXWrapperFactory() - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.SAXWrapperFactory
schema() - Method in class uk.ac.bbk.dcs.automed.qproc.SchemeInfo
  Returns the schema reference for this SchemeInfo object
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
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
  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 - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TConstants
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
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 - Static variable in class uk.ac.ic.doc.automed.TemplateExecutionRepository
SCHEMA_NAME_SUFFIX - 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
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
schemaARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
SchemaCanvas - Class in uk.ac.ic.doc.automed.gui
SchemaCanvas(Frame, JScrollPane) - Constructor for class uk.ac.ic.doc.automed.gui.SchemaCanvas
SchemaCanvas(Frame) - Constructor for class uk.ac.ic.doc.automed.gui.SchemaCanvas
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.
SchemaFrame - Class in uk.ac.ic.doc.automed.templates.gui
SchemaFrame() - Constructor for class uk.ac.ic.doc.automed.templates.gui.SchemaFrame
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
SchemaManager - Class in uk.ac.ic.doc.automed.gui
SchemaManager(GraphicCanvas) - Constructor for class uk.ac.ic.doc.automed.gui.SchemaManager
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.
SchemaModelingRepository - Class in uk.ac.ic.doc.automed
SchemaModelingRepository() - Constructor for class uk.ac.ic.doc.automed.SchemaModelingRepository
SchemaModelingRepositoryException - Exception in uk.ac.ic.doc.automed
  The class of exceptions generated by `TemplateTransformationSyntaxRepository`.
SchemaModelingRepositoryException(String) - Constructor for exception uk.ac.ic.doc.automed.SchemaModelingRepositoryException
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
SchemaObject - Class in uk.ac.ic.doc.automed.reps
  The SchemaObject class
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
SchemaPanel - Class in uk.ac.ic.doc.automed.templates.gui
SchemaPanel(Schema) - Constructor for class uk.ac.ic.doc.automed.templates.gui.SchemaPanel
SchemaPanel(Schema, Component) - Constructor for class uk.ac.ic.doc.automed.templates.gui.SchemaPanel
SchemaPanel() - Constructor for class uk.ac.ic.doc.automed.templates.gui.SchemaPanel
schemaPanelScroller - Variable in class uk.ac.ic.doc.automed.templates.gui.SchemaFrame
SchemaPublisher - Class in uk.ac.ic.doc.automed.p2p
SchemaPublisher(AutoMedPeer) - Constructor for class uk.ac.ic.doc.automed.p2p.SchemaPublisher
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
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
SchemaTool - Class in uk.ac.ic.doc.automed.gui
SchemaTool() - Constructor for class uk.ac.ic.doc.automed.gui.SchemaTool
SchemaTransformationRepository - Class in uk.ac.ic.doc.automed
  Deprecated. Old name for the STR
SchemaTransformationRepository() - Constructor for class uk.ac.ic.doc.automed.SchemaTransformationRepository
  Deprecated.
SchemaTransformationRepositoryException - Exception in uk.ac.ic.doc.automed
  Old name for STRException
SchemaTransformationRepositoryException(String) - Constructor for exception uk.ac.ic.doc.automed.SchemaTransformationRepositoryException
schemaUIDDoc - Variable in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
scheme - Static variable in class uk.ac.bbk.dcs.automed.qproc.Cell
scheme() - Method in class uk.ac.bbk.dcs.automed.qproc.SchemeInfo
  Returns the scheme for this SchemeInfo object as a string
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 - Variable in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
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_LIST() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.OBJECT
SCHEME_LIST(TemplateCompilerSimulator.OBJECT) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
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
SchemeInfo - Class in uk.ac.bbk.dcs.automed.qproc
  Class containing a scheme and the reference to the schema the scheme belongs to.
SchemeInfo(Schema, String) - Constructor for class uk.ac.bbk.dcs.automed.qproc.SchemeInfo
SchemeInfo(String) - Constructor for class uk.ac.bbk.dcs.automed.qproc.SchemeInfo
SchemeInfo(String, String) - Constructor for class uk.ac.bbk.dcs.automed.qproc.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
SCHEMELIST_STATEMENT - Static variable in class uk.ac.ic.doc.automed.templates.CompositeTransformation
SchemeListStatement - Class in uk.ac.ic.doc.automed.templates.wrapper
SchemeListStatement() - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.SchemeListStatement
schemeObjects - Variable in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
schemePosnARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
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
Second - Class in uk.ac.bbk.dcs.automed.qproc.functions
Second() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Second
SECOND - Static variable in class uk.ac.ic.doc.automed.wrappers.AutoMedTime
  Granularity of one minute
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) - 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.
self - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TStatement
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.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
SENDER - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
sendRequest(String, String, AbstractMessage) - Method in class uk.ac.ic.doc.automed.p2p.AutoMedPeer
sendUDPRequest(InetAddress, int, byte[]) - Static method in class uk.ac.ic.doc.automed.p2p.communication.UDPServer
  A static method for sending a UDP request
sequence - Static variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
sequencesARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
sequencesArgSeq - Variable in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
sequencesMAP - Variable in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
serialise() - Method in class uk.ac.ic.doc.automed.p2p.QueryCache
  Save cache content to disk (or database).
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
serverHostName - Variable in class uk.ac.ic.doc.automed.p2p.communication.AbstractClient
serverPort - Variable in class uk.ac.ic.doc.automed.p2p.communication.AbstractClient
set(int, Pattern) - Method in class uk.ac.ic.doc.automed.matching.modules.Vectors
set(int, ModelingStatement) - Method in class uk.ac.ic.doc.automed.reps.ModelingProgram
  Replaces the statement at the specified program counter in this program with the specified statement.
SET_ICON - Static variable in class uk.ac.ic.doc.automed.templates.gui.Accessories
set_l(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.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.Cell
  Sets the reference to the left child of the Cell to n
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.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.
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.
setAnnotation(int) - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
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.
setArcHeight(int) - Method in class uk.ac.ic.doc.automed.gui.Box
setArcWidth(int) - Method in class uk.ac.ic.doc.automed.gui.Box
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`.
setArgument(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.CONSTRAINTS
setArgument(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.FUNCTION
setArgument(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.ITEM
setArgument(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
setArgument(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
setArgument(TemplateArgumentSequence) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
setArgumentsArgIdRef(int, int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Sets an argument's `arg_id_ref` field
setArgumentsArgPosRef(int, int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Sets an argument's `arg_pos_ref` field
setArgumentSequence(TemplateArgumentSequence) - Method in class uk.ac.ic.doc.automed.templates.StatementExecution
  Sets the TemplateArgumentSequence of this StatementExecution
setArgumentsValue(int, int, String) - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Sets an argument's `value` field
setArgumentsValue(int, int, String) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Sets an argument's `value` field
setAtomicPairRelationships(SchemaElementPairRelationship[]) - Method in class uk.ac.ic.doc.automed.matching.RelationshipExtractor
  Sets the relationships of pairs of atomic schema elements.
setAttribute(int, AutoMedType) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedTuple
  Set the value of a certain field
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.xmlschema.xsdomobject.ComplexType
  Set whether or this is being used as a subtype
setBgColour(String) - Method in class uk.ac.ic.doc.automed.gui.Arc
setBgColour(String) - Method in class uk.ac.ic.doc.automed.gui.Box
setBgColour(String) - Method in class uk.ac.ic.doc.automed.gui.Rhombus
setBidirectionalDegrees(Hashtable, Hashtable) - Method in class uk.ac.ic.doc.automed.matching.modules.AbstractModule
  Sets the bidirectional degrees of the module.
setBlock(TStatement[]) - Method in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
setCellNil() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
  set the cell itself a Nil Cell
setChildren(LinkedList) - Method in class uk.ac.bbk.dcs.automed.graph.TreeNode
  Sets the children of the node.
setClassName(int, String) - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Sets the class name of the method specified by `meth_id`
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
setCompiler(TemplateCompilerSimulator) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.ITEM
setCompositeTransformationDefinitionDescription(int, int, String) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Sets a particular transformation's argument definition (the `description` field).
setCompositeTransformationDefinitionFieldName(int, int, String) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Sets a particular transformation's argument definition (the `field_name` field).
setCompositeTransformationDefinitionIsReturnedValue(int, int, boolean) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Sets a particular transformation's argument type.
setCompositeTransformationDefinitionTableName(int, int, String) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Sets a particular transformation's argument definition (the `table_name` field).
setCompositeTransformationDescription(int, String) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Sets the description of the composite transformation specified by `trans_id`
setCompositeTransformationExecutionArgId(int, int, int) - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Sets the sequence of arguments identifier in a specific program counter in the composite transformation's execution
setCompositeTransformationExecutionStId(int, int, int) - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Sets the statement identifier in a specific program counter in the composite transformation's execution
setCompositeTransformationName(int, String) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Sets the name of the composite transformation specified by `trans_id`
setCompositeTransformationPreservesEquivalence(int, boolean) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Sets the `preserves equivalence` field of the composite transformation specified by `trans_id`
setCompositeTransformationProgramArgId(int, int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Sets the sequence of arguments ID in a specific program counter in the composite transformation's template program
setCompositeTransformationProgramStId(int, int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Sets the statement identifier in a specific program counter in the specified composite transformation's template program
setCompositeTransformationReturnedValuesDefinitionArgId(int, int) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Sets the sequence of arguments ID that defines the transformation's returned values.
setConcatenationOp(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefineStringStatement
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.
setConstraintDefinition(String, String) - Method in class uk.ac.ic.doc.automed.reps.Construct
  Set the definition of a constraint used within this `Construct`.
setConstraints(HDMConstraint[]) - Method in class uk.ac.ic.doc.automed.reps.HDMNetwork
setConstraints(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
setConstraints(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
setConstraints(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.RemovingStatement
setConstraints(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.RemovingStatement
setConstruct(Construct) - Method in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
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
setConstructModelingProgramMethod(int, int, String) - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Sets the method in a specific program counter in the specified construct's modeling program
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(int, String, int, int) - Static method in class uk.ac.ic.doc.automed.MDR
  Insert a new type into the type_hierarchy table
setConstructType(Construct) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Sets the construct type of the schema object.
setData(Object) - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
  Sets the Cell's data
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.SchemaModelingRepository
  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.
setDataSourceName(String) - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Sets the name of the repository in the local database.
setDataSourceName(String) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationRepository
  Sets the name of the repository in the local database.
setDataSourceName(String) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
  Sets the name of the repository in the local database.
setDataToSend(byte[]) - Method in class uk.ac.ic.doc.automed.p2p.communication.AbstractClient
  Set the data to send (with acknowledgement specified)
setDataToSend(byte[], boolean) - Method in class uk.ac.ic.doc.automed.p2p.communication.UDPClient
  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.
setDBDriver(String) - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Sets the database driver used for connecting to the database.
setDebugLevel(int) - Static method in class uk.ac.bbk.dcs.automed.xml.Debugger
  Control the printing of debug information (related to the XML compontents of the Birkbeck package) printed on the command line.
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.wrappers.AutoMedWrapper
  Set the debug level for all AutoMed wrappers.
setDefaultConfigFileName(String) - Static method in class uk.ac.ic.doc.automed.DSRConfiguration
  Set the default configuration file name.
setDefaultDataSource(String) - Static method in class uk.ac.ic.doc.automed.DSR
setDefaultModel() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
setDefaultUserName(String) - Static method in class uk.ac.ic.doc.automed.DSR
setDescription(String) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Sets this CompositeTransformation's description.
setDescription(String) - Method in class uk.ac.ic.doc.automed.templates.StatementArgumentDefinition
  Sets the description of this StatementArgumentDefinition.
setDescription(String) - Method in class uk.ac.ic.doc.automed.templates.TransformationArgumentDefinition
  Sets the description of this TransformationArgumentDefinition .
setDescription(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefaultTemplate
  Sets the description of the template transformation.
setDescription(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
setDescription(String) - Method in class uk.ac.ic.doc.automed.wrappers.XMLFileFilter
  Sets the human readable description of this filter.
setDialogueManager(TemplateInputDialogue) - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
setDialogueManager(TemplateInputDialogue) - Method in interface uk.ac.ic.doc.automed.templates.gui.InteractiveSchemaDisplay
setDialogueManager(TemplateInputDialogue) - Method in class uk.ac.ic.doc.automed.templates.gui.SchemaPanel
setEdges(HDMEdge[]) - Method in class uk.ac.ic.doc.automed.reps.HDMNetwork
setElements(Map) - Method in class uk.ac.ic.doc.automed.editor.EditorPanel
setElements(HDMElement[]) - Method in class uk.ac.ic.doc.automed.reps.HDMNetwork
setEnable(boolean) - Method in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
setEndAggregation(boolean) - Method in class uk.ac.ic.doc.automed.gui.Line
setEndAngle(int) - Method in class uk.ac.ic.doc.automed.gui.Arc
setEndArrow(boolean) - Method in class uk.ac.ic.doc.automed.gui.Line
setEnvironment(Environment) - Method in class uk.ac.bbk.dcs.automed.qproc.Evaluator
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`
setExpression(String) - Method in class uk.ac.ic.doc.automed.reps.HDMConstraint
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.
setExtend(int) - Method in class uk.ac.ic.doc.automed.gui.Rhombus
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.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
setFgColour(String) - Method in class uk.ac.ic.doc.automed.gui.Arc
setFgColour(String) - Method in class uk.ac.ic.doc.automed.gui.Box
setFgColour(String) - Method in class uk.ac.ic.doc.automed.gui.Line
setFgColour(String) - Method in class uk.ac.ic.doc.automed.gui.Rhombus
setField(int, Object) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedQuery
  Return a field in the query node.
setFieldName(String) - Method in class uk.ac.ic.doc.automed.templates.StatementArgumentDefinition
  Sets the fieldname of this StatementArgumentDefinition.
setFieldName(String) - Method in class uk.ac.ic.doc.automed.templates.TransformationArgumentDefinition
  Sets the fieldname of this TransformationArgumentDefinition .
setFirstElement(SchemaElement) - Method in class uk.ac.ic.doc.automed.matching.SchemaElementPair
setFocus(Point) - Method in class uk.ac.ic.doc.automed.gui.SchemaManager
setFontColour(String) - Method in class uk.ac.ic.doc.automed.gui.Arc
setFontColour(String) - Method in class uk.ac.ic.doc.automed.gui.Box
setFontColour(String) - Method in class uk.ac.ic.doc.automed.gui.Line
setFontColour(String) - Method in class uk.ac.ic.doc.automed.gui.Rhombus
setFontName(String) - Method in class uk.ac.ic.doc.automed.gui.Arc
setFontName(String) - Method in class uk.ac.ic.doc.automed.gui.Box
setFontName(String) - Method in class uk.ac.ic.doc.automed.gui.Line
setFontName(String) - Method in class uk.ac.ic.doc.automed.gui.Rhombus
setFontSize(int) - Method in class uk.ac.ic.doc.automed.gui.Arc
setFontSize(int) - Method in class uk.ac.ic.doc.automed.gui.Box
setFontSize(int) - Method in class uk.ac.ic.doc.automed.gui.Line
setFontSize(int) - Method in class uk.ac.ic.doc.automed.gui.Rhombus
setFontStyle(int) - Method in class uk.ac.ic.doc.automed.gui.Arc
setFontStyle(int) - Method in class uk.ac.ic.doc.automed.gui.Box
setFontStyle(int) - Method in class uk.ac.ic.doc.automed.gui.Line
setFontStyle(int) - Method in class uk.ac.ic.doc.automed.gui.Rhombus
setForeachTemplateSchema() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
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
setForwardDegree(double) - Method in class uk.ac.ic.doc.automed.matching.BidirectionalDegree
setFromSchema(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.CreateListStatement
setFromSchema(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefineStringStatement
setFromSchema(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
setFromSchema(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.IndexListStatement
setFromSchema(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
setFromSchema(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.RemovingStatement
setFromSchema(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.RenameStatement
setFromSchema(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.SchemeListStatement
setFromSchema(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatement
setFunction(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
setFunction(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
setFunction(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.RemovingStatement
setFunction(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.RemovingStatement
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.
setGraphicManager(GraphicManager) - Method in class uk.ac.ic.doc.automed.gui.SchemaCanvas
setGraphics(Graphics) - Method in class uk.ac.ic.doc.automed.gui.Arc
setGraphics(Graphics) - Method in class uk.ac.ic.doc.automed.gui.Box
setGraphics(Graphics) - Method in class uk.ac.ic.doc.automed.gui.Line
setGraphics(Graphics) - Method in class uk.ac.ic.doc.automed.gui.Rhombus
setHDMEquivName(String) - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
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`.
setHeight(int) - Method in class uk.ac.ic.doc.automed.gui.Arc
setHeight(int) - Method in class uk.ac.ic.doc.automed.gui.Box
setHeight(int) - Method in class uk.ac.ic.doc.automed.gui.Rhombus
setHighlight(boolean) - Method in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
setIcon(String) - Method in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObject
setId(String) - Method in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
setIndex(int) - Method in class uk.ac.ic.doc.automed.templates.wrapper.IndexListStatement
setInput(int, TType) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
setInput(String, String, int, int) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
setInput(String, String, int) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
setInput(String, String, Construct, int) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
setInput(String, String, Construct) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
setInput(String, String, Construct, TTemplateArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
setInput(String, String, int, TTemplateArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
setInstances(ArrayList) - Method in class uk.ac.ic.doc.automed.matching.SchemaElement
  Sets the instances of this `SchemaElement` object.
setIsReturnedValue(boolean) - Method in class uk.ac.ic.doc.automed.templates.TransformationArgumentDefinition
  Sets the isReturnedValue type of this TransformationArgumentDefinition.
setIterator(String, TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
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 interface uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObj
setKeyRef(String) - Method in class uk.ac.ic.doc.automed.xmlschema.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.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.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.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.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
setLayout(String) - Method in class uk.ac.ic.doc.automed.gui.Box
setLayoutAxis(String) - Method in class uk.ac.ic.doc.automed.gui.Box
setList(TArgument[]) - Method in class uk.ac.ic.doc.automed.templates.wrapper.CreateListStatement
setList(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.IndexListStatement
setListData(Object[]) - Method in class uk.ac.ic.doc.automed.gui.LoadDialog
setListData(Object[]) - Method in class uk.ac.ic.doc.automed.templates.gui.LoadDialog
setLocation(Point) - Method in class uk.ac.ic.doc.automed.gui.GraphicSchemaObject
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 interface uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObj
setMaxOccurs(boolean) - Method in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObject
setMDR_DataSourceName(String) - Static method in class uk.ac.ic.doc.automed.MDR
  Deprecated. use `setDataSourceName()` instead
setMethodArgumentsType(int, int, String) - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Sets a particular method's argument type.
setMethodName(int, String) - Static method in class uk.ac.ic.doc.automed.SchemaModelingRepository
  Sets the name of the method specified by `meth_id`
setMinOccurs(int) - Method in interface uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObj
setMinOccurs(int) - Method in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObject
setModel(Model) - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefaultTemplate
  Sets the model of the template transformation.
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.
setModelingProgram(ModelingProgram) - Method in class uk.ac.ic.doc.automed.reps.ConstructWithModelingProgram
  Defines the graphical representation of this Construct.
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.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.HDMElement
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.templates.CompositeTransformation
  Sets this CompositeTransformation's name.
setName(String) - Method in class uk.ac.ic.doc.automed.templates.Statement
  Sets this Statement's name.
setName(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefaultTemplate
  Sets the name of the template transformation.
setName(String) - Method in interface uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObj
  Set the name for this object
setName(String) - Method in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObject
  Set the name for this object
setNameDimensions() - Method in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
setNewName(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.RenameStatement
setNewName(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.RenameStatement
setNewScope() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
setNodeLabels(Map) - Method in class uk.ac.ic.doc.automed.matching.modules.MapDisplay
  This method is called from within the constructor to initialize the form.
setNodes(HDMNode[]) - Method in class uk.ac.ic.doc.automed.reps.HDMNetwork
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`
setObject(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.SchemeListStatement
setObjectToRename(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.RenameStatement
setObserver(Component) - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
setObserver(Component) - Method in interface uk.ac.ic.doc.automed.templates.gui.InteractiveSchemaDisplay
setObserver(Component) - Method in class uk.ac.ic.doc.automed.templates.gui.SchemaPanel
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>>".``
setOption(String, String) - Method in class uk.ac.ic.doc.automed.wrappers.AutoMedWrapper
  Make an option setting.
setOutput(int, TStatementArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
setOutput(String, String, TStatementArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
setOutputList(String, TStatementArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
setParent(TreeNode) - Method in class uk.ac.bbk.dcs.automed.graph.TreeNode
  Sets the parent node.
setParent(TreeNode) - Method in class uk.ac.ic.doc.automed.p2p.tree.TreeNode
setParent(SchemaPanel) - Method in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
setPassword(String) - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Sets the password used for connecting to the database.
setPath(TreePath) - Method in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObject
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.
setPoint1(Point) - Method in class uk.ac.ic.doc.automed.gui.Line
setPoint2(Point) - Method in class uk.ac.ic.doc.automed.gui.Line
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.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
setPosition(int) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
setPrecisionModule(AbstractModule) - Method in class uk.ac.ic.doc.automed.matching.DegreeCombinator
  Sets the `PrecisionModule` of this `DegreeCombinator`
setPreservesEquivalence(boolean) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Sets whether this CompositeTransformation preserves schema equivalence.
setPrimaryKey(XSDOMObject) - Method in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.ComplexType
  Set the primary key for this complexType
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).
setPublicSchemas(List) - Method in class uk.ac.ic.doc.automed.p2p.PeerCache
  Assign a list of public schemas (i.e.
setQueryReformulator(Class) - Method in class uk.ac.ic.doc.automed.editor.IQLTool
  Alter the QueryReformalator used by the IQLTool
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
setRecord(CompositeTransformationRecord) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformationRecord
setReference(TemplateArgument) - Method in class uk.ac.ic.doc.automed.templates.TemplateArgument
  Sets this TemplateArgument to refer to another TemplateArgument.
setReference(TemplateArgumentSequence, int) - Method in class uk.ac.ic.doc.automed.templates.TemplateArgument
  Sets this TemplateArgument to refer to the specified position in the specified TemplateArgumentSequence.
setReference(int) - Method in class uk.ac.ic.doc.automed.templates.TemplateArgument
  Sets the TemplateArgument to refer to the transformation's arguments.
setReferencedArguments() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
setReferencedArguments(Vector) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
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.
setRemovedObject(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.RemovingStatement
setReturnedArgumentsDefinition(TemplateArgumentSequence) - Method in class uk.ac.ic.doc.automed.templates.CompositeTransformation
  Sets the arguments that store returned values after the transformation's invocation.
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.xmlschema.xsdomobject.Document
  Return the root element of this document
setRounded(boolean) - Method in class uk.ac.ic.doc.automed.gui.Box
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.ssd.SSDFormat
setSchema(int, int) - Static method in class uk.ac.ic.doc.automed.SSMDR
  Sets the SID for the ssd format.
setSchema(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
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.transform.HighLevelToHDM
  Set the schema to transform
setSchema(Schema) - Method in class uk.ac.ic.doc.automed.xmlschema.transform.XMLSchemaTransform
  Set the schema to transform
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(int, String) - Static method in class uk.ac.ic.doc.automed.STR
  Sets the name of schema.
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
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
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.
setScheme(Object[]) - Method in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
setSchemeObjects() - Method in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
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.
setSchemeType(int) - Method in class uk.ac.ic.doc.automed.reps.ConstructScheme
  Sets the scheme type of the `ConstructScheme`.
setScrollPane(JScrollPane) - Method in class uk.ac.ic.doc.automed.gui.SchemaCanvas
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.
setShape(SchemaShape) - Method in class uk.ac.ic.doc.automed.gui.GraphicSchemaObject
setShapeLocation(Point) - Method in class uk.ac.ic.doc.automed.gui.Arc
setShapeLocation(Point) - Method in class uk.ac.ic.doc.automed.gui.Box
setShapeLocation(Point) - Method in class uk.ac.ic.doc.automed.gui.Rhombus
setSimilarityDegree(double) - Method in class uk.ac.ic.doc.automed.matching.modules.SimilarCluster
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()
setStartAggregation(boolean) - Method in class uk.ac.ic.doc.automed.gui.Line
setStartAngle(int) - Method in class uk.ac.ic.doc.automed.gui.Arc
setStartArrow(boolean) - Method in class uk.ac.ic.doc.automed.gui.Line
setStatement(Statement) - Method in class uk.ac.ic.doc.automed.templates.StatementExecution
  Sets the Statement of this StatementExecution.
setStatementDefinitionDescription(int, int, String) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
  Sets a particular statement's argument definition (the `description` field).
setStatementDefinitionFieldName(int, int, String) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
  Sets a particular statement's argument definition (the `field_name` field).
setStatementDefinitionTableName(int, int, String) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
  Sets a particular statement's argument definition (the `table_name` field).
setStatementName(int, String) - Static method in class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
  Sets the name of the statement specified by `st_id`
setStatementSequence(TStatement[]) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
setSTR_DataSourceName(String) - Static method in class uk.ac.ic.doc.automed.STR
  Deprecated. use setDataSourceName()
setString(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefineStringStatement
setStyle(String) - Method in class uk.ac.ic.doc.automed.gui.Arc
setStyle(String) - Method in class uk.ac.ic.doc.automed.gui.Box
setStyle(String) - Method in class uk.ac.ic.doc.automed.gui.Line
setStyle(String) - Method in class uk.ac.ic.doc.automed.gui.Rhombus
setSubTitle(String) - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
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.
setTableName(String) - Method in class uk.ac.ic.doc.automed.templates.StatementArgumentDefinition
  Sets the tablename of this StatementArgumentDefinition.
setTableName(String) - Method in class uk.ac.ic.doc.automed.templates.TransformationArgumentDefinition
  Sets the tablename of this TransformationArgumentDefinition .
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`.
setText(String) - Method in class uk.ac.ic.doc.automed.gui.Arc
setText(String) - Method in class uk.ac.ic.doc.automed.gui.Box
setText(String) - Method in class uk.ac.ic.doc.automed.gui.Line
setText(String) - Method in class uk.ac.ic.doc.automed.gui.Rhombus
setText(String) - Method in class uk.ac.ic.doc.automed.gui.ToolTip
  Sets the text to be displayed by this ToolTip.
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
setTextLocation(String) - Method in class uk.ac.ic.doc.automed.gui.Arc
setTextLocation(String) - Method in class uk.ac.ic.doc.automed.gui.Box
setTextLocation(String) - Method in class uk.ac.ic.doc.automed.gui.Line
setTextLocation(String) - Method in class uk.ac.ic.doc.automed.gui.Rhombus
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
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(int) - Method in class uk.ac.ic.doc.automed.reps.Schema
  Set what type of `Schema` this is.
setType(TType) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TArgument
setType(TType) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
setType(TType) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateArgument
setType(String) - Method in interface uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObj
  Set the type for this object
setType(String) - Method in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObject
  Set the type for this object
setTypeId(int) - Method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
setTypeInstance(int) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TArgument
setTypeInstance(int) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
setTypeInstance(int) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateArgument
SetUnion - Class in uk.ac.bbk.dcs.automed.qproc.functions
SetUnion() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.SetUnion
setupEquivalences(int, String, String, String) - Static method in class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Create a new type and set up the type equivalences between hdm and the model this type belongs to
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.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.
setUSRs(UncertainSchemaElementPair[]) - Method in class uk.ac.ic.doc.automed.matching.modules.AbstractModule
setValue(String) - Method in class uk.ac.ic.doc.automed.reps.SchemaObject
  Sets the name/value of the schema object.
setValue(String) - Method in class uk.ac.ic.doc.automed.templates.RuntimeArgument
  Sets the value of this RuntimeArgument.
setValue(String) - Method in class uk.ac.ic.doc.automed.templates.TemplateArgument
  Sets the value of this TemplateArgument.
setValue(String) - Method in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
setValue(TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
setValue(String[]) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
setVariable(String, TArgument) - Method in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
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
setWidth(int) - Method in class uk.ac.ic.doc.automed.gui.Arc
setWidth(int) - Method in class uk.ac.ic.doc.automed.gui.Box
setWidth(int) - Method in class uk.ac.ic.doc.automed.gui.Rhombus
setWrapper(String) - Method in class uk.ac.ic.doc.automed.reps.AccessMethod
  Sets the wrapper asscociated with this.
setXMLDSSSchema(Schema) - Method in class uk.ac.bbk.dcs.automed.xml.relational.XMLDSSFromRDB
setXPos(int) - Method in interface uk.ac.ic.doc.automed.editor.Positionable
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
setXPos(int) - Method in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
setYPos(int) - Method in interface uk.ac.ic.doc.automed.editor.Positionable
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
setYPos(int) - Method in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
show() - Method in class uk.ac.ic.doc.automed.gui.ToolTip
showAllSchemas() - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
showCacheViewer() - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
  Show cache viewer frame dmle 18/11/2005
showDialog() - Method in class uk.ac.ic.doc.automed.gui.LoadDialog
showDialog() - Method in class uk.ac.ic.doc.automed.templates.gui.LoadDialog
showSchema(SchemaDescription) - Method in class uk.ac.ic.doc.automed.p2p.gui.PeerApplication
SimilarCluster - Class in uk.ac.ic.doc.automed.matching.modules
SimilarCluster(Cluster, double) - Constructor for class uk.ac.ic.doc.automed.matching.modules.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.
Single - Class in uk.ac.bbk.dcs.automed.qproc.functions
Single() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Single
SINGLE - Static variable in class uk.ac.ic.doc.automed.editor.UserActionClass
SINGLE - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TConstants
SINGLE_ICON - Static variable in class uk.ac.ic.doc.automed.templates.gui.Accessories
singleton() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
  Returns the root of an ASG representing an empty list
singletonsARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
singletonsArgSeq - Variable in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
singletonsMAP - Variable in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
size() - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraph
size() - Method in class uk.ac.ic.doc.automed.reps.ModelingProgram
  Returns the number of statements in this program.
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.wrappers.AutoMedTuple
SIZEOF(TemplateCompilerSimulator.LIST) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
Sort - Class in uk.ac.bbk.dcs.automed.qproc.functions
Sort() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Sort
sort(ModifiedArray) - Static method in class uk.ac.bbk.dcs.automed.qproc.functions.Utilities
SortDistinct - Class in uk.ac.bbk.dcs.automed.qproc.functions
SortDistinct() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.SortDistinct
source() - Method in class uk.ac.bbk.dcs.automed.qproc.QueryReformulator
  Returns the global schema
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.
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.Cell
Split - Class in uk.ac.bbk.dcs.automed.qproc.functions.string
  Splits the input string in two and returns a 2-tuple.
Split() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.string.Split
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.
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
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
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.
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
standardStroke - Static variable in class uk.ac.ic.doc.automed.editor.DrawArc
standardStroke - Static variable in class uk.ac.ic.doc.automed.editor.DrawVertex
START() - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefaultTemplate
START() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
start_production() - Method in class uk.ac.bbk.dcs.automed.qproc.EnvParser
  Indicates start production.
start_production() - Method in class uk.ac.bbk.dcs.automed.qproc.QParser
  Indicates start production.
start_state() - Method in class uk.ac.bbk.dcs.automed.qproc.EnvParser
  Indicates start state.
start_state() - Method in class uk.ac.bbk.dcs.automed.qproc.QParser
  Indicates start state.
startDocument() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSSAX
STARTED - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
startElement(String, String, String, Attributes) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSSAX
state - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
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
Statement - Class in uk.ac.ic.doc.automed.templates
  The class to create statements that can be used in a template transformation's program.
Statement(String) - Constructor for class uk.ac.ic.doc.automed.templates.Statement
  Constructs a new Statement without any StatementArgumentDefinition objects.
statementArgSeq - Variable in class uk.ac.ic.doc.automed.templates.wrapper.CreateListStatement
statementArgSeq - Variable in class uk.ac.ic.doc.automed.templates.wrapper.DefineStringStatement
statementArgSeq - Variable in class uk.ac.ic.doc.automed.templates.wrapper.IndexListStatement
statementArgSeq - Variable in class uk.ac.ic.doc.automed.templates.wrapper.SchemeListStatement
StatementArgumentDefinition - Class in uk.ac.ic.doc.automed.templates
  The class used to define a statement's arguments.
StatementArgumentDefinition(int, int, String, String, String) - Constructor for class uk.ac.ic.doc.automed.templates.StatementArgumentDefinition
  Constructs a new StatementArgumentDefinition.
statementExecuted - Variable in class uk.ac.ic.doc.automed.templates.wrapper.RemovingStatement
statementExecuted - Variable in class uk.ac.ic.doc.automed.templates.wrapper.RenameStatement
StatementExecution - Class in uk.ac.ic.doc.automed.templates
  The class used to define a template transformation's program.
StatementExecution(int, int, Statement, TemplateArgumentSequence) - Constructor for class uk.ac.ic.doc.automed.templates.StatementExecution
  Constructs a new StatementExecution.
statementType - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TStatement
StatisticsModule - Class in uk.ac.ic.doc.automed.matching.modules
  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.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.StatisticsModule
StatisticsModule(ArrayList, ArrayList) - Constructor for class uk.ac.ic.doc.automed.matching.modules.StatisticsModule
  Constructs a `StatisticsModule` to compare the specified schema elements in the input lists.
STATUS - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
stmArg - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateArgument
stopAll() - Method in class uk.ac.ic.doc.automed.p2p.AutoMedMessagingHelper
stopped() - Method in class uk.ac.ic.doc.automed.editor.MatchingTool
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.ic.doc.automed.reps.Syntax.Token
STRING - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TConstants
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
stringSafe(String) - Static method in class uk.ac.ic.doc.automed.reps.Syntax
stringToObject(String, Class) - Static method in class uk.ac.ic.doc.automed.Util
STRMethodTest - Class in uk.ac.ic.doc.automed
STRMethodTest() - Constructor for class uk.ac.ic.doc.automed.STRMethodTest
StrToken - Static variable in class uk.ac.bbk.dcs.automed.qproc.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
SubBag - Class in uk.ac.bbk.dcs.automed.qproc.functions
SubBag() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.SubBag
Subset - Class in uk.ac.ic.doc.automed.matching.relationships
  The Subset class represents the subset semantic relationship between `SchemaElement` objects.
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 - Class in uk.ac.bbk.dcs.automed.qproc.functions.string
  Returns a substring of the input string based on the two other integer arguments.
Substring2() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.string.Substring2
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.
Sum - Class in uk.ac.bbk.dcs.automed.qproc.functions
Sum() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Sum
SUPER_TYPE - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TConstants
Superset - Class in uk.ac.ic.doc.automed.matching.relationships
  The Superset class represents the superset semantic relationship between `SchemaElement` objects.
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
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
SYSTEM - Static variable in class uk.ac.ic.doc.automed.editor.UserActionClass
sysvariable - Static variable in class uk.ac.bbk.dcs.automed.qproc.Cell
SysVarToken - Static variable in class uk.ac.bbk.dcs.automed.qproc.QSym

## T

TABLE - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLQuery
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
tag() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
  Returns the Cell's tag
targets() - Method in class uk.ac.bbk.dcs.automed.qproc.QueryReformulator
  Returns the array of local schemas
TArgument - Class in uk.ac.ic.doc.automed.templates.wrapper
TArgument() - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TArgument
TConstants - Class in uk.ac.ic.doc.automed.templates.wrapper
TConstants() - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TConstants
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
TELL - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
TELL_BROKER - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants
TemplateArgument - Class in uk.ac.ic.doc.automed.templates
  The class to create compile-time arguments (arguments used in template transformation's definitions)
TemplateArgument(int, int, String) - Constructor for class uk.ac.ic.doc.automed.templates.TemplateArgument
  Constructs a new TemplateArgument storing the specified value.
TemplateArgument(int, String) - Constructor for class uk.ac.ic.doc.automed.templates.TemplateArgument
  Constructs a new TemplateArgument storing the specified value and creates a new sequence of arguments.
TemplateArgument(int, int, TemplateArgumentSequence, int) - Constructor for class uk.ac.ic.doc.automed.templates.TemplateArgument
  Constructs a new TemplateArgument that refers to another argument
TemplateArgument(int, TemplateArgumentSequence, int) - Constructor for class uk.ac.ic.doc.automed.templates.TemplateArgument
  Constructs a new TemplateArgument that refers to another argument and creates a new argument sequence
TemplateArgument(int, int, TemplateArgument) - Constructor for class uk.ac.ic.doc.automed.templates.TemplateArgument
  Constructs a new TemplateArgument that refers to another TemplateArgument
TemplateArgument(int, TemplateArgument) - Constructor for class uk.ac.ic.doc.automed.templates.TemplateArgument
  Constructs a new TemplateArgument that refers to another TemplateArgument and creates a new argument sequence
TemplateArgument(int, int, int) - Constructor for class uk.ac.ic.doc.automed.templates.TemplateArgument
  Constructs a new TemplateArgument that refers to a composite transformation's arguments.
TemplateArgument(int, int) - Constructor for class uk.ac.ic.doc.automed.templates.TemplateArgument
  Constructs a new TemplateArgument that refers to a composite transformation's arguments and creates a new sequence of arguments.
TemplateArgumentSequence - Class in uk.ac.ic.doc.automed.templates
  The class to create compile-time argument sequences (sequences used in template transformation's definitions)
TemplateArgumentSequence() - Constructor for class uk.ac.ic.doc.automed.templates.TemplateArgumentSequence
  Constructs a new TemplateArgumentSequence without any TemplateArgument objects.
TemplateCompilerSimulator - Class in uk.ac.ic.doc.automed.templates.wrapper
TemplateCompilerSimulator(AutoMedWrapperFactory) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
TemplateCompilerSimulator() - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
TemplateCompilerSimulator.CONSTRAINTS - Class in uk.ac.ic.doc.automed.templates.wrapper
TemplateCompilerSimulator.CONSTRAINTS(TArgument) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.CONSTRAINTS
TemplateCompilerSimulator.CONSTRAINTS(String) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.CONSTRAINTS
TemplateCompilerSimulator.CONSTRAINTS() - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.CONSTRAINTS
TemplateCompilerSimulator.CONSTRAINTSLIST - Class in uk.ac.ic.doc.automed.templates.wrapper
TemplateCompilerSimulator.CONSTRAINTSLIST(TArgument) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.CONSTRAINTSLIST
TemplateCompilerSimulator.CONSTRUCT - Class in uk.ac.ic.doc.automed.templates.wrapper
TemplateCompilerSimulator.CONSTRUCT() - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.CONSTRUCT
TemplateCompilerSimulator.FUNCTION - Class in uk.ac.ic.doc.automed.templates.wrapper
TemplateCompilerSimulator.FUNCTION(TArgument) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.FUNCTION
TemplateCompilerSimulator.FUNCTION(String) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.FUNCTION
TemplateCompilerSimulator.FUNCTION() - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.FUNCTION
TemplateCompilerSimulator.FUNCTIONLIST - Class in uk.ac.ic.doc.automed.templates.wrapper
TemplateCompilerSimulator.FUNCTIONLIST(TArgument) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.FUNCTIONLIST
TemplateCompilerSimulator.ITEM - Class in uk.ac.ic.doc.automed.templates.wrapper
TemplateCompilerSimulator.ITEM(TArgument) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.ITEM
TemplateCompilerSimulator.ITEM() - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.ITEM
TemplateCompilerSimulator.LIST - Class in uk.ac.ic.doc.automed.templates.wrapper
TemplateCompilerSimulator.LIST(TArgument) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.LIST
TemplateCompilerSimulator.LIST() - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.LIST
TemplateCompilerSimulator.NAME - Class in uk.ac.ic.doc.automed.templates.wrapper
TemplateCompilerSimulator.NAME(TArgument) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.NAME
TemplateCompilerSimulator.NAMELIST - Class in uk.ac.ic.doc.automed.templates.wrapper
TemplateCompilerSimulator.NAMELIST(TArgument) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.NAMELIST
TemplateCompilerSimulator.OBJECT - Class in uk.ac.ic.doc.automed.templates.wrapper
TemplateCompilerSimulator.OBJECT(TArgument) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.OBJECT
TemplateCompilerSimulator.OBJECTLIST - Class in uk.ac.ic.doc.automed.templates.wrapper
TemplateCompilerSimulator.OBJECTLIST(TArgument) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.OBJECTLIST
TemplateCompilerSimulator.SCHEME - Class in uk.ac.ic.doc.automed.templates.wrapper
TemplateCompilerSimulator.SCHEME() - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.SCHEME
TemplateCompilerSimulator.STRING - Class in uk.ac.ic.doc.automed.templates.wrapper
TemplateCompilerSimulator.STRING(TArgument) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.STRING
TemplateCompilerSimulator.STRING() - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.STRING
TemplateCompilerSimulator.STRINGLIST - Class in uk.ac.ic.doc.automed.templates.wrapper
TemplateCompilerSimulator.STRINGLIST(TArgument) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.STRINGLIST
TemplateDefinitionException - Exception in uk.ac.ic.doc.automed.templates.wrapper
TemplateDefinitionException(String) - Constructor for exception uk.ac.ic.doc.automed.templates.wrapper.TemplateDefinitionException
TemplateDefinitionException(String, Exception) - Constructor for exception uk.ac.ic.doc.automed.templates.wrapper.TemplateDefinitionException
templateDescription() - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefaultTemplate
templateDescription() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
TemplateDialogueLauncher - Class in uk.ac.ic.doc.automed.templates.gui
TemplateDialogueLauncher(Frame) - Constructor for class uk.ac.ic.doc.automed.templates.gui.TemplateDialogueLauncher
TemplateExecutionRepository - Class in uk.ac.ic.doc.automed
  Manipulate the Template Execution Repository and supply the methods to invoke template transformations
TemplateExecutionRepository() - Constructor for class uk.ac.ic.doc.automed.TemplateExecutionRepository
TemplateExecutionRepositoryException - Exception in uk.ac.ic.doc.automed
  The class of exceptions generated by `TemplateExecutionRepository`.
TemplateExecutionRepositoryException(String) - Constructor for exception uk.ac.ic.doc.automed.TemplateExecutionRepositoryException
TemplateInputDialogue - Class in uk.ac.ic.doc.automed.templates.gui
TemplateInputDialogue(int, int, InteractiveSchemaDisplay, TemplateFrame) - Constructor for class uk.ac.ic.doc.automed.templates.gui.TemplateInputDialogue
templateName() - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefaultTemplate
templateName() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
  Return the name used to identify the template transformation that will be compiled by an implementation of this class.
templateStatements - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
TemplateTransformationRepository - Class in uk.ac.ic.doc.automed
  Manipulate the Template Transformation Repository, built template transformations.
TemplateTransformationRepository() - Constructor for class uk.ac.ic.doc.automed.TemplateTransformationRepository
TemplateTransformationRepositoryException - Exception in uk.ac.ic.doc.automed
  The class of exceptions generated by `TemplateTransformationRepository`.
TemplateTransformationRepositoryException(String) - Constructor for exception uk.ac.ic.doc.automed.TemplateTransformationRepositoryException
TemplateTransformationRepositoryExtension - Class in uk.ac.ic.doc.automed
TemplateTransformationRepositoryExtension() - Constructor for class uk.ac.ic.doc.automed.TemplateTransformationRepositoryExtension
TemplateTransformationSyntaxRepository - Class in uk.ac.ic.doc.automed
  Manipulate the Template Transformation Syntax Repository, create new statements.
TemplateTransformationSyntaxRepository() - Constructor for class uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepository
TemplateTransformationSyntaxRepositoryException - Exception in uk.ac.ic.doc.automed
  The class of exceptions generated by `TemplateTransformationSyntaxRepository`.
TemplateTransformationSyntaxRepositoryException(String) - Constructor for exception uk.ac.ic.doc.automed.TemplateTransformationSyntaxRepositoryException
temporaryForeachOutputVariables - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
TempPathway - Class in uk.ac.ic.doc.automed.tml
  This class represents a temporary pathway used solely for the purpose of pathway optimisation.
TempTML - Class in uk.ac.ic.doc.automed.tml
  This class represents a temporary `TML` in a `TempPathway`.
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
testIdenticalSchemas(Schema, Schema) - Method in class uk.ac.ic.doc.automed.tml.TempPathway
text() - Method in class uk.ac.bbk.dcs.automed.qproc.Cell
  Returns the string representation of the object contained in the Cell
Text - Static variable in class uk.ac.bbk.dcs.automed.qproc.EnvSym
text - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
text - Variable in class uk.ac.ic.doc.automed.editor.DrawVertex
textFieldCompleted(InputItem, String) - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
textHeight - Variable in class uk.ac.ic.doc.automed.editor.DrawVertex
textQuery() - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.DOMWrapper
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
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
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
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
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)
toASGList(ArrayList) - Static method in class uk.ac.bbk.dcs.automed.qproc.ASG
  Generates an ASG list from an ArrayList.
toASGTuple(ArrayList) - Static method in class uk.ac.bbk.dcs.automed.qproc.ASG
  Generates an ASG tuple from an ArrayList.
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
toObjectARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
toObjectARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.RemovingStatement
toObjectARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.RenameStatement
ToolTip - Class in uk.ac.ic.doc.automed.gui
  Customized ToolTip class.
ToolTip(Frame) - Constructor for class uk.ac.ic.doc.automed.gui.ToolTip
  Creates a new ToolTip.
toPrintString() - Method in class uk.ac.ic.doc.automed.tml.TML
toSchema - Variable in class uk.ac.ic.doc.automed.p2p.protocol.Request.Pathway
toSchemaARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TStatement
toString() - Method in class uk.ac.bbk.dcs.automed.qproc.ASG
toString() - Method in class uk.ac.bbk.dcs.automed.qproc.SchemeInfo
toString() - Method in class uk.ac.ic.doc.automed.editor.Gui.EditorFrame
toString() - Method in class uk.ac.ic.doc.automed.gui.GraphicSchemaObject
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.Cluster
toString() - Method in class uk.ac.ic.doc.automed.matching.modules.ElementVectorRepresentation
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.Subsumption
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) - 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.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
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.templates.wrapper.TTemplateInputArgument
toString() - Method in class uk.ac.ic.doc.automed.tml.TML
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.xmlschema.xsdomobject.XSDOMObject
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"
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
transARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
transform(boolean, boolean, boolean) - Method in class uk.ac.bbk.dcs.automed.xml.XMLTransformer
  Creates the transformation pathway from the source to the target schema.
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
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
TransformationArgumentDefinition - Class in uk.ac.ic.doc.automed.templates
  The class used to define a template transformation's arguments.
TransformationArgumentDefinition(int, int, String, String, String, boolean) - Constructor for class uk.ac.ic.doc.automed.templates.TransformationArgumentDefinition
  Constructs a new TransformationArgumentDefinition.
TransformationArgumentDefinition(int, int, String, boolean, int, int, int, int) - Constructor for class uk.ac.ic.doc.automed.templates.TransformationArgumentDefinition
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
transformationsScroller - Variable in class uk.ac.ic.doc.automed.templates.gui.SchemaFrame
TransformToHDM(String, int) - Method in class uk.ac.ic.doc.automed.xmlschema.transform.HighLevelToHDM
  Transform any high level model into an HDM oriented one
transidExistsInCompositeTransformationExecution(int) - Static method in class uk.ac.ic.doc.automed.TemplateExecutionRepository
  Returns false if the specified transformation is not found in the execution table, true otherwise.
transIds - Variable in class uk.ac.ic.doc.automed.templates.gui.TemplateDialogueLauncher
translate(Document) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSDOMFromXSD
translateToQueryText(StringBuffer) - Method in class uk.ac.ic.doc.automed.wrappers.SQLQuery
  Insert into a StringBuffer the text equivalent of this SQLQuery.
Translator - Class in uk.ac.bbk.dcs.automed.wrappers
Translator() - Constructor for class uk.ac.bbk.dcs.automed.wrappers.Translator
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.xsdomobject.XSDOMObject
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
tryToUpdateArgumentWithInputValues(String[]) - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
tryToUpdateArgumentWithInputValues() - Method in class uk.ac.ic.doc.automed.templates.gui.InputForm
TStatement - Class in uk.ac.ic.doc.automed.templates.wrapper
TStatement() - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TStatement
TStatementArgument - Class in uk.ac.ic.doc.automed.templates.wrapper
TStatementArgument(TStatement, TemplateArgumentSequence, int) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
TStatementArgument(TType, TStatement, TemplateArgumentSequence, int) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TStatementArgument
TTemplate - Class in uk.ac.ic.doc.automed.templates.wrapper
TTemplate(String) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
TTemplate(String, String, boolean) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
TTemplate(String, String) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
TTemplate(String, boolean) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
TTemplateArgument - Class in uk.ac.ic.doc.automed.templates.wrapper
TTemplateArgument(int, String, TType, boolean) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TTemplateArgument
TTemplateArgument(int, String, TStatementArgument) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TTemplateArgument
TTemplateInputArgument - Class in uk.ac.ic.doc.automed.templates.wrapper
TTemplateInputArgument(int, int) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
TTemplateInputArgumentList - Class in uk.ac.ic.doc.automed.templates.wrapper
TTemplateInputArgumentList(CompositeTransformation) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgumentList
TTemplateInputArgumentList(int) - Constructor for class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgumentList
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
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 - Variable in class uk.ac.ic.doc.automed.reps.Syntax.Token
type - Variable in class uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObject
  The type of the object.
TYPE_ALTERNATION - Static variable in class uk.ac.ic.doc.automed.reps.Scheme
  Deprecated. see `Construct.CLASS_ALTERNATION`
TYPE_CONSTRUCT - Static variable in class uk.ac.ic.doc.automed.reps.Scheme
  Scheme type of construct scheme
TYPE_MAXIMUM - Static variable in class uk.ac.ic.doc.automed.reps.Scheme
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_SEQUENCE - Static variable in class uk.ac.ic.doc.automed.reps.Scheme
  Deprecated. see `Construct.CLASS_SEQUENCE`
TypeConstraints - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
TypeConstraintsList - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
TypeFunction - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
TypeFunctionList - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
TypeHierarchy - Class in uk.ac.ic.doc.automed.reps
TypeHierarchy(int, String, int, int) - Constructor for class uk.ac.ic.doc.automed.reps.TypeHierarchy
  Creates a new instance of typeHierarchy for serialisation
TypeHierarchy(int, String, String, int, int) - Constructor for class uk.ac.ic.doc.automed.reps.TypeHierarchy
TypeItem - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
TypeList - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
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
TypeName - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
TypeNameList - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
TypeObject - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
TypeObjectList - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
TypeString - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
TypeStringList - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator

## 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(String, int, RequestListener) - Constructor for class uk.ac.ic.doc.automed.p2p.communication.UDPClient
  Creates a new instance of UDPClient
UDPServer - Class in uk.ac.ic.doc.automed.p2p.communication
UDPServer(int, RequestListener) - Constructor for class uk.ac.ic.doc.automed.p2p.communication.UDPServer
  Creates a new instance of UDPServer
UIDGetAttNameFromAttUID(String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
UIDGetElementName(String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
UIDGetElementName(Node) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
UIDGetElementNameFromAttUID(String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
UIDGetSchemaUIDFromInstanceUID(String) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
UIDGetSchemaUIDFromInstanceUID(Node) - Method in class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
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.functions - package uk.ac.bbk.dcs.automed.qproc.functions
uk.ac.bbk.dcs.automed.qproc.functions.string - package uk.ac.bbk.dcs.automed.qproc.functions.string
uk.ac.bbk.dcs.automed.qproc.functions.xml - package uk.ac.bbk.dcs.automed.qproc.functions.xml
uk.ac.bbk.dcs.automed.qproc.optimise - package uk.ac.bbk.dcs.automed.qproc.optimise
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.relational - package uk.ac.bbk.dcs.automed.xml.relational
uk.ac.bbk.dcs.automed.xml.wrappers - package uk.ac.bbk.dcs.automed.xml.wrappers
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.drawables - package uk.ac.ic.doc.automed.editor.drawables
uk.ac.ic.doc.automed.gui - package uk.ac.ic.doc.automed.gui
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.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.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.reps - package uk.ac.ic.doc.automed.reps
uk.ac.ic.doc.automed.ssd - package uk.ac.ic.doc.automed.ssd
uk.ac.ic.doc.automed.templates - package uk.ac.ic.doc.automed.templates
uk.ac.ic.doc.automed.templates.gui - package uk.ac.ic.doc.automed.templates.gui
uk.ac.ic.doc.automed.templates.wrapper - package uk.ac.ic.doc.automed.templates.wrapper
uk.ac.ic.doc.automed.tml - package uk.ac.ic.doc.automed.tml
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.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.transform - package uk.ac.ic.doc.automed.xmlschema.transform
uk.ac.ic.doc.automed.xmlschema.tree - package uk.ac.ic.doc.automed.xmlschema.tree
uk.ac.ic.doc.automed.xmlschema.xsdomobject - package uk.ac.ic.doc.automed.xmlschema.xsdomobject
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.
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.
unFinalise() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgument
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(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).
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() - 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
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
updateCanvas() - Method in class uk.ac.ic.doc.automed.gui.SchemaCanvas
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.XMLSchemaEditor
updateFields() - Method in class uk.ac.ic.doc.automed.p2p.gui.CacheViewerFrame
  Implements GUITool abstract methods
updatePeer(String, String) - Method in class uk.ac.ic.doc.automed.p2p.directory.P2PDirectory
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) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
updatePeer(String, String) - Method in class uk.ac.ic.doc.automed.p2p.MessageHandler
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
updateRepository() - Method in class uk.ac.ic.doc.automed.templates.wrapper.CreateListStatement
updateRepository() - Method in class uk.ac.ic.doc.automed.templates.wrapper.DefineStringStatement
updateRepository() - Method in class uk.ac.ic.doc.automed.templates.wrapper.ForeachStatement
updateRepository() - Method in class uk.ac.ic.doc.automed.templates.wrapper.IndexListStatement
updateRepository() - Method in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
updateRepository() - Method in class uk.ac.ic.doc.automed.templates.wrapper.RemovingStatement
updateRepository() - Method in class uk.ac.ic.doc.automed.templates.wrapper.RenameStatement
updateRepository() - Method in class uk.ac.ic.doc.automed.templates.wrapper.SchemeListStatement
updateRepository() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TStatement
updateRepositoryWithRuntimeArguments() - Method in class uk.ac.ic.doc.automed.templates.wrapper.TTemplateInputArgumentList
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.
updateSSDPatterns() - Method in class uk.ac.ic.doc.automed.ssd.SSDFormat
upperBound - Static variable in class uk.ac.bbk.dcs.automed.qproc.QueryReformulator
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
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
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 - 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
Utilities - Class in uk.ac.bbk.dcs.automed.qproc.functions
Utilities() - Constructor for class uk.ac.bbk.dcs.automed.qproc.functions.Utilities
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

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 - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.CONSTRAINTS
value - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator.FUNCTION
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
valueARG - Variable in class uk.ac.ic.doc.automed.templates.wrapper.InsertingStatement
valueChanged(ListSelectionEvent) - Method in class uk.ac.ic.doc.automed.gui.SchemaTool
valueChanged(ListSelectionEvent) - Method in class uk.ac.ic.doc.automed.templates.gui.TemplateDialogueLauncher
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
variable - Static variable in class uk.ac.bbk.dcs.automed.qproc.Cell
VARIABLE_PREFIX - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
VARIES_WITH(TemplateCompilerSimulator.NAMELIST) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
VARIES_WITH(TemplateCompilerSimulator.NAME) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
VARIES_WITH(TemplateCompilerSimulator.OBJECT) - Method in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
VarToken - Static variable in class uk.ac.bbk.dcs.automed.qproc.EnvSym
VarToken - Static variable in class uk.ac.bbk.dcs.automed.qproc.QSym
Vectors - Class in uk.ac.ic.doc.automed.matching.modules
Vectors(List) - Constructor for class uk.ac.ic.doc.automed.matching.modules.Vectors
VERBOSE - Static variable in class uk.ac.bbk.dcs.automed.hdmstore.Debug
VERTICAL_EXT - Static variable in class uk.ac.ic.doc.automed.gui.Rhombus
viewmap - Variable in class uk.ac.bbk.dcs.automed.qproc.QueryReformulator
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.
visited() - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraphNode
  Marks the calling node as visited.
voidQuery() - Static method in class uk.ac.bbk.dcs.automed.qproc.ASG
  Returns the ASG representation of the query Void.

## W

waffle(String) - Method in class uk.ac.bbk.dcs.automed.hdmstore.Debug
  Write a verbose level message
warn(String) - Static method in class uk.ac.ic.doc.automed.p2p.util.Logger
wasExecuted - Variable in class uk.ac.ic.doc.automed.templates.wrapper.TTemplate
wasVisited() - Method in class uk.ac.bbk.dcs.automed.graph.DirectedGraphNode
weakHeadNF(Cell) - Method in class uk.ac.bbk.dcs.automed.qproc.Evaluator
  Analogous to the above.
WHERE - Static variable in class uk.ac.ic.doc.automed.wrappers.SQLQuery
  The only field should contain a logical operator or a comparison
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).
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.
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
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
WRITTING_CODE - Static variable in class uk.ac.ic.doc.automed.templates.wrapper.TemplateCompilerSimulator
WRONG_FORMAT - Static variable in class uk.ac.ic.doc.automed.p2p.protocol.P2PConstants

## X

xindiceDriver - Static variable in class uk.ac.bbk.dcs.automed.xml.XMLConstants
XindiceWrapper - Class in uk.ac.bbk.dcs.automed.xml.wrappers
  The url must be of the form: xmldb:vendordb://host:port/path/to/collection
XindiceWrapper(AccessMethod, String) - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.XindiceWrapper
XindiceWrapperFactory - Class in uk.ac.bbk.dcs.automed.xml.wrappers
  Class Task Description
XindiceWrapperFactory() - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.XindiceWrapperFactory
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_ATTRIBUTE - 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_ELEMENT - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_MODEL_NEST - 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_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_TYPE_NEST - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_MODEL_CONS_SUFFIX - 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_ELEMENT - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
  Constants
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_LIST - 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
XML_SCHEMA_MODEL_NEST - 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_SIMPLE_TYPE - Static variable in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XML_SCHEMA_MODEL_TYPE - 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.
XMLDSSDOM(DOMWrapper, DOMWrapperFactory) - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSDOM
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) - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSDOMFromXSD
XMLDSSFromAMSchema - Class in uk.ac.bbk.dcs.automed.xml.wrappers
  Class that creates a DOM XMLDSS schema from an underlying AutoMed XMLDSS schema.
XMLDSSFromAMSchema(Schema) - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSFromAMSchema
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
XMLDSSSAX - Class in uk.ac.bbk.dcs.automed.xml.wrappers
  The XMLDataSourceSchema class represents the DataSource Schema of an XML file using SAX.
XMLDSSSAX(SAXWrapper, SAXWrapperFactory) - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.XMLDSSSAX
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.
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.
XmlHandler - Class in uk.ac.ic.doc.automed.p2p.util
XmlHandler() - Constructor for class uk.ac.ic.doc.automed.p2p.util.XmlHandler
XMLModel - Class in uk.ac.bbk.dcs.automed.xml
  Defines the AutoMed XML Model
XMLModel() - Constructor for class uk.ac.bbk.dcs.automed.xml.XMLModel
  Creates the XML Model in the AutoMed Repository (MDR).
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, QueryReformulator, String) - Constructor for class uk.ac.ic.doc.automed.xmlschema.output.XMLOutputter
  Creates a new instance of XMLOutputter
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.xmlschema.output
XMLSchemaOutputter(String) - Constructor for class uk.ac.ic.doc.automed.xmlschema.output.XMLSchemaOutputter
  Creates a new instance of XMLSchemaOutputter
xmlSchemaToXML(Schema, String) - Method in class uk.ac.ic.doc.automed.wrappers.XMLSchemaWrapperFactory
XMLSchemaToXSDOM() - Method in class uk.ac.ic.doc.automed.xmlschema.AutoMedToXSDOM
XMLSchemaTransform - Class in uk.ac.ic.doc.automed.xmlschema.transform
XMLSchemaTransform(Schema) - Constructor for class uk.ac.ic.doc.automed.xmlschema.transform.XMLSchemaTransform
  Creates a new instance of XMLSchemaTransform
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
XMLTransformer - Class in uk.ac.bbk.dcs.automed.xml
  Class that automatically integrates two fully conformed AutoMed XML DataSource Schemas.
XMLTransformer(Schema, Document, Schema, Document) - Constructor for class uk.ac.bbk.dcs.automed.xml.XMLTransformer
XMLWrapper - Class in uk.ac.bbk.dcs.automed.xml.wrappers
  XMLWrapper class is a wrapper class for the AutoMed Repository.
XMLWrapper() - Constructor for class uk.ac.bbk.dcs.automed.xml.wrappers.XMLWrapper
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.
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
xPos - Variable in class uk.ac.ic.doc.automed.templates.gui.DrawingObject
XSDOMObj - Interface in uk.ac.ic.doc.automed.xmlschema.xsdomobject
XSDOMObject - Class in uk.ac.ic.doc.automed.xmlschema.xsdomobject
XSDOMObject() - Constructor for class uk.ac.ic.doc.automed.xmlschema.xsdomobject.XSDOMObject
  Creates a new instance of XSDOMObject

## Y

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(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
yPos - Variable in class uk.ac.ic.doc.automed.templates.gui.DrawingObject

## 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.EnvParser
  Parse-action table.
_action_table - Static variable in class uk.ac.bbk.dcs.automed.qproc.QParser
  Parse-action table.
_production_table - Static variable in class uk.ac.bbk.dcs.automed.qproc.EnvParser
  Production table.
_production_table - Static variable in class uk.ac.bbk.dcs.automed.qproc.QParser
  Production table.
_reduce_table - Static variable in class uk.ac.bbk.dcs.automed.qproc.EnvParser
  `reduce_goto` table.
_reduce_table - Static variable in class uk.ac.bbk.dcs.automed.qproc.QParser
  `reduce_goto` table.

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