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

A

AbstractDockable - Class in net.sourceforge.fluxion.pussycat.entity
The AbstractDockable abstract class Defines a skeleton class that allows widgets to be docked in dockable areas of a web page
AbstractDockable() - Constructor for class net.sourceforge.fluxion.pussycat.entity.AbstractDockable
 
AbstractEdge - Class in net.sourceforge.fluxion.graph
An abstract implementation of Edge which provides common implementations os the setter and getter methods defined by this interface.
AbstractEdge() - Constructor for class net.sourceforge.fluxion.graph.AbstractEdge
 
AbstractFluxionEndpoint - Class in net.sourceforge.fluxion.spring.endpoint
Abstract extension of AbstractJDomPayloadEndpoint which exposes a FluxionService property to its subclasses
AbstractFluxionEndpoint() - Constructor for class net.sourceforge.fluxion.spring.endpoint.AbstractFluxionEndpoint
 
AbstractGraph - Class in net.sourceforge.fluxion.graph
Javadocs go here.
AbstractGraph() - Constructor for class net.sourceforge.fluxion.graph.AbstractGraph
Constructs a new DefaultGraph.
AbstractGraphViewRenderer - Class in net.sourceforge.fluxion.graph.view.renderer
Javadocs go here.
AbstractGraphViewRenderer() - Constructor for class net.sourceforge.fluxion.graph.view.renderer.AbstractGraphViewRenderer
 
AbstractGraphViewRenderer.Operating_System - Enum in net.sourceforge.fluxion.graph.view.renderer
 
AbstractNode - Class in net.sourceforge.fluxion.graph
An abstract implementation of Node.
AbstractNode() - Constructor for class net.sourceforge.fluxion.graph.AbstractNode
 
AbstractPussycatSearcher<O> - Class in net.sourceforge.fluxion.pussycat.util
 
AbstractPussycatSearcher() - Constructor for class net.sourceforge.fluxion.pussycat.util.AbstractPussycatSearcher
 
AbstractPussycatSearcher(String) - Constructor for class net.sourceforge.fluxion.pussycat.util.AbstractPussycatSearcher
 
AbstractPussycatSearcher(Class) - Constructor for class net.sourceforge.fluxion.pussycat.util.AbstractPussycatSearcher
 
AbstractPussycatSearcher(String, Class) - Constructor for class net.sourceforge.fluxion.pussycat.util.AbstractPussycatSearcher
 
AbstractRenderletProvider - Class in net.sourceforge.fluxion.pussycat.renderlets
Created by IntelliJ IDEA.
AbstractRenderletProvider() - Constructor for class net.sourceforge.fluxion.pussycat.renderlets.AbstractRenderletProvider
 
accept(T) - Method in interface net.sourceforge.fluxion.datasource.filter.Filter
Determine whether the passed value is in the domain of objects this FilterAnn can accept.
accept(T) - Method in class net.sourceforge.fluxion.datasource.filter.impl.All
 
accept(T) - Method in class net.sourceforge.fluxion.datasource.filter.impl.And
 
accept(T) - Method in class net.sourceforge.fluxion.datasource.filter.impl.ExactValue
 
accept(N) - Method in class net.sourceforge.fluxion.datasource.filter.impl.GreaterThan
 
accept(T) - Method in class net.sourceforge.fluxion.datasource.filter.impl.Join
 
accept(N) - Method in class net.sourceforge.fluxion.datasource.filter.impl.LessThan
 
accept(T) - Method in class net.sourceforge.fluxion.datasource.filter.impl.None
 
accept(T) - Method in class net.sourceforge.fluxion.datasource.filter.impl.Or
 
accept(EdgeVisitor) - Method in class net.sourceforge.fluxion.graph.AbstractEdge
 
accept(GraphVisitor) - Method in class net.sourceforge.fluxion.graph.AbstractGraph
 
accept(NodeVisitor) - Method in class net.sourceforge.fluxion.graph.AbstractNode
 
accept(EdgeVisitor) - Method in interface net.sourceforge.fluxion.graph.Edge
 
accept(GraphVisitor) - Method in interface net.sourceforge.fluxion.graph.Graph
Accept a visit from a GraphVisitor.
accept(NodeVisitor) - Method in interface net.sourceforge.fluxion.graph.Node
Accept a visit from a NodeVisitor
accept(File, String) - Method in class net.sourceforge.fluxion.pussycat.util.jarFilter
 
accept(RuleVisitor) - Method in class net.sourceforge.fluxion.runcible.impl.StandardRule
 
accept(RuleVisitor) - Method in interface net.sourceforge.fluxion.runcible.Rule
 
AccessorMode - Enum in net.sourceforge.fluxion.annotations
Accessor modes for OWL properties
acquireConnection() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnectionManager
 
acquireDatasourceConnection(Map<String, String>) - Method in interface net.sourceforge.fluxion.datapublisher.beangen.BeanFactory
Acquire a connection to the underlying datasource.
acquireDatasourceConnection(Map<String, String>) - Method in class net.sourceforge.fluxion.datapublisher.biomart.impl.BiomartBeanFactory
 
acquireDatasourceConnection(Map<String, String>) - Method in class net.sourceforge.fluxion.datapublisher.mysql.impl.MySQLBeanFactory
 
acquireDatasourceConnection(Map<String, String>) - Method in class net.sourceforge.fluxion.datapublisher.odbc.impl.ODBCBeanFactory
 
acquireDatasourceConnection(Map<String, String>) - Method in class net.sourceforge.fluxion.datapublisher.postgresql.impl.PostgresqlBeanFactory
 
acquireReasonerSession(OWLOntology) - Method in class net.sourceforge.fluxion.utils.ReasonerSessionManager
Acquire any available reasoner session that supplies a reasoned-over version of the given ontology.
acquireReasonerSession(OWLOntology, int) - Method in class net.sourceforge.fluxion.utils.ReasonerSessionManager
Acquire any available reasoner session that supplies a reasoned-over version of the given ontology.
add(Node) - Method in class net.sourceforge.fluxion.graph.AbstractGraph
 
add(Edge) - Method in class net.sourceforge.fluxion.graph.AbstractGraph
 
add(Node) - Method in interface net.sourceforge.fluxion.graph.Graph
Adds the Node to this graph
add(Edge) - Method in interface net.sourceforge.fluxion.graph.Graph
Adds the Edge to this graph.
add(String, String) - Method in class net.sourceforge.fluxion.pussycat.container.PussycatRenderletContainer
Adds a new Renderlet of the type matching the given renderletName gives it a change listener and registers it to the nexus.
add(String, String) - Method in interface net.sourceforge.fluxion.pussycat.renderlets.RenderletContainer
Add a new renderlet to the framework.
addAdditionalDataSource(URL) - Method in class net.sourceforge.fluxion.datasource.impl.BeanModelDataSourceFactory
Adds an extra URL to the factory, so that additional datasources can be loaded from outside the current classloader.
addCommand(ChangeCommand) - Method in class net.sourceforge.fluxion.runcible.io.command.impl.CompositeCommand
 
addDataClause(DataClause) - Method in class net.sourceforge.fluxion.runcible.impl.StandardRule
 
addDataClause(Document, Element, DataClause) - Static method in class net.sourceforge.fluxion.runcible.io.RuncibleRulesRenderer
 
addDataClause(DataClause) - Method in interface net.sourceforge.fluxion.runcible.Rule
 
AddDataClauseCommand - Class in net.sourceforge.fluxion.runcible.io.command.impl
Javadocs go here.
AddDataClauseCommand(Rule, String, URI) - Constructor for class net.sourceforge.fluxion.runcible.io.command.impl.AddDataClauseCommand
 
AddDataConstantAssertionCommand - Class in net.sourceforge.fluxion.runcible.io.command.impl
Created by IntelliJ IDEA.
AddDataConstantAssertionCommand(Rule, String, URI, String, String) - Constructor for class net.sourceforge.fluxion.runcible.io.command.impl.AddDataConstantAssertionCommand
 
AddDataConstantCommand - Class in net.sourceforge.fluxion.runcible.io.command.impl
Javadocs go here.
AddDataConstantCommand(Rule, String, URI, DataRange) - Constructor for class net.sourceforge.fluxion.runcible.io.command.impl.AddDataConstantCommand
 
AddDataConstantNodeCommand - Class in net.sourceforge.fluxion.runcible.graph.command
Javadocs go here.
AddDataConstantNodeCommand(Graph, OWLMappingNode, OWLDataProperty, OWLDataRange, String) - Constructor for class net.sourceforge.fluxion.runcible.graph.command.AddDataConstantNodeCommand
 
AddDataValueAssertionCommand - Class in net.sourceforge.fluxion.runcible.io.command.impl
Javadocs go here.
AddDataValueAssertionCommand(Rule, String, URI, String, String) - Constructor for class net.sourceforge.fluxion.runcible.io.command.impl.AddDataValueAssertionCommand
 
AddDataValueNodeCommand - Class in net.sourceforge.fluxion.runcible.graph.command
Javadocs go here.
AddDataValueNodeCommand(OWLGraph, OWLMappingNode, OWLDataProperty, String) - Constructor for class net.sourceforge.fluxion.runcible.graph.command.AddDataValueNodeCommand
 
addEdgeView(EdgeView) - Method in interface net.sourceforge.fluxion.graph.view.GraphView
 
addEdgeView(EdgeView) - Method in class net.sourceforge.fluxion.runcible.graph.view.DotGraphView
 
addEdgeView(EdgeView) - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexGraphView
 
addFact(Fact) - Method in class net.sourceforge.fluxion.runcible.impl.StandardRule
 
addFact(Document, Element, Fact) - Static method in class net.sourceforge.fluxion.runcible.io.RuncibleRulesRenderer
 
addFact(Fact) - Method in interface net.sourceforge.fluxion.runcible.Rule
 
addForall(Document, Element, Forall) - Static method in class net.sourceforge.fluxion.runcible.io.RuncibleRulesRenderer
 
addFromClause(String) - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLQuery
Adds the "from" clause for this query
addGetter(String, String) - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanConfig
Method name should exclude the "get" part.
addGetterAndSetter(String) - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanConfig
Method name should exclude the get/set parts.
addGraphListener(GraphListener) - Method in class net.sourceforge.fluxion.graph.AbstractGraph
 
addGraphListener(GraphListener) - Method in interface net.sourceforge.fluxion.graph.Graph
Add a GraphListener to report on changes to the Graph.
addHistory(URI) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatResourceHistory
 
AddIndividualAxiomCommand - Class in net.sourceforge.fluxion.runcible.io.command.impl
Javadocs go here.
AddIndividualAxiomCommand(Rule, String, URI) - Constructor for class net.sourceforge.fluxion.runcible.io.command.impl.AddIndividualAxiomCommand
 
AddIndividualNodeCommand - Class in net.sourceforge.fluxion.runcible.graph.command
Javadocs go here.
AddIndividualNodeCommand(OWLGraph, OWLClass, String) - Constructor for class net.sourceforge.fluxion.runcible.graph.command.AddIndividualNodeCommand
 
addIndividualSelection(Document, Element, IndividualSelection) - Static method in class net.sourceforge.fluxion.runcible.io.RuncibleRulesRenderer
 
AddInPlaceCommand - Class in net.sourceforge.fluxion.runcible.io.command.impl
Javadocs go here.
AddInPlaceCommand(Rule, URI) - Constructor for class net.sourceforge.fluxion.runcible.io.command.impl.AddInPlaceCommand
 
AddInPlaceCommand(Rule, URI, String) - Constructor for class net.sourceforge.fluxion.runcible.io.command.impl.AddInPlaceCommand
 
addListener(RenderletListener) - Method in interface net.sourceforge.fluxion.pussycat.renderlets.Renderlet
 
addListener(RenderletListener) - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
addMapping(MappingNode) - Method in interface net.sourceforge.fluxion.runcible.graph.MappingNode
Add the identifier of a node that this node maps to
addMapping(MappingNode) - Method in class net.sourceforge.fluxion.runcible.graph.OWLMappingNode
 
addMavenRemoteRepository(String) - Method in class net.sourceforge.fluxion.spi.SPIManager
Add a Maven remote repository Raven can use to download artifacts from.
AddMemberNodeCommand - Class in net.sourceforge.fluxion.runcible.graph.command
Javadocs go here.
AddMemberNodeCommand(Graph, OWLClass, String) - Constructor for class net.sourceforge.fluxion.runcible.graph.command.AddMemberNodeCommand
 
AddMemberNodeCommand(Graph, OWLMappingNode, OWLClass, String) - Constructor for class net.sourceforge.fluxion.runcible.graph.command.AddMemberNodeCommand
 
addMethod(String, String) - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanConfig
 
addMethodAnnotation(String, String) - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanConfig
Add an annotation to a given method.
addNextRule(Rule) - Method in class net.sourceforge.fluxion.runcible.impl.StandardRule
 
addNextRule(Rule) - Method in interface net.sourceforge.fluxion.runcible.Rule
 
addNodeView(NodeView) - Method in interface net.sourceforge.fluxion.graph.view.GraphView
 
addNodeView(NodeView) - Method in class net.sourceforge.fluxion.runcible.graph.view.DotGraphView
 
addNodeView(NodeView) - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexGraphView
 
AddObjectValueAssertionCommand - Class in net.sourceforge.fluxion.runcible.io.command.impl
Javadocs go here.
AddObjectValueAssertionCommand(Rule, String, URI, String, String) - Constructor for class net.sourceforge.fluxion.runcible.io.command.impl.AddObjectValueAssertionCommand
 
AddObjectValueNodeCommand - Class in net.sourceforge.fluxion.runcible.graph.command
Javadocs go here.
AddObjectValueNodeCommand(OWLGraph, OWLMappingNode, OWLObjectProperty, String) - Constructor for class net.sourceforge.fluxion.runcible.graph.command.AddObjectValueNodeCommand
 
addOntology(URI) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
addOntology(URI, OWLOntology) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
addReadyRenderlet(String, String) - Method in class net.sourceforge.fluxion.pussycat.container.PussycatRenderletContainer
 
addRenderletContainerListener(RenderletContainerListener) - Method in class net.sourceforge.fluxion.pussycat.container.PussycatRenderletContainer
 
addRenderletContainerListener(RenderletContainerListener) - Method in interface net.sourceforge.fluxion.pussycat.renderlets.RenderletContainer
 
addRenderletDragBox(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.RenderletService
 
AddRestrictedNodeCommand - Class in net.sourceforge.fluxion.runcible.graph.command
Javadocs go here.
AddRestrictedNodeCommand(Graph, OWLMappingNode, OWLRestriction, String) - Constructor for class net.sourceforge.fluxion.runcible.graph.command.AddRestrictedNodeCommand
 
AddRootAtCommand - Class in net.sourceforge.fluxion.runcible.io.command.impl
Javadocs go here
AddRootAtCommand(Rule, URI) - Constructor for class net.sourceforge.fluxion.runcible.io.command.impl.AddRootAtCommand
 
addRule(Rule) - Method in class net.sourceforge.fluxion.runcible.impl.MappingImpl
 
addRule(Document, Element, Rule) - Static method in class net.sourceforge.fluxion.runcible.io.RuncibleRulesRenderer
 
addRule(Rule) - Method in interface net.sourceforge.fluxion.runcible.Mapping
Add a Rule to this Mapping
AddRuleCommand - Class in net.sourceforge.fluxion.runcible.io.command.impl
Javadocs go here.
AddRuleCommand(Mapping, Rule, String) - Constructor for class net.sourceforge.fluxion.runcible.io.command.impl.AddRuleCommand
 
addSelectClause(String) - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLQuery
Adds the "select" clause for this query
AddSelectIndividualValueCommand - Class in net.sourceforge.fluxion.runcible.io.command.impl
Javadocs go here.
AddSelectIndividualValueCommand(Rule, URI) - Constructor for class net.sourceforge.fluxion.runcible.io.command.impl.AddSelectIndividualValueCommand
 
addService(URL) - Method in class net.sourceforge.fluxion.pussycat.FluxionServiceClient
 
addSetter(String) - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanConfig
Method name should exclude the set part.
addValue(T) - Method in class net.sourceforge.fluxion.datasource.filter.impl.Or
 
AddWalkedToDataNodeCommand - Class in net.sourceforge.fluxion.runcible.graph.command
Javadocs go here.
AddWalkedToDataNodeCommand(OWLGraph, OWLMappingNode, OWLDataProperty, String) - Constructor for class net.sourceforge.fluxion.runcible.graph.command.AddWalkedToDataNodeCommand
 
AddWalkedToObjectNodeCommand - Class in net.sourceforge.fluxion.runcible.graph.command
Javadocs go here.
AddWalkedToObjectNodeCommand(OWLGraph, OWLMappingNode, OWLObjectProperty, String) - Constructor for class net.sourceforge.fluxion.runcible.graph.command.AddWalkedToObjectNodeCommand
 
addWhereClause(String) - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLQuery
Adds the "where" clause for this query
afterPropertiesSet() - Method in class net.sourceforge.fluxion.ajax.AjaxExporter
 
afterPropertiesSet() - Method in class net.sourceforge.fluxion.pussycat.spring.service.RenderletHotloaderService
 
afterPropertiesSet() - Method in class net.sourceforge.fluxion.spi.SPIManager
Initialises SPIManager once any properties managed by Spring have been set in an application context.
afterPropertiesSet() - Method in class net.sourceforge.fluxion.spring.QueryTransformingFluxionService
Use the bean initializer hook to call out to the injected query transformer to get the exposed schemata for all configured mappings
AjaxController - Class in net.sourceforge.fluxion.ajax.controller
A Spring controller that can handle ajax requests (handled by an AjaxHandler), pushing content into a JSONObject in the response.
AjaxController() - Constructor for class net.sourceforge.fluxion.ajax.controller.AjaxController
 
AjaxExporter - Class in net.sourceforge.fluxion.ajax
Exports beans designated as Ajaxified and configured in the relevant config file (/fluxion/ajax.xml).
AjaxExporter() - Constructor for class net.sourceforge.fluxion.ajax.AjaxExporter
 
AjaxHandler - Interface in net.sourceforge.fluxion.ajax.handler
Handles methods called on beans designated as Ajaxified that have been exported by an AjaxExporter.
AjaxHandlerImpl - Class in net.sourceforge.fluxion.ajax.handler.impl
AjaxHandlerImpl() - Constructor for class net.sourceforge.fluxion.ajax.handler.impl.AjaxHandlerImpl
 
Ajaxified - Annotation Type in net.sourceforge.fluxion.ajax
An annotation that designates a spring-enabled bean as a bean that can be used to populate content that can be requested via a browser ajax request.
AjaxTestBean - Class in net.sourceforge.fluxion.beans
A test version of an ajaxified bean
AjaxTestBean() - Constructor for class net.sourceforge.fluxion.beans.AjaxTestBean
 
AjaxTestBean - Class in net.sourceforge.fluxion.pussycat.spring.beans
A test version of an ajaxified bean
AjaxTestBean() - Constructor for class net.sourceforge.fluxion.pussycat.spring.beans.AjaxTestBean
 
All<T> - Class in net.sourceforge.fluxion.datasource.filter.impl
A Filter that accepts all values that are not null
All() - Constructor for class net.sourceforge.fluxion.datasource.filter.impl.All
 
analyseColumns(BeanConfig, ResultSet, String, List<String>) - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLBeanFactory
 
analyseKeys(BeanConfig, DatabaseMetaData, String, String, boolean) - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLBeanFactory
 
analyseTable(BeanConfig, DatabaseMetaData, String, String, boolean) - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLBeanFactory
 
And<T extends java.util.Set<?>> - Class in net.sourceforge.fluxion.datasource.filter.impl
Javadocs go here.
And() - Constructor for class net.sourceforge.fluxion.datasource.filter.impl.And
 
appendErrorMessage(String) - Method in class net.sourceforge.fluxion.ajax.beans.util.ProcessListener
 
appendErrorMessageLine(String) - Method in class net.sourceforge.fluxion.ajax.beans.util.ProcessListener
 
appendProgressMessage(String) - Method in class net.sourceforge.fluxion.ajax.beans.util.ProcessListener
 
appendProgressMessageLine(String) - Method in class net.sourceforge.fluxion.ajax.beans.util.ProcessListener
 
autodetectAjaxEnabledBeans() - Method in class net.sourceforge.fluxion.ajax.AjaxExporter
 
AvailablePublishersListRenderlet - Class in net.sourceforge.fluxion.pussycat.renderlets.impl
 
AvailablePublishersListRenderlet() - Constructor for class net.sourceforge.fluxion.pussycat.renderlets.impl.AvailablePublishersListRenderlet
 
AvailablePublishersListRenderletProvider - Class in net.sourceforge.fluxion.pussycat.renderlets.impl
Makes MyRenderlet discoverable by SPI.
AvailablePublishersListRenderletProvider() - Constructor for class net.sourceforge.fluxion.pussycat.renderlets.impl.AvailablePublishersListRenderletProvider
 

B

BadMavenArtifactException - Exception in net.sourceforge.fluxion.spi.exception
An exception that is thrown whenever a Maven artifact is expected but it is not possible to determine if a real Maven artifact has been encountered.
BadMavenArtifactException() - Constructor for exception net.sourceforge.fluxion.spi.exception.BadMavenArtifactException
 
BadMavenArtifactException(String) - Constructor for exception net.sourceforge.fluxion.spi.exception.BadMavenArtifactException
 
BadMavenArtifactException(String, Throwable) - Constructor for exception net.sourceforge.fluxion.spi.exception.BadMavenArtifactException
 
BadMavenArtifactException(Throwable) - Constructor for exception net.sourceforge.fluxion.spi.exception.BadMavenArtifactException
 
basePussycatDir - Variable in class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.SessionManagementService
 
Bean - Annotation Type in net.sourceforge.fluxion.annotations
A bean annotation.
BeanConfig - Class in net.sourceforge.fluxion.datapublisher.beangen
A convenience class to make autogeneration of the database bean model easier.
BeanConfig() - Constructor for class net.sourceforge.fluxion.datapublisher.beangen.BeanConfig
 
beanConfigs - Variable in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLBeanFactory
 
BeanConverter - Class in net.sourceforge.fluxion.datasource.utils
This class converts submitted beanInstances into OWLIndividuals, and adds them to an ontology.
BeanConverter(ReasonerSession, OWLOntology, OWLOntology, OWLDescription, Filter) - Constructor for class net.sourceforge.fluxion.datasource.utils.BeanConverter
 
BeanFactory - Interface in net.sourceforge.fluxion.datapublisher.beangen
An interface for generating a bean model of a datasource that will be exposed to the Comparagrid stack.
BeanFactoryFluxionService - Class in net.sourceforge.fluxion.datapublisher
Javadocs go here!
BeanFactoryFluxionService() - Constructor for class net.sourceforge.fluxion.datapublisher.BeanFactoryFluxionService
 
BeanGenerationException - Exception in net.sourceforge.fluxion.datapublisher.beangen
Thrown whenever an attempt to generate a bean fails.
BeanGenerationException() - Constructor for exception net.sourceforge.fluxion.datapublisher.beangen.BeanGenerationException
 
BeanGenerationException(String) - Constructor for exception net.sourceforge.fluxion.datapublisher.beangen.BeanGenerationException
 
BeanGenerationException(String, Throwable) - Constructor for exception net.sourceforge.fluxion.datapublisher.beangen.BeanGenerationException
 
BeanGenerationException(Throwable) - Constructor for exception net.sourceforge.fluxion.datapublisher.beangen.BeanGenerationException
 
BeanIntrospector - Class in net.sourceforge.fluxion.datapublisher.owlgen
Inspect annotations on a set of Beans.
BeanIntrospector(Set<Class>) - Constructor for class net.sourceforge.fluxion.datapublisher.owlgen.BeanIntrospector
Constructor for DatabaseBeanInspector.
BeanMethod - Annotation Type in net.sourceforge.fluxion.annotations
A BeanMethod annotation.
BeanModelDataSource - Class in net.sourceforge.fluxion.datasource.impl
A DataSource that is backed by a Bean-model artifact.
BeanModelDataSource(URI, OWLOntology) - Constructor for class net.sourceforge.fluxion.datasource.impl.BeanModelDataSource
 
BeanModelDataSourceFactory - Class in net.sourceforge.fluxion.datasource.impl
Factory for constructing new Datasources given a url to a jar file that represents the datasource.
BeanModelDataSourceFactory() - Constructor for class net.sourceforge.fluxion.datasource.impl.BeanModelDataSourceFactory
Default constructor for the factory that produces bean modelling datasources.
BeanModelDataSourceFactory(ClassLoader) - Constructor for class net.sourceforge.fluxion.datasource.impl.BeanModelDataSourceFactory
Constructor for the factory that produces bean modelling datasources.
BeanUtils - Class in net.sourceforge.fluxion.datasource.utils
A utility class, containing methods for manipulating owl in tems of the underlying javabean model.
BeanUtils() - Constructor for class net.sourceforge.fluxion.datasource.utils.BeanUtils
 
BeanWriter - Class in net.sourceforge.fluxion.datapublisher.beangen
A dedicated writer class that is used to generate JavaBeans from a set of BeanConfig objects.
BeanWriter(File, String) - Constructor for class net.sourceforge.fluxion.datapublisher.beangen.BeanWriter
 
BiomartBeanFactory - Class in net.sourceforge.fluxion.datapublisher.biomart.impl
An implementation of BeanFactory that generates beans from a Biomart datasource.
BiomartBeanFactory() - Constructor for class net.sourceforge.fluxion.datapublisher.biomart.impl.BiomartBeanFactory
 
BiomartQuery<T> - Class in net.sourceforge.fluxion.datapublisher.biomart.impl
Javadocs go here.
BiomartQuery() - Constructor for class net.sourceforge.fluxion.datapublisher.biomart.impl.BiomartQuery
 
BiomartQueryFactory - Class in net.sourceforge.fluxion.datapublisher.biomart.impl
Javadocs go here.
BiomartQueryFactory() - Constructor for class net.sourceforge.fluxion.datapublisher.biomart.impl.BiomartQueryFactory
 
BLUES - Static variable in class net.sourceforge.fluxion.graph.ColorSchemes
 
BROWNS - Static variable in class net.sourceforge.fluxion.graph.ColorSchemes
 
browseLabelLinker(Reasoner, OWLOntology) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatLinkerFactory
 
browseLinker(Reasoner, OWLOntology) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatLinkerFactory
 
build() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.DirectClassHierarchyEntity
 
build() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.IndirectClassHierarchyEntity
 
build() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatClassHierarchyEntity
 
build() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatEntityListEntity
 
build() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatLayoutListEntity
 
build() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatMarkerEntity
 
build() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatOntologySummaryEntity
 
build() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatRenderletListEntity
 
build() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatResourceViewEntity
 
build() - Method in interface net.sourceforge.fluxion.pussycat.entity.RenderableInPussycat
 
build() - Method in class net.sourceforge.fluxion.pussycat.svg.ConceptGlyph
 
build() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
build() - Method in class net.sourceforge.fluxion.pussycat.svg.PussycatMappingHitEntity
 
build() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
build() - Method in class net.sourceforge.fluxion.pussycat.svg.VertSVGMap
 
buildCollapsedMap() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
buildCollapsedMap() - Method in interface net.sourceforge.fluxion.pussycat.svg.PussycatMap
 
buildCollapsedMap() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
buildDataProviderNode(String) - Static method in class net.sourceforge.fluxion.beans.utils.ResourceUtils
 
buildElementList(Element) - Static method in class net.sourceforge.fluxion.runcible.graph.view.utils.SVGElementUtils
 
buildExpandedMap() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
buildExpandedMap() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelRegionMap
 
buildExpandedMap() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelWholeMap
 
buildExpandedMap() - Method in interface net.sourceforge.fluxion.pussycat.svg.PussycatMap
 
buildExpandedMap() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
buildIntersectionDescription(OWLOntology, Set<OWLDescription>) - Static method in class net.sourceforge.fluxion.pussycat.PussycatQueryBuilder
 
buildMapBiggerButton() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
buildMapBiggerButton() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
buildMapMenuButton() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
buildMapMenuButton() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
buildMapMoveButton() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
buildMapMoveButton() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
buildMapSmallerButton() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
buildMapSmallerButton() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
buildMapString() - Method in class net.sourceforge.fluxion.pussycat.svg.CircularLinkMap
 
buildMapXML() - Method in class net.sourceforge.fluxion.pussycat.svg.CircularLinkMap
 
buildNavigationArrows(double, double) - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
buildNavigationArrows(double, double) - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
buildQueryDescription(OWLOntology, Map<URI, String>) - Static method in class net.sourceforge.fluxion.pussycat.PussycatQueryBuilder
 
buildRestrictionDescription(OWLOntology, OWLObjectProperty, OWLIndividual) - Static method in class net.sourceforge.fluxion.pussycat.PussycatQueryBuilder
 
buildRestrictionDescription(OWLOntology, OWLObjectProperty, OWLDescription) - Static method in class net.sourceforge.fluxion.pussycat.PussycatQueryBuilder
 
buildRestrictionDescription(OWLOntology, OWLDataProperty, OWLConstant) - Static method in class net.sourceforge.fluxion.pussycat.PussycatQueryBuilder
 
buildScriptIncludes() - Static method in class net.sourceforge.fluxion.pussycat.svg.SVGUtils
 
buildSvgHeader(String, String, int, int) - Static method in class net.sourceforge.fluxion.pussycat.svg.SVGUtils
 
buildVisibleMarkers(double, double, boolean) - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
buildVisibleMarkers(double, double, boolean) - Method in interface net.sourceforge.fluxion.pussycat.svg.PussycatMap
 
buildVisibleMarkers(double, double, boolean) - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
buildZoomBox(double, double) - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
buildZoomBox(double, double) - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 

C

calculateGraph() - Method in class net.sourceforge.fluxion.runcible.graph.factory.OntologyGraphFactory
 
calculateOWLRangeType(OWLOntology, OWLObject, OWLProperty) - Static method in class net.sourceforge.fluxion.runcible.graph.utils.OWLTypingUtils
 
calculateOWLRangeType(OWLOntology, OWLObject, OWLObjectProperty) - Static method in class net.sourceforge.fluxion.runcible.graph.utils.OWLTypingUtils
 
calculateOWLRangeType(OWLOntology, OWLObject, OWLDataProperty) - Static method in class net.sourceforge.fluxion.runcible.graph.utils.OWLTypingUtils
 
calculateSubgraph(OntologyGraphFactory.Type, OWLClass) - Method in class net.sourceforge.fluxion.runcible.graph.factory.OntologyGraphFactory
Calculates a portion of the graph, using the currently specified OWLClass as a root node.
CannedQueries - Class in net.sourceforge.fluxion.pussycat.util
 
cascadeChanges() - Method in class net.sourceforge.fluxion.graph.AbstractGraph
 
cascadeChanges() - Method in interface net.sourceforge.fluxion.graph.Graph
Cascades any changes made to this graph down to the underlying object model.
ChangeCommand - Interface in net.sourceforge.fluxion.runcible.io.command
A ChangeCommand which can be used to alter a datastructure.
ChangeInvoker - Interface in net.sourceforge.fluxion.runcible.io.command
Invokes ChangeCommands, causing an alteration as described by the ChangeCommand.
ChangeNodeOWLObjectType - Class in net.sourceforge.fluxion.runcible.graph.command
Javadocs go here.
ChangeNodeOWLObjectType(OWLMappingNode, OWLObject) - Constructor for class net.sourceforge.fluxion.runcible.graph.command.ChangeNodeOWLObjectType
 
chartDataClause(DataClause) - Method in class net.sourceforge.fluxion.runcible.graph.factory.SourceOWLGraphFactory
 
chartFact(Fact) - Method in class net.sourceforge.fluxion.runcible.graph.factory.TargetOWLGraphFactory
 
chartFact(ClassAssertion) - Method in class net.sourceforge.fluxion.runcible.graph.factory.TargetOWLGraphFactory
 
chartFact(ObjectValueAssertion) - Method in class net.sourceforge.fluxion.runcible.graph.factory.TargetOWLGraphFactory
 
chartFact(DataValueAssertion) - Method in class net.sourceforge.fluxion.runcible.graph.factory.TargetOWLGraphFactory
 
chartFact(DataConstantAssertion) - Method in class net.sourceforge.fluxion.runcible.graph.factory.TargetOWLGraphFactory
 
chartIndividualSelection(IndividualSelection) - Method in class net.sourceforge.fluxion.runcible.graph.factory.SourceOWLGraphFactory
 
chartIndividualSelection(SelectIndividualValue) - Method in class net.sourceforge.fluxion.runcible.graph.factory.SourceOWLGraphFactory
 
chartIndividualSelection(InPlace) - Method in class net.sourceforge.fluxion.runcible.graph.factory.SourceOWLGraphFactory
 
chartIndividualSelection(RootAt) - Method in class net.sourceforge.fluxion.runcible.graph.factory.SourceOWLGraphFactory
 
checkInvokersAndFactories(HttpSession) - Static method in class net.sourceforge.fluxion.beans.utils.ResourceUtils
 
checkQueryIntegrity(OWLOntology, OWLDescription) - Static method in class net.sourceforge.fluxion.datasource.utils.QueryUtils
This method checks the integrity of a query against the supplied ontology.
checkReasonerStatus(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.SessionManagementService
 
checkSourceManchesterSyntaxDescription(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.OWLUtilsBean
 
checkSourceProperty(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.OWLUtilsBean
 
checkTargetProperty(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.OWLUtilsBean
 
checkUploadStatus(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.ajax.beans.FileUploadProgressBean
 
CHROMOSOMAL_SEQUENCE_MAP - Static variable in class net.sourceforge.fluxion.pussycat.util.PussycatOWLConstants
 
CircularLinkMap - Class in net.sourceforge.fluxion.pussycat.svg
The CircularLinkMap class Defines a circular representation of a group of maps If there are any relationships between maps, a line is drawn between them
CircularLinkMap(OWLOntology, Hashtable<String, String>) - Constructor for class net.sourceforge.fluxion.pussycat.svg.CircularLinkMap
 
ClassAssertion - Class in net.sourceforge.fluxion.runcible.impl
Javadocs go here.
ClassAssertion() - Constructor for class net.sourceforge.fluxion.runcible.impl.ClassAssertion
 
classify(OWLOntology) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
clear() - Method in interface net.sourceforge.fluxion.runcible.io.command.ChangeInvoker
 
clear() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.DefaultChangeInvoker
 
clearAdditionalDataSources() - Method in class net.sourceforge.fluxion.datasource.impl.BeanModelDataSourceFactory
Clears the set of urls from which additional datasources are loaded
clearWarnings() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
close() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
closeConnection() - Method in class net.sourceforge.fluxion.datapublisher.mysql.impl.MySQLQuery
Close a SQL database connection to a MySQL database.
closeConnection() - Method in class net.sourceforge.fluxion.datapublisher.odbc.impl.ODBCQuery
Close the connection to a oracle database
closeConnection() - Method in class net.sourceforge.fluxion.datapublisher.postgresql.impl.PostgresqlQuery
Close the connection to a postgres database
closeConnection() - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLQuery
Close the connection to the datasource.
closeConnections() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnectionPool
 
closeFileStream() - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanWriter
 
closeSVG() - Static method in class net.sourceforge.fluxion.pussycat.svg.SVGUtils
 
closeTransaction(Transaction) - Static method in class net.sourceforge.fluxion.runcible.io.command.Transaction
 
ColorScheme - Interface in net.sourceforge.fluxion.graph
An interface defining the required elements to describe a colour scheme for the Runcible GUI.
ColorSchemes - Class in net.sourceforge.fluxion.graph
Some standard colour schemes for use in the Runcible GUI.
ColorSchemes() - Constructor for class net.sourceforge.fluxion.graph.ColorSchemes
 
commands - Variable in class net.sourceforge.fluxion.runcible.io.command.impl.DefaultChangeInvoker
 
commit() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
commitArtifactToLocalRepo(String, String, String, File) - Static method in class net.sourceforge.fluxion.spi.utils.MavenUtils
 
completedWithoutErrors() - Method in class net.sourceforge.fluxion.spring.xml.DOMOWLinator
 
completedWithoutErrors() - Method in class net.sourceforge.fluxion.spring.xml.OWLDOMinator
 
CompositeCommand - Class in net.sourceforge.fluxion.runcible.io.command.impl
Javadocs go here.
CompositeCommand() - Constructor for class net.sourceforge.fluxion.runcible.io.command.impl.CompositeCommand
 
ConceptGlyph - Class in net.sourceforge.fluxion.pussycat.svg
The ConceptGlyph class Defines a ontology concept glyph
ConceptGlyph(Reasoner, OWLOntology, OWLNamedObject) - Constructor for class net.sourceforge.fluxion.pussycat.svg.ConceptGlyph
 
connection - Variable in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLBeanFactory
 
connection - Variable in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLQuery
 
connectionDetails - Variable in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLBeanFactory
 
constructSession(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.SessionManagementService
 
contains(Node) - Method in class net.sourceforge.fluxion.graph.AbstractGraph
 
contains(Edge) - Method in class net.sourceforge.fluxion.graph.AbstractGraph
 
contains(Node) - Method in interface net.sourceforge.fluxion.graph.Graph
Returns true if this graph contains the given Node, or false otherwise
contains(Edge) - Method in interface net.sourceforge.fluxion.graph.Graph
Returns true if this graph contains the given edge, or false otherwise
contextDestroyed(ServletContextEvent) - Method in class net.sourceforge.fluxion.pussycat.spring.PussycatAppListener
 
contextInitialized(ServletContextEvent) - Method in class net.sourceforge.fluxion.pussycat.spring.PussycatAppListener
 
ContextType - Enum in net.sourceforge.fluxion.pussycat.renderlets
 
convertToOWLIndividual(Object) - Method in class net.sourceforge.fluxion.datasource.utils.BeanConverter
Converts a concrete bean instance into its owl equivalent.
createArrayOf(String, Object[]) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
createBlob() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
createClob() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
createConverterForFilter(ReasonerSession, OWLOntology, OWLOntology, OWLDescription, Filter) - Static method in class net.sourceforge.fluxion.datasource.utils.QueryUtils
 
createDatabaseOWL(URI, File) - Method in class net.sourceforge.fluxion.datapublisher.owlgen.BeanIntrospector
Create an owl file describing the concepts described by every bean in the set of beans describing a database.
createDatasourceManager(String, String, String, String) - Static method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnectionManager
 
createDataSources() - Method in class net.sourceforge.fluxion.datasource.impl.BeanModelDataSourceFactory
Creates all datasources found either in the current classloader or at any of the additional locations specified by BeanModelDataSourceFactory.getAdditionalDataSources().
createFilters(ReasonerSession, OWLOntology, OWLDescription) - Static method in class net.sourceforge.fluxion.datasource.utils.QueryUtils
Convert an OWLClass into a Set of filters.
createManager() - Static method in class net.sourceforge.fluxion.utils.ReasonerSessionManager
 
createMapping(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.MappingManagerUtilsBean
 
createMapping() - Method in class net.sourceforge.fluxion.runcible.graph.mapping.MappingManager
Create a new, empty mapping ready to be developed.
createMapping(OWLOntology, OWLOntology) - Method in class net.sourceforge.fluxion.runcible.graph.mapping.MappingManager
 
createMapping(OWLOntology, OWLOntology, boolean) - Method in class net.sourceforge.fluxion.runcible.graph.mapping.MappingManager
Create a new mapping, with an option to specify whether the source and target graphs get generated upfront.
createNClob() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
createOWLOntologyManager() - Static method in class net.sourceforge.fluxion.spring.xml.FluxionOWLManager
Creates an OWL ontology manager that is configured with standard parsers, storeres etc.
createOWLOntologyManager(OWLDataFactory) - Static method in class net.sourceforge.fluxion.spring.xml.FluxionOWLManager
Creates an OWL ontology manager that is configured with standard parsers, stores etc.
createQuery(Class, Filter) - Static method in class net.sourceforge.fluxion.datasource.utils.QueryUtils
Creates a new Query using the given QueryManager class and the Filter supplied.
createSourceGraph() - Method in class net.sourceforge.fluxion.runcible.graph.mapping.MappingManager
 
createSQLXML() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
createStatement() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
createStatement(int, int) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
createStatement(int, int, int) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
createStruct(String, Object[]) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
createTargetGraph() - Method in class net.sourceforge.fluxion.runcible.graph.mapping.MappingManager
 

D

DataClause - Interface in net.sourceforge.fluxion.runcible
Javadocs go here.
DataClauseImpl - Class in net.sourceforge.fluxion.runcible.impl
Javadocs go here.
DataClauseImpl() - Constructor for class net.sourceforge.fluxion.runcible.impl.DataClauseImpl
 
DataConstantAssertion - Class in net.sourceforge.fluxion.runcible.impl
Created by IntelliJ IDEA.
DataConstantAssertion() - Constructor for class net.sourceforge.fluxion.runcible.impl.DataConstantAssertion
 
DataConstantNode - Class in net.sourceforge.fluxion.runcible.graph
A type of node that represents owl data values.
DataConstantNode() - Constructor for class net.sourceforge.fluxion.runcible.graph.DataConstantNode
 
DataFact - Interface in net.sourceforge.fluxion.runcible
Javadocs go here.
DataPropertyAnn - Annotation Type in net.sourceforge.fluxion.annotations
An annotation indicating that a method on a bean should be used to create a datatype property.
DataRange - Interface in net.sourceforge.fluxion.runcible.impl
Javadocs go here.
DataSelection - Interface in net.sourceforge.fluxion.runcible
Javadocs go here.
DataSource - Interface in net.sourceforge.fluxion.api
A particular data source that exposes data through OWL.
DatasourceConnection - Class in net.sourceforge.fluxion.datapublisher.sql.connection
Javadocs go here.
DatasourceConnection(Connection, DatasourceConnectionPool) - Constructor for class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
DatasourceConnectionManager - Class in net.sourceforge.fluxion.datapublisher.sql.connection
Javadocs go here.
DatasourceConnectionPool - Class in net.sourceforge.fluxion.datapublisher.sql.connection
Javadocs go here.
DatasourceConnectionPool(String, String, String) - Constructor for class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnectionPool
 
DataSourceException - Exception in net.sourceforge.fluxion.api
Thrown by the data source and fluxion service interfaces when an error occurs during access to the data source.
DataSourceException(String) - Constructor for exception net.sourceforge.fluxion.api.DataSourceException
 
DataSourceException(String, Throwable) - Constructor for exception net.sourceforge.fluxion.api.DataSourceException
 
DataSourceException(Throwable) - Constructor for exception net.sourceforge.fluxion.api.DataSourceException
 
DataSourceException(URI) - Constructor for exception net.sourceforge.fluxion.api.DataSourceException
 
DataSourceException(URI, String) - Constructor for exception net.sourceforge.fluxion.api.DataSourceException
 
DataSourceException(URI, Throwable) - Constructor for exception net.sourceforge.fluxion.api.DataSourceException
 
DataSourceException(URI, String, Throwable) - Constructor for exception net.sourceforge.fluxion.api.DataSourceException
 
DatatypeAnn - Annotation Type in net.sourceforge.fluxion.annotations
An annotation on a bean class, indicating it should be used to create a datatype property
DataValueAssertion - Class in net.sourceforge.fluxion.runcible.impl
Javadocs go here.
DataValueAssertion() - Constructor for class net.sourceforge.fluxion.runcible.impl.DataValueAssertion
 
DataValueNode - Class in net.sourceforge.fluxion.runcible.graph
A type of node that represents owl data values.
DataValueNode() - Constructor for class net.sourceforge.fluxion.runcible.graph.DataValueNode
 
dbms(String) - Method in interface net.sourceforge.fluxion.datapublisher.beangen.BeanFactory
Determines whether a BeanFactory implementation can generate beans for the given dbms.
dbms(String) - Method in class net.sourceforge.fluxion.datapublisher.biomart.impl.BiomartBeanFactory
 
dbms(String) - Method in class net.sourceforge.fluxion.datapublisher.mysql.impl.MySQLBeanFactory
 
dbms(String) - Method in class net.sourceforge.fluxion.datapublisher.odbc.impl.ODBCBeanFactory
 
dbms(String) - Method in class net.sourceforge.fluxion.datapublisher.postgresql.impl.PostgresqlBeanFactory
 
DBMSBindings - Enum in net.sourceforge.fluxion.maven.plugins
Javadocs go here
dbUri - Variable in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLQuery
 
deconstruct(OWLDescription) - Static method in class net.sourceforge.fluxion.utils.OWLUtils
If the OWLDescription is an OWLObjectUnionOf, it is broken down into the set of OWLDescriptions that make up the union.
DefaultChangeInvoker - Class in net.sourceforge.fluxion.runcible.io.command.impl
Javadocs go here.
DefaultChangeInvoker() - Constructor for class net.sourceforge.fluxion.runcible.io.command.impl.DefaultChangeInvoker
 
DefaultClassHierarchyRenderlet - Class in net.sourceforge.fluxion.pussycat.renderlets.impl
 
DefaultClassHierarchyRenderlet() - Constructor for class net.sourceforge.fluxion.pussycat.renderlets.impl.DefaultClassHierarchyRenderlet
 
DefaultClassHierarchyRenderletProvider - Class in net.sourceforge.fluxion.pussycat.renderlets.impl
Created by IntelliJ IDEA.
DefaultClassHierarchyRenderletProvider() - Constructor for class net.sourceforge.fluxion.pussycat.renderlets.impl.DefaultClassHierarchyRenderletProvider
 
DefaultGraph - Class in net.sourceforge.fluxion.runcible.graph
The standard implementation of Graph.
DefaultGraph() - Constructor for class net.sourceforge.fluxion.runcible.graph.DefaultGraph
 
DelegatingFluxionService - Class in net.sourceforge.fluxion.spring
Implementation of FluxionService which simply delegates to a list of DataSource implementations
DelegatingFluxionService() - Constructor for class net.sourceforge.fluxion.spring.DelegatingFluxionService
 
deregisterMappingListener(MappingListener) - Method in class net.sourceforge.fluxion.runcible.impl.MappingImpl
 
deregisterMappingListener(MappingListener) - Method in interface net.sourceforge.fluxion.runcible.Mapping
Removes a MappingListener from this Mapping.
destroy() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.DirectClassHierarchyEntity
 
destroy() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.IndirectClassHierarchyEntity
 
destroy() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatClassHierarchyEntity
 
destroy() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatEntityListEntity
 
destroy() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatLayoutListEntity
 
destroy() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatMarkerEntity
 
destroy() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatOntologySummaryEntity
 
destroy() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatRenderletListEntity
 
destroy() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatResourceViewEntity
 
destroy() - Method in interface net.sourceforge.fluxion.pussycat.entity.RenderableInPussycat
 
destroy() - Method in class net.sourceforge.fluxion.pussycat.FluxionServiceClient
 
destroy() - Method in class net.sourceforge.fluxion.pussycat.svg.ConceptGlyph
 
destroy() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
destroy() - Method in class net.sourceforge.fluxion.pussycat.svg.PussycatMappingHitEntity
 
destroy() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
destroy() - Method in class net.sourceforge.fluxion.pussycat.svg.VertSVGMap
 
destroy() - Method in class net.sourceforge.fluxion.pussycat.util.AbstractPussycatSearcher
 
destroy() - Method in class net.sourceforge.fluxion.utils.ReasonerSessionManager
Attempts to reclaim all resources this ReasonerSessionManager is currently using, removes all ontologies and reasoners from memory, and shuts down any threads being used to harvest stale results.
detachElement() - Method in class net.sourceforge.fluxion.spring.xml.FluxionOWLXMLWriter
 
determineArguments(HttpServletRequest) - Method in class net.sourceforge.fluxion.ajax.handler.impl.AjaxHandlerImpl
 
DirectClassHierarchyEntity - Class in net.sourceforge.fluxion.pussycat.entity.impl
The PussycatClassHierarchyEntity class Defines a class hierarchy html widget that can be drawn by Pussycat
DirectClassHierarchyEntity(Reasoner, OWLOntology, OWLClass) - Constructor for class net.sourceforge.fluxion.pussycat.entity.impl.DirectClassHierarchyEntity
Construct a class hierarchy using the supplied class as the active element.
DirectClassHierarchyRenderlet - Class in net.sourceforge.fluxion.pussycat.renderlets.impl
 
DirectClassHierarchyRenderlet() - Constructor for class net.sourceforge.fluxion.pussycat.renderlets.impl.DirectClassHierarchyRenderlet
 
DirectClassHierarchyRenderletProvider - Class in net.sourceforge.fluxion.pussycat.renderlets.impl
Created by IntelliJ IDEA.
DirectClassHierarchyRenderletProvider() - Constructor for class net.sourceforge.fluxion.pussycat.renderlets.impl.DirectClassHierarchyRenderletProvider
 
discoverCoreRenderletProviders(Class<?>, RenderletType) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatRenderletManager
 
discoverCoreRenderletProviders(Class<?>, RenderletType) - Method in interface net.sourceforge.fluxion.pussycat.renderlets.RenderletManager
 
discoverUserRenderletProviders(Class<?>, RenderletType) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatRenderletManager
 
discoverUserRenderletProviders(Class<?>, RenderletType) - Method in interface net.sourceforge.fluxion.pussycat.renderlets.RenderletManager
 
DisplayType - Enum in net.sourceforge.fluxion.pussycat.renderlets
 
doCaching(Reasoner) - Method in class net.sourceforge.fluxion.pussycat.util.cache.OWLEntityCache
 
dock() - Method in class net.sourceforge.fluxion.pussycat.entity.AbstractDockable
 
dock() - Method in interface net.sourceforge.fluxion.pussycat.entity.DockableInPussycat
 
DockableInPussycat<T extends RenderableInPussycat> - Interface in net.sourceforge.fluxion.pussycat.entity
The DockableInPussycat interface Defines an entity that can be rendered by Pussycat textually or graphically that is dockable If you are rendering an OWLEntity, then use the RenderableOWLEntity interface.
DOMOWLinator - Class in net.sourceforge.fluxion.spring.xml
Created by IntelliJ IDEA.
DOMOWLinator(PipedOutputStream) - Constructor for class net.sourceforge.fluxion.spring.xml.DOMOWLinator
 
donotUseTableFiltering() - Method in interface net.sourceforge.fluxion.datapublisher.beangen.BeanFactory
Use this if a single factory is used to generate multiple sets of beans, and you want to stop tables from being filtered.
donotUseTableFiltering() - Method in class net.sourceforge.fluxion.datapublisher.biomart.impl.BiomartBeanFactory
 
donotUseTableFiltering() - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLBeanFactory
 
DotEdgeView - Class in net.sourceforge.fluxion.runcible.graph.view
Created by IntelliJ IDEA.
DotEdgeView() - Constructor for class net.sourceforge.fluxion.runcible.graph.view.DotEdgeView
 
DotEdgeViewFactory - Class in net.sourceforge.fluxion.runcible.graph.view.factory
A type of EdgeViewFactory that produces a dot-format view over edges.
DotEdgeViewFactory() - Constructor for class net.sourceforge.fluxion.runcible.graph.view.factory.DotEdgeViewFactory
Default constructor
DotGraphView - Class in net.sourceforge.fluxion.runcible.graph.view
Javadocs go here.
DotGraphView() - Constructor for class net.sourceforge.fluxion.runcible.graph.view.DotGraphView
 
DotGraphViewFactory - Class in net.sourceforge.fluxion.runcible.graph.view.factory
A type of GraphViewFactory that generates Graphs in a format suitable for use in dot.
DotGraphViewFactory() - Constructor for class net.sourceforge.fluxion.runcible.graph.view.factory.DotGraphViewFactory
 
DotGraphViewRenderer - Class in net.sourceforge.fluxion.runcible.graph.view.renderer
A GraphViewRenderer that renders the output of a DotGraphView.
DotGraphViewRenderer() - Constructor for class net.sourceforge.fluxion.runcible.graph.view.renderer.DotGraphViewRenderer
 
dotLocation() - Method in enum net.sourceforge.fluxion.graph.view.renderer.AbstractGraphViewRenderer.Operating_System
 
dotLocation() - Method in enum net.sourceforge.fluxion.pussycat.util.PussycatUtils.Operating_System
 
DotNodeView - Class in net.sourceforge.fluxion.runcible.graph.view
Created by IntelliJ IDEA.
DotNodeView() - Constructor for class net.sourceforge.fluxion.runcible.graph.view.DotNodeView
 
DotNodeViewFactory - Class in net.sourceforge.fluxion.runcible.graph.view.factory
A type of NodeViewFactory that generates dot-format views over nodes in the graph.
DotNodeViewFactory() - Constructor for class net.sourceforge.fluxion.runcible.graph.view.factory.DotNodeViewFactory
Default constructor
drawElementsOnArc(String[], int, int, int, int, int, int, boolean) - Static method in class net.sourceforge.fluxion.pussycat.svg.SVGUtils
 
DuplicateSubtreeCommand - Class in net.sourceforge.fluxion.runcible.graph.command
This command will replicate a subtree in the source version of an OWL Mapping graph.
DuplicateSubtreeCommand(Graph, Node, Node, String) - Constructor for class net.sourceforge.fluxion.runcible.graph.command.DuplicateSubtreeCommand
 

E

Edge - Interface in net.sourceforge.fluxion.graph
An Edge is a structure linking two Nodes in a graph.
EDGE_ADDED - Static variable in class net.sourceforge.fluxion.graph.listener.GraphChangeEvent
 
EDGE_REMOVED - Static variable in class net.sourceforge.fluxion.graph.listener.GraphChangeEvent
 
edgeAdded(GraphChangeEvent) - Method in interface net.sourceforge.fluxion.graph.listener.GraphListener
 
edgeRemoved(GraphChangeEvent) - Method in interface net.sourceforge.fluxion.graph.listener.GraphListener
 
EdgeView - Interface in net.sourceforge.fluxion.graph.view
Javadocs go here.
EdgeViewFactory - Interface in net.sourceforge.fluxion.graph.view.factory
This interface contains a single method to be implemented which is a convenience method for generating an EdgeView.
EdgeVisitor - Interface in net.sourceforge.fluxion.graph.visitor
An visitor for visiting Edges in accordance with the visitor pattern.
endDocument() - Method in class net.sourceforge.fluxion.spring.xml.FluxionOWLXMLWriter
 
endScript(StringBuffer) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatJavascriptUtils
 
EntityAnn - Annotation Type in net.sourceforge.fluxion.annotations
An annotation on a bean class, indicating it should be used to create an OWLClass
entityCache - Variable in class net.sourceforge.fluxion.pussycat.util.AbstractPussycatSearcher
 
escapify(String) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatUtils
 
eval() - Method in enum net.sourceforge.fluxion.pussycat.renderlets.RenderletPackage
 
evaluate(OWLReasoner) - Static method in class net.sourceforge.fluxion.runcible.graph.utils.OWLRestrictionEvaluator
Evaluates the possible set of existential relationships that can be applied to every defined class that has been classified by the reasoner.
ExactValue<T> - Class in net.sourceforge.fluxion.datasource.filter.impl
A Filter that accepts only exact matching values.
ExactValue(T) - Constructor for class net.sourceforge.fluxion.datasource.filter.impl.ExactValue
 
execute() - Method in class net.sourceforge.fluxion.datapublisher.biomart.impl.BiomartQuery
 
execute() - Method in class net.sourceforge.fluxion.datapublisher.plugins.beangen.GenerateBeansMojo
 
execute() - Method in class net.sourceforge.fluxion.datapublisher.plugins.owlgen.GenerateOwlMojo
 
execute() - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLQuery
 
execute() - Method in interface net.sourceforge.fluxion.datasource.query.Query
Execute this query.
execute() - Method in class net.sourceforge.fluxion.maven.plugins.GenerateDatasourceMojo
 
execute() - Method in class net.sourceforge.fluxion.maven.plugins.HelpMojo
execute() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddDataConstantNodeCommand
 
execute() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddDataValueNodeCommand
 
execute() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddIndividualNodeCommand
 
execute() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddMemberNodeCommand
 
execute() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddObjectValueNodeCommand
 
execute() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddRestrictedNodeCommand
 
execute() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddWalkedToDataNodeCommand
 
execute() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddWalkedToObjectNodeCommand
 
execute() - Method in class net.sourceforge.fluxion.runcible.graph.command.ChangeNodeOWLObjectType
 
execute() - Method in class net.sourceforge.fluxion.runcible.graph.command.DuplicateSubtreeCommand
 
execute() - Method in class net.sourceforge.fluxion.runcible.graph.command.MappingCreationCommand
 
execute() - Method in class net.sourceforge.fluxion.runcible.graph.command.RenameNodeCommand
 
execute() - Method in class net.sourceforge.fluxion.runcible.graph.command.RunciblePlotChangesCommand
 
execute() - Method in interface net.sourceforge.fluxion.runcible.io.command.ChangeCommand
Execute this command
execute() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddDataClauseCommand
 
execute() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddDataConstantAssertionCommand
 
execute() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddDataConstantCommand
 
execute() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddDataValueAssertionCommand
 
execute() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddIndividualAxiomCommand
 
execute() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddInPlaceCommand
 
execute() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddObjectValueAssertionCommand
 
execute() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddRootAtCommand
 
execute() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddRuleCommand
 
execute() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddSelectIndividualValueCommand
 
execute() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.CompositeCommand
 
execute() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.RuncibleUpdateCommand
 
execute() - Method in class org.comparagrid.fluxion.plugins.PublisherMojo
Build a publisher archetype using some command line params
executeChanges() - Method in interface net.sourceforge.fluxion.runcible.io.command.ChangeInvoker
 
executeChanges() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.DefaultChangeInvoker
Trigger a change to the mapping for this ChangeInvoker.
expire() - Method in class net.sourceforge.fluxion.utils.ReasonerSession
Empty the ReasonerSession of any previously loaded and classified ontologies.
expireLease() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
ExternalLink - Annotation Type in net.sourceforge.fluxion.annotations
An annotation that describes an external link captured from the datasource.
ExternalLinks - Annotation Type in net.sourceforge.fluxion.annotations
An annotation describing an array of @ExternalLinks.

F

Fact - Interface in net.sourceforge.fluxion.runcible
Javadocs go here.
factory - Static variable in class net.sourceforge.fluxion.pussycat.PussycatQueryBuilder
 
fetchArtifactIdentity(File) - Static method in class net.sourceforge.fluxion.spi.utils.MavenUtils
Inspects the jar file passed in order to extract the key Maven artifact properties.
FieldNameAnn - Annotation Type in net.sourceforge.fluxion.annotations
An annotation used to mark methods with the name of the field they model.
FileUploadController - Class in net.sourceforge.fluxion.pussycat.spring.controller
 
FileUploadController() - Constructor for class net.sourceforge.fluxion.pussycat.spring.controller.FileUploadController
 
FileUploader - Class in net.sourceforge.fluxion.ajax.beans.util
Created by IntelliJ IDEA.
FileUploader() - Constructor for class net.sourceforge.fluxion.ajax.beans.util.FileUploader
 
FileUploadListener - Class in net.sourceforge.fluxion.ajax.beans.util
This is a File Upload Listener that is used by Apache Commons File Upload to monitor the progress of the uploaded file.
FileUploadListener() - Constructor for class net.sourceforge.fluxion.ajax.beans.util.FileUploadListener
 
FileUploadListener - Class in net.sourceforge.fluxion.pussycat.util
This is a File Upload Listener that is used by Apache Commons File Upload to monitor the progress of the uploaded file.
FileUploadListener() - Constructor for class net.sourceforge.fluxion.pussycat.util.FileUploadListener
 
FileUploadProgressBean - Class in net.sourceforge.fluxion.ajax.beans
An ajaxified bean for use with the fluxion-ajax framework that provides functionality for monitoring the status of a file upload to the server.
FileUploadProgressBean() - Constructor for class net.sourceforge.fluxion.ajax.beans.FileUploadProgressBean
 
FileUploadValidator - Class in net.sourceforge.fluxion.beans.utils
Created by IntelliJ IDEA.
FileUploadValidator() - Constructor for class net.sourceforge.fluxion.beans.utils.FileUploadValidator
 
Filter<T> - Interface in net.sourceforge.fluxion.datasource.filter
A FilterAnn for generating selected queries against the BeanModel.
filter - Variable in class net.sourceforge.fluxion.pussycat.util.AbstractPussycatSearcher
 
FilterAnn - Annotation Type in net.sourceforge.fluxion.annotations
An annotation on a class, indicating that this class is a Filter.
filterTables - Variable in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLBeanFactory
 
findBeans(Set<Class>, File) - Method in class net.sourceforge.fluxion.datapublisher.plugins.owlgen.GenerateOwlMojo
Get a list of database beans.
findBoundVariable(String) - Method in class net.sourceforge.fluxion.runcible.impl.MappingImpl
 
findBoundVariable(String) - Method in interface net.sourceforge.fluxion.runcible.Mapping
Locate a rule within this Mapping with the bound data variable, using the given bound variable ID.
findRule(String) - Method in class net.sourceforge.fluxion.runcible.impl.MappingImpl
 
findRule(String) - Method in interface net.sourceforge.fluxion.runcible.Mapping
Locate a rule within this Mapping with the a "forall" statement with the given variable ID.
fixType(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.RuncibleFlexGraphCommandBean
 
FlexEdgeView - Class in net.sourceforge.fluxion.runcible.graph.view
Javadocs go here
FlexEdgeView() - Constructor for class net.sourceforge.fluxion.runcible.graph.view.FlexEdgeView
 
FlexEdgeViewFactory - Class in net.sourceforge.fluxion.runcible.graph.view.factory
Javadocs go here
FlexEdgeViewFactory() - Constructor for class net.sourceforge.fluxion.runcible.graph.view.factory.FlexEdgeViewFactory
Default constructor
FlexElementUtils - Class in net.sourceforge.fluxion.runcible.graph.view.utils
Javadocs go here!
FlexElementUtils() - Constructor for class net.sourceforge.fluxion.runcible.graph.view.utils.FlexElementUtils
 
FlexGraphView - Class in net.sourceforge.fluxion.runcible.graph.view
Javadocs go here
FlexGraphView() - Constructor for class net.sourceforge.fluxion.runcible.graph.view.FlexGraphView
 
FlexGraphViewFactory - Class in net.sourceforge.fluxion.runcible.graph.view.factory
Javadocs go here
FlexGraphViewFactory() - Constructor for class net.sourceforge.fluxion.runcible.graph.view.factory.FlexGraphViewFactory
 
FlexGraphViewRenderer - Class in net.sourceforge.fluxion.runcible.graph.view.renderer
Javadocs go here
FlexGraphViewRenderer() - Constructor for class net.sourceforge.fluxion.runcible.graph.view.renderer.FlexGraphViewRenderer
 
FlexNodeView - Class in net.sourceforge.fluxion.runcible.graph.view
Javadocs go here
FlexNodeView() - Constructor for class net.sourceforge.fluxion.runcible.graph.view.FlexNodeView
 
FlexNodeViewFactory - Class in net.sourceforge.fluxion.runcible.graph.view.factory
Javadocs go here
FlexNodeViewFactory() - Constructor for class net.sourceforge.fluxion.runcible.graph.view.factory.FlexNodeViewFactory
Default constructor
FluxionManchesterOWLSyntaxDescriptionChecker - Class in net.sourceforge.fluxion.beans.utils
Created by IntelliJ IDEA.
FluxionManchesterOWLSyntaxDescriptionChecker(OWLOntology, OWLDataFactory) - Constructor for class net.sourceforge.fluxion.beans.utils.FluxionManchesterOWLSyntaxDescriptionChecker
 
fluxionNamespace - Static variable in class net.sourceforge.fluxion.api.FluxionNamespaces
Namespace used for types in the fluxion service schema.
FluxionNamespaces - Class in net.sourceforge.fluxion.api
Namespaces used by the Fluxion and OWL2 XML schemata
FluxionNamespaces() - Constructor for class net.sourceforge.fluxion.api.FluxionNamespaces
 
FluxionOWLEntityChecker - Class in net.sourceforge.fluxion.utils.owl
 
FluxionOWLEntityChecker(OWLDataFactory) - Constructor for class net.sourceforge.fluxion.utils.owl.FluxionOWLEntityChecker
 
FluxionOWLManager - Class in net.sourceforge.fluxion.spring.xml
Replacement for OWLManager, uses the owl xml parser and renderer only rather than the entire bag of alternative formats brought in by the regular OWLManager
FluxionOWLManager() - Constructor for class net.sourceforge.fluxion.spring.xml.FluxionOWLManager
 
FluxionOWLXMLWriter - Class in net.sourceforge.fluxion.spring.xml
Extension of OWLXMLWriter which generates a JDOM Document internally rather than delegating to a writer class
FluxionOWLXMLWriter(OWLOntology) - Constructor for class net.sourceforge.fluxion.spring.xml.FluxionOWLXMLWriter
 
FluxionService - Interface in net.sourceforge.fluxion.api
A service that exposes data to the Fluxion stack.
FluxionServiceClient - Class in net.sourceforge.fluxion.pussycat
Javadocs go here.
FluxionServiceClient() - Constructor for class net.sourceforge.fluxion.pussycat.FluxionServiceClient
 
FluxionServiceClient(URL) - Constructor for class net.sourceforge.fluxion.pussycat.FluxionServiceClient
 
FluxionServiceClient(Set<URL>) - Constructor for class net.sourceforge.fluxion.pussycat.FluxionServiceClient
 
FluxionServiceClient - Class in net.sourceforge.fluxion.pussycat.spring.beans.client
Created by IntelliJ IDEA.
FluxionServiceClient() - Constructor for class net.sourceforge.fluxion.pussycat.spring.beans.client.FluxionServiceClient
 
FluxionServiceManagementService - Class in net.sourceforge.fluxion.pussycat.spring.service.ajaxified
Created by IntelliJ IDEA.
FluxionServiceManagementService() - Constructor for class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.FluxionServiceManagementService
 
Forall - Class in net.sourceforge.fluxion.runcible.impl
Describes a set of individuals.
Forall() - Constructor for class net.sourceforge.fluxion.runcible.impl.Forall
 
forOntologies() - Method in class net.sourceforge.fluxion.utils.ReasonerSession
Retrieve the set of loaded ontologies from the underlying reasoner instance
fullyCached - Variable in class net.sourceforge.fluxion.pussycat.util.cache.OWLEntityCache
 

G

generateBeans(File, String, Set<Class>, String...) - Method in interface net.sourceforge.fluxion.datapublisher.beangen.BeanFactory
Generate a set of beans to model the dbms the database this factory represents.
generateBeans(File, String, Set<Class>, String...) - Method in class net.sourceforge.fluxion.datapublisher.biomart.impl.BiomartBeanFactory
 
generateBeans(File, String, Set<Class>, String...) - Method in class net.sourceforge.fluxion.datapublisher.mysql.impl.MySQLBeanFactory
 
generateBeans(File, String, Set<Class>, String...) - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLBeanFactory
Generate javabeans from sql metadata specific to the supplied connection
GenerateBeansMojo - Class in net.sourceforge.fluxion.datapublisher.plugins.beangen
Maven plugin for creating dbms beans from a datasource connection.
GenerateBeansMojo() - Constructor for class net.sourceforge.fluxion.datapublisher.plugins.beangen.GenerateBeansMojo
 
GenerateDatasourceMojo - Class in net.sourceforge.fluxion.maven.plugins
A Maven plugin that extends CreateProjectFromArchetypeMojo allowing datasources to be generated with minimal configuration, substituting default configured parameters.
GenerateDatasourceMojo() - Constructor for class net.sourceforge.fluxion.maven.plugins.GenerateDatasourceMojo
 
generateNodeMenu(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.RuncibleNodeMenuGeneratorBean
 
GenerateOwlMojo - Class in net.sourceforge.fluxion.datapublisher.plugins.owlgen
Maven plugin mojo for creating an OWL file representing a specific database and populating a database schema meta-owl with relevant individuals for this database.
GenerateOwlMojo() - Constructor for class net.sourceforge.fluxion.datapublisher.plugins.owlgen.GenerateOwlMojo
 
generateQuery(Filter<F>) - Method in class net.sourceforge.fluxion.datapublisher.biomart.impl.BiomartQueryFactory
 
generateQuery(Filter<F>) - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLQueryFactory
 
generateQuery(Filter<F>) - Method in interface net.sourceforge.fluxion.datasource.query.QueryGenerator
Create a query that can then be used to obtain data from a database.
getActiveOntology() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
getAdditionalDataSources() - Method in class net.sourceforge.fluxion.datasource.impl.BeanModelDataSourceFactory
Returns the list of urls that is currently configured as additional datasource locations
getAjaxBeans() - Method in class net.sourceforge.fluxion.ajax.AjaxExporter
 
getAjaxExporter() - Method in class net.sourceforge.fluxion.ajax.controller.AjaxController
 
getAjaxHandler() - Method in class net.sourceforge.fluxion.ajax.controller.AjaxController
 
getAllMapsQuery(URI, OWLDataFactory) - Static method in class net.sourceforge.fluxion.pussycat.util.CannedQueries
 
getAllMarkerHomologyInfoFromMap(Reasoner) - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
getAllMarkerHomologyInfoFromMap(Reasoner) - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
getAllMarkerInfoFromMap(Reasoner) - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
getAllMarkerInfoFromMap(Reasoner) - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
getAllMarkerModelInfoFromMap(Reasoner) - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
getAllMarkerModelInfoFromMap(Reasoner) - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
getAllMarkersOfType(Reasoner, String) - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
getAllMarkersOfType(Reasoner, String) - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
getAllMethods(String) - Method in class net.sourceforge.fluxion.pussycat.util.JarClassLoader
Gets the allMethods attribute of the JarClassLoader object
getAllNodes() - Method in class net.sourceforge.fluxion.graph.AbstractGraph
 
getAllNodes() - Method in interface net.sourceforge.fluxion.graph.Graph
Returns every Node present within this graph
getAllOrganismQuery(URI, OWLDataFactory) - Static method in class net.sourceforge.fluxion.pussycat.util.CannedQueries
 
getAllRelevantClassDataProperties(Reasoner, OWLOntology, OWLClass) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getAllRelevantClassObjectProperties(Reasoner, OWLOntology, OWLClass) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getAllServiceURLs() - Method in class net.sourceforge.fluxion.pussycat.FluxionServiceClient
 
getAllSpeciesQuery(URI, OWLDataFactory) - Static method in class net.sourceforge.fluxion.pussycat.util.CannedQueries
 
getApplicationOntology() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
getAssertedClassDataProperties(OWLOntology, OWLClass) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getAssertedClassObjectProperties(OWLOntology, OWLClass) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getAssertedDatatypeProperties(OWLOntology, OWLIndividual) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getAssertedDatatypePropertyString(OWLOntology, OWLIndividual, String) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getAssertedIndividual(OWLOntology, URI) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getAssertedInstancesOf(OWLOntology, OWLDescription) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getAssertedObjectProperties(OWLOntology, OWLIndividual) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getAssertionType() - Method in class net.sourceforge.fluxion.pussycat.svg.MappingHit
 
getAssertionURI() - Method in class net.sourceforge.fluxion.pussycat.svg.MappingHit
 
getAutoCommit() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
getAvailableMapRepresentations() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
getAvailableMaps(Reasoner, OWLOntology) - Static method in class net.sourceforge.fluxion.pussycat.svg.MapUtils
 
getBadlyFormedQueryEntities(OWLOntology, OWLDescription) - Static method in class net.sourceforge.fluxion.datasource.utils.QueryUtils
Use this method to recover those entities that cause the query OWLDescription to fail and integrity check.
getBeanClassName() - Method in class net.sourceforge.fluxion.datasource.filter.impl.Join
 
getBeanInstanceUniqueId(Object) - Static method in class net.sourceforge.fluxion.datasource.utils.BeanUtils
Get the Unique Id for a given beanInstance.
getBeanMethodName() - Method in class net.sourceforge.fluxion.datasource.filter.impl.Join
 
getBounds(Element) - Static method in class net.sourceforge.fluxion.runcible.graph.view.utils.SVGElementUtils
Returns the Rectangle that make up the bounds of this SVGElement.
getBreak() - Method in enum net.sourceforge.fluxion.ajax.beans.util.LineBreak
 
getBytesRead() - Method in class net.sourceforge.fluxion.ajax.beans.util.FileUploadListener
 
getBytesRead() - Method in class net.sourceforge.fluxion.pussycat.util.FileUploadListener
 
getCachedDataSources() - Method in class net.sourceforge.fluxion.pussycat.FluxionServiceClient
 
getCachedDataSources(URL) - Method in class net.sourceforge.fluxion.pussycat.FluxionServiceClient
 
getCachedSchemas() - Method in class net.sourceforge.fluxion.pussycat.FluxionServiceClient
 
getCatalog() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
getCause() - Method in exception net.sourceforge.fluxion.runcible.graph.mapping.MappingLoadException
 
getCause() - Method in exception net.sourceforge.fluxion.runcible.graph.view.renderer.UnsupportedFormatException
 
getChangeType() - Method in class net.sourceforge.fluxion.graph.listener.GraphChangeEvent
 
getCircularLinkMap() - Method in class net.sourceforge.fluxion.pussycat.svg.VertSVGMap
 
getClass(OWLEntityCache, Reasoner, URI) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getClass(Reasoner, URI) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getClassFromFilter(Class<? extends Filter>) - Static method in class net.sourceforge.fluxion.datasource.utils.BeanUtils
 
getClassLoader() - Method in class net.sourceforge.fluxion.pussycat.util.JarPlugin
Gets the classLoader attribute of the JarPlugin object
getClassName() - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanConfig
 
getClassNodeColor() - Method in interface net.sourceforge.fluxion.graph.ColorScheme
 
getClassNodeColorAsDotString() - Method in interface net.sourceforge.fluxion.graph.ColorScheme
 
getClassNodeColorAsHTML() - Method in interface net.sourceforge.fluxion.graph.ColorScheme
 
getClause() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddDataClauseCommand
 
getClause() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddDataConstantCommand
 
getClientInfo(String) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
getClientInfo() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
getColorScheme() - Method in interface net.sourceforge.fluxion.graph.view.GraphView
 
getColorScheme() - Method in class net.sourceforge.fluxion.runcible.graph.view.DotGraphView
 
getColorScheme() - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotEdgeViewFactory
Gets the ColorScheme being used by this particular DotEdgeViewFactory.
getColorScheme() - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotGraphViewFactory
Get the ColorScheme being used for the produced Graph.
getColorScheme() - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotNodeViewFactory
Get the ColorScheme being used for the produced Node.
getColorScheme() - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexEdgeViewFactory
Gets the ColorScheme being used by this particular DotEdgeViewFactory.
getColorScheme() - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexGraphViewFactory
Get the ColorScheme being used for the produced Graph.
getColorScheme() - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexNodeViewFactory
Get the ColorScheme being used for the produced Node.
getColorScheme() - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexGraphView
 
getCommands() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.CompositeCommand
 
getComponentDetails(Reasoner, OWLOntology, URI) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getComponentEnd() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatMarkerEntity
 
getComponentStart() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatMarkerEntity
 
getConceptGlyphs() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
getConnection() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
getConnection() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnectionPool
 
getContainer(HttpSession) - Static method in class net.sourceforge.fluxion.pussycat.spring.util.PussycatSessionUtils
 
getContentLength() - Method in class net.sourceforge.fluxion.ajax.beans.util.FileUploadListener
 
getContentLength() - Method in class net.sourceforge.fluxion.pussycat.util.FileUploadListener
 
getContentType() - Method in interface net.sourceforge.fluxion.ajax.handler.AjaxHandler
 
getContentType() - Method in class net.sourceforge.fluxion.ajax.handler.impl.AjaxHandlerImpl
 
getContentType() - Method in interface net.sourceforge.fluxion.pussycat.renderlets.Renderlet
 
getContentType() - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
getCoreRenderlets() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatRenderletManager
 
getCoreRenderlets(Class<?>, RenderletType) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatRenderletManager
 
getCoreRenderlets() - Method in interface net.sourceforge.fluxion.pussycat.renderlets.RenderletManager
 
getCoreRenderlets() - Method in class net.sourceforge.fluxion.pussycat.spring.service.RenderletHotloaderService
 
getCurrentHistory() - Method in class net.sourceforge.fluxion.pussycat.util.PussycatResourceHistory
 
getCurrentHistoryIndex() - Method in class net.sourceforge.fluxion.pussycat.util.PussycatResourceHistory
 
getCurrentMaps() - Method in class net.sourceforge.fluxion.pussycat.svg.VertSVGMap
 
getCurrentMapSet() - Method in class net.sourceforge.fluxion.pussycat.svg.VertSVGMap
 
getDatabaseName() - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanWriter
 
getDataClauses() - Method in class net.sourceforge.fluxion.runcible.impl.StandardRule
 
getDataClauses() - Method in interface net.sourceforge.fluxion.runcible.Rule
 
getDataNodeColor() - Method in interface net.sourceforge.fluxion.graph.ColorScheme
 
getDataNodeColorAsDotString() - Method in interface net.sourceforge.fluxion.graph.ColorScheme
 
getDataNodeColorAsHTML() - Method in interface net.sourceforge.fluxion.graph.ColorScheme
 
getDataPropertyURI() - Method in interface net.sourceforge.fluxion.runcible.DataSelection
 
getDataPropertyURI() - Method in class net.sourceforge.fluxion.runcible.impl.SelectDataValue
 
getDataRange() - Method in class net.sourceforge.fluxion.runcible.impl.SelectDataValue
 
getDataSelection() - Method in interface net.sourceforge.fluxion.runcible.DataClause
 
getDataSelection() - Method in class net.sourceforge.fluxion.runcible.impl.DataClauseImpl
 
getDataSource() - Method in exception net.sourceforge.fluxion.api.DataSourceException
 
getDataSourceBasedElement(String, URI) - Static method in class net.sourceforge.fluxion.spring.endpoint.xml.MessageElementHandler
Construct a new message element with a single data source URI and with the top level element having the specified local name and fluxion namespace
getDatasourceConnectionParameters() - Method in interface net.sourceforge.fluxion.datapublisher.beangen.BeanFactory
Returns the map of connection parameters supplied for this BeanFactory.
getDatasourceConnectionParameters() - Method in class net.sourceforge.fluxion.datapublisher.biomart.impl.BiomartBeanFactory
 
getDatasourceConnectionParameters() - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLBeanFactory
Returns the map of connection parameters supplied for this BeanFactory.
getDatasourceListFromCorePublisher(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.ServiceUtilsBean
 
getDatasourceListFromUserPublisher(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.ServiceUtilsBean
 
getDataSources() - Method in interface net.sourceforge.fluxion.api.FluxionService
All data sources that this service publishes.
getDataSources() - Method in class net.sourceforge.fluxion.datapublisher.BeanFactoryFluxionService
 
getDataSources(URL) - Method in class net.sourceforge.fluxion.pussycat.FluxionServiceClient
 
getDataSources() - Method in class net.sourceforge.fluxion.spring.DelegatingFluxionService
Return a set of the URIs of all registered data sources
getDataSources() - Method in class net.sourceforge.fluxion.spring.QueryTransformingFluxionService
Return the set of exposed data source URIs from all configurations
getDataSources() - Method in class net.sourceforge.fluxion.spring.wsclient.SOAPFluxionService
Implements FluxionService, delegating to a web service at the configured endpoint
getDataSourcesBasedElement(String, Iterable<URI>) - Static method in class net.sourceforge.fluxion.spring.endpoint.xml.MessageElementHandler
Construct a new message element containing a list of URIs and with the specified local name (which will be used to create an element in the fluxion namespace)
getDatasourceSchema(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.pussycat.spring.beans.client.FluxionServiceClient
 
GetDataSourcesEndpoint - Class in net.sourceforge.fluxion.spring.endpoint
Message handling endpoint for the getDataSources web service method
GetDataSourcesEndpoint() - Constructor for class net.sourceforge.fluxion.spring.endpoint.GetDataSourcesEndpoint
 
getDataSourcesNames(URL) - Method in class net.sourceforge.fluxion.pussycat.FluxionServiceClient
 
getDataSourceURI(Element) - Static method in class net.sourceforge.fluxion.spring.endpoint.xml.MessageElementHandler
Get the dataSourceURI URI property from the specified message element, used by several service endpoint handlers.
getDataSourceURI() - Method in class net.sourceforge.fluxion.spring.endpoint.xml.QueryRequestMessage
 
getDatatypeProperty(Reasoner, String) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getDatatypePropertyString(Reasoner, OWLIndividual, OWLDataProperty) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getDatatypePropertyString(Reasoner, OWLIndividual, String) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getDatatypePropertyURI() - Method in class net.sourceforge.fluxion.runcible.impl.DataConstantAssertion
 
getDatatypePropertyURI() - Method in class net.sourceforge.fluxion.runcible.impl.DataValueAssertion
 
getDatatypePropertyValues(Reasoner, OWLIndividual, OWLDataProperty) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getDbmsName() - Method in enum net.sourceforge.fluxion.maven.plugins.DBMSBindings
 
getDbmsName() - Method in enum org.comparagrid.fluxion.plugins.PublisherMojo.Dbms
 
getDefaultContextPopupMenu() - Method in interface net.sourceforge.fluxion.runcible.graph.popup.PopupProvider
 
getDefaultTimeout() - Method in class net.sourceforge.fluxion.utils.ReasonerSessionManager
Gets the default period of time that this ReasonerSessionManager will wait before creating a new ReasonerSession, whenever ReasonerSessionManager.acquireReasonerSession(org.semanticweb.owl.model.OWLOntology) is called.
getDescription() - Method in interface net.sourceforge.fluxion.pussycat.renderlets.Renderlet
 
getDescription() - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
getDescription() - Method in class net.sourceforge.fluxion.pussycat.util.jarFilter
 
getDescription() - Method in class net.sourceforge.fluxion.pussycat.util.PussycatMarker
 
getDisplayName() - Method in interface net.sourceforge.fluxion.pussycat.renderlets.Renderlet
 
getDisplayName() - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
getDisplayParams() - Method in class net.sourceforge.fluxion.runcible.graph.view.DotEdgeView
 
getDisplayParams() - Method in class net.sourceforge.fluxion.runcible.graph.view.DotNodeView
 
getDisplayParams() - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexEdgeView
 
getDisplayParams() - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexNodeView
 
getDockedChildren() - Method in class net.sourceforge.fluxion.pussycat.entity.AbstractDockable
 
getDockedChildren() - Method in interface net.sourceforge.fluxion.pussycat.entity.DockableInPussycat
 
getDockedEntity() - Method in class net.sourceforge.fluxion.pussycat.entity.AbstractDockable
 
getDockedEntity() - Method in interface net.sourceforge.fluxion.pussycat.entity.DockableInPussycat
 
getDockingParent() - Method in class net.sourceforge.fluxion.pussycat.entity.AbstractDockable
 
getDockingParent() - Method in interface net.sourceforge.fluxion.pussycat.entity.DockableInPussycat
 
getDotLocation() - Method in class net.sourceforge.fluxion.graph.view.renderer.AbstractGraphViewRenderer
 
getDotLocation() - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatUtils
 
getDownServiceURLs() - Method in class net.sourceforge.fluxion.pussycat.FluxionServiceClient
 
getEdge() - Method in class net.sourceforge.fluxion.graph.listener.GraphChangeEvent
 
getEdgeColor() - Method in interface net.sourceforge.fluxion.graph.ColorScheme
 
getEdgeColorAsDotString() - Method in interface net.sourceforge.fluxion.graph.ColorScheme
 
getEdgeColorAsHTML() - Method in interface net.sourceforge.fluxion.graph.ColorScheme
 
getEdgeView() - Method in interface net.sourceforge.fluxion.graph.view.factory.EdgeViewFactory
Generate an EdgeView.
getEdgeView() - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotEdgeViewFactory
 
getEdgeView() - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexEdgeViewFactory
 
getEdgeViews() - Method in interface net.sourceforge.fluxion.graph.view.GraphView
 
getEdgeViews() - Method in class net.sourceforge.fluxion.runcible.graph.view.DotGraphView
 
getEdgeViews() - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexGraphView
 
getEnd() - Method in class net.sourceforge.fluxion.pussycat.util.PussycatMarker
 
getEntities() - Method in class net.sourceforge.fluxion.pussycat.util.AbstractPussycatSearcher
 
getEntity() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.DirectClassHierarchyEntity
 
getEntity() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.IndirectClassHierarchyEntity
 
getEntity() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatClassHierarchyEntity
 
getEntity() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatEntityListEntity
 
getEntity() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatMarkerEntity
 
getEntity() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatOntologySummaryEntity
 
getEntity() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatResourceViewEntity
 
getEntity() - Method in interface net.sourceforge.fluxion.pussycat.entity.RenderableOWLEntity
 
getEntity() - Method in class net.sourceforge.fluxion.pussycat.svg.ConceptGlyph
 
getEntity() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
getEntity() - Method in class net.sourceforge.fluxion.pussycat.svg.PussycatMappingHitEntity
 
getEntity() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
getEntityAnn() - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanConfig
 
getEntityCacheManager() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
getEntityRDFLabels(OWLOntology, OWLObject) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getExceptionCause() - Method in class net.sourceforge.fluxion.spring.xml.DOMOWLinator
 
getExceptionCause() - Method in class net.sourceforge.fluxion.spring.xml.OWLDOMinator
 
getExposedDataSourceURI() - Method in class net.sourceforge.fluxion.spring.QueryTransformerConfiguration
Generate and / or return the URI of the exposed part of this configuration.
getExposedSchema() - Method in class net.sourceforge.fluxion.spring.QueryTransformerConfiguration
Return a derived schema populated by the QueryTransformer during initialization.
getExtension(String) - Method in class net.sourceforge.fluxion.pussycat.util.jarFilter
Gets the extension of a file, e.g.
getFact() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddDataConstantAssertionCommand
 
getFact() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddDataValueAssertionCommand
 
getFact() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddIndividualAxiomCommand
 
getFact() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddObjectValueAssertionCommand
 
getFactoryClassLoader() - Method in class net.sourceforge.fluxion.datasource.impl.BeanModelDataSourceFactory
Returns the classloader this factory is currently configured with.
getFacts() - Method in class net.sourceforge.fluxion.runcible.impl.StandardRule
 
getFacts() - Method in interface net.sourceforge.fluxion.runcible.Rule
 
getFakeQuery(URI, OWLDataFactory) - Static method in class net.sourceforge.fluxion.pussycat.util.CannedQueries
 
getFilter() - Method in class net.sourceforge.fluxion.pussycat.util.AbstractPussycatSearcher
 
getFilterFromClass(Class<?>) - Static method in class net.sourceforge.fluxion.datasource.utils.BeanUtils
Get the filter paired to this bean class.
getFluxionService() - Method in class net.sourceforge.fluxion.spring.endpoint.AbstractFluxionEndpoint
Return the previously injected fluxion service
getFluxionServices() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
getForall() - Method in class net.sourceforge.fluxion.runcible.impl.StandardRule
 
getForall() - Method in interface net.sourceforge.fluxion.runcible.Rule
 
getGetDataSourcesResponse(Element) - Static method in class net.sourceforge.fluxion.spring.endpoint.xml.MessageElementHandler
Construct a set of URIs from a getDataSourcesResponse message
getGetSchemaResponse(Element) - Static method in class net.sourceforge.fluxion.spring.endpoint.xml.MessageElementHandler
Create an OWLOntology from a getSchemaResponse element
getGetSchemaResponseMessageElement(OWLOntology) - Static method in class net.sourceforge.fluxion.spring.endpoint.xml.MessageElementHandler
Create a getSchemaResponse message element from an OWLOntology
getGlyphClass() - Method in class net.sourceforge.fluxion.pussycat.svg.ConceptGlyph
 
getGlyphClass() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
getGlyphClass() - Method in class net.sourceforge.fluxion.pussycat.svg.PussycatMappingHitEntity
 
getGlyphClass() - Method in interface net.sourceforge.fluxion.pussycat.svg.PussycatSVGEntity
 
getGlyphClass() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
getGlyphIndividual() - Method in class net.sourceforge.fluxion.pussycat.svg.ConceptGlyph
 
getGraph() - Method in interface net.sourceforge.fluxion.graph.factory.GraphFactory
 
getGraph() - Method in interface net.sourceforge.fluxion.graph.view.GraphView
 
getGraph() - Method in class net.sourceforge.fluxion.runcible.graph.factory.OntologyGraphFactory
 
getGraph() - Method in interface net.sourceforge.fluxion.runcible.graph.factory.OWLGraphFactory
 
getGraph() - Method in class net.sourceforge.fluxion.runcible.graph.factory.SourceOWLGraphFactory
 
getGraph() - Method in class net.sourceforge.fluxion.runcible.graph.factory.TargetOWLGraphFactory
 
getGraph() - Method in class net.sourceforge.fluxion.runcible.graph.view.DotGraphView
 
getGraph() - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexGraphView
 
getGraphView() - Method in interface net.sourceforge.fluxion.graph.view.factory.GraphViewFactory
Returns the GraphView generated by this GraphViewFactory.
getGraphView() - Method in class net.sourceforge.fluxion.graph.view.renderer.AbstractGraphViewRenderer
 
getGraphView() - Method in interface net.sourceforge.fluxion.graph.view.renderer.GraphViewRenderer
 
getGraphView() - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotGraphViewFactory
Return the GraphView produced by this Factory
getGraphView() - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexGraphViewFactory
Return the GraphView produced by this Factory
getHeadNode() - Method in class net.sourceforge.fluxion.graph.AbstractEdge
 
getHeadNode() - Method in interface net.sourceforge.fluxion.graph.Edge
Return the Node at the head of this Edge.
getHeadNodeName() - Method in interface net.sourceforge.fluxion.graph.view.EdgeView
 
getHeadNodeName() - Method in class net.sourceforge.fluxion.runcible.graph.view.DotEdgeView
 
getHeadNodeName() - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexEdgeView
 
getHeight() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
getHeight() - Method in interface net.sourceforge.fluxion.pussycat.svg.PussycatMap
 
getHeight() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
getHiddenNodes() - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotGraphViewFactory
 
getHiddenNodes() - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexGraphViewFactory
 
getHistory() - Method in class net.sourceforge.fluxion.pussycat.util.PussycatResourceHistory
 
getHistoryAt(int) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatResourceHistory
 
getHoldability() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
getHttpSession() - Method in class net.sourceforge.fluxion.ajax.controller.AjaxController
 
getId() - Method in interface net.sourceforge.fluxion.api.FluxionService
A human-readable URI-based service ID
getId() - Method in class net.sourceforge.fluxion.datapublisher.BeanFactoryFluxionService
 
getId() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.DirectClassHierarchyEntity
 
getId() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.IndirectClassHierarchyEntity
 
getId() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatClassHierarchyEntity
 
getId() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatEntityListEntity
 
getId() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatLayoutListEntity
 
getId() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatMarkerEntity
 
getId() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatOntologySummaryEntity
 
getId() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatRenderletListEntity
 
getId() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatResourceViewEntity
 
getId() - Method in interface net.sourceforge.fluxion.pussycat.entity.RenderableInPussycat
 
getId() - Method in interface net.sourceforge.fluxion.pussycat.renderlets.Renderlet
 
getId() - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
getId() - Method in class net.sourceforge.fluxion.pussycat.svg.ConceptGlyph
 
getId() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
getId() - Method in class net.sourceforge.fluxion.pussycat.svg.PussycatMappingHitEntity
 
getId() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
getId() - Method in class net.sourceforge.fluxion.pussycat.svg.VertSVGMap
 
getID() - Method in class net.sourceforge.fluxion.pussycat.util.PussycatMarker
 
getId() - Method in class net.sourceforge.fluxion.spring.DelegatingFluxionService
The ID of this service.
getId() - Method in class net.sourceforge.fluxion.spring.QueryTransformingFluxionService
The ID of this service.
getId() - Method in class net.sourceforge.fluxion.spring.wsclient.SOAPFluxionService
The ID of this service.
getIdentifier() - Method in interface net.sourceforge.fluxion.runcible.Fact
 
getIdentifier() - Method in class net.sourceforge.fluxion.runcible.impl.ClassAssertion
 
getIdentifier() - Method in class net.sourceforge.fluxion.runcible.impl.DataConstantAssertion
 
getIdentifier() - Method in class net.sourceforge.fluxion.runcible.impl.DataValueAssertion
 
getIdentifier() - Method in class net.sourceforge.fluxion.runcible.impl.ObjectValueAssertion
 
getIdentifyingXRefsFor(Reasoner, OWLOntology, OWLIndividual) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getImplementationArtifactId() - Method in enum net.sourceforge.fluxion.maven.plugins.DBMSBindings
 
getImplementationArtifactId() - Method in enum org.comparagrid.fluxion.plugins.PublisherMojo.Dbms
 
getImplementationGroupId() - Method in enum net.sourceforge.fluxion.maven.plugins.DBMSBindings
 
getImplementationGroupId() - Method in enum org.comparagrid.fluxion.plugins.PublisherMojo.Dbms
 
getImplementationVersion() - Method in enum net.sourceforge.fluxion.maven.plugins.DBMSBindings
 
getImplementationVersion() - Method in enum org.comparagrid.fluxion.plugins.PublisherMojo.Dbms
 
getIndividual(OWLEntityCache, Reasoner, URI) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getIndividual(Reasoner, URI) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getIndividualId(Reasoner, OWLIndividual) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getIndividualOf() - Method in class net.sourceforge.fluxion.runcible.impl.ClassAssertion
 
getIndividualRdfTypeClass(Reasoner, OWLIndividual, OWLOntology) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getIndividualRdfTypes(Reasoner, OWLIndividual, OWLOntology) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getIndividualRdfTypeString(OWLIndividual, OWLOntology) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getIndividualSelection() - Method in class net.sourceforge.fluxion.runcible.impl.StandardRule
 
getIndividualSelection() - Method in interface net.sourceforge.fluxion.runcible.Rule
 
getInferredSubClasses(ReasonerSession, OWLDescription) - Static method in class net.sourceforge.fluxion.utils.OWLUtils
Get the asserted subclasses of a class in the given ontology.
getInferredSuperClasses(ReasonerSession, OWLDescription) - Static method in class net.sourceforge.fluxion.utils.OWLUtils
Get the inferred superclasses of a class in the given ontology.
getInstancesOf(Reasoner, OWLDescription, boolean) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getItem() - Method in class net.sourceforge.fluxion.ajax.beans.util.FileUploadListener
 
getItem() - Method in class net.sourceforge.fluxion.pussycat.util.FileUploadListener
 
getJavaType(String) - Method in class net.sourceforge.fluxion.datapublisher.mysql.impl.MySQLBeanFactory
Get the java type that matches the given sqlType
getJavaType(String) - Method in class net.sourceforge.fluxion.datapublisher.odbc.impl.ODBCBeanFactory
Get the Java Type that matches the given oracle SQL type
getJavaType(String) - Method in class net.sourceforge.fluxion.datapublisher.postgresql.impl.PostgresqlBeanFactory
Get the Java Type that matches the given postgres SQL type
getJavaType(String) - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLBeanFactory
Returns a string giving the name of a java field type, given a specified type in the datasource.
getJavaTypeName() - Method in enum net.sourceforge.fluxion.datapublisher.mysql.impl.MySQLBeanFactory.DataType
Get the name of the Java type for the current DataType
getJavaTypeName() - Method in enum net.sourceforge.fluxion.datapublisher.odbc.impl.ODBCBeanFactory.DataType
 
getJavaTypeName() - Method in enum net.sourceforge.fluxion.datapublisher.postgresql.impl.PostgresqlBeanFactory.DataType
 
getJoinedFilter() - Method in class net.sourceforge.fluxion.datasource.filter.impl.Join
 
getLabel() - Method in class net.sourceforge.fluxion.graph.AbstractEdge
 
getLabel() - Method in class net.sourceforge.fluxion.graph.AbstractNode
 
getLabel() - Method in interface net.sourceforge.fluxion.graph.Edge
A String to use as the label for this Edge when drawn on the graph.
getLabel() - Method in interface net.sourceforge.fluxion.graph.Node
An identifier that can be used to describe an individual of the set described by this Node
getLabel() - Method in interface net.sourceforge.fluxion.graph.view.EdgeView
 
getLabel() - Method in class net.sourceforge.fluxion.runcible.graph.view.DotEdgeView
 
getLabel() - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexEdgeView
 
getLastAddedOntology() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
getLastCommand() - Method in interface net.sourceforge.fluxion.runcible.io.command.ChangeInvoker
 
getLastCommand() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.DefaultChangeInvoker
 
getLastUse() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
getLeadingEdges(Node) - Method in class net.sourceforge.fluxion.graph.AbstractGraph
 
getLeadingEdges(Node) - Method in interface net.sourceforge.fluxion.graph.Graph
Returns the set of edges leading into a given node.
getLoadedOntologies(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.SessionManagementService
 
getLocalName(OWLNamedObject) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getMainClass(JarPlugin) - Method in class net.sourceforge.fluxion.pussycat.util.PluginManager
Gets the main class of a JarPlugin
getMainClassName() - Method in class net.sourceforge.fluxion.pussycat.util.JarClassLoader
Returns the name of the jar file main class, or null if no "Main-Class" manifest attributes was defined.
getMap(String) - Method in class net.sourceforge.fluxion.pussycat.svg.VertSVGMap
 
getMap(URI) - Method in class net.sourceforge.fluxion.pussycat.svg.VertSVGMap
 
getMapId() - Method in class net.sourceforge.fluxion.pussycat.svg.CircularLinkMap
 
getMapIndividual() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
getMapIndividual() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
getMapIndividuals() - Method in class net.sourceforge.fluxion.pussycat.svg.CircularLinkMap
 
getMapName() - Method in class net.sourceforge.fluxion.pussycat.svg.CircularLinkMap
 
getMapName() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
getMapName() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
getMapOntology() - Method in class net.sourceforge.fluxion.pussycat.svg.CircularLinkMap
 
getMapping() - Method in class net.sourceforge.fluxion.runcible.graph.manager.RuncibleChangeFactory
 
getMapping() - Method in class net.sourceforge.fluxion.runcible.graph.mapping.MappingManager
 
getMappings() - Method in interface net.sourceforge.fluxion.runcible.graph.MappingNode
Returns the set of identifiers of all nodes that this node maps to.
getMappings() - Method in class net.sourceforge.fluxion.runcible.graph.OWLMappingNode
 
getMarkers() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
getMarkers() - Method in interface net.sourceforge.fluxion.pussycat.svg.PussycatMap
 
getMarkers() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
getMavenLocalRepository() - Method in class net.sourceforge.fluxion.spi.SPIManager
Get the local repository used by Maven.
getMavenRemoteRepositories() - Method in class net.sourceforge.fluxion.spi.SPIManager
Get the set of remote repositories used by Maven.
getMaxNumberOfSessions() - Method in class net.sourceforge.fluxion.utils.ReasonerSessionManager
Gets the default maximum number of sessions that can be created.
getMessage() - Method in exception net.sourceforge.fluxion.pussycat.renderlets.RenderException
 
getMetaAnn() - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanConfig
 
getMetaData() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
getMethodAnnotations() - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanConfig
 
getMethods() - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanConfig
 
getMethods(JarPlugin) - Method in class net.sourceforge.fluxion.pussycat.util.PluginManager
Gets all the methods held in the main class of the JarPlugin
getModelComponentId(Reasoner, OWLIndividual) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getMostSpecificCommonClass(OWLReasoner, Set<OWLClass>) - Static method in class net.sourceforge.fluxion.runcible.graph.utils.OWLRestrictionEvaluator
 
getName() - Method in class net.sourceforge.fluxion.graph.AbstractGraph
 
getName() - Method in interface net.sourceforge.fluxion.graph.Graph
Gets the name of this graph
getName() - Method in interface net.sourceforge.fluxion.pussycat.renderlets.Renderlet
 
getName() - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
getName() - Method in class net.sourceforge.fluxion.pussycat.util.JarPlugin
Gets the name attribute of the JarPlugin object
getNamespace() - Method in class net.sourceforge.fluxion.pussycat.util.PussycatMarker
 
getNameSpace(OWLNamedObject) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getNameSpace(URI) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatUtils
 
getNewGraph() - Method in class net.sourceforge.fluxion.graph.listener.GraphChangeEvent
 
getNext() - Method in class net.sourceforge.fluxion.runcible.impl.InPlace
 
getNext() - Method in class net.sourceforge.fluxion.runcible.impl.RootAt
 
getNext() - Method in class net.sourceforge.fluxion.runcible.impl.SelectIndividualValue
 
getNext() - Method in interface net.sourceforge.fluxion.runcible.IndividualSelection
 
getNextCommand() - Method in interface net.sourceforge.fluxion.runcible.io.command.ChangeInvoker
 
getNextCommand() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.DefaultChangeInvoker
 
getNextHistory() - Method in class net.sourceforge.fluxion.pussycat.util.PussycatResourceHistory
 
getNextRules() - Method in class net.sourceforge.fluxion.runcible.impl.StandardRule
 
getNextRules() - Method in interface net.sourceforge.fluxion.runcible.Rule
 
getNexus() - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
getNode(String) - Method in class net.sourceforge.fluxion.graph.AbstractGraph
 
getNode(String) - Method in interface net.sourceforge.fluxion.graph.Graph
Returns the Node with the given name present within this graph.
getNode() - Method in class net.sourceforge.fluxion.graph.listener.GraphChangeEvent
 
getNode() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddDataConstantNodeCommand
 
getNode() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddDataValueNodeCommand
 
getNode() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddIndividualNodeCommand
 
getNode() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddMemberNodeCommand
 
getNode() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddObjectValueNodeCommand
 
getNode() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddRestrictedNodeCommand
 
getNode() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddWalkedToDataNodeCommand
 
getNode() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddWalkedToObjectNodeCommand
 
getNodeContextPopupMenu(Node) - Method in interface net.sourceforge.fluxion.runcible.graph.popup.PopupProvider
 
getNodeName() - Method in interface net.sourceforge.fluxion.graph.view.NodeView
 
getNodeName() - Method in class net.sourceforge.fluxion.runcible.graph.view.DotNodeView
 
getNodeName() - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexNodeView
 
getNodeView() - Method in interface net.sourceforge.fluxion.graph.view.factory.NodeViewFactory
 
getNodeView() - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotNodeViewFactory
 
getNodeView() - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexNodeViewFactory
 
getNodeViews() - Method in interface net.sourceforge.fluxion.graph.view.GraphView
 
getNodeViews() - Method in class net.sourceforge.fluxion.runcible.graph.view.DotGraphView
 
getNodeViews() - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexGraphView
 
getObject(JarPlugin) - Method in class net.sourceforge.fluxion.pussycat.util.PluginManager
Instantiates a JarPlugin as an Object
getObject() - Method in class net.sourceforge.fluxion.spring.OntologyFactoryBean
Opens the resource as a stream and uses it to attempt to load an OWLOntology instance.
getObjectColour() - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
getObjectPropertyIndividuals(Reasoner, OWLIndividual, OWLObjectProperty) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getObjectPropertyIndividuals(Reasoner, OWLIndividual, String) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getObjectPropertyRanges(Reasoner, OWLOntology, OWLObjectProperty) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getObjectPropertyURI() - Method in class net.sourceforge.fluxion.runcible.impl.ObjectValueAssertion
 
getObjectPropertyURI() - Method in class net.sourceforge.fluxion.runcible.impl.SelectIndividualValue
 
getObjectType() - Method in class net.sourceforge.fluxion.spring.OntologyFactoryBean
Return Class<OWLOntology>
getOfflineMode() - Method in class net.sourceforge.fluxion.spi.SPIManager
Get offline mode - whether Raven can connect to the internet to download artifacts
getOntologies() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
getOntology() - Method in class net.sourceforge.fluxion.spring.endpoint.xml.QueryRequestMessage
 
getOntology() - Method in class net.sourceforge.fluxion.spring.OntologyURIPair
Get the ontology
getOntologyElement(OWLOntology) - Static method in class net.sourceforge.fluxion.spring.xml.OWLOntologyXMLHandler
Render the supplied OWLOntology to a JDOM element, this bypasses the default OWL xml serializer and is considerably faster as it assembles XML objects directly.
getOntologyManager() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
getOntologySearcher() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
getOntologySet() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
getOntologyString(OWLOntology) - Static method in class net.sourceforge.fluxion.spring.xml.OWLOntologyXMLHandler
Render the supplied OWLOntology to a string, renders to a JDOM element first then uses JDOM's outputter to pretty-print the element.
getOSByName(String) - Static method in enum net.sourceforge.fluxion.graph.view.renderer.AbstractGraphViewRenderer.Operating_System
 
getOSByName(String) - Static method in enum net.sourceforge.fluxion.pussycat.util.PussycatUtils.Operating_System
 
getOWLClass(OWLOntology, URI) - Static method in class net.sourceforge.fluxion.beans.utils.OWLUtils
 
getOWLClass(String) - Method in class net.sourceforge.fluxion.utils.owl.FluxionOWLEntityChecker
 
getOWLClassURI() - Method in class net.sourceforge.fluxion.runcible.impl.InPlace
 
getOWLClassURI() - Method in class net.sourceforge.fluxion.runcible.impl.RootAt
 
getOWLDataProperty(String) - Method in class net.sourceforge.fluxion.utils.owl.FluxionOWLEntityChecker
 
getOWLDataType(String) - Method in class net.sourceforge.fluxion.utils.owl.FluxionOWLEntityChecker
 
getOWLIndividual(String) - Method in class net.sourceforge.fluxion.utils.owl.FluxionOWLEntityChecker
 
getOWLObject() - Method in class net.sourceforge.fluxion.runcible.graph.OWLMappingNode
 
getOWLObject() - Method in interface net.sourceforge.fluxion.runcible.graph.OWLNode
Return the RDFResource object that describes this node.
getOWLObjectProperty(String) - Method in class net.sourceforge.fluxion.utils.owl.FluxionOWLEntityChecker
 
getOWLOntology() - Method in class net.sourceforge.fluxion.runcible.graph.DefaultGraph
 
getOWLOntology() - Method in class net.sourceforge.fluxion.runcible.graph.factory.OntologyGraphFactory
 
getOWLOntology() - Method in interface net.sourceforge.fluxion.runcible.graph.OWLGraph
Returns the Protege OWLModel for this graph.
getOwlOntology(InputStream) - Static method in class net.sourceforge.fluxion.spring.xml.OWLOntologyXMLHandler
Assemble an OWLOntology from an ontology accessible through the supplied input stream.
getOwlOntology(String) - Static method in class net.sourceforge.fluxion.spring.xml.OWLOntologyXMLHandler
Assemble an OWLOntology, parsing the supplied string of OWL2 XML
getOwlOntology(Element) - Static method in class net.sourceforge.fluxion.spring.xml.OWLOntologyXMLHandler
Assemble an OWLOntology from a JDOM element - note that this writes the element to a string and reads it using the rather inefficient OWL parser, this is not a particularly high performance operation! In the future we may be able to drive the ontology parser directly from the XML structure which would make things considerably faster.
getOWLProperty(OWLOntology, URI) - Static method in class net.sourceforge.fluxion.beans.utils.OWLUtils
 
getOWLProperty() - Method in class net.sourceforge.fluxion.runcible.graph.IsAEdge
 
getOWLProperty() - Method in class net.sourceforge.fluxion.runcible.graph.NestedEdge
 
getOWLProperty() - Method in interface net.sourceforge.fluxion.runcible.graph.OWLEdge
Return the owl property represented by this edge.
getOWLProperty() - Method in class net.sourceforge.fluxion.runcible.graph.ValueEdge
 
getOWLProperty() - Method in class net.sourceforge.fluxion.runcible.graph.WalkEdge
 
getOWLRestriction(OWLOntology, URI) - Static method in class net.sourceforge.fluxion.beans.utils.OWLUtils
 
getPackageName() - Method in interface net.sourceforge.fluxion.datapublisher.beangen.BeanFactory
Returns the package name known for this BeanFactory
getPackageName() - Method in class net.sourceforge.fluxion.datapublisher.biomart.impl.BiomartBeanFactory
 
getPackageName() - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLBeanFactory
 
getPath() - Method in class net.sourceforge.fluxion.pussycat.util.JarPlugin
Gets the path attribute of the JarPlugin object
getPathUnderResource(Set, Reasoner, OWLOntology, String, Vector<String>) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getPattern() - Method in class net.sourceforge.fluxion.pussycat.util.AbstractPussycatSearcher
 
getPigSpeciesQuery(URI, OWLDataFactory) - Static method in class net.sourceforge.fluxion.pussycat.util.CannedQueries
 
getPlugins() - Method in class net.sourceforge.fluxion.pussycat.util.PluginManager
Returns all found JarPlugins
getPluginsNamesAsList() - Method in class net.sourceforge.fluxion.pussycat.util.PluginManager
Returns the names of all found JarPlugins as an ArrayList
getPredicateColour() - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
getPreviousHistory() - Method in class net.sourceforge.fluxion.pussycat.util.PussycatResourceHistory
 
getProgressMessage() - Method in class net.sourceforge.fluxion.ajax.beans.util.ProcessListener
 
getProgressMessage() - Method in class net.sourceforge.fluxion.pussycat.util.ReasonerProgressMonitor
 
getProgressMonitor() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
getPublisherList(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.ServiceUtilsBean
 
getPussycatLabel(OWLOntology, OWLClass) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getPussycatRenderletManager() - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
getQueryClassURI() - Method in class net.sourceforge.fluxion.spring.endpoint.xml.QueryRequestMessage
 
getQueryGeneratorClass() - Method in class net.sourceforge.fluxion.datapublisher.mysql.impl.MySQLBeanFactory
 
getQueryGeneratorClass() - Method in class net.sourceforge.fluxion.datapublisher.odbc.impl.ODBCBeanFactory
 
getQueryGeneratorClass() - Method in class net.sourceforge.fluxion.datapublisher.postgresql.impl.PostgresqlBeanFactory
 
getQueryGeneratorClass() - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLBeanFactory
Return the class that concrete BeanFactory implementations use to the create a query.
getQueryManagerClass(ReasonerSession, OWLOntology, OWLDescription) - Static method in class net.sourceforge.fluxion.datasource.utils.QueryUtils
Get the QueryManager object for a given OWL class.
getQueryRequestMessage(Element) - Static method in class net.sourceforge.fluxion.spring.endpoint.xml.MessageElementHandler
Get a query request message from the message element
getQueryRequestMessageElement(QueryRequestMessage) - Static method in class net.sourceforge.fluxion.spring.endpoint.xml.MessageElementHandler
Create a query request message element from a QueryRequestMessage
getQueryRequestMessageElement(URI, URI, OWLOntology) - Static method in class net.sourceforge.fluxion.spring.endpoint.xml.MessageElementHandler
Create a query request message element from a data source URI, query class URI and ontology.
getQueryResponse(Element) - Static method in class net.sourceforge.fluxion.spring.endpoint.xml.MessageElementHandler
Create an OWLOntology from a query response message element
getQueryResponseMessageElement(OWLOntology) - Static method in class net.sourceforge.fluxion.spring.endpoint.xml.MessageElementHandler
Create a query response message element from an OWLOntology
getQueueSize() - Method in class net.sourceforge.fluxion.utils.ReasonerSession
Get the number of connections waiting for this ReasonerSession to become available.
getRadius() - Method in class net.sourceforge.fluxion.pussycat.svg.CircularLinkMap
 
getRavenRepository() - Method in class net.sourceforge.fluxion.spi.SPIManager
Get the local repository used by Raven
getReadyRenderletHtml(String) - Method in class net.sourceforge.fluxion.pussycat.container.PussycatRenderletContainer
 
getReasoner() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
getReasoner() - Method in class net.sourceforge.fluxion.utils.ReasonerSession
Expose the underlying OWLReasoner instance employed by this ReasonerSession
getReasonerExplanationOutput(Reasoner, OWLOntology) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getReasonerLevel() - Method in interface net.sourceforge.fluxion.api.DataSource
The reasoner level at which this datasource operates.
getReasonerLevel(URI) - Method in interface net.sourceforge.fluxion.api.FluxionService
The minimum reasoning capabilities that the service will use when matching queries against the data source.
getReasonerLevel(URI) - Method in class net.sourceforge.fluxion.datapublisher.BeanFactoryFluxionService
 
getReasonerLevel() - Method in class net.sourceforge.fluxion.datasource.impl.BeanModelDataSource
 
getReasonerLevel() - Method in class net.sourceforge.fluxion.datasource.impl.OWLFileDataSource
 
getReasonerLevel(URI) - Method in class net.sourceforge.fluxion.spring.DelegatingFluxionService
Get the reasoner level from the data source with the matching data source URI
getReasonerLevel(URI) - Method in class net.sourceforge.fluxion.spring.QueryTransformingFluxionService
Currently returns the constant 'http://www.w3.org/ns/owl2-xml' as the reasoner level
getReasonerLevel(URI) - Method in class net.sourceforge.fluxion.spring.wsclient.SOAPFluxionService
Implements FluxionService, delegating to a web service at the configured endpoint
GetReasonerLevelEndpoint - Class in net.sourceforge.fluxion.spring.endpoint
Message handling endpoint for the getReasonerLevel web service method
GetReasonerLevelEndpoint() - Constructor for class net.sourceforge.fluxion.spring.endpoint.GetReasonerLevelEndpoint
 
getRecycleAfter() - Method in class net.sourceforge.fluxion.utils.ReasonerSessionManager
Gets the number of seconds ReasonerSessions are allowed to remain idle before getting recycled.
getReferencedClasses(ReasonerSession, OWLDescription) - Static method in class net.sourceforge.fluxion.utils.OWLUtils
Works out which OWLClasses are referred to by the incoming query description.
getReferencedProperties(ReasonerSession, OWLDescription) - Static method in class net.sourceforge.fluxion.utils.OWLUtils
Works out which OWLProperties are referred to by the incoming query.
getRegisteredRenderlets() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatRenderletNexus
 
getRelatedBeanClass(OWLClass, OWLOntology) - Static method in class net.sourceforge.fluxion.datasource.utils.BeanUtils
Looks for the value of the RelatedBean annotation on the given OWL class.
getRelatedBeanMethod(Class, OWLProperty, OWLOntology) - Static method in class net.sourceforge.fluxion.datasource.utils.BeanUtils
Looks up the value of the relatedMethod annotation on the given OWL property.
getRelevantClasses(ReasonerSession, OWLOntology, OWLDescription) - Static method in class net.sourceforge.fluxion.utils.OWLUtils
Works out which OWL (named, non-anonymous) classes in the supplied ontology intersect with the query OWL description.
getRelevantRenderlets(Renderlet) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatRenderletNexus
 
getRenderletById(String) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatRenderletNexus
 
getRenderletByName(String) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatRenderletManager
 
getRenderletByName(String) - Method in interface net.sourceforge.fluxion.pussycat.renderlets.RenderletManager
 
getRenderletList(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.RenderletService
 
getRenderletListeners() - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
getRenderletManager() - Method in class net.sourceforge.fluxion.pussycat.container.PussycatRenderletContainer
 
getRenderletNexus() - Method in class net.sourceforge.fluxion.pussycat.container.PussycatRenderletContainer
 
getRenderletPathUnderResource(String, Set, Reasoner, OWLOntology, String, Vector<String>) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getRenderletSelectionPanel(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.RenderletService
 
getRequiredClass() - Method in class net.sourceforge.fluxion.pussycat.renderlets.AbstractRenderletProvider
 
getRequiredClass() - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.AvailablePublishersListRenderletProvider
 
getRequiredClass() - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.DefaultClassHierarchyRenderletProvider
 
getRequiredClass() - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.DirectClassHierarchyRenderletProvider
 
getRequiredClass() - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.IndividualViewRenderletProvider
 
getRequiredClass() - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.LoadedOntologyListRenderletProvider
 
getRequiredClass() - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.OntologySummaryRenderletProvider
 
getRequiredClass() - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.PizzaOntologyRenderletProvider
 
getRequiredClass() - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.RenderletListRenderletProvider
 
getRequiredClass() - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.ResourceViewRenderletProvider
 
getRequiredClass() - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.SparqlQueryRenderletProvider
 
getResourceHistory() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
getRestrictionProperty() - Method in class net.sourceforge.fluxion.runcible.impl.InPlace
 
getRestrictionValue() - Method in class net.sourceforge.fluxion.runcible.impl.InPlace
 
getRootNodes() - Method in class net.sourceforge.fluxion.graph.AbstractGraph
 
getRootNodes() - Method in interface net.sourceforge.fluxion.graph.Graph
Returns all the nodes which are "root" nodes of this graph.
getRule() - Method in class net.sourceforge.fluxion.runcible.graph.command.RunciblePlotChangesCommand
 
getRule() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddRuleCommand
 
getRules() - Method in class net.sourceforge.fluxion.runcible.impl.MappingImpl
 
getRules() - Method in interface net.sourceforge.fluxion.runcible.Mapping
Returns the Set of Rules that make up this mapping.
getRulesDocumentFile() - Method in class net.sourceforge.fluxion.spring.QueryTransformerConfiguration
Return the rules document file name for this configuration.
getSchema() - Method in interface net.sourceforge.fluxion.api.DataSource
The "schema" ontology for this datasource (sometimes called the T-Box).
getSchema(URI) - Method in interface net.sourceforge.fluxion.api.FluxionService
A schema that acts as an upper-bounds on the entities that could possibly be retreived from this service.
getSchema(URI) - Method in class net.sourceforge.fluxion.datapublisher.BeanFactoryFluxionService
 
getSchema() - Method in class net.sourceforge.fluxion.datasource.impl.BeanModelDataSource
 
getSchema() - Method in class net.sourceforge.fluxion.datasource.impl.OWLFileDataSource
 
getSchema(URL, URI) - Method in class net.sourceforge.fluxion.pussycat.FluxionServiceClient
 
getSchema() - Method in class net.sourceforge.fluxion.pussycat.svg.ConceptGlyph
 
getSchema() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
getSchema() - Method in class net.sourceforge.fluxion.pussycat.svg.PussycatMappingHitEntity
 
getSchema() - Method in interface net.sourceforge.fluxion.pussycat.svg.PussycatSVGEntity
 
getSchema() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
getSchema(URI) - Method in class net.sourceforge.fluxion.spring.DelegatingFluxionService
Get the schema from the data source with the matching data source URI
getSchema(URI) - Method in class net.sourceforge.fluxion.spring.QueryTransformingFluxionService
Search for a configuration with the specified exposed URI and return its exposed schema property
getSchema(URI) - Method in class net.sourceforge.fluxion.spring.wsclient.SOAPFluxionService
Implements FluxionService, delegating to a web service at the configured endpoint
GetSchemaEndpoint - Class in net.sourceforge.fluxion.spring.endpoint
Message handling endpoint for the getSchema web service method
GetSchemaEndpoint() - Constructor for class net.sourceforge.fluxion.spring.endpoint.GetSchemaEndpoint
 
getSchemaNameAnn() - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanConfig
 
getSchemaURIs(URL) - Method in class net.sourceforge.fluxion.pussycat.FluxionServiceClient
 
getScrollUnit() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
getScrollUnit() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
getSearchableObject() - Method in class net.sourceforge.fluxion.pussycat.util.AbstractPussycatSearcher
 
getSearchableObjectClass() - Method in class net.sourceforge.fluxion.pussycat.util.AbstractPussycatSearcher
 
getSelectedObject() - Method in interface net.sourceforge.fluxion.pussycat.renderlets.Renderlet
 
getSelectedObject() - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
getSelectionColor() - Method in interface net.sourceforge.fluxion.graph.ColorScheme
 
getSelectionColorAsDotString() - Method in interface net.sourceforge.fluxion.graph.ColorScheme
 
getSelectionColorAsHTML() - Method in interface net.sourceforge.fluxion.graph.ColorScheme
 
getSequenceComponentId(Reasoner, OWLIndividual) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getService(Set<FluxionService>, URI) - Static method in class net.sourceforge.fluxion.beans.utils.ResourceUtils
 
getService(Set<FluxionService>, URI) - Static method in class net.sourceforge.fluxion.pussycat.util.service.PussycatServiceUtils
 
getServiceProviderClasses(Class<SPI>) - Method in class net.sourceforge.fluxion.spi.SPIManager
Get a set of service provider classes that implement the given SPI class.
getServiceProviderClasses(Class<SPI>) - Static method in class net.sourceforge.fluxion.spi.utils.SPIUtils
Get a Set of all the classes that are providers for this Spi using the current ClassLoader.
getServiceProviderClasses(ClassLoader, Class<SPI>) - Static method in class net.sourceforge.fluxion.spi.utils.SPIUtils
Get a Set of all the classes that are providers for this Spi using the supplied ClassLoader.
getServiceProviders(Class<SPI>) - Method in class net.sourceforge.fluxion.spi.SPIManager
Get a set of service provider instances that implement the given SPI class.
getServiceProviders(Class<SPI>) - Static method in class net.sourceforge.fluxion.spi.utils.SPIUtils
Get a Set of all providers in the current classpath for the suppied SPI.
getServiceProviders(ClassLoader, Class<SPI>) - Static method in class net.sourceforge.fluxion.spi.utils.SPIUtils
Get a Set of all providers present in the specified class loader for the given SPI.
getSessionID(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.SessionUtilsBean
 
getSessionId() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
getSessionManager() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatRenderletManager
 
getSessionManager(HttpSession) - Static method in class net.sourceforge.fluxion.pussycat.spring.util.PussycatSessionUtils
 
getSourceColours() - Method in class net.sourceforge.fluxion.runcible.graph.mapping.MappingManager
 
getSourceGraph(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.RuncibleFlexGraphBean
 
getSourceGraph() - Method in class net.sourceforge.fluxion.runcible.graph.mapping.MappingManager
Sets the URL that is the location for the ontology we're using in this mapping.
getSourceMap() - Method in class net.sourceforge.fluxion.pussycat.svg.MappingHit
 
getSourceMarker() - Method in class net.sourceforge.fluxion.pussycat.svg.MappingHit
 
getSourceNodesMappedToTargetNode(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.MappingManagerUtilsBean
 
getSourceOntology() - Method in class net.sourceforge.fluxion.runcible.graph.mapping.MappingManager
 
getSourceOntologyURI() - Method in class net.sourceforge.fluxion.runcible.impl.MappingImpl
 
getSourceOntologyURI() - Method in interface net.sourceforge.fluxion.runcible.Mapping
Get the URI of the source ontology.
getSourceOwlClassesAsList(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.OWLUtilsBean
 
getSourceOwlDataPropertiesAsList(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.OWLUtilsBean
 
getSourceOwlObjectPropertiesAsList(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.OWLUtilsBean
 
getSourceOwlPropertiesAsList(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.OWLUtilsBean
 
getSpecificClassDataProperties(Reasoner, OWLOntology, OWLClass) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getSpecificClassObjectProperties(Reasoner, OWLOntology, OWLClass) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getSpiManager() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
getStart() - Method in class net.sourceforge.fluxion.pussycat.util.PussycatMarker
 
getStartTime() - Method in class net.sourceforge.fluxion.pussycat.util.ReasonerProgressMonitor
 
getSubjectColour() - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
getSupportedAnnotationTypes() - Method in class net.sourceforge.fluxion.spi.SpiProcessor
 
getSupportedOptions() - Method in class net.sourceforge.fluxion.spi.SpiProcessor
 
getSVG() - Method in class net.sourceforge.fluxion.pussycat.svg.CircularLinkMap
 
getSVGMapOfType(Reasoner, OWLOntology, OWLIndividual) - Static method in class net.sourceforge.fluxion.pussycat.svg.SVGUtils
 
getTableNameAnn() - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanConfig
 
getTailingEdges(Node) - Method in class net.sourceforge.fluxion.graph.AbstractGraph
 
getTailingEdges(Node) - Method in interface net.sourceforge.fluxion.graph.Graph
Returns the set of edges which lead out of the given node.
getTailNode() - Method in class net.sourceforge.fluxion.graph.AbstractEdge
 
getTailNode() - Method in interface net.sourceforge.fluxion.graph.Edge
Return the Node at the tail of this Edge.
getTailNodeName() - Method in interface net.sourceforge.fluxion.graph.view.EdgeView
 
getTailNodeName() - Method in class net.sourceforge.fluxion.runcible.graph.view.DotEdgeView
 
getTailNodeName() - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexEdgeView
 
getTargetColours() - Method in class net.sourceforge.fluxion.runcible.graph.mapping.MappingManager
 
getTargetGraph(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.RuncibleFlexGraphBean
 
getTargetGraph() - Method in class net.sourceforge.fluxion.runcible.graph.mapping.MappingManager
 
getTargetMap() - Method in class net.sourceforge.fluxion.pussycat.svg.MappingHit
 
getTargetMarker() - Method in class net.sourceforge.fluxion.pussycat.svg.MappingHit
 
getTargetNodesMappedToSourceNode(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.MappingManagerUtilsBean
 
getTargetOntology() - Method in class net.sourceforge.fluxion.runcible.graph.mapping.MappingManager
 
getTargetOntologyURI() - Method in class net.sourceforge.fluxion.runcible.impl.MappingImpl
 
getTargetOntologyURI() - Method in interface net.sourceforge.fluxion.runcible.Mapping
Get the URI of the target ontology.
getTargetOwlClassesAsList(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.OWLUtilsBean
 
getTargetOwlDataPropertiesAsList(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.OWLUtilsBean
 
getTargetOwlObjectPropertiesAsList(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.OWLUtilsBean
 
getTargetOwlPropertiesAsList(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.OWLUtilsBean
 
getTime() - Method in class net.sourceforge.fluxion.graph.listener.GraphChangeEvent
 
getTransactionID() - Method in class net.sourceforge.fluxion.runcible.io.command.Transaction
 
getTransactionIsolation() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
getTypeMap() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
getUnderlyingDataSourceURI() - Method in class net.sourceforge.fluxion.spring.QueryTransformerConfiguration
Return the URI of the underlying data source for this configuration
getUpdatedRenderlet() - Method in class net.sourceforge.fluxion.pussycat.renderlets.RenderletUpdateEvent
 
getUpServiceURLs() - Method in class net.sourceforge.fluxion.pussycat.FluxionServiceClient
 
getURI() - Method in interface net.sourceforge.fluxion.api.DataSource
The URI of this datasource.
getURI() - Method in class net.sourceforge.fluxion.datasource.impl.BeanModelDataSource
 
getURI() - Method in class net.sourceforge.fluxion.datasource.impl.OWLFileDataSource
 
getURI() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
getURI() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
getURI() - Method in class net.sourceforge.fluxion.pussycat.util.PussycatMarker
 
getURI() - Method in class net.sourceforge.fluxion.spring.OntologyURIPair
Get the URI
getUserLevel() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
getUserLevel() - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatUtils
 
getUserRenderlets() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatRenderletManager
 
getUserRenderlets(Class<?>, RenderletType) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatRenderletManager
 
getUserRenderlets() - Method in interface net.sourceforge.fluxion.pussycat.renderlets.RenderletManager
 
getValue() - Method in class net.sourceforge.fluxion.datasource.filter.impl.ExactValue
 
getValue() - Method in class net.sourceforge.fluxion.datasource.filter.impl.GreaterThan
 
getValue() - Method in class net.sourceforge.fluxion.datasource.filter.impl.LessThan
 
getValueOf() - Method in class net.sourceforge.fluxion.runcible.impl.DataConstantAssertion
 
getValueOf() - Method in class net.sourceforge.fluxion.runcible.impl.DataValueAssertion
 
getValueOf() - Method in class net.sourceforge.fluxion.runcible.impl.ObjectValueAssertion
 
getValues() - Method in class net.sourceforge.fluxion.datasource.filter.impl.And
 
getValues() - Method in class net.sourceforge.fluxion.datasource.filter.impl.Or
 
getValueToSet() - Method in class net.sourceforge.fluxion.runcible.impl.DataConstantAssertion
 
getValueToSet() - Method in class net.sourceforge.fluxion.runcible.impl.DataValueAssertion
 
getValueToSet() - Method in class net.sourceforge.fluxion.runcible.impl.ObjectValueAssertion
 
getVariableID() - Method in interface net.sourceforge.fluxion.runcible.DataClause
 
getVariableID() - Method in class net.sourceforge.fluxion.runcible.impl.DataClauseImpl
 
getVariableID() - Method in class net.sourceforge.fluxion.runcible.impl.Forall
 
getWarnings() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
getXOffset() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatMarkerEntity
 
getXOffset() - Method in class net.sourceforge.fluxion.pussycat.svg.CircularLinkMap
 
getXOffset() - Method in class net.sourceforge.fluxion.pussycat.svg.ConceptGlyph
 
getXOffset() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
getXOffset() - Method in interface net.sourceforge.fluxion.pussycat.svg.PussycatMap
 
getXOffset() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
getXRefsFor(Reasoner, OWLOntology, OWLIndividual) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
getYOffset() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatMarkerEntity
 
getYOffset() - Method in class net.sourceforge.fluxion.pussycat.svg.CircularLinkMap
 
getYOffset() - Method in class net.sourceforge.fluxion.pussycat.svg.ConceptGlyph
 
getYOffset() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
getYOffset() - Method in interface net.sourceforge.fluxion.pussycat.svg.PussycatMap
 
getYOffset() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
getZipFile() - Method in class net.sourceforge.fluxion.pussycat.util.JarPlugin
Gets the zipFile attribute of the JarPlugin object
Graph - Interface in net.sourceforge.fluxion.graph
A graph structure to represent an underlying object model.
graphChanged(GraphChangeEvent) - Method in interface net.sourceforge.fluxion.graph.listener.GraphListener
Should be called whenever the structure of the graph is changed.
GraphChangeEvent - Class in net.sourceforge.fluxion.graph.listener
Javadocs go here.
GraphChangeEvent(int, Graph, long) - Constructor for class net.sourceforge.fluxion.graph.listener.GraphChangeEvent
 
GraphChangeFactory - Class in net.sourceforge.fluxion.runcible.graph.command.manager
Javadocs go here.
GraphChangeFactory(ChangeInvoker) - Constructor for class net.sourceforge.fluxion.runcible.graph.command.manager.GraphChangeFactory
 
GraphFactory - Interface in net.sourceforge.fluxion.graph.factory
Javadocs go here.
GraphListener - Interface in net.sourceforge.fluxion.graph.listener
A Listener for Graphs.
GraphView - Interface in net.sourceforge.fluxion.graph.view
Javadocs go here.
GraphViewFactory - Interface in net.sourceforge.fluxion.graph.view.factory
An interface designed for easily generating a view over a Graph.
GraphViewRenderer - Interface in net.sourceforge.fluxion.graph.view.renderer
A Renderer for drawing a GraphView to the screen.
GraphVisitor - Interface in net.sourceforge.fluxion.graph.visitor
A visitor interface for visiting a Graph.
GreaterThan<N extends java.lang.Number> - Class in net.sourceforge.fluxion.datasource.filter.impl
A Filter that accepts values greater than a given number.
GreaterThan(N) - Constructor for class net.sourceforge.fluxion.datasource.filter.impl.GreaterThan
 
GREENS - Static variable in class net.sourceforge.fluxion.graph.ColorSchemes
 

H

handle(Object, HttpServletRequest, HttpServletResponse) - Method in interface net.sourceforge.fluxion.ajax.handler.AjaxHandler
 
handle(Object, HttpServletRequest, HttpServletResponse) - Method in class net.sourceforge.fluxion.ajax.handler.impl.AjaxHandlerImpl
 
handleFileUpload(HttpServletRequest, String) - Static method in class net.sourceforge.fluxion.ajax.beans.util.FileUploader
 
handleFileUpload(HttpServletRequest, File) - Static method in class net.sourceforge.fluxion.ajax.beans.util.FileUploader
 
handleRequestInternal(HttpServletRequest, HttpServletResponse) - Method in class net.sourceforge.fluxion.ajax.controller.AjaxController
 
handleRequestInternal(HttpServletRequest, HttpServletResponse) - Method in class net.sourceforge.fluxion.pussycat.spring.controller.FileUploadController
 
handleRequestInternal(HttpServletRequest, HttpServletResponse) - Method in class net.sourceforge.fluxion.pussycat.spring.controller.PussycatController
 
handleRequestInternal(HttpServletRequest, HttpServletResponse) - Method in class net.sourceforge.fluxion.pussycat.spring.controller.PussycatServiceController
 
hasExpired() - Method in class net.sourceforge.fluxion.utils.ReasonerSession
Check whether this ReasonerSession has expired.
hasMoreResults() - Method in class net.sourceforge.fluxion.datapublisher.biomart.impl.BiomartQuery
 
hasMoreResults() - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLQuery
 
hasMoreResults() - Method in interface net.sourceforge.fluxion.datasource.query.Query
True if there are more results, false otherwise
hasNext() - Method in class net.sourceforge.fluxion.runcible.impl.InPlace
 
hasNext() - Method in class net.sourceforge.fluxion.runcible.impl.RootAt
 
hasNext() - Method in class net.sourceforge.fluxion.runcible.impl.SelectIndividualValue
 
hasNext() - Method in interface net.sourceforge.fluxion.runcible.IndividualSelection
 
HelpMojo - Class in net.sourceforge.fluxion.maven.plugins
Display help information on maven-datasource-plugin.
Call
HelpMojo() - Constructor for class net.sourceforge.fluxion.maven.plugins.HelpMojo
 
HistoryArrayList<E> - Class in net.sourceforge.fluxion.pussycat.util
 
HistoryArrayList() - Constructor for class net.sourceforge.fluxion.pussycat.util.HistoryArrayList
 
hotloadArtifact(File) - Method in class net.sourceforge.fluxion.spi.SPIManager
Add a new Maven artifact from a jar file.
hotloadArtifact(String, String, String) - Method in class net.sourceforge.fluxion.spi.SPIManager
Add a new artifact from one of the cofigured repositories.

I

id - Variable in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
IllegalRuncibleOperationException - Exception in net.sourceforge.fluxion.runcible.io.command.exception
Javadocs go here.
IllegalRuncibleOperationException() - Constructor for exception net.sourceforge.fluxion.runcible.io.command.exception.IllegalRuncibleOperationException
 
IllegalRuncibleOperationException(Throwable) - Constructor for exception net.sourceforge.fluxion.runcible.io.command.exception.IllegalRuncibleOperationException
 
IllegalRuncibleOperationException(String) - Constructor for exception net.sourceforge.fluxion.runcible.io.command.exception.IllegalRuncibleOperationException
 
IllegalRuncibleOperationException(String, Throwable) - Constructor for exception net.sourceforge.fluxion.runcible.io.command.exception.IllegalRuncibleOperationException
 
IndirectClassHierarchyEntity - Class in net.sourceforge.fluxion.pussycat.entity.impl
The IndirectClassHierarchyEntity class Defines a class hierarchy html widget that can be drawn by Pussycat
IndirectClassHierarchyEntity(Reasoner, OWLOntology) - Constructor for class net.sourceforge.fluxion.pussycat.entity.impl.IndirectClassHierarchyEntity
 
IndividualNode - Class in net.sourceforge.fluxion.runcible.graph
A node within the target ontology, which is used to assert that a set of individuals must exist.
IndividualNode() - Constructor for class net.sourceforge.fluxion.runcible.graph.IndividualNode
 
IndividualSelection - Interface in net.sourceforge.fluxion.runcible
Javadocs go here.
IndividualViewRenderlet - Class in net.sourceforge.fluxion.pussycat.renderlets.impl
A renderlet that simply renders the string "Hello World!".
IndividualViewRenderlet() - Constructor for class net.sourceforge.fluxion.pussycat.renderlets.impl.IndividualViewRenderlet
 
IndividualViewRenderletProvider - Class in net.sourceforge.fluxion.pussycat.renderlets.impl
Makes IndividualViewRenderlet discoverable by SPI.
IndividualViewRenderletProvider() - Constructor for class net.sourceforge.fluxion.pussycat.renderlets.impl.IndividualViewRenderletProvider
 
inferExposedSchema(QueryTransformerConfiguration) - Method in interface net.sourceforge.fluxion.spring.QueryTransformer
Called after properties have been set on the QueryTransformingFluxionService, return the OWL ontology representing the exposed schema for this configuration.
init(RenderletNexus) - Method in interface net.sourceforge.fluxion.pussycat.renderlets.Renderlet
 
init(RenderletNexus) - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
init() - Method in class net.sourceforge.fluxion.pussycat.spring.service.RenderletHotloaderService
 
init() - Method in class net.sourceforge.fluxion.spi.SPIManager
Initialise the SPIManager.
initialize(Object, Object, Object) - Method in interface net.sourceforge.fluxion.pussycat.renderlets.TripleParamService
 
InPlace - Class in net.sourceforge.fluxion.runcible.impl
Javadocs go here.
InPlace() - Constructor for class net.sourceforge.fluxion.runcible.impl.InPlace
 
instantiate(String) - Method in class net.sourceforge.fluxion.pussycat.util.JarClassLoader
Description of the Method
integrate(Reasoner, OWLOntology, PussycatMap, Set<PussycatMap>) - Static method in class net.sourceforge.fluxion.pussycat.svg.MapUtils
 
inUse() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
InvalidXMLException - Exception in net.sourceforge.fluxion.runcible.io
Javadocs go here.
InvalidXMLException() - Constructor for exception net.sourceforge.fluxion.runcible.io.InvalidXMLException
 
InvalidXMLException(String) - Constructor for exception net.sourceforge.fluxion.runcible.io.InvalidXMLException
 
InvalidXMLException(String, Throwable) - Constructor for exception net.sourceforge.fluxion.runcible.io.InvalidXMLException
 
InvalidXMLException(Throwable) - Constructor for exception net.sourceforge.fluxion.runcible.io.InvalidXMLException
 
invokeClass(String, String[]) - Method in class net.sourceforge.fluxion.pussycat.util.JarClassLoader
Invokes the application in this jar file given the name of the main class and an array of arguments.
invokeClass(String, String, String[]) - Method in class net.sourceforge.fluxion.pussycat.util.JarClassLoader
Description of the Method
invokeInternal(Element) - Method in class net.sourceforge.fluxion.spring.endpoint.GetDataSourcesEndpoint
 
invokeInternal(Element) - Method in class net.sourceforge.fluxion.spring.endpoint.GetReasonerLevelEndpoint
 
invokeInternal(Element) - Method in class net.sourceforge.fluxion.spring.endpoint.GetSchemaEndpoint
 
invokeInternal(Element) - Method in class net.sourceforge.fluxion.spring.endpoint.QueryEndpoint
 
isActive(OWLOntology) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
IsAEdge - Class in net.sourceforge.fluxion.runcible.graph
An edge which represents an "is_a" relationship between two nodes.
IsAEdge() - Constructor for class net.sourceforge.fluxion.runcible.graph.IsAEdge
 
isAutoCreateBrowserTab() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
isAutoFullEntityCaching() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
isAutoReasoning() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
isBeanClass(OWLClass, OWLOntology) - Static method in class net.sourceforge.fluxion.datasource.utils.BeanUtils
Checks whether the passed class has a "RelatedBean" annotation.
isBeanMethod(OWLProperty, OWLOntology) - Static method in class net.sourceforge.fluxion.datasource.utils.BeanUtils
Checks whether the given property has a "relatedMethod" annotation attached
isCanceled() - Method in class net.sourceforge.fluxion.pussycat.util.ReasonerProgressMonitor
 
isClosed() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
isCollapsed() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
isCollapsed() - Method in interface net.sourceforge.fluxion.pussycat.svg.PussycatMap
 
isCollapsed() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
isDbmsFor(String) - Method in enum net.sourceforge.fluxion.maven.plugins.DBMSBindings
 
isDbmsFor(String) - Method in enum org.comparagrid.fluxion.plugins.PublisherMojo.Dbms
 
isDirectTree() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatClassHierarchyEntity
 
isDockable() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.DirectClassHierarchyEntity
 
isDockable() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.IndirectClassHierarchyEntity
 
isDockable() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatClassHierarchyEntity
 
isDockable() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatEntityListEntity
 
isDockable() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatLayoutListEntity
 
isDockable() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatMarkerEntity
 
isDockable() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatOntologySummaryEntity
 
isDockable() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatRenderletListEntity
 
isDockable() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatResourceViewEntity
 
isDockable() - Method in interface net.sourceforge.fluxion.pussycat.entity.RenderableInPussycat
 
isDockable() - Method in class net.sourceforge.fluxion.pussycat.svg.ConceptGlyph
 
isDockable() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
isDockable() - Method in class net.sourceforge.fluxion.pussycat.svg.PussycatMappingHitEntity
 
isDockable() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
isDockable() - Method in class net.sourceforge.fluxion.pussycat.svg.VertSVGMap
 
isDocked() - Method in class net.sourceforge.fluxion.pussycat.entity.AbstractDockable
 
isDocked() - Method in interface net.sourceforge.fluxion.pussycat.entity.DockableInPussycat
 
isFinished() - Method in class net.sourceforge.fluxion.ajax.beans.util.ProcessListener
 
isInteresting(ReasonerSession, OWLOntology, OWLRestriction, OWLRestriction) - Static method in class net.sourceforge.fluxion.utils.OWLUtils
Discover whether a query class restriction is "interesting" with respect to the target restriction.
isLeased() - Method in class net.sourceforge.fluxion.utils.ReasonerSession
Check if this ReasonerSession is leased
isLocalURL(String) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatUtils
 
isMap(Reasoner, OWLOntology, OWLIndividual) - Static method in class net.sourceforge.fluxion.pussycat.svg.SVGUtils
 
isMapContainer(Reasoner, OWLOntology, OWLIndividual) - Static method in class net.sourceforge.fluxion.pussycat.svg.MapUtils
 
isMinimised() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
isMinimised() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
isNamedObjectAnEntity(OWLNamedObject) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
isReadOnly() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
isReasonerListenForOntologyChanges() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
isSearchPreCaching() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
isSelfUpdatable() - Method in interface net.sourceforge.fluxion.pussycat.renderlets.Renderlet
 
isSelfUpdatable() - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
isSingleton() - Method in class net.sourceforge.fluxion.spring.OntologyFactoryBean
Factory method is a singleton
isStarted() - Method in class net.sourceforge.fluxion.ajax.beans.util.ProcessListener
 
isType(String) - Method in enum net.sourceforge.fluxion.datapublisher.mysql.impl.MySQLBeanFactory.DataType
Returns true if this DataType is of a type which matches the type given by the sqlType name.
isType(String) - Method in enum net.sourceforge.fluxion.datapublisher.odbc.impl.ODBCBeanFactory.DataType
 
isType(String) - Method in enum net.sourceforge.fluxion.datapublisher.postgresql.impl.PostgresqlBeanFactory.DataType
 
isUp(HttpURLConnection) - Method in class net.sourceforge.fluxion.pussycat.FluxionServiceClient
 
isUpdating() - Method in interface net.sourceforge.fluxion.pussycat.renderlets.Renderlet
 
isUpdating() - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
isUriResolvable(URI) - Static method in class net.sourceforge.fluxion.beans.utils.ResourceUtils
 
isValid(int) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
isWrapperFor(Class<?>) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 

J

JarClassLoader - Class in net.sourceforge.fluxion.pussycat.util
A class loader for loading jar files, both local and remote.
JarClassLoader(URL) - Constructor for class net.sourceforge.fluxion.pussycat.util.JarClassLoader
Creates a new JarClassLoader for the specified url.
JarClassLoader(String) - Constructor for class net.sourceforge.fluxion.pussycat.util.JarClassLoader
Creates a new JarClassLoader for the specified string which is then converted to a URL.
jarFilter - Class in net.sourceforge.fluxion.pussycat.util
 
jarFilter() - Constructor for class net.sourceforge.fluxion.pussycat.util.jarFilter
 
JarPlugin - Class in net.sourceforge.fluxion.pussycat.util
A class for representing a plugin
JarPlugin(String, JarClassLoader) - Constructor for class net.sourceforge.fluxion.pussycat.util.JarPlugin
Creates a new JarClassLoader for the specified url.
Join<T> - Class in net.sourceforge.fluxion.datasource.filter.impl
A Filter that joins on to another Filter, allowing queries across two different beans.
Join(Filter, Method) - Constructor for class net.sourceforge.fluxion.datasource.filter.impl.Join
 
JSONDoOnSuccessObject(String...) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatJSONUtils
 
JSONObjectResponse(String) - Static method in class net.sourceforge.fluxion.ajax.util.JSONUtils
Deprecated. 
JSONObjectResponse(String, String) - Static method in class net.sourceforge.fluxion.ajax.util.JSONUtils
 
JSONObjectResponse(Map<String, String>) - Static method in class net.sourceforge.fluxion.ajax.util.JSONUtils
 
JSONObjectResponse(JSONObject...) - Static method in class net.sourceforge.fluxion.ajax.util.JSONUtils
 
JSONRenderletUpdateObject(String, String) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatJSONUtils
 
JSONRenderletUpdateObject(String) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatJSONUtils
 
JSONUtils - Class in net.sourceforge.fluxion.ajax.util
A utils class for working with JSON objects in an AJAX context
JSONUtils() - Constructor for class net.sourceforge.fluxion.ajax.util.JSONUtils
 

K

keep(ReasonerSession, OWLOntology, OWLDescription) - Static method in class net.sourceforge.fluxion.utils.OWLUtils
Retains any restrictions that are relevant for a given OWL class.
keep(ReasonerSession, OWLOntology, OWLDescription, OWLProperty) - Static method in class net.sourceforge.fluxion.utils.OWLUtils
Retains any restrictions on the given owlClass which are pertinent to the given owlProperty.
key() - Method in enum net.sourceforge.fluxion.beans.RuncibleConstants
 

L

lastLeased() - Method in class net.sourceforge.fluxion.utils.ReasonerSession
The time (in milliseconds) that this reasoner was last leased in the connection pool
lease() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
leaseSession(int) - Method in class net.sourceforge.fluxion.utils.ReasonerSession
Acquire a ReasonerSession, if one becomes available within the given waiting time.
leaseSession() - Method in class net.sourceforge.fluxion.utils.ReasonerSession
Acquire a ReasonerSession.
LessThan<N extends java.lang.Number> - Class in net.sourceforge.fluxion.datasource.filter.impl
A Filter that accepts values less than a given number.
LessThan(N) - Constructor for class net.sourceforge.fluxion.datasource.filter.impl.LessThan
 
LineBreak - Enum in net.sourceforge.fluxion.ajax.beans.util
Created by IntelliJ IDEA.
linkFor(OWLNamedObject) - Method in interface net.sourceforge.fluxion.pussycat.util.PussycatLinker
 
LoadedOntologyListRenderlet - Class in net.sourceforge.fluxion.pussycat.renderlets.impl
 
LoadedOntologyListRenderlet() - Constructor for class net.sourceforge.fluxion.pussycat.renderlets.impl.LoadedOntologyListRenderlet
 
LoadedOntologyListRenderletProvider - Class in net.sourceforge.fluxion.pussycat.renderlets.impl
 
LoadedOntologyListRenderletProvider() - Constructor for class net.sourceforge.fluxion.pussycat.renderlets.impl.LoadedOntologyListRenderletProvider
 
loadMapping(URL) - Method in class net.sourceforge.fluxion.runcible.graph.mapping.MappingManager
Load a mapping from a mapping document.
loadOntology(URI) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
loadOntologyFromUrl(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.SessionManagementService
 
loadPelletReasoner(OWLOntologyManager, OWLOntology) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
loadPelletReasoner(OWLOntologyManager, Set<OWLOntology>) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
loadSchemaFromPublisher(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.FluxionServiceManagementService
 
loadSourceDatasource(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.ServiceUtilsBean
 
loadTargetDatasource(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.ServiceUtilsBean
 
LoggedJSONResponse(String, String) - Static method in class net.sourceforge.fluxion.ajax.util.JSONUtils
 
lookup(URI) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatEntityCacheManager
 
lookupFilter() - Method in class net.sourceforge.fluxion.pussycat.util.PussycatOntologySearcher
 
lookupNodeByFlexNodeName(String, Graph) - Static method in class net.sourceforge.fluxion.runcible.graph.view.utils.FlexElementUtils
 
lookupNodeByNodeName(String, Graph) - Static method in class net.sourceforge.fluxion.runcible.graph.view.utils.SVGElementUtils
 
lookupNodeBySVGElementName(String, Graph) - Static method in class net.sourceforge.fluxion.runcible.graph.view.utils.SVGElementUtils
 
lookupObject(String) - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.AvailablePublishersListRenderlet
 
lookupObject(String) - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.DefaultClassHierarchyRenderlet
 
lookupObject(String) - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.DirectClassHierarchyRenderlet
 
lookupObject(String) - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.IndividualViewRenderlet
 
lookupObject(String) - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.LoadedOntologyListRenderlet
 
lookupObject(String) - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.OntologySummaryRenderlet
 
lookupObject(String) - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.PizzaOntologyRenderlet
 
lookupObject(String) - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.RenderletListRenderlet
 
lookupObject(String) - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.ResourceViewRenderlet
 
lookupObject(String) - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.SparqlQueryRenderlet
 
lookupObject(String) - Method in interface net.sourceforge.fluxion.pussycat.renderlets.Renderlet
 
lookupOWLDataValue(OWLOntology, URI, String) - Static method in class net.sourceforge.fluxion.pussycat.PussycatQueryBuilder
 
lookupOWLEntity(OWLOntology, URI) - Static method in class net.sourceforge.fluxion.pussycat.PussycatQueryBuilder
 
lookupOWLObjectValue(OWLOntology, String) - Static method in class net.sourceforge.fluxion.pussycat.PussycatQueryBuilder
 
lookupRenderletById(String) - Method in class net.sourceforge.fluxion.pussycat.container.PussycatRenderletContainer
 
lookupRenderletByName(String) - Method in class net.sourceforge.fluxion.pussycat.container.PussycatRenderletContainer
 
lookupSVGElementByNodeName(String, Document) - Static method in class net.sourceforge.fluxion.runcible.graph.view.utils.SVGElementUtils
 
lookupSVGElementbySVGElementName(String, Document) - Static method in class net.sourceforge.fluxion.runcible.graph.view.utils.SVGElementUtils
 

M

make(Class<?>, RenderletType, RenderletManager) - Method in class net.sourceforge.fluxion.pussycat.renderlets.AbstractRenderletProvider
 
make(Param1, Param2, Param3) - Method in interface net.sourceforge.fluxion.pussycat.renderlets.TripleParamFactory
Attempt to make a new instance.
makeExportedObjectPropertyMethods(BeanConfig, String, Map<String, String>, boolean, boolean) - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLBeanFactory
 
makeImportedObjectPropertyMethods(BeanConfig, String, Map<String, String>, boolean, boolean) - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLBeanFactory
 
makeQueryInstance(Class<F>, Filter, String, String, String) - Method in class net.sourceforge.fluxion.datapublisher.mysql.impl.MySQLQueryFactory
 
makeQueryInstance(Class<F>, Filter, String, String, String) - Method in class net.sourceforge.fluxion.datapublisher.odbc.impl.ODBCQueryFactory
 
makeQueryInstance(Class<F>, Filter, String, String, String) - Method in class net.sourceforge.fluxion.datapublisher.postgresql.impl.PostgresqlQueryFactory
 
makeQueryInstance(Class<F>, Filter, String, String, String) - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLQueryFactory
Instantiate a new query instance from the parameters given.
makeRenderlet(RenderletManager) - Method in class net.sourceforge.fluxion.pussycat.renderlets.AbstractRenderletProvider
 
makeRenderlet(RenderletManager) - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.AvailablePublishersListRenderletProvider
 
makeRenderlet(RenderletManager) - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.DefaultClassHierarchyRenderletProvider
 
makeRenderlet(RenderletManager) - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.DirectClassHierarchyRenderletProvider
 
makeRenderlet(RenderletManager) - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.IndividualViewRenderletProvider
 
makeRenderlet(RenderletManager) - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.LoadedOntologyListRenderletProvider
 
makeRenderlet(RenderletManager) - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.OntologySummaryRenderletProvider
 
makeRenderlet(RenderletManager) - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.PizzaOntologyRenderletProvider
 
makeRenderlet(RenderletManager) - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.RenderletListRenderletProvider
 
makeRenderlet(RenderletManager) - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.ResourceViewRenderletProvider
 
makeRenderlet(RenderletManager) - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.SparqlQueryRenderletProvider
 
mapNodes(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.MappingManagerUtilsBean
 
Mapping - Interface in net.sourceforge.fluxion.runcible
The interface that defines what a runcible mapping looks like.
mappingChanged() - Method in interface net.sourceforge.fluxion.runcible.listener.MappingListener
Should be called whenever a new rule is created, or the Mapping is changed in some other way.
MappingCreationCommand - Class in net.sourceforge.fluxion.runcible.graph.command
Javadocs go here.
MappingCreationCommand(MappingNode, MappingNode) - Constructor for class net.sourceforge.fluxion.runcible.graph.command.MappingCreationCommand
 
MappingHit - Class in net.sourceforge.fluxion.pussycat.svg
The MappingHit class Data object for mapping hits between maps
MappingHit(PussycatMap, PussycatMarkerEntity, PussycatMap, PussycatMarkerEntity, OWLDescription, URI) - Constructor for class net.sourceforge.fluxion.pussycat.svg.MappingHit
 
MappingImpl - Class in net.sourceforge.fluxion.runcible.impl
Javadocs go here.
MappingImpl() - Constructor for class net.sourceforge.fluxion.runcible.impl.MappingImpl
 
MappingListener - Interface in net.sourceforge.fluxion.runcible.listener
A listener that will fire notification events whenever the Mapping it is registered to changes..
MappingLoadException - Exception in net.sourceforge.fluxion.runcible.graph.mapping
Javadocs go here.
MappingLoadException() - Constructor for exception net.sourceforge.fluxion.runcible.graph.mapping.MappingLoadException
 
MappingLoadException(String) - Constructor for exception net.sourceforge.fluxion.runcible.graph.mapping.MappingLoadException
 
MappingLoadException(String, Throwable) - Constructor for exception net.sourceforge.fluxion.runcible.graph.mapping.MappingLoadException
 
MappingManager - Class in net.sourceforge.fluxion.runcible.graph.mapping
Javadocs go here.
MappingManager() - Constructor for class net.sourceforge.fluxion.runcible.graph.mapping.MappingManager
 
MappingManagerUtilsBean - Class in net.sourceforge.fluxion.beans
Created by IntelliJ IDEA.
MappingManagerUtilsBean() - Constructor for class net.sourceforge.fluxion.beans.MappingManagerUtilsBean
 
MappingNode - Interface in net.sourceforge.fluxion.runcible.graph
A specific type of Node that retains a mapping reference to another Node.
MapUtils - Class in net.sourceforge.fluxion.pussycat.svg
 
MavenUtils - Class in net.sourceforge.fluxion.spi.utils
A general utilities class for doing common operations required for interaction with the Maven build system.
MavenUtils() - Constructor for class net.sourceforge.fluxion.spi.utils.MavenUtils
 
MemberOfNode - Class in net.sourceforge.fluxion.runcible.graph
A node which represents members of a known class in the source ontology.
MemberOfNode() - Constructor for class net.sourceforge.fluxion.runcible.graph.MemberOfNode
 
MessageElementHandler - Class in net.sourceforge.fluxion.spring.endpoint.xml
XML handling code to interpret and construct the service message elements, basically a library of static methods used by the endpoints and by the ws client.
MessageElementHandler() - Constructor for class net.sourceforge.fluxion.spring.endpoint.xml.MessageElementHandler
 
metaBeans - Variable in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLBeanFactory
 
MetaOWLClass - Annotation Type in net.sourceforge.fluxion.annotations
OWL class annotation.
MetaOWLProperty - Annotation Type in net.sourceforge.fluxion.annotations
OWL property annotation.
MissingElementException - Exception in net.sourceforge.fluxion.utils
Thrown whenever an element that is expected to be found is missing.
MissingElementException() - Constructor for exception net.sourceforge.fluxion.utils.MissingElementException
 
MissingElementException(String) - Constructor for exception net.sourceforge.fluxion.utils.MissingElementException
 
MissingElementException(String, Throwable) - Constructor for exception net.sourceforge.fluxion.utils.MissingElementException
 
MissingElementException(Throwable) - Constructor for exception net.sourceforge.fluxion.utils.MissingElementException
 
MODEL_CONTAINER - Static variable in class net.sourceforge.fluxion.pussycat.util.PussycatOWLConstants
 
MODEL_MAP - Static variable in class net.sourceforge.fluxion.pussycat.util.PussycatOWLConstants
 
MODEL_REGION_MAP - Static variable in class net.sourceforge.fluxion.pussycat.util.PussycatOWLConstants
 
MODEL_SECTION - Static variable in class net.sourceforge.fluxion.pussycat.util.PussycatOWLConstants
 
MODEL_WHOLE_MAP - Static variable in class net.sourceforge.fluxion.pussycat.util.PussycatOWLConstants
 
ModelMap - Class in net.sourceforge.fluxion.pussycat.svg
The ModelMap class Defines a single backbone map, displaying a region of a defined size, capable of being zoomed
ModelMap(Reasoner, OWLOntology, OWLIndividual) - Constructor for class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
ModelRegionMap - Class in net.sourceforge.fluxion.pussycat.svg
The ModelMap class Defines a single backbone map, displaying a region of a defined size, capable of being zoomed
ModelRegionMap(Reasoner, OWLOntology, OWLIndividual) - Constructor for class net.sourceforge.fluxion.pussycat.svg.ModelRegionMap
 
ModelWholeMap - Class in net.sourceforge.fluxion.pussycat.svg
The ModelMap class Defines a single backbone map, displaying a region of a defined size, capable of being zoomed
ModelWholeMap(Reasoner, OWLOntology, OWLIndividual) - Constructor for class net.sourceforge.fluxion.pussycat.svg.ModelWholeMap
 
MySQLBeanFactory - Class in net.sourceforge.fluxion.datapublisher.mysql.impl
An implementation of BeanFactory that generates beans from an SQL datasource connection.
MySQLBeanFactory() - Constructor for class net.sourceforge.fluxion.datapublisher.mysql.impl.MySQLBeanFactory
 
MySQLBeanFactory.DataType - Enum in net.sourceforge.fluxion.datapublisher.mysql.impl
Contains mappings of the java datatypes to all types available in the MySQL format
MySQLQuery<T> - Class in net.sourceforge.fluxion.datapublisher.mysql.impl
Models a query against a MySQL bean.
MySQLQuery(Class<T>, Filter, String, String, String) - Constructor for class net.sourceforge.fluxion.datapublisher.mysql.impl.MySQLQuery
 
MySQLQueryFactory - Class in net.sourceforge.fluxion.datapublisher.mysql.impl
Generates a Query that can be executed against a MySQL database.
MySQLQueryFactory(String, String, String) - Constructor for class net.sourceforge.fluxion.datapublisher.mysql.impl.MySQLQueryFactory
 

N

nameLinker() - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatLinkerFactory
 
nativeSQL(String) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
NestedEdge - Class in net.sourceforge.fluxion.runcible.graph
An edge which represents a nested relationship beneath a node.
NestedEdge() - Constructor for class net.sourceforge.fluxion.runcible.graph.NestedEdge
 
nestSelection(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.RuncibleFlexGraphCommandBean
 
net.sourceforge.fluxion.ajax - package net.sourceforge.fluxion.ajax
 
net.sourceforge.fluxion.ajax.beans - package net.sourceforge.fluxion.ajax.beans
 
net.sourceforge.fluxion.ajax.beans.util - package net.sourceforge.fluxion.ajax.beans.util
 
net.sourceforge.fluxion.ajax.controller - package net.sourceforge.fluxion.ajax.controller
 
net.sourceforge.fluxion.ajax.handler - package net.sourceforge.fluxion.ajax.handler
 
net.sourceforge.fluxion.ajax.handler.impl - package net.sourceforge.fluxion.ajax.handler.impl
 
net.sourceforge.fluxion.ajax.util - package net.sourceforge.fluxion.ajax.util
 
net.sourceforge.fluxion.annotations - package net.sourceforge.fluxion.annotations
 
net.sourceforge.fluxion.api - package net.sourceforge.fluxion.api
 
net.sourceforge.fluxion.beans - package net.sourceforge.fluxion.beans
 
net.sourceforge.fluxion.beans.exception - package net.sourceforge.fluxion.beans.exception
 
net.sourceforge.fluxion.beans.utils - package net.sourceforge.fluxion.beans.utils
 
net.sourceforge.fluxion.datapublisher - package net.sourceforge.fluxion.datapublisher
 
net.sourceforge.fluxion.datapublisher.beangen - package net.sourceforge.fluxion.datapublisher.beangen
 
net.sourceforge.fluxion.datapublisher.biomart.impl - package net.sourceforge.fluxion.datapublisher.biomart.impl
 
net.sourceforge.fluxion.datapublisher.mysql.impl - package net.sourceforge.fluxion.datapublisher.mysql.impl
 
net.sourceforge.fluxion.datapublisher.odbc.impl - package net.sourceforge.fluxion.datapublisher.odbc.impl
 
net.sourceforge.fluxion.datapublisher.owlgen - package net.sourceforge.fluxion.datapublisher.owlgen
 
net.sourceforge.fluxion.datapublisher.plugins.beangen - package net.sourceforge.fluxion.datapublisher.plugins.beangen
 
net.sourceforge.fluxion.datapublisher.plugins.owlgen - package net.sourceforge.fluxion.datapublisher.plugins.owlgen
 
net.sourceforge.fluxion.datapublisher.postgresql.impl - package net.sourceforge.fluxion.datapublisher.postgresql.impl
 
net.sourceforge.fluxion.datapublisher.sql.connection - package net.sourceforge.fluxion.datapublisher.sql.connection
 
net.sourceforge.fluxion.datapublisher.sql.impl - package net.sourceforge.fluxion.datapublisher.sql.impl
 
net.sourceforge.fluxion.datasource.filter - package net.sourceforge.fluxion.datasource.filter
 
net.sourceforge.fluxion.datasource.filter.impl - package net.sourceforge.fluxion.datasource.filter.impl
 
net.sourceforge.fluxion.datasource.impl - package net.sourceforge.fluxion.datasource.impl
 
net.sourceforge.fluxion.datasource.query - package net.sourceforge.fluxion.datasource.query
 
net.sourceforge.fluxion.datasource.utils - package net.sourceforge.fluxion.datasource.utils
 
net.sourceforge.fluxion.graph - package net.sourceforge.fluxion.graph
 
net.sourceforge.fluxion.graph.factory - package net.sourceforge.fluxion.graph.factory
 
net.sourceforge.fluxion.graph.listener - package net.sourceforge.fluxion.graph.listener
 
net.sourceforge.fluxion.graph.view - package net.sourceforge.fluxion.graph.view
 
net.sourceforge.fluxion.graph.view.factory - package net.sourceforge.fluxion.graph.view.factory
 
net.sourceforge.fluxion.graph.view.renderer - package net.sourceforge.fluxion.graph.view.renderer
 
net.sourceforge.fluxion.graph.visitor - package net.sourceforge.fluxion.graph.visitor
 
net.sourceforge.fluxion.maven.plugins - package net.sourceforge.fluxion.maven.plugins
 
net.sourceforge.fluxion.pussycat - package net.sourceforge.fluxion.pussycat
 
net.sourceforge.fluxion.pussycat.container - package net.sourceforge.fluxion.pussycat.container
 
net.sourceforge.fluxion.pussycat.entity - package net.sourceforge.fluxion.pussycat.entity
 
net.sourceforge.fluxion.pussycat.entity.impl - package net.sourceforge.fluxion.pussycat.entity.impl
 
net.sourceforge.fluxion.pussycat.manager - package net.sourceforge.fluxion.pussycat.manager
 
net.sourceforge.fluxion.pussycat.renderlets - package net.sourceforge.fluxion.pussycat.renderlets
 
net.sourceforge.fluxion.pussycat.renderlets.impl - package net.sourceforge.fluxion.pussycat.renderlets.impl
 
net.sourceforge.fluxion.pussycat.renderlets.template - package net.sourceforge.fluxion.pussycat.renderlets.template
 
net.sourceforge.fluxion.pussycat.spring - package net.sourceforge.fluxion.pussycat.spring
 
net.sourceforge.fluxion.pussycat.spring.beans - package net.sourceforge.fluxion.pussycat.spring.beans
 
net.sourceforge.fluxion.pussycat.spring.beans.client - package net.sourceforge.fluxion.pussycat.spring.beans.client
 
net.sourceforge.fluxion.pussycat.spring.controller - package net.sourceforge.fluxion.pussycat.spring.controller
 
net.sourceforge.fluxion.pussycat.spring.service - package net.sourceforge.fluxion.pussycat.spring.service
 
net.sourceforge.fluxion.pussycat.spring.service.ajaxified - package net.sourceforge.fluxion.pussycat.spring.service.ajaxified
 
net.sourceforge.fluxion.pussycat.spring.util - package net.sourceforge.fluxion.pussycat.spring.util
 
net.sourceforge.fluxion.pussycat.svg - package net.sourceforge.fluxion.pussycat.svg
 
net.sourceforge.fluxion.pussycat.util - package net.sourceforge.fluxion.pussycat.util
 
net.sourceforge.fluxion.pussycat.util.cache - package net.sourceforge.fluxion.pussycat.util.cache
 
net.sourceforge.fluxion.pussycat.util.exceptions - package net.sourceforge.fluxion.pussycat.util.exceptions
 
net.sourceforge.fluxion.pussycat.util.service - package net.sourceforge.fluxion.pussycat.util.service
 
net.sourceforge.fluxion.runcible - package net.sourceforge.fluxion.runcible
 
net.sourceforge.fluxion.runcible.graph - package net.sourceforge.fluxion.runcible.graph
 
net.sourceforge.fluxion.runcible.graph.command - package net.sourceforge.fluxion.runcible.graph.command
 
net.sourceforge.fluxion.runcible.graph.command.manager - package net.sourceforge.fluxion.runcible.graph.command.manager
 
net.sourceforge.fluxion.runcible.graph.exception - package net.sourceforge.fluxion.runcible.graph.exception
 
net.sourceforge.fluxion.runcible.graph.factory - package net.sourceforge.fluxion.runcible.graph.factory
 
net.sourceforge.fluxion.runcible.graph.manager - package net.sourceforge.fluxion.runcible.graph.manager
 
net.sourceforge.fluxion.runcible.graph.mapping - package net.sourceforge.fluxion.runcible.graph.mapping
 
net.sourceforge.fluxion.runcible.graph.popup - package net.sourceforge.fluxion.runcible.graph.popup
 
net.sourceforge.fluxion.runcible.graph.utils - package net.sourceforge.fluxion.runcible.graph.utils
 
net.sourceforge.fluxion.runcible.graph.view - package net.sourceforge.fluxion.runcible.graph.view
 
net.sourceforge.fluxion.runcible.graph.view.factory - package net.sourceforge.fluxion.runcible.graph.view.factory
 
net.sourceforge.fluxion.runcible.graph.view.renderer - package net.sourceforge.fluxion.runcible.graph.view.renderer
 
net.sourceforge.fluxion.runcible.graph.view.utils - package net.sourceforge.fluxion.runcible.graph.view.utils
 
net.sourceforge.fluxion.runcible.impl - package net.sourceforge.fluxion.runcible.impl
 
net.sourceforge.fluxion.runcible.io - package net.sourceforge.fluxion.runcible.io
 
net.sourceforge.fluxion.runcible.io.command - package net.sourceforge.fluxion.runcible.io.command
 
net.sourceforge.fluxion.runcible.io.command.exception - package net.sourceforge.fluxion.runcible.io.command.exception
 
net.sourceforge.fluxion.runcible.io.command.impl - package net.sourceforge.fluxion.runcible.io.command.impl
 
net.sourceforge.fluxion.runcible.listener - package net.sourceforge.fluxion.runcible.listener
 
net.sourceforge.fluxion.runcible.visitor - package net.sourceforge.fluxion.runcible.visitor
 
net.sourceforge.fluxion.spi - package net.sourceforge.fluxion.spi
 
net.sourceforge.fluxion.spi.exception - package net.sourceforge.fluxion.spi.exception
 
net.sourceforge.fluxion.spi.utils - package net.sourceforge.fluxion.spi.utils
 
net.sourceforge.fluxion.spring - package net.sourceforge.fluxion.spring
 
net.sourceforge.fluxion.spring.endpoint - package net.sourceforge.fluxion.spring.endpoint
 
net.sourceforge.fluxion.spring.endpoint.xml - package net.sourceforge.fluxion.spring.endpoint.xml
 
net.sourceforge.fluxion.spring.wsclient - package net.sourceforge.fluxion.spring.wsclient
 
net.sourceforge.fluxion.spring.xml - package net.sourceforge.fluxion.spring.xml
 
net.sourceforge.fluxion.utils - package net.sourceforge.fluxion.utils
 
net.sourceforge.fluxion.utils.owl - package net.sourceforge.fluxion.utils.owl
 
newInstance(OntologyGraphFactory.Type, OWLOntology) - Static method in class net.sourceforge.fluxion.runcible.graph.factory.OntologyGraphFactory
Request a new OntologyGraphFactory that will produce an OWLGraph from the given ontology and of the correct type.
newRules(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.MappingManagerUtilsBean
 
nextResult() - Method in class net.sourceforge.fluxion.datapublisher.biomart.impl.BiomartQuery
 
nextResult() - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLQuery
 
nextResult() - Method in interface net.sourceforge.fluxion.datasource.query.Query
Returns the next result in the sequence
NexusWiring - Enum in net.sourceforge.fluxion.pussycat.manager
 
NO_DIR_CODE - Static variable in class net.sourceforge.fluxion.beans.utils.OtherErrorCodes
 
NO_FILE_CODE - Static variable in class net.sourceforge.fluxion.beans.utils.OtherErrorCodes
 
Node - Interface in net.sourceforge.fluxion.graph
A Node is an object that makes up a component of a mapping graph.
NODE_ADDED - Static variable in class net.sourceforge.fluxion.graph.listener.GraphChangeEvent
 
NODE_REMOVED - Static variable in class net.sourceforge.fluxion.graph.listener.GraphChangeEvent
 
nodeAdded(GraphChangeEvent) - Method in interface net.sourceforge.fluxion.graph.listener.GraphListener
Called whenever a new node is added to the graph.
nodeRemoved(GraphChangeEvent) - Method in interface net.sourceforge.fluxion.graph.listener.GraphListener
Called whenever a node is removed from the graph.
NodeView - Interface in net.sourceforge.fluxion.graph.view
Javadocs go here.
NodeViewFactory - Interface in net.sourceforge.fluxion.graph.view.factory
An interface designed for easily generating views over Nodes.
NodeVisitor - Interface in net.sourceforge.fluxion.graph.visitor
A visitor for visiting Node objects.
None<T> - Class in net.sourceforge.fluxion.datasource.filter.impl
A Filter that accepts no values.
None() - Constructor for class net.sourceforge.fluxion.datasource.filter.impl.None
 
Nullable - Annotation Type in net.sourceforge.fluxion.annotations
A method annotation indicating that this method represents a nullable field.

O

ObjectFact - Interface in net.sourceforge.fluxion.runcible
Javadocs go here.
ObjectPropertyAnn - Annotation Type in net.sourceforge.fluxion.annotations
An annotation indicating that a method on a bean should be used to create an object property.
ObjectValueAssertion - Class in net.sourceforge.fluxion.runcible.impl
Javadocs go here.
ObjectValueAssertion() - Constructor for class net.sourceforge.fluxion.runcible.impl.ObjectValueAssertion
 
ObjectValueNode - Class in net.sourceforge.fluxion.runcible.graph
A type of node representing owl individuals at the end of an owl object property.
ObjectValueNode() - Constructor for class net.sourceforge.fluxion.runcible.graph.ObjectValueNode
 
ODBCBeanFactory - Class in net.sourceforge.fluxion.datapublisher.odbc.impl
An implementation of BeanFactory that can generate a bean model for databases which can be accessed via a jdbc-odbc bridge.
ODBCBeanFactory() - Constructor for class net.sourceforge.fluxion.datapublisher.odbc.impl.ODBCBeanFactory
 
ODBCBeanFactory.DataType - Enum in net.sourceforge.fluxion.datapublisher.odbc.impl
Note oracle seems to have few internal datatypes, but "Oracle Database recognizes the ANSI or IBM datatype name that differs from the Oracle datatype name, records it as the name of the datatype of the column, and then stores the column's data in an Oracle datatype based on the conversions."
ODBCQuery<T> - Class in net.sourceforge.fluxion.datapublisher.odbc.impl
Models a query against an odbc bean.
ODBCQuery(Class<T>, Filter, String, String, String) - Constructor for class net.sourceforge.fluxion.datapublisher.odbc.impl.ODBCQuery
 
ODBCQueryFactory - Class in net.sourceforge.fluxion.datapublisher.odbc.impl
Generates a Query that can be executed against a database for which a jdbc-odbc bridge is available
ODBCQueryFactory(String, String, String) - Constructor for class net.sourceforge.fluxion.datapublisher.odbc.impl.ODBCQueryFactory
 
OntologyFactoryBean - Class in net.sourceforge.fluxion.spring
Factory bean to create an OWLOntology instance from a resource containing OWL XML
OntologyFactoryBean() - Constructor for class net.sourceforge.fluxion.spring.OntologyFactoryBean
 
OntologyGraphFactory - Class in net.sourceforge.fluxion.runcible.graph.factory
Given an ontology and an option of source or target, an OntologyGraphFactory will precalculate a runcible rules graph.
OntologyGraphFactory.Type - Enum in net.sourceforge.fluxion.runcible.graph.factory
 
OntologySummaryRenderlet - Class in net.sourceforge.fluxion.pussycat.renderlets.impl
 
OntologySummaryRenderlet() - Constructor for class net.sourceforge.fluxion.pussycat.renderlets.impl.OntologySummaryRenderlet
 
OntologySummaryRenderletProvider - Class in net.sourceforge.fluxion.pussycat.renderlets.impl
Makes OntologySummaryRenderlet discoverable by SPI.
OntologySummaryRenderletProvider() - Constructor for class net.sourceforge.fluxion.pussycat.renderlets.impl.OntologySummaryRenderletProvider
 
OntologyURIPair - Class in net.sourceforge.fluxion.spring
A tuple of an OWLOntology and a URI, used by the transforming fluxion service
OntologyURIPair(OWLOntology, URI) - Constructor for class net.sourceforge.fluxion.spring.OntologyURIPair
Construct a new OntologyURIPair with the specified ontology and URI.
openConnection() - Method in class net.sourceforge.fluxion.datapublisher.mysql.impl.MySQLQuery
Opens a SQL database connection to a MySQL database.
openConnection() - Method in class net.sourceforge.fluxion.datapublisher.odbc.impl.ODBCQuery
Open a connection to a oracle database.
openConnection() - Method in class net.sourceforge.fluxion.datapublisher.postgresql.impl.PostgresqlQuery
Open a connection to a Postgres database.
openConnection() - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLQuery
Acquire a connection to the underlying datasource.
openFileStream(String) - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanWriter
 
openTransaction() - Static method in class net.sourceforge.fluxion.runcible.io.command.Transaction
 
Or<T> - Class in net.sourceforge.fluxion.datasource.filter.impl
A that accepts one of a set of values.
Or() - Constructor for class net.sourceforge.fluxion.datasource.filter.impl.Or
 
ORANGES - Static variable in class net.sourceforge.fluxion.graph.ColorSchemes
 
orderedEntities(Set) - Static method in class net.sourceforge.fluxion.beans.utils.OWLUtils
 
orderedEntities(Set) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
org.comparagrid.fluxion.plugins - package org.comparagrid.fluxion.plugins
 
OtherErrorCodes - Class in net.sourceforge.fluxion.beans.utils
Created by IntelliJ IDEA.
OtherErrorCodes() - Constructor for class net.sourceforge.fluxion.beans.utils.OtherErrorCodes
 
OWLDOMinator - Class in net.sourceforge.fluxion.spring.xml
Created by IntelliJ IDEA.
OWLDOMinator(PipedInputStream) - Constructor for class net.sourceforge.fluxion.spring.xml.OWLDOMinator
 
OWLEdge - Interface in net.sourceforge.fluxion.runcible.graph
Javadocs go here.
OWLEntityCache - Class in net.sourceforge.fluxion.pussycat.util.cache
Created by IntelliJ IDEA.
OWLEntityCache() - Constructor for class net.sourceforge.fluxion.pussycat.util.cache.OWLEntityCache
 
OWLEntityCache(Reasoner) - Constructor for class net.sourceforge.fluxion.pussycat.util.cache.OWLEntityCache
 
OWLFileDataSource - Class in net.sourceforge.fluxion.datasource.impl
Javadocs go here.
OWLFileDataSource(URI, OWLOntology) - Constructor for class net.sourceforge.fluxion.datasource.impl.OWLFileDataSource
 
OWLGenerationException - Exception in net.sourceforge.fluxion.datapublisher.owlgen
Created by IntelliJ IDEA.
OWLGenerationException() - Constructor for exception net.sourceforge.fluxion.datapublisher.owlgen.OWLGenerationException
 
OWLGenerationException(String) - Constructor for exception net.sourceforge.fluxion.datapublisher.owlgen.OWLGenerationException
 
OWLGenerationException(String, Throwable) - Constructor for exception net.sourceforge.fluxion.datapublisher.owlgen.OWLGenerationException
 
OWLGenerationException(Throwable) - Constructor for exception net.sourceforge.fluxion.datapublisher.owlgen.OWLGenerationException
 
OWLGraph - Interface in net.sourceforge.fluxion.runcible.graph
A graph which captures information about the arrangement of nodes in an OWL Ontology.
OWLGraphFactory - Interface in net.sourceforge.fluxion.runcible.graph.factory
Javadocs go here.
OWLMappingNode - Class in net.sourceforge.fluxion.runcible.graph
Javadocs go here.
OWLMappingNode() - Constructor for class net.sourceforge.fluxion.runcible.graph.OWLMappingNode
 
owlNamespace - Static variable in class net.sourceforge.fluxion.api.FluxionNamespaces
Namespace used for OWL2 XML elements within the fluxion system.
OWLNode - Interface in net.sourceforge.fluxion.runcible.graph
Javadocs go here.
owlObject - Variable in class net.sourceforge.fluxion.runcible.graph.OWLMappingNode
 
OWLOntologyXMLHandler - Class in net.sourceforge.fluxion.spring.xml
Static methods to render OWLOntology to and from various different forms including InputStream, Element and String
OWLOntologyXMLHandler() - Constructor for class net.sourceforge.fluxion.spring.xml.OWLOntologyXMLHandler
 
OWLRestrictionEvaluator - Class in net.sourceforge.fluxion.runcible.graph.utils
A utils class that provides functionality to evaluate the possible set of restrictions that can be applied to any class held in a reaonser.
OWLRestrictionEvaluator() - Constructor for class net.sourceforge.fluxion.runcible.graph.utils.OWLRestrictionEvaluator
 
OWLTransformationException - Exception in net.sourceforge.fluxion.utils
Thrown whenever an attempt is made to move from an OWL view of some data into a bean view of the same data, or vice-versa.
OWLTransformationException() - Constructor for exception net.sourceforge.fluxion.utils.OWLTransformationException
 
OWLTransformationException(Throwable) - Constructor for exception net.sourceforge.fluxion.utils.OWLTransformationException
 
OWLTransformationException(String) - Constructor for exception net.sourceforge.fluxion.utils.OWLTransformationException
 
OWLTransformationException(String, Throwable) - Constructor for exception net.sourceforge.fluxion.utils.OWLTransformationException
 
OWLTypingUtils - Class in net.sourceforge.fluxion.runcible.graph.utils
Javadocs go here.
OWLTypingUtils() - Constructor for class net.sourceforge.fluxion.runcible.graph.utils.OWLTypingUtils
 
OWLUtils - Class in net.sourceforge.fluxion.beans.utils
Javadocs go here
OWLUtils() - Constructor for class net.sourceforge.fluxion.beans.utils.OWLUtils
 
OWLUtils - Class in net.sourceforge.fluxion.utils
A utility class used to examine OWLDescriptions, and break down the axioms that make up the knowledge about OWLDescriptions into classsplit up an OWL class into smaller, constituent elements (such as the set of a classes superclasses or subclasses).
OWLUtils() - Constructor for class net.sourceforge.fluxion.utils.OWLUtils
 
OWLUtilsBean - Class in net.sourceforge.fluxion.beans
Created by IntelliJ IDEA.
OWLUtilsBean() - Constructor for class net.sourceforge.fluxion.beans.OWLUtilsBean
 

P

packageName - Variable in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLBeanFactory
 
PAIR_ASSERTION - Static variable in class net.sourceforge.fluxion.pussycat.util.PussycatOWLConstants
 
parse(String) - Method in class net.sourceforge.fluxion.beans.utils.FluxionManchesterOWLSyntaxDescriptionChecker
 
parseDataClause(Element) - Static method in class net.sourceforge.fluxion.runcible.io.RuncibleRulesParser
 
parseFact(Element) - Static method in class net.sourceforge.fluxion.runcible.io.RuncibleRulesParser
 
parseForall(Element) - Static method in class net.sourceforge.fluxion.runcible.io.RuncibleRulesParser
 
parseIndividualSelection(Element, String) - Static method in class net.sourceforge.fluxion.runcible.io.RuncibleRulesParser
 
parseMapping(URL) - Static method in class net.sourceforge.fluxion.runcible.io.RuncibleRulesParser
 
parseReasons(Set<String>) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatUtils
 
ParserException - Exception in net.sourceforge.fluxion.runcible.io
Javadocs go here.
ParserException() - Constructor for exception net.sourceforge.fluxion.runcible.io.ParserException
 
ParserException(Throwable) - Constructor for exception net.sourceforge.fluxion.runcible.io.ParserException
 
ParserException(String) - Constructor for exception net.sourceforge.fluxion.runcible.io.ParserException
 
ParserException(String, Throwable) - Constructor for exception net.sourceforge.fluxion.runcible.io.ParserException
 
parseRule(List<Rule>, Element) - Static method in class net.sourceforge.fluxion.runcible.io.RuncibleRulesParser
 
passthrough(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.RenderletPassthroughService
 
password - Variable in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLQuery
 
pattern - Variable in class net.sourceforge.fluxion.pussycat.util.AbstractPussycatSearcher
 
PizzaOntologyRenderlet - Class in net.sourceforge.fluxion.pussycat.renderlets.impl
 
PizzaOntologyRenderlet() - Constructor for class net.sourceforge.fluxion.pussycat.renderlets.impl.PizzaOntologyRenderlet
 
PizzaOntologyRenderletProvider - Class in net.sourceforge.fluxion.pussycat.renderlets.impl
Makes PizzaOntologyRenderlet discoverable by SPI.
PizzaOntologyRenderletProvider() - Constructor for class net.sourceforge.fluxion.pussycat.renderlets.impl.PizzaOntologyRenderletProvider
 
PluginManager - Class in net.sourceforge.fluxion.pussycat.util
Class to manage any plugins available - modified for use in the ComparaGRID project

PluginManager() - Constructor for class net.sourceforge.fluxion.pussycat.util.PluginManager
Default constructor for the PluginManager object
PluginManager(String) - Constructor for class net.sourceforge.fluxion.pussycat.util.PluginManager
Constructs a new PluginManager with respect to a given path of plugins
pollForRenderletUpdate(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.RenderletService
 
PopupProvider<POP> - Interface in net.sourceforge.fluxion.runcible.graph.popup
Javadocs go here.
position - Variable in class net.sourceforge.fluxion.runcible.io.command.impl.DefaultChangeInvoker
 
PostgresqlBeanFactory - Class in net.sourceforge.fluxion.datapublisher.postgresql.impl
An implementation of BeanFactory that can generate a bean model for databases in postgresql format.
PostgresqlBeanFactory() - Constructor for class net.sourceforge.fluxion.datapublisher.postgresql.impl.PostgresqlBeanFactory
 
PostgresqlBeanFactory.DataType - Enum in net.sourceforge.fluxion.datapublisher.postgresql.impl
 
PostgresqlQuery<T> - Class in net.sourceforge.fluxion.datapublisher.postgresql.impl
Models a query against a Postgresql bean.
PostgresqlQuery(Class<T>, String, String, String, Filter) - Constructor for class net.sourceforge.fluxion.datapublisher.postgresql.impl.PostgresqlQuery
 
PostgresqlQueryFactory - Class in net.sourceforge.fluxion.datapublisher.postgresql.impl
Generates a Query that can be executed against a Postgres database.
PostgresqlQueryFactory(String, String, String) - Constructor for class net.sourceforge.fluxion.datapublisher.postgresql.impl.PostgresqlQueryFactory
 
precache(O) - Method in class net.sourceforge.fluxion.pussycat.util.AbstractPussycatSearcher
 
precache(OWLOntology) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatOntologySearcher
 
prepareCall(String) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
prepareCall(String, int, int) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
prepareCall(String, int, int, int) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
prepareStatement(String) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
prepareStatement(String, int, int) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
prepareStatement(String, int, int, int) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
prepareStatement(String, int) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
prepareStatement(String, int[]) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
prepareStatement(String, String[]) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
PRINT_ANON - Static variable in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
PRINT_BLANK - Static variable in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
PRINT_BREAK - Static variable in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
PRINT_URI - Static variable in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
printAvailableMaps(Set<OWLIndividual>, Reasoner, OWLOntology) - Static method in class net.sourceforge.fluxion.pussycat.svg.MapUtils
 
printNextHistoryResourceLink(URI) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatUtils
 
printNextHistoryResourceLink(URI, String) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatUtils
 
printNode(Reasoner, OWLOntology, OWLEntity) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
printNode(Reasoner, OWLOntology, OWLEntity, String) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
printNode(Reasoner, OWLOntology, OWLEntity, String, boolean, boolean, boolean, boolean, String, String) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
printNode(String, Reasoner, OWLOntology, OWLEntity, String, boolean, boolean, boolean, boolean, String, String) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
printPreviousHistoryResourceLink(URI) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatUtils
 
printPreviousHistoryResourceLink(URI, String) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatUtils
 
printRenderletNode(String, Reasoner, OWLOntology, OWLEntity) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
printRenderletNode(String, Reasoner, OWLOntology, OWLEntity, boolean, boolean, String) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatOWLUtils
 
printRenderletUpdateLink(String, URI) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatUtils
 
printRenderletUpdateLink(String, URI, String) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatUtils
 
printResourceLink(URI) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatUtils
 
printResourceLink(URI, String) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatUtils
 
probeFluxionService(JSONObject) - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.AvailablePublishersListRenderlet
 
process(Set<? extends TypeElement>, RoundEnvironment) - Method in class net.sourceforge.fluxion.spi.SpiProcessor
Process @ServiceProvider annotations.
ProcessListener - Class in net.sourceforge.fluxion.ajax.beans.util
 
ProcessListener() - Constructor for class net.sourceforge.fluxion.ajax.beans.util.ProcessListener
 
ProcessRunner - Class in net.sourceforge.fluxion.spi.utils
A utility class that simplifies the process of delegating to external processes and waiting for the output.
ProcessRunner() - Constructor for class net.sourceforge.fluxion.spi.utils.ProcessRunner
 
proxiedURLConnection(URL) - Method in class net.sourceforge.fluxion.pussycat.FluxionServiceClient
 
proxiedURLConnection(URL, String) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
PublisherMojo - Class in org.comparagrid.fluxion.plugins
This is a reworked version of the MavenArchetypePlugin, which uses some fixed parameters to simplify the required command and does some custom searching for schema types to use in creating the artifact.
PublisherMojo() - Constructor for class org.comparagrid.fluxion.plugins.PublisherMojo
 
PublisherMojo.Dbms - Enum in org.comparagrid.fluxion.plugins
 
publisherTest(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.pussycat.spring.beans.client.FluxionServiceClient
 
PURPLES - Static variable in class net.sourceforge.fluxion.graph.ColorSchemes
 
PussycatAppListener - Class in net.sourceforge.fluxion.pussycat.spring
Javadocs go here!
PussycatAppListener() - Constructor for class net.sourceforge.fluxion.pussycat.spring.PussycatAppListener
 
PussycatClassHierarchyEntity - Class in net.sourceforge.fluxion.pussycat.entity.impl
The PussycatClassHierarchyEntity class Defines a class hierarchy html widget that can be drawn by Pussycat
PussycatClassHierarchyEntity(Reasoner, OWLOntology) - Constructor for class net.sourceforge.fluxion.pussycat.entity.impl.PussycatClassHierarchyEntity
 
PussycatClassHierarchyEntity(Reasoner, OWLOntology, OWLClass) - Constructor for class net.sourceforge.fluxion.pussycat.entity.impl.PussycatClassHierarchyEntity
Construct a class hierarchy using the supplied class as the active element.
PussycatController - Class in net.sourceforge.fluxion.pussycat.spring.controller
Created by IntelliJ IDEA.
PussycatController() - Constructor for class net.sourceforge.fluxion.pussycat.spring.controller.PussycatController
 
PussycatEntityCacheManager - Class in net.sourceforge.fluxion.pussycat.manager
Created by IntelliJ IDEA.
PussycatEntityCacheManager(PussycatSessionManager) - Constructor for class net.sourceforge.fluxion.pussycat.manager.PussycatEntityCacheManager
 
PussycatEntityListEntity - Class in net.sourceforge.fluxion.pussycat.entity.impl
The PussycatEntityListEntity class Defines an html entity list widget that can be drawn by Pussycat
PussycatEntityListEntity(Reasoner, OWLOntology) - Constructor for class net.sourceforge.fluxion.pussycat.entity.impl.PussycatEntityListEntity
 
PussycatException - Exception in net.sourceforge.fluxion.pussycat.util.exceptions
 
PussycatException() - Constructor for exception net.sourceforge.fluxion.pussycat.util.exceptions.PussycatException
 
PussycatException(String) - Constructor for exception net.sourceforge.fluxion.pussycat.util.exceptions.PussycatException
 
PussycatHTMLAxiomRenderer - Class in net.sourceforge.fluxion.pussycat.util
Author: Rob Davey
Date: 13-Dec-2007

An HTML axiom renderer.

PussycatHTMLAxiomRenderer() - Constructor for class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
PussycatHTMLException - Exception in net.sourceforge.fluxion.pussycat.util.exceptions
 
PussycatHTMLException() - Constructor for exception net.sourceforge.fluxion.pussycat.util.exceptions.PussycatHTMLException
 
PussycatHTMLException(String, String) - Constructor for exception net.sourceforge.fluxion.pussycat.util.exceptions.PussycatHTMLException
 
PussycatHTMLException(String, Set<String>) - Constructor for exception net.sourceforge.fluxion.pussycat.util.exceptions.PussycatHTMLException
 
PussycatJavascriptUtils - Class in net.sourceforge.fluxion.pussycat.util
Created by IntelliJ IDEA.
PussycatJavascriptUtils() - Constructor for class net.sourceforge.fluxion.pussycat.util.PussycatJavascriptUtils
 
PussycatJSONUtils - Class in net.sourceforge.fluxion.pussycat.util
Created by IntelliJ IDEA.
PussycatJSONUtils() - Constructor for class net.sourceforge.fluxion.pussycat.util.PussycatJSONUtils
 
PussycatLayoutListEntity - Class in net.sourceforge.fluxion.pussycat.entity.impl
The PussycatLayoutListEntity class Defines an html layout entity list widget that can be drawn by Pussycat
PussycatLayoutListEntity(String, String) - Constructor for class net.sourceforge.fluxion.pussycat.entity.impl.PussycatLayoutListEntity
 
PussycatLinker - Interface in net.sourceforge.fluxion.pussycat.util
 
PussycatLinkerFactory - Class in net.sourceforge.fluxion.pussycat.util
 
PussycatMap - Interface in net.sourceforge.fluxion.pussycat.svg
The PussycatMap class Defines a map that can be collapsed and expanded
PussycatMappingHitEntity - Class in net.sourceforge.fluxion.pussycat.svg
The PussycatMappingHitEntity class Defines a mapping hit glyph that can be drawn by Pussycat
PussycatMappingHitEntity(OWLIndividual, MappingHit) - Constructor for class net.sourceforge.fluxion.pussycat.svg.PussycatMappingHitEntity
 
PussycatMarker - Class in net.sourceforge.fluxion.pussycat.util
 
PussycatMarker(OWLIndividual) - Constructor for class net.sourceforge.fluxion.pussycat.util.PussycatMarker
 
PussycatMarkerEntity - Class in net.sourceforge.fluxion.pussycat.entity.impl
The PussycatMarkerEntity class Defines a marker glyph that can be drawn by Pussycat
PussycatMarkerEntity(Reasoner, OWLOntology, OWLIndividual, double, double, double) - Constructor for class net.sourceforge.fluxion.pussycat.entity.impl.PussycatMarkerEntity
 
PussycatOntologySearcher - Class in net.sourceforge.fluxion.pussycat.util
 
PussycatOntologySearcher() - Constructor for class net.sourceforge.fluxion.pussycat.util.PussycatOntologySearcher
 
PussycatOntologySummaryEntity - Class in net.sourceforge.fluxion.pussycat.entity.impl
The PussycatOntologySummaryEntity class Defines an OWLOntology summary widget that can be drawn by Pussycat
PussycatOntologySummaryEntity(Reasoner, OWLOntology) - Constructor for class net.sourceforge.fluxion.pussycat.entity.impl.PussycatOntologySummaryEntity
 
PussycatOWLConstants - Class in net.sourceforge.fluxion.pussycat.util
 
PussycatOWLUtils - Class in net.sourceforge.fluxion.pussycat.util
 
PussycatQueryBuilder - Class in net.sourceforge.fluxion.pussycat
Javadocs go here.
PussycatRenderingVisitor - Class in net.sourceforge.fluxion.pussycat.util
PussycatRenderingVisitor.java Created: Thu Mar 29 2007
PussycatRenderingVisitor(PussycatLinker, OWLOntology) - Constructor for class net.sourceforge.fluxion.pussycat.util.PussycatRenderingVisitor
 
PussycatRenderlet<O,S> - Class in net.sourceforge.fluxion.pussycat.renderlets.template
Javadocs go here.
PussycatRenderlet() - Constructor for class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
PussycatRenderletContainer - Class in net.sourceforge.fluxion.pussycat.container
 
PussycatRenderletContainer(PussycatSessionManager) - Constructor for class net.sourceforge.fluxion.pussycat.container.PussycatRenderletContainer
 
PussycatRenderletListEntity - Class in net.sourceforge.fluxion.pussycat.entity.impl
The PussycatRenderletListEntity class Defines an html renderlet entity list widget that can be drawn by Pussycat
PussycatRenderletListEntity(RenderletManager, String) - Constructor for class net.sourceforge.fluxion.pussycat.entity.impl.PussycatRenderletListEntity
 
PussycatRenderletManager - Class in net.sourceforge.fluxion.pussycat.manager
A RenderletManager for renderlets within Pussycat.
PussycatRenderletManager() - Constructor for class net.sourceforge.fluxion.pussycat.manager.PussycatRenderletManager
 
PussycatRenderletNexus - Class in net.sourceforge.fluxion.pussycat.manager
Javadocs go here.
PussycatRenderletNexus() - Constructor for class net.sourceforge.fluxion.pussycat.manager.PussycatRenderletNexus
 
PussycatResourceHistory - Class in net.sourceforge.fluxion.pussycat.util
 
PussycatResourceHistory() - Constructor for class net.sourceforge.fluxion.pussycat.util.PussycatResourceHistory
 
PussycatResourceViewEntity - Class in net.sourceforge.fluxion.pussycat.entity.impl
The PussycatResourceViewEntity class Defines an OWL entity view widget that can be drawn by Pussycat
PussycatResourceViewEntity(Reasoner, OWLOntology, PussycatResourceHistory, OWLEntity) - Constructor for class net.sourceforge.fluxion.pussycat.entity.impl.PussycatResourceViewEntity
 
PussycatSearcher<O> - Interface in net.sourceforge.fluxion.pussycat.util
 
PussycatServiceController - Class in net.sourceforge.fluxion.pussycat.spring.controller
Created by IntelliJ IDEA.
PussycatServiceController() - Constructor for class net.sourceforge.fluxion.pussycat.spring.controller.PussycatServiceController
 
PussycatServiceUtils - Class in net.sourceforge.fluxion.pussycat.util.service
Created by IntelliJ IDEA.
PussycatServiceUtils() - Constructor for class net.sourceforge.fluxion.pussycat.util.service.PussycatServiceUtils
 
PussycatSessionManager - Class in net.sourceforge.fluxion.pussycat.manager
 
PussycatSessionManager(String) - Constructor for class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
PussycatSessionManager(String, OWLOntologyManager) - Constructor for class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
PussycatSessionUtils - Class in net.sourceforge.fluxion.pussycat.spring.util
Created by IntelliJ IDEA.
PussycatSessionUtils() - Constructor for class net.sourceforge.fluxion.pussycat.spring.util.PussycatSessionUtils
 
PussycatSVGEntity<T extends org.semanticweb.owl.model.OWLNamedObject> - Interface in net.sourceforge.fluxion.pussycat.svg
The PussycatSVGEntity interface Defines a SVG glyph that can be drawn by Pussycat
PussycatUtils - Class in net.sourceforge.fluxion.pussycat.util
 
PussycatUtils.Operating_System - Enum in net.sourceforge.fluxion.pussycat.util
 

Q

query(OWLOntology, URI) - Method in interface net.sourceforge.fluxion.api.DataSource
Queries this datasource for all instances that may be instances of the OWL class with the URI given by the queryClass parameter.
query(URI, URI, OWLOntology) - Method in interface net.sourceforge.fluxion.api.FluxionService
Execute a query.
query(URI, URI, OWLOntology) - Method in class net.sourceforge.fluxion.datapublisher.BeanFactoryFluxionService
 
query(OWLOntology, URI) - Method in class net.sourceforge.fluxion.datasource.impl.BeanModelDataSource
 
query(OWLOntology, URI) - Method in class net.sourceforge.fluxion.datasource.impl.OWLFileDataSource
 
Query<T> - Interface in net.sourceforge.fluxion.datasource.query
A query against the beanmodel for a single bean type.
query(URI, URI, OWLOntology) - Method in class net.sourceforge.fluxion.spring.DelegatingFluxionService
Delegates to the query method of the data source with the matching data source URI
query(URI, URI, OWLOntology) - Method in class net.sourceforge.fluxion.spring.QueryTransformingFluxionService
Do a query, transforming the query request and response messages using the injected query transformer and passing it the appropriate configuration
query(URI, URI, OWLOntology) - Method in class net.sourceforge.fluxion.spring.wsclient.SOAPFluxionService
Implements FluxionService, delegating to a web service at the configured endpoint
QueryEndpoint - Class in net.sourceforge.fluxion.spring.endpoint
Message handling endpoint for the query web service method
QueryEndpoint() - Constructor for class net.sourceforge.fluxion.spring.endpoint.QueryEndpoint
 
QueryExecutionException - Exception in net.sourceforge.fluxion.datasource.query
Thrown whenever a Query fails to execute for any reason.
QueryExecutionException() - Constructor for exception net.sourceforge.fluxion.datasource.query.QueryExecutionException
 
QueryExecutionException(String) - Constructor for exception net.sourceforge.fluxion.datasource.query.QueryExecutionException
 
QueryExecutionException(String, Throwable) - Constructor for exception net.sourceforge.fluxion.datasource.query.QueryExecutionException
 
QueryExecutionException(Throwable) - Constructor for exception net.sourceforge.fluxion.datasource.query.QueryExecutionException
 
QueryGenerationException - Exception in net.sourceforge.fluxion.datasource.query
Thrown whenever the query cannot be generated, for any reason.
QueryGenerationException() - Constructor for exception net.sourceforge.fluxion.datasource.query.QueryGenerationException
 
QueryGenerationException(String) - Constructor for exception net.sourceforge.fluxion.datasource.query.QueryGenerationException
 
QueryGenerationException(String, Throwable) - Constructor for exception net.sourceforge.fluxion.datasource.query.QueryGenerationException
 
QueryGenerationException(Throwable) - Constructor for exception net.sourceforge.fluxion.datasource.query.QueryGenerationException
 
QueryGenerator - Interface in net.sourceforge.fluxion.datasource.query
Interface for generating queries against a particular type of bean.
QueryRequestMessage - Class in net.sourceforge.fluxion.spring.endpoint.xml
Represents a query request message to a fluxion service.
QueryRequestMessage(URI, URI, OWLOntology) - Constructor for class net.sourceforge.fluxion.spring.endpoint.xml.QueryRequestMessage
 
QueryTransformer - Interface in net.sourceforge.fluxion.spring
Defines the logic for a fluxion service which can transform queries from an exposed ontology to one or more underlying ontologies used by other fluxion services.
QueryTransformerConfiguration - Class in net.sourceforge.fluxion.spring
Represents a single configured mapping in a query transforming fluxion service
QueryTransformerConfiguration() - Constructor for class net.sourceforge.fluxion.spring.QueryTransformerConfiguration
 
QueryTransformingFluxionService - Class in net.sourceforge.fluxion.spring
Implementation of FluxionService which delegates to a list of other FluxionServices and transforms queries with an injected QueryTransformer.
QueryTransformingFluxionService() - Constructor for class net.sourceforge.fluxion.spring.QueryTransformingFluxionService
Create a new transforming fluxion service instance, does very little configuration by default - use the set methods to inject resources.
queryUsingLinker(Reasoner, OWLOntology) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatLinkerFactory
 
QueryUtils - Class in net.sourceforge.fluxion.datasource.utils
A general utility class for producing filters given an incoming query class.
QueryUtils() - Constructor for class net.sourceforge.fluxion.datasource.utils.QueryUtils
 

R

readTableFilterFile(File) - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLBeanFactory
This reads a plain text file that contains a list of tables to represent in OWL.
realise(OWLOntology) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
ReasonerProgressMonitor - Class in net.sourceforge.fluxion.pussycat.util
 
ReasonerProgressMonitor(int) - Constructor for class net.sourceforge.fluxion.pussycat.util.ReasonerProgressMonitor
 
ReasonerSession - Class in net.sourceforge.fluxion.utils
A ReasonerSession encapsulates an OWLReasoner and exposes it according to semaphore leases given by a ReasonerSessionManager.
ReasonerSession(Set<OWLOntology>) - Constructor for class net.sourceforge.fluxion.utils.ReasonerSession
Construct a new ReasonerSession given a set of ontologies.
ReasonerSessionManager - Class in net.sourceforge.fluxion.utils
A singleton class for acquiring ReasonerSessions, thereby providing access to a pre-classified ontology.
redirectStderr(boolean) - Method in class net.sourceforge.fluxion.spi.utils.ProcessRunner
Whether or not to redirect the standard error stream of the native process to standard out.
REDS - Static variable in class net.sourceforge.fluxion.graph.ColorSchemes
 
register(Renderlet) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatRenderletNexus
 
register(Renderlet) - Method in interface net.sourceforge.fluxion.pussycat.renderlets.RenderletNexus
Register a renderlet to this nexus.
registerMappingListener(MappingListener) - Method in class net.sourceforge.fluxion.runcible.impl.MappingImpl
 
registerMappingListener(MappingListener) - Method in interface net.sourceforge.fluxion.runcible.Mapping
Adds a MappingListener to this Mapping.
registerRenderletManager(PussycatRenderletManager) - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
registerSessionManager(PussycatSessionManager) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatRenderletManager
 
registerSessionManager(PussycatSessionManager) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatRenderletNexus
 
releaseConnections() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnectionPool
 
releaseSavepoint(Savepoint) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
releaseSession() - Method in class net.sourceforge.fluxion.utils.ReasonerSession
Release this ReasonerSession for use by another connection
remove(Node) - Method in class net.sourceforge.fluxion.graph.AbstractGraph
 
remove(Edge) - Method in class net.sourceforge.fluxion.graph.AbstractGraph
 
remove(Node) - Method in interface net.sourceforge.fluxion.graph.Graph
Removes the Node from this graph.
remove(Edge) - Method in interface net.sourceforge.fluxion.graph.Graph
Removes this Edge from the graph.
remove(String) - Method in class net.sourceforge.fluxion.pussycat.container.PussycatRenderletContainer
Removes the renderlet with the given id
remove(String) - Method in interface net.sourceforge.fluxion.pussycat.renderlets.RenderletContainer
Removes a renderlet instance
removeAdditionalDataSource(URL) - Method in class net.sourceforge.fluxion.datasource.impl.BeanModelDataSourceFactory
Removes a URL to the factory, so that additional datasources will not be loaded from outside the current classloader.
removeAll() - Method in class net.sourceforge.fluxion.graph.AbstractGraph
 
removeAll() - Method in interface net.sourceforge.fluxion.graph.Graph
Removes all Nodes and Edges from this graph
removeAllOntologies() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
removeCachedEntities(URI) - Method in class net.sourceforge.fluxion.pussycat.util.AbstractPussycatSearcher
 
removeGraphListener(GraphListener) - Method in class net.sourceforge.fluxion.graph.AbstractGraph
 
removeGraphListener(GraphListener) - Method in interface net.sourceforge.fluxion.graph.Graph
Remove a GraphListener from the Graph
removeLeadingSlashes(String) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatUtils
 
removeListener(RenderletListener) - Method in interface net.sourceforge.fluxion.pussycat.renderlets.Renderlet
 
removeListener(RenderletListener) - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
removeMapping(MappingNode) - Method in interface net.sourceforge.fluxion.runcible.graph.MappingNode
Remove a mapping, using the identifier or the node this node maps to
removeMapping(MappingNode) - Method in class net.sourceforge.fluxion.runcible.graph.OWLMappingNode
 
removeMavenRemoteRepository(String) - Method in class net.sourceforge.fluxion.spi.SPIManager
Remove a Maven remote repository that Raven has been using to download artifacts from.
removeMethodAnnotation(String, String) - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanConfig
Remove an annotation from a given method.
removeOntology(URI) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
removeRange(int, int) - Method in class net.sourceforge.fluxion.pussycat.util.HistoryArrayList
 
removeReadyRenderlet(String) - Method in class net.sourceforge.fluxion.pussycat.container.PussycatRenderletContainer
 
removeRenderletContainerListener(RenderletContainerListener) - Method in class net.sourceforge.fluxion.pussycat.container.PussycatRenderletContainer
 
removeRenderletContainerListener(RenderletContainerListener) - Method in interface net.sourceforge.fluxion.pussycat.renderlets.RenderletContainer
 
removeRule(Rule) - Method in class net.sourceforge.fluxion.runcible.impl.MappingImpl
 
removeRule(Rule) - Method in interface net.sourceforge.fluxion.runcible.Mapping
Remove a rule from this mapping
removeStaleRenderlets() - Method in class net.sourceforge.fluxion.pussycat.container.PussycatRenderletContainer
 
removeStaleRenderlets(String) - Method in class net.sourceforge.fluxion.pussycat.container.PussycatRenderletContainer
 
RenameNodeCommand - Class in net.sourceforge.fluxion.runcible.graph.command
Javadocs go here.
RenameNodeCommand(Graph, Node, String) - Constructor for class net.sourceforge.fluxion.runcible.graph.command.RenameNodeCommand
 
renameSourceNode(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.RuncibleFlexGraphCommandBean
 
RENAMING_EVENT - Static variable in class net.sourceforge.fluxion.graph.listener.GraphChangeEvent
 
render(OutputStream) - Method in interface net.sourceforge.fluxion.graph.view.EdgeView
 
render(OutputStream) - Method in interface net.sourceforge.fluxion.graph.view.GraphView
Renders this GraphView to the given output stream.
render(OutputStream) - Method in interface net.sourceforge.fluxion.graph.view.NodeView
 
render() - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.AvailablePublishersListRenderlet
 
render() - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.DefaultClassHierarchyRenderlet
 
render() - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.DirectClassHierarchyRenderlet
 
render() - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.IndividualViewRenderlet
 
render() - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.LoadedOntologyListRenderlet
 
render() - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.OntologySummaryRenderlet
 
render() - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.PizzaOntologyRenderlet
 
render() - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.RenderletListRenderlet
 
render() - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.ResourceViewRenderlet
 
render() - Method in class net.sourceforge.fluxion.pussycat.renderlets.impl.SparqlQueryRenderlet
 
render() - Method in interface net.sourceforge.fluxion.pussycat.renderlets.Renderlet
 
render(OutputStream) - Method in class net.sourceforge.fluxion.runcible.graph.view.DotEdgeView
 
render(OutputStream) - Method in class net.sourceforge.fluxion.runcible.graph.view.DotGraphView
 
render(OutputStream) - Method in class net.sourceforge.fluxion.runcible.graph.view.DotNodeView
 
render(OutputStream) - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexEdgeView
 
render(OutputStream) - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexGraphView
 
render(OutputStream) - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexNodeView
 
RenderableInPussycat - Interface in net.sourceforge.fluxion.pussycat.entity
The RenderableInPussycat interface Defines a entity that can be rendered by Pussycat textually or graphically.
RenderableOWLEntity<T extends org.semanticweb.owl.model.OWLNamedObject> - Interface in net.sourceforge.fluxion.pussycat.entity
The RenderableOWLEntity interface Defines an OWLAPI OWLEntity that can be rendered by Pussycat That may be textually or graphically
renderedObject - Variable in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
RenderException - Exception in net.sourceforge.fluxion.pussycat.renderlets
 
RenderException(String) - Constructor for exception net.sourceforge.fluxion.pussycat.renderlets.RenderException
 
renderGraphView() - Method in interface net.sourceforge.fluxion.graph.view.renderer.GraphViewRenderer
Renders the current GraphView to an InputStream.
renderGraphView() - Method in class net.sourceforge.fluxion.runcible.graph.view.renderer.DotGraphViewRenderer
Invokes GraphViz on the given GraphView to generate the graph image, in SVG, for the graph.
renderGraphView() - Method in class net.sourceforge.fluxion.runcible.graph.view.renderer.FlexGraphViewRenderer
Produces a string of XML from the given graph, that can be read by the runcible-flex module to produce a flash-based graph visualisation.
Renderlet<O,S> - Interface in net.sourceforge.fluxion.pussycat.renderlets
Javadocs go here.
renderletChanged(RenderletUpdateEvent) - Method in interface net.sourceforge.fluxion.pussycat.renderlets.RenderletListener
 
RenderletContainer - Interface in net.sourceforge.fluxion.pussycat.renderlets
PussycatContainer should be instantiated with the PussycatSessionManager it is contained within.
RenderletContainerListener - Interface in net.sourceforge.fluxion.pussycat.renderlets
Javadocs go here.
RenderletHotloaderService - Class in net.sourceforge.fluxion.pussycat.spring.service
Created by IntelliJ IDEA.
RenderletHotloaderService() - Constructor for class net.sourceforge.fluxion.pussycat.spring.service.RenderletHotloaderService
 
renderletLinker(String, Reasoner, OWLOntology) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatLinkerFactory
 
RenderletListener - Interface in net.sourceforge.fluxion.pussycat.renderlets
Javadocs go here.
RenderletListRenderlet - Class in net.sourceforge.fluxion.pussycat.renderlets.impl
 
RenderletListRenderlet() - Constructor for class net.sourceforge.fluxion.pussycat.renderlets.impl.RenderletListRenderlet
 
RenderletListRenderletProvider - Class in net.sourceforge.fluxion.pussycat.renderlets.impl
Makes RenderletListRenderlet discoverable by SPI.
RenderletListRenderletProvider() - Constructor for class net.sourceforge.fluxion.pussycat.renderlets.impl.RenderletListRenderletProvider
 
RenderletManager - Interface in net.sourceforge.fluxion.pussycat.renderlets
Javadocs go here.
RenderletNexus - Interface in net.sourceforge.fluxion.pussycat.renderlets
Javadocs go here.
RenderletPackage - Enum in net.sourceforge.fluxion.pussycat.renderlets
 
RenderletPackaging - Annotation Type in net.sourceforge.fluxion.pussycat.renderlets
 
RenderletPassthroughService - Class in net.sourceforge.fluxion.pussycat.spring.service.ajaxified
Created by IntelliJ IDEA.
RenderletPassthroughService() - Constructor for class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.RenderletPassthroughService
 
RenderletProperty - Annotation Type in net.sourceforge.fluxion.pussycat.renderlets
 
RenderletService - Class in net.sourceforge.fluxion.pussycat.spring.service.ajaxified
Created by IntelliJ IDEA.
RenderletService() - Constructor for class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.RenderletService
 
RenderletSPI - Interface in net.sourceforge.fluxion.pussycat.renderlets
Created by IntelliJ IDEA.
RenderletType - Enum in net.sourceforge.fluxion.pussycat.renderlets
 
renderletUpdateCompleted(Renderlet, String) - Method in interface net.sourceforge.fluxion.pussycat.renderlets.RenderletContainerListener
 
RenderletUpdateEvent - Class in net.sourceforge.fluxion.pussycat.renderlets
Javadocs go here.
RenderletUpdateEvent(Renderlet) - Constructor for class net.sourceforge.fluxion.pussycat.renderlets.RenderletUpdateEvent
 
renderMapping(File, Mapping) - Static method in class net.sourceforge.fluxion.runcible.io.RuncibleRulesRenderer
 
renderMarkerText(boolean) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatMarkerEntity
 
rendersClass() - Method in interface net.sourceforge.fluxion.pussycat.renderlets.Renderlet
 
rendersClass() - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
requestChildRuleAdditionCommand(Mapping, Transaction, Rule, OWLMappingNode) - Method in class net.sourceforge.fluxion.runcible.graph.manager.RuncibleChangeFactory
 
requestDataClauseAdditionCommand(Transaction, Rule, OWLGraph, OWLMappingNode) - Method in class net.sourceforge.fluxion.runcible.graph.manager.RuncibleChangeFactory
 
requestDataConstantAdditionCommand(Transaction, Rule, OWLGraph, OWLMappingNode) - Method in class net.sourceforge.fluxion.runcible.graph.manager.RuncibleChangeFactory
 
requestDataConstantProperty(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.RuncibleFlexGraphCommandBean
 
requestDataConstantProperty(OWLGraph, OWLMappingNode, OWLDataProperty, OWLDataRange, String) - Method in class net.sourceforge.fluxion.runcible.graph.command.manager.GraphChangeFactory
 
requestDataValueProperty(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.RuncibleFlexGraphCommandBean
 
requestDataValueProperty(OWLGraph, OWLMappingNode, OWLDataProperty, String) - Method in class net.sourceforge.fluxion.runcible.graph.command.manager.GraphChangeFactory
 
requestFactAdditionCommand(Mapping, Transaction, Rule, OWLGraph, OWLMappingNode, String) - Method in class net.sourceforge.fluxion.runcible.graph.manager.RuncibleChangeFactory
 
requestFactAlteration(OWLMappingNode) - Method in class net.sourceforge.fluxion.runcible.graph.manager.RuncibleChangeFactory
 
requestFixNodeType(OWLMappingNode, OWLObject) - Method in class net.sourceforge.fluxion.runcible.graph.command.manager.GraphChangeFactory
 
requestIndividualAssertionSet(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.RuncibleFlexGraphCommandBean
 
requestIndividualAssertionSet(OWLGraph, OWLClass, String) - Method in class net.sourceforge.fluxion.runcible.graph.command.manager.GraphChangeFactory
 
requestMapNodes(OWLMappingNode, OWLMappingNode) - Method in class net.sourceforge.fluxion.runcible.graph.command.manager.GraphChangeFactory
 
requestMappedRule(Graph, OWLMappingNode, Graph, OWLMappingNode) - Method in class net.sourceforge.fluxion.runcible.graph.manager.RuncibleChangeFactory
 
requestMemberNode(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.RuncibleFlexGraphCommandBean
 
requestMemberNode(Graph, OWLClass, String) - Method in class net.sourceforge.fluxion.runcible.graph.command.manager.GraphChangeFactory
 
requestNestedMemberNode(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.RuncibleFlexGraphCommandBean
 
requestNestedMemberNode(Graph, OWLMappingNode, OWLClass, String) - Method in class net.sourceforge.fluxion.runcible.graph.command.manager.GraphChangeFactory
 
requestObjectValueNode(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.RuncibleFlexGraphCommandBean
 
requestObjectValueNode(OWLGraph, OWLMappingNode, OWLObjectProperty, String) - Method in class net.sourceforge.fluxion.runcible.graph.command.manager.GraphChangeFactory
 
requestRenameNode(Graph, Node, String) - Method in class net.sourceforge.fluxion.runcible.graph.command.manager.GraphChangeFactory
 
requestRenameRule(String, String) - Method in class net.sourceforge.fluxion.runcible.graph.manager.RuncibleChangeFactory
 
requestRestrictedNode(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.RuncibleFlexGraphCommandBean
 
requestRestrictedNode(OWLGraph, OWLMappingNode, OWLRestriction, String) - Method in class net.sourceforge.fluxion.runcible.graph.command.manager.GraphChangeFactory
 
requestRootRuleAdditionCommand(Mapping, Transaction, OWLMappingNode) - Method in class net.sourceforge.fluxion.runcible.graph.manager.RuncibleChangeFactory
 
requestRuleCreationCommand(Mapping, Graph, OWLMappingNode, Graph, OWLMappingNode) - Method in class net.sourceforge.fluxion.runcible.graph.manager.RuncibleChangeFactory
 
requestSubtreeDuplication(OWLGraph, OWLMappingNode, OWLMappingNode, String) - Method in class net.sourceforge.fluxion.runcible.graph.command.manager.GraphChangeFactory
 
requestUnmappedRule(Graph, OWLMappingNode) - Method in class net.sourceforge.fluxion.runcible.graph.manager.RuncibleChangeFactory
 
requestWalkedToDataNode(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.RuncibleFlexGraphCommandBean
 
requestWalkedToDataNode(OWLGraph, OWLMappingNode, OWLDataProperty, String) - Method in class net.sourceforge.fluxion.runcible.graph.command.manager.GraphChangeFactory
 
requestWalkedToObjectNode(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.RuncibleFlexGraphCommandBean
 
requestWalkedToObjectNode(OWLGraph, OWLMappingNode, OWLObjectProperty, String) - Method in class net.sourceforge.fluxion.runcible.graph.command.manager.GraphChangeFactory
 
reset() - Method in class net.sourceforge.fluxion.ajax.beans.util.ProcessListener
 
reset() - Method in class net.sourceforge.fluxion.pussycat.util.AbstractPussycatSearcher
 
reset() - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
reset() - Method in class net.sourceforge.fluxion.pussycat.util.PussycatRenderingVisitor
 
reset() - Method in class net.sourceforge.fluxion.pussycat.util.ReasonerProgressMonitor
 
resetProgress() - Method in class net.sourceforge.fluxion.pussycat.util.ReasonerProgressMonitor
 
resolveDependencies() - Method in class net.sourceforge.fluxion.datapublisher.plugins.owlgen.GenerateOwlMojo
Resolve Maven dependencies from "${project.artifacts}" and load classes from artifacts which match the artifact id containing "meta-owl".
ResourceUtils - Class in net.sourceforge.fluxion.beans.utils
Javadocs go here
ResourceUtils() - Constructor for class net.sourceforge.fluxion.beans.utils.ResourceUtils
 
ResourceViewRenderlet - Class in net.sourceforge.fluxion.pussycat.renderlets.impl
 
ResourceViewRenderlet() - Constructor for class net.sourceforge.fluxion.pussycat.renderlets.impl.ResourceViewRenderlet
 
ResourceViewRenderletProvider - Class in net.sourceforge.fluxion.pussycat.renderlets.impl
 
ResourceViewRenderletProvider() - Constructor for class net.sourceforge.fluxion.pussycat.renderlets.impl.ResourceViewRenderletProvider
 
RestrictedNode - Class in net.sourceforge.fluxion.runcible.graph
A node which is described as the set of individuals which are members of an anonymous owl class, made up of some given restrictions, which may be specified by the user.
RestrictedNode() - Constructor for class net.sourceforge.fluxion.runcible.graph.RestrictedNode
 
result() - Method in class net.sourceforge.fluxion.pussycat.util.PussycatRenderingVisitor
 
results - Variable in class net.sourceforge.fluxion.pussycat.util.AbstractPussycatSearcher
 
retrieveOntology() - Method in class net.sourceforge.fluxion.spring.xml.DOMOWLinator
 
returnConnection(DatasourceConnection) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnectionPool
 
rollback() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
rollback(Savepoint) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
RootAt - Class in net.sourceforge.fluxion.runcible.impl
Javadocs go here
RootAt() - Constructor for class net.sourceforge.fluxion.runcible.impl.RootAt
 
Rule - Interface in net.sourceforge.fluxion.runcible
A generic Rule interface.
RuleVisitor - Interface in net.sourceforge.fluxion.runcible.visitor
Javadocs go here.
run() - Method in class net.sourceforge.fluxion.spring.xml.DOMOWLinator
 
run() - Method in class net.sourceforge.fluxion.spring.xml.OWLDOMinator
 
RuncibleChangeFactory - Class in net.sourceforge.fluxion.runcible.graph.manager
Javadocs go here.
RuncibleChangeFactory(ChangeInvoker, Mapping) - Constructor for class net.sourceforge.fluxion.runcible.graph.manager.RuncibleChangeFactory
 
RuncibleConstants - Enum in net.sourceforge.fluxion.beans
Javadocs go here
RuncibleFlexGraphBean - Class in net.sourceforge.fluxion.beans
An Ajax service that can take a MappingManager in an HttpSession and use it to extract source and target graphs, and return a JSON object that encapsulates an XML rendering of a view over the graph.
RuncibleFlexGraphBean() - Constructor for class net.sourceforge.fluxion.beans.RuncibleFlexGraphBean
 
RuncibleFlexGraphCommandBean - Class in net.sourceforge.fluxion.beans
Created by IntelliJ IDEA.
RuncibleFlexGraphCommandBean() - Constructor for class net.sourceforge.fluxion.beans.RuncibleFlexGraphCommandBean
 
RuncibleNodeMenuGeneratorBean - Class in net.sourceforge.fluxion.beans
 
RuncibleNodeMenuGeneratorBean() - Constructor for class net.sourceforge.fluxion.beans.RuncibleNodeMenuGeneratorBean
 
RunciblePlotChangesCommand - Class in net.sourceforge.fluxion.runcible.graph.command
Javadocs go here.
RunciblePlotChangesCommand(RuncibleChangeFactory, Transaction, Mapping, OWLGraph, OWLMappingNode, OWLGraph, OWLMappingNode) - Constructor for class net.sourceforge.fluxion.runcible.graph.command.RunciblePlotChangesCommand
 
RuncibleRulesParser - Class in net.sourceforge.fluxion.runcible.io
Javadocs go here.
RuncibleRulesParser() - Constructor for class net.sourceforge.fluxion.runcible.io.RuncibleRulesParser
 
RuncibleRulesRenderer - Class in net.sourceforge.fluxion.runcible.io
Javadocs go here.
RuncibleRulesRenderer() - Constructor for class net.sourceforge.fluxion.runcible.io.RuncibleRulesRenderer
 
RuncibleUpdateCommand - Class in net.sourceforge.fluxion.runcible.io.command.impl
Javadocs go here.
RuncibleUpdateCommand(Mapping, Rule, Rule) - Constructor for class net.sourceforge.fluxion.runcible.io.command.impl.RuncibleUpdateCommand
 
runCommmand(String) - Method in class net.sourceforge.fluxion.spi.utils.ProcessRunner
Execute the string as a native system process.
runSelectedPlugin(URL, String, String[]) - Method in class net.sourceforge.fluxion.pussycat.util.PluginManager
Invokes the selected plugin's main class

S

saveRules(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.SessionUtilsBean
 
SchemaNameAnn - Annotation Type in net.sourceforge.fluxion.annotations
An Annotation describing the database schema this table belongs to.
searchableObject - Variable in class net.sourceforge.fluxion.pussycat.util.AbstractPussycatSearcher
 
SelectDataValue - Class in net.sourceforge.fluxion.runcible.impl
Javadocs go here.
SelectDataValue() - Constructor for class net.sourceforge.fluxion.runcible.impl.SelectDataValue
 
SelectIndividualValue - Class in net.sourceforge.fluxion.runcible.impl
Javadocs go here.
SelectIndividualValue() - Constructor for class net.sourceforge.fluxion.runcible.impl.SelectIndividualValue
 
selection - Variable in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
selectionChanged(Renderlet) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatRenderletNexus
 
selectionChanged(Renderlet) - Method in interface net.sourceforge.fluxion.pussycat.renderlets.RenderletNexus
Called whenever a renderlet changes.
selectsClass() - Method in interface net.sourceforge.fluxion.pussycat.renderlets.Renderlet
 
selectsClass() - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
SEQUENCE_MAP - Static variable in class net.sourceforge.fluxion.pussycat.util.PussycatOWLConstants
 
SEQUENCE_REGION - Static variable in class net.sourceforge.fluxion.pussycat.util.PussycatOWLConstants
 
SequenceMap - Class in net.sourceforge.fluxion.pussycat.svg
The SequenceMap class Defines a single backbone map, displaying a region of a defined size, capable of being zoomed
SequenceMap(Reasoner, OWLOntology, OWLIndividual) - Constructor for class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
ServiceConfigurationError - Error in net.sourceforge.fluxion.spi.exception
An error that gets thrown whenever a service discovery hits a problem; this may be due to classloading problems, class-cast problems or other related difficulties.
ServiceConfigurationError() - Constructor for error net.sourceforge.fluxion.spi.exception.ServiceConfigurationError
 
ServiceConfigurationError(String) - Constructor for error net.sourceforge.fluxion.spi.exception.ServiceConfigurationError
 
ServiceConfigurationError(Throwable) - Constructor for error net.sourceforge.fluxion.spi.exception.ServiceConfigurationError
 
ServiceConfigurationError(String, Throwable) - Constructor for error net.sourceforge.fluxion.spi.exception.ServiceConfigurationError
 
ServiceProvider - Annotation Type in net.sourceforge.fluxion.spi
Annotate a class as being a provider of an SPI.
ServiceUtilsBean - Class in net.sourceforge.fluxion.beans
Created by IntelliJ IDEA.
ServiceUtilsBean() - Constructor for class net.sourceforge.fluxion.beans.ServiceUtilsBean
 
SessionCheckException - Exception in net.sourceforge.fluxion.beans.exception
Created by IntelliJ IDEA.
SessionCheckException(String) - Constructor for exception net.sourceforge.fluxion.beans.exception.SessionCheckException
 
SessionManagementService - Class in net.sourceforge.fluxion.pussycat.spring.service.ajaxified
Created by IntelliJ IDEA.
SessionManagementService() - Constructor for class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.SessionManagementService
 
SessionUtilsBean - Class in net.sourceforge.fluxion.beans
 
SessionUtilsBean() - Constructor for class net.sourceforge.fluxion.beans.SessionUtilsBean
 
setActiveOntology(URI) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
setActiveOntology(OWLOntology) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
setAjaxExporter(AjaxExporter) - Method in class net.sourceforge.fluxion.ajax.controller.AjaxController
 
setAjaxHandler(AjaxHandler) - Method in class net.sourceforge.fluxion.ajax.controller.AjaxController
 
setApplicationContext(ApplicationContext) - Method in class net.sourceforge.fluxion.ajax.AjaxExporter
 
setApplicationOntology(OWLOntology) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
setAsRoot(Node) - Method in class net.sourceforge.fluxion.graph.AbstractGraph
 
setAsRoot(Node) - Method in interface net.sourceforge.fluxion.graph.Graph
Sets this node as the root.
setAutoCommit(boolean) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
setAutoCreateBrowserTab(boolean) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
setAutoFullEntityCaching(boolean) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
setAutoReasoning(boolean) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
setBasePussycatDir(String) - Method in class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.SessionManagementService
 
setBeanClassName(String) - Method in class net.sourceforge.fluxion.datasource.filter.impl.Join
 
setBeanMethodName(String) - Method in class net.sourceforge.fluxion.datasource.filter.impl.Join
 
setCatalog(String) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
setClassName(String) - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanConfig
Set the short bean name.
setClientInfo(String, String) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
setClientInfo(Properties) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
setCollapsed(boolean) - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
setCollapsed(boolean) - Method in interface net.sourceforge.fluxion.pussycat.svg.PussycatMap
 
setCollapsed(boolean) - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
setColorScheme(ColorScheme) - Method in interface net.sourceforge.fluxion.graph.view.GraphView
 
setColorScheme(ColorScheme) - Method in class net.sourceforge.fluxion.runcible.graph.view.DotGraphView
 
setColorScheme(ColorScheme) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotEdgeViewFactory
Sets the ColorScheme to use for DotEdgeViewFactory.
setColorScheme(ColorScheme) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotGraphViewFactory
Sets the ColorScheme to use for the produced Graph
setColorScheme(ColorScheme) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotNodeViewFactory
Sets the ColorScheme to use for the produced Node.
setColorScheme(ColorScheme) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexEdgeViewFactory
Sets the ColorScheme to use for DotEdgeViewFactory.
setColorScheme(ColorScheme) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexGraphViewFactory
Sets the ColorScheme to use for the produced Graph
setColorScheme(ColorScheme) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexNodeViewFactory
Sets the ColorScheme to use for the produced Node.
setColorScheme(ColorScheme) - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexGraphView
 
setCommands(List<ChangeCommand>) - Method in class net.sourceforge.fluxion.runcible.io.command.impl.CompositeCommand
 
setContentType(String) - Method in interface net.sourceforge.fluxion.ajax.handler.AjaxHandler
 
setContentType(String) - Method in class net.sourceforge.fluxion.ajax.handler.impl.AjaxHandlerImpl
 
setContentType(String) - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
setCoreRenderlets(Set<String>) - Method in class net.sourceforge.fluxion.pussycat.spring.service.RenderletHotloaderService
 
setCurrentHistoryIndex(int) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatResourceHistory
 
setDatabaseName(String) - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanWriter
 
setDataClauses(List<DataClause>) - Method in class net.sourceforge.fluxion.runcible.impl.StandardRule
 
setDataClauses(List<DataClause>) - Method in interface net.sourceforge.fluxion.runcible.Rule
 
setDataPropertyURI(URI) - Method in interface net.sourceforge.fluxion.runcible.DataSelection
 
setDataPropertyURI(URI) - Method in class net.sourceforge.fluxion.runcible.impl.SelectDataValue
 
setDataRange(DataRange) - Method in class net.sourceforge.fluxion.runcible.impl.SelectDataValue
 
setDataSelection(DataSelection) - Method in interface net.sourceforge.fluxion.runcible.DataClause
 
setDataSelection(DataSelection) - Method in class net.sourceforge.fluxion.runcible.impl.DataClauseImpl
 
setDataSources(List<DataSource>) - Method in class net.sourceforge.fluxion.spring.DelegatingFluxionService
Set the list of DataSource implementations used by this FluxionService
setDatatypePropertyURI(URI) - Method in class net.sourceforge.fluxion.runcible.impl.DataConstantAssertion
 
setDatatypePropertyURI(URI) - Method in class net.sourceforge.fluxion.runcible.impl.DataValueAssertion
 
setDefaultTimeout(int) - Method in class net.sourceforge.fluxion.utils.ReasonerSessionManager
Sets the default period of time that this ReasonerSessionManager will wait before creating a new ReasonerSession, whenever ReasonerSessionManager.acquireReasonerSession(org.semanticweb.owl.model.OWLOntology) is called.
setDescription(String) - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
setDescription(String) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatMarker
 
setDirectTree(boolean) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatClassHierarchyEntity
 
setDisplayName(String) - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
setDisplayParams(Map<String, String>) - Method in class net.sourceforge.fluxion.runcible.graph.view.DotEdgeView
 
setDisplayParams(Map<String, String>) - Method in class net.sourceforge.fluxion.runcible.graph.view.DotNodeView
 
setDisplayParams(Map<String, String>) - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexEdgeView
 
setDisplayParams(Map<String, String>) - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexNodeView
 
setDockingParent(String) - Method in class net.sourceforge.fluxion.pussycat.entity.AbstractDockable
 
setEdgeChanged(Edge) - Method in class net.sourceforge.fluxion.graph.listener.GraphChangeEvent
 
setEdgeViews(Set<EdgeView>) - Method in interface net.sourceforge.fluxion.graph.view.GraphView
 
setEdgeViews(Set<EdgeView>) - Method in class net.sourceforge.fluxion.runcible.graph.view.DotGraphView
 
setEdgeViews(Set<EdgeView>) - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexGraphView
 
setEnd(int) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatMarker
 
setEntity(OWLOntology) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.DirectClassHierarchyEntity
 
setEntity(OWLOntology) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.IndirectClassHierarchyEntity
 
setEntity(OWLOntology) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatClassHierarchyEntity
 
setEntity(OWLOntology) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatEntityListEntity
 
setEntity(OWLIndividual) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatMarkerEntity
 
setEntity(OWLOntology) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatOntologySummaryEntity
 
setEntity(OWLEntity) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatResourceViewEntity
 
setEntity(T) - Method in interface net.sourceforge.fluxion.pussycat.entity.RenderableOWLEntity
 
setEntity(OWLNamedObject) - Method in class net.sourceforge.fluxion.pussycat.svg.ConceptGlyph
 
setEntity(OWLIndividual) - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
setEntity(OWLIndividual) - Method in class net.sourceforge.fluxion.pussycat.svg.PussycatMappingHitEntity
 
setEntity(OWLIndividual) - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
setEntityAnn(Class) - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanConfig
 
setErrorMessage(String) - Method in class net.sourceforge.fluxion.ajax.beans.util.ProcessListener
 
setFacts(List<Fact>) - Method in class net.sourceforge.fluxion.runcible.impl.StandardRule
 
setFacts(List<Fact>) - Method in interface net.sourceforge.fluxion.runcible.Rule
 
setFilter(Class) - Method in class net.sourceforge.fluxion.pussycat.util.AbstractPussycatSearcher
 
setFinished(boolean) - Method in class net.sourceforge.fluxion.ajax.beans.util.ProcessListener
 
setFluxionService(FluxionService) - Method in class net.sourceforge.fluxion.spring.endpoint.AbstractFluxionEndpoint
Inject a FluxionService to be used by the endpoint after it's dealt with the XML marshalling operations
setFluxionServices(Set<FluxionService>) - Method in class net.sourceforge.fluxion.beans.ServiceUtilsBean
 
setFluxionServices(Set<FluxionService>) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
setFluxionServices(Set<FluxionService>) - Method in class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.SessionManagementService
 
setFluxionServiceTemplate(WebServiceTemplate) - Method in class net.sourceforge.fluxion.beans.ServiceUtilsBean
 
setForall(Forall) - Method in class net.sourceforge.fluxion.runcible.impl.StandardRule
 
setForall(Forall) - Method in interface net.sourceforge.fluxion.runcible.Rule
 
setGraph(Graph) - Method in interface net.sourceforge.fluxion.graph.view.GraphView
 
setGraph(Graph) - Method in class net.sourceforge.fluxion.runcible.graph.view.DotGraphView
 
setGraph(Graph) - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexGraphView
 
setGraphView(GraphView) - Method in class net.sourceforge.fluxion.graph.view.renderer.AbstractGraphViewRenderer
 
setGraphView(GraphView) - Method in interface net.sourceforge.fluxion.graph.view.renderer.GraphViewRenderer
 
setHeadNode(Node) - Method in class net.sourceforge.fluxion.graph.AbstractEdge
 
setHeadNode(Node) - Method in interface net.sourceforge.fluxion.graph.Edge
Set the Node at the head of this Edge.
setHeadNodeName(String) - Method in interface net.sourceforge.fluxion.graph.view.EdgeView
 
setHeadNodeName(String) - Method in class net.sourceforge.fluxion.runcible.graph.view.DotEdgeView
 
setHeadNodeName(String) - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexEdgeView
 
setHeight(double) - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
setHeight(double) - Method in interface net.sourceforge.fluxion.pussycat.svg.PussycatMap
 
setHeight(double) - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
setHiddenNodes(Set<Node>) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotGraphViewFactory
 
setHiddenNodes(Set<Node>) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexGraphViewFactory
 
setHoldability(int) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
setHttpNonProxyHosts(String) - Method in class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.SessionManagementService
 
setHttpProxy(String) - Method in class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.SessionManagementService
 
setHttpProxyPort(String) - Method in class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.SessionManagementService
 
setHttpSession(HttpSession) - Method in class net.sourceforge.fluxion.ajax.controller.AjaxController
 
setId(String) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.DirectClassHierarchyEntity
 
setId(String) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.IndirectClassHierarchyEntity
 
setId(String) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatClassHierarchyEntity
 
setId(String) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatEntityListEntity
 
setId(String) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatLayoutListEntity
 
setId(String) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatMarkerEntity
 
setId(String) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatOntologySummaryEntity
 
setId(String) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatRenderletListEntity
 
setId(String) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatResourceViewEntity
 
setId(String) - Method in interface net.sourceforge.fluxion.pussycat.entity.RenderableInPussycat
 
setId(String) - Method in interface net.sourceforge.fluxion.pussycat.renderlets.Renderlet
 
setId(String) - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
setId(String) - Method in class net.sourceforge.fluxion.pussycat.svg.ConceptGlyph
 
setId(String) - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
setId(String) - Method in class net.sourceforge.fluxion.pussycat.svg.PussycatMappingHitEntity
 
setId(String) - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
setId(String) - Method in class net.sourceforge.fluxion.pussycat.svg.VertSVGMap
 
setID(String) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatMarker
 
setIdentifier(String) - Method in interface net.sourceforge.fluxion.runcible.Fact
 
setIdentifier(String) - Method in class net.sourceforge.fluxion.runcible.impl.ClassAssertion
 
setIdentifier(String) - Method in class net.sourceforge.fluxion.runcible.impl.DataConstantAssertion
 
setIdentifier(String) - Method in class net.sourceforge.fluxion.runcible.impl.DataValueAssertion
 
setIdentifier(String) - Method in class net.sourceforge.fluxion.runcible.impl.ObjectValueAssertion
 
setIndividualOf(URI) - Method in class net.sourceforge.fluxion.runcible.impl.ClassAssertion
 
setIndividualSelection(IndividualSelection) - Method in class net.sourceforge.fluxion.runcible.impl.StandardRule
 
setIndividualSelection(IndividualSelection) - Method in interface net.sourceforge.fluxion.runcible.Rule
 
setJoinedFilter(Filter) - Method in class net.sourceforge.fluxion.datasource.filter.impl.Join
 
setLabel(String) - Method in class net.sourceforge.fluxion.graph.AbstractEdge
 
setLabel(String) - Method in class net.sourceforge.fluxion.graph.AbstractNode
 
setLabel(String) - Method in interface net.sourceforge.fluxion.graph.Edge
Sets the String to use as a label.
setLabel(String) - Method in interface net.sourceforge.fluxion.graph.Node
Set the identifier that can be used to label an individual.
setLabel(String) - Method in interface net.sourceforge.fluxion.graph.view.EdgeView
 
setLabel(String) - Method in class net.sourceforge.fluxion.runcible.graph.view.DotEdgeView
 
setLabel(String) - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexEdgeView
 
setLineBreak(LineBreak) - Method in class net.sourceforge.fluxion.ajax.beans.util.ProcessListener
 
setMapId(String) - Method in class net.sourceforge.fluxion.pussycat.svg.CircularLinkMap
 
setMapIndividuals(Hashtable<String, String>) - Method in class net.sourceforge.fluxion.pussycat.svg.CircularLinkMap
 
setMapName(String) - Method in class net.sourceforge.fluxion.pussycat.svg.CircularLinkMap
 
setMapName(String) - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
setMapName(String) - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
setMapOntology(OWLOntology) - Method in class net.sourceforge.fluxion.pussycat.svg.CircularLinkMap
 
setMapping(Mapping) - Method in class net.sourceforge.fluxion.runcible.graph.manager.RuncibleChangeFactory
 
setMapping(List<QueryTransformerConfiguration>) - Method in class net.sourceforge.fluxion.spring.QueryTransformingFluxionService
Inject a list of configuration objects defining the mapping from underlying data source to rules documents
setMavenLocalRepository(String) - Method in class net.sourceforge.fluxion.spi.SPIManager
Set the local repository used by Maven for this system.
setMavenRemoteRepositories(Set<String>) - Method in class net.sourceforge.fluxion.spi.SPIManager
Set a Set of Maven remote repositories Raven can use to download artifacts from.
setMaxNumberOfSessions(int) - Method in class net.sourceforge.fluxion.utils.ReasonerSessionManager
Sets the default maximum number of sessions that can be created.
setMetaAnn(Class) - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanConfig
Set the name of the structure being retrieved.
setMethodAnnotations(Map<String, List<String>>) - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanConfig
Add an annotation to a given method.
setMethods(Map<String, String>) - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanConfig
Set the map of methods (which is actually a map of String methodName -> String returnType) for this bean.
setMinimised(boolean) - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
setMinimised(boolean) - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
setName(String) - Method in class net.sourceforge.fluxion.graph.AbstractGraph
 
setName(String) - Method in interface net.sourceforge.fluxion.graph.Graph
Sets the name of this graph
setName(String) - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
setNamespace(String) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatMarker
 
setNext(IndividualSelection) - Method in class net.sourceforge.fluxion.runcible.impl.InPlace
 
setNext(IndividualSelection) - Method in class net.sourceforge.fluxion.runcible.impl.RootAt
 
setNext(IndividualSelection) - Method in class net.sourceforge.fluxion.runcible.impl.SelectIndividualValue
 
setNext(IndividualSelection) - Method in interface net.sourceforge.fluxion.runcible.IndividualSelection
 
setNextRules(List<Rule>) - Method in class net.sourceforge.fluxion.runcible.impl.StandardRule
 
setNextRules(List<Rule>) - Method in interface net.sourceforge.fluxion.runcible.Rule
 
setNexus(PussycatRenderletNexus) - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
setNodeChanged(Node) - Method in class net.sourceforge.fluxion.graph.listener.GraphChangeEvent
 
setNodeName(String) - Method in interface net.sourceforge.fluxion.graph.view.NodeView
 
setNodeName(String) - Method in class net.sourceforge.fluxion.runcible.graph.view.DotNodeView
 
setNodeName(String) - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexNodeView
 
setNodeViews(Set<NodeView>) - Method in interface net.sourceforge.fluxion.graph.view.GraphView
 
setNodeViews(Set<NodeView>) - Method in class net.sourceforge.fluxion.runcible.graph.view.DotGraphView
 
setNodeViews(Set<NodeView>) - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexGraphView
 
setObjectColour(String) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
setObjectPropertyURI(URI) - Method in class net.sourceforge.fluxion.runcible.impl.ObjectValueAssertion
 
setObjectPropertyURI(URI) - Method in class net.sourceforge.fluxion.runcible.impl.SelectIndividualValue
 
setOfflineMode(boolean) - Method in class net.sourceforge.fluxion.spi.SPIManager
Set offline mode - when this is true, Raven will never download artifacts from remote repositories.
setOntologyLocation(Resource) - Method in class net.sourceforge.fluxion.spring.OntologyFactoryBean
Set the location of an ontology file in OWL XML format
setOntologyManager(OWLOntologyManager) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
setOWLClassURI(URI) - Method in class net.sourceforge.fluxion.runcible.impl.InPlace
 
setOWLClassURI(URI) - Method in class net.sourceforge.fluxion.runcible.impl.RootAt
 
setOWLObject(OWLObject) - Method in class net.sourceforge.fluxion.runcible.graph.DataConstantNode
 
setOWLObject(OWLObject) - Method in class net.sourceforge.fluxion.runcible.graph.DataValueNode
 
setOWLObject(OWLObject) - Method in class net.sourceforge.fluxion.runcible.graph.IndividualNode
 
setOWLObject(OWLObject) - Method in class net.sourceforge.fluxion.runcible.graph.MemberOfNode
 
setOWLObject(OWLObject) - Method in class net.sourceforge.fluxion.runcible.graph.ObjectValueNode
 
setOWLObject(OWLObject) - Method in interface net.sourceforge.fluxion.runcible.graph.OWLNode
Set the OWLObject that describes this Node on the graph.
setOWLObject(OWLObject) - Method in class net.sourceforge.fluxion.runcible.graph.RestrictedNode
For a RestrictedNode, this method should set the parent class that restrictions can be added to.
setOWLObject(OWLObject) - Method in class net.sourceforge.fluxion.runcible.graph.WalkedToDataNode
 
setOWLObject(OWLObject) - Method in class net.sourceforge.fluxion.runcible.graph.WalkedToObjectNode
 
setOWLOntology(OWLOntology) - Method in class net.sourceforge.fluxion.runcible.graph.DefaultGraph
 
setOWLOntology(OWLOntology) - Method in interface net.sourceforge.fluxion.runcible.graph.OWLGraph
Directly sets the pre-loaded OWLOntology
setOWLOntologyLocation(URL) - Method in class net.sourceforge.fluxion.runcible.graph.DefaultGraph
 
setOWLOntologyLocation(URL) - Method in interface net.sourceforge.fluxion.runcible.graph.OWLGraph
Sets the ontology this graph represents given the URL to the location of OWL file.
setOWLProperty(OWLProperty) - Method in class net.sourceforge.fluxion.runcible.graph.IsAEdge
 
setOWLProperty(OWLProperty) - Method in class net.sourceforge.fluxion.runcible.graph.NestedEdge
 
setOWLProperty(OWLProperty) - Method in interface net.sourceforge.fluxion.runcible.graph.OWLEdge
Set the OWLProperty that this edge represents.
setOWLProperty(OWLProperty) - Method in class net.sourceforge.fluxion.runcible.graph.ValueEdge
 
setOWLProperty(OWLProperty) - Method in class net.sourceforge.fluxion.runcible.graph.WalkEdge
 
setPattern(String) - Method in class net.sourceforge.fluxion.pussycat.util.AbstractPussycatSearcher
 
setPelletLogLevel(Level) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
setPlaceHeight(int) - Method in class net.sourceforge.fluxion.pussycat.svg.VertSVGMap
 
setPlaceWidth(int) - Method in class net.sourceforge.fluxion.pussycat.svg.VertSVGMap
 
setPredicateColour(String) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
setProgressMessage(String) - Method in class net.sourceforge.fluxion.ajax.beans.util.ProcessListener
 
setProgressMonitor(ReasonerProgressMonitor) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
setQueryTransformer(QueryTransformer) - Method in class net.sourceforge.fluxion.spring.QueryTransformingFluxionService
Inject a QueryTransformer to perform the actual query manipulation
setRadius(int) - Method in class net.sourceforge.fluxion.pussycat.svg.CircularLinkMap
 
setRavenRepository(String) - Method in class net.sourceforge.fluxion.spi.SPIManager
Set the local repository Raven will use
setReadOnly(boolean) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
setReasoner(Reasoner) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
setReasoner(Reasoner) - Method in class net.sourceforge.fluxion.pussycat.util.cache.OWLEntityCache
 
setReasonerListenForOntologyChanges(boolean) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
setReasonerTimeoutLimit(String) - Method in class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.SessionManagementService
 
setRecycleAfter(int) - Method in class net.sourceforge.fluxion.utils.ReasonerSessionManager
Sets the number of seconds ReasonerSessions are allowed to remain idle before getting recycled.
setRenderlet(Renderlet) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.DirectClassHierarchyEntity
 
setRenderlet(Renderlet) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.IndirectClassHierarchyEntity
 
setRenderlet(Renderlet) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatClassHierarchyEntity
 
setRenderlet(Renderlet) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatEntityListEntity
 
setRenderlet(Renderlet) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatLayoutListEntity
 
setRenderlet(Renderlet) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatMarkerEntity
 
setRenderlet(Renderlet) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatOntologySummaryEntity
 
setRenderlet(Renderlet) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatRenderletListEntity
 
setRenderlet(Renderlet) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatResourceViewEntity
 
setRenderlet(Renderlet) - Method in interface net.sourceforge.fluxion.pussycat.entity.RenderableInPussycat
 
setRenderlet(Renderlet) - Method in class net.sourceforge.fluxion.pussycat.svg.ConceptGlyph
 
setRenderlet(Renderlet) - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
setRenderlet(Renderlet) - Method in class net.sourceforge.fluxion.pussycat.svg.PussycatMappingHitEntity
 
setRenderlet(Renderlet) - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
setRenderlet(Renderlet) - Method in class net.sourceforge.fluxion.pussycat.svg.VertSVGMap
 
setRenderletListeners(Set<RenderletListener>) - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
setRulesDocumentFile(String) - Method in class net.sourceforge.fluxion.spring.QueryTransformerConfiguration
Define the rules file to use.
setSavepoint() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
setSavepoint(String) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
setSchema(OWLOntology) - Method in class net.sourceforge.fluxion.pussycat.svg.ConceptGlyph
 
setSchema(OWLOntology) - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
setSchema(OWLOntology) - Method in class net.sourceforge.fluxion.pussycat.svg.PussycatMappingHitEntity
 
setSchema(OWLOntology) - Method in interface net.sourceforge.fluxion.pussycat.svg.PussycatSVGEntity
 
setSchema(OWLOntology) - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
setSchemaNameAnn(String) - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanConfig
 
setScrollUnit(double) - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
setScrollUnit(double) - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
setSearchPreCaching(boolean) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
setSelectedObject(S) - Method in interface net.sourceforge.fluxion.pussycat.renderlets.Renderlet
 
setSelectedObject(S) - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
setSelfUpdatable(boolean) - Method in interface net.sourceforge.fluxion.pussycat.renderlets.Renderlet
 
setSelfUpdatable(boolean) - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
setServiceEndpoint(URI) - Method in class net.sourceforge.fluxion.spring.wsclient.SOAPFluxionService
Messages are sent to this endpoint
setServices(List<FluxionService>) - Method in class net.sourceforge.fluxion.spring.QueryTransformingFluxionService
Inject a list of one or more fluxion services which can be mapped by this transforming service
setSessionProxy(String, int, String) - Method in class net.sourceforge.fluxion.pussycat.FluxionServiceClient
 
setSessionProxy(String, int, String) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
setSourceAndTargetOntologies(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.MappingManagerUtilsBean
 
setSourceColours(ColorScheme) - Method in class net.sourceforge.fluxion.runcible.graph.mapping.MappingManager
 
setSourceOntology(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.MappingManagerUtilsBean
 
setSourceOntology(OWLOntology) - Method in class net.sourceforge.fluxion.runcible.graph.mapping.MappingManager
 
setSourceOntologyURI(URI) - Method in class net.sourceforge.fluxion.runcible.impl.MappingImpl
 
setSourceOntologyURI(URI) - Method in interface net.sourceforge.fluxion.runcible.Mapping
Set the URI of the source ontology for this mapping.
setSpiManager(SPIManager) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
setSpiManager(SPIManager) - Method in class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.SessionManagementService
 
setSpiManager(SPIManager) - Method in class net.sourceforge.fluxion.pussycat.spring.service.RenderletHotloaderService
 
setStart(int) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatMarker
 
setStarted(boolean) - Method in class net.sourceforge.fluxion.ajax.beans.util.ProcessListener
 
setSubjectColour(String) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
setTableNameAnn(String) - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanConfig
 
setTailNode(Node) - Method in class net.sourceforge.fluxion.graph.AbstractEdge
 
setTailNode(Node) - Method in interface net.sourceforge.fluxion.graph.Edge
Set the Node at the tail of this Edge.
setTailNodeName(String) - Method in interface net.sourceforge.fluxion.graph.view.EdgeView
 
setTailNodeName(String) - Method in class net.sourceforge.fluxion.runcible.graph.view.DotEdgeView
 
setTailNodeName(String) - Method in class net.sourceforge.fluxion.runcible.graph.view.FlexEdgeView
 
setTargetColours(ColorScheme) - Method in class net.sourceforge.fluxion.runcible.graph.mapping.MappingManager
 
setTargetOntology(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.MappingManagerUtilsBean
 
setTargetOntology(OWLOntology) - Method in class net.sourceforge.fluxion.runcible.graph.mapping.MappingManager
 
setTargetOntologyURI(URI) - Method in class net.sourceforge.fluxion.runcible.impl.MappingImpl
 
setTargetOntologyURI(URI) - Method in interface net.sourceforge.fluxion.runcible.Mapping
Set the URI of the target ontology for this mapping.
setTransactionIsolation(int) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
setType(BeanConfig, String) - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLBeanFactory
 
setTypeMap(Map<String, Class<?>>) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
setUnderlyingDataSourceURI(String) - Method in class net.sourceforge.fluxion.spring.QueryTransformerConfiguration
Define the URI of the underlying data source called after the query has been transformed from the exposed schema
setUpdatedRenderlet(Renderlet) - Method in class net.sourceforge.fluxion.pussycat.renderlets.RenderletUpdateEvent
 
setUpdating(boolean) - Method in interface net.sourceforge.fluxion.pussycat.renderlets.Renderlet
 
setUpdating(boolean) - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
setUpfrontGraphGeneration(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.MappingManagerUtilsBean
 
setUpManager(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.MappingManagerUtilsBean
 
setUserLevel(String) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
setUserLevel(String) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatUtils
 
setValue(T) - Method in class net.sourceforge.fluxion.datasource.filter.impl.ExactValue
 
setValue(N) - Method in class net.sourceforge.fluxion.datasource.filter.impl.GreaterThan
 
setValue(N) - Method in class net.sourceforge.fluxion.datasource.filter.impl.LessThan
 
setValueOf(String) - Method in class net.sourceforge.fluxion.runcible.impl.DataConstantAssertion
 
setValueOf(String) - Method in class net.sourceforge.fluxion.runcible.impl.DataValueAssertion
 
setValueOf(String) - Method in class net.sourceforge.fluxion.runcible.impl.ObjectValueAssertion
 
setValueRestriction(URI, String) - Method in class net.sourceforge.fluxion.runcible.impl.InPlace
 
setValues(T) - Method in class net.sourceforge.fluxion.datasource.filter.impl.And
 
setValues(Set<T>) - Method in class net.sourceforge.fluxion.datasource.filter.impl.Or
 
setValueToSet(String) - Method in class net.sourceforge.fluxion.runcible.impl.DataConstantAssertion
 
setValueToSet(String) - Method in class net.sourceforge.fluxion.runcible.impl.DataValueAssertion
 
setValueToSet(String) - Method in class net.sourceforge.fluxion.runcible.impl.ObjectValueAssertion
 
setVariableID(String) - Method in interface net.sourceforge.fluxion.runcible.DataClause
 
setVariableID(String) - Method in class net.sourceforge.fluxion.runcible.impl.DataClauseImpl
 
setVariableID(String) - Method in class net.sourceforge.fluxion.runcible.impl.Forall
 
setWebServiceTemplate(WebServiceTemplate) - Method in class net.sourceforge.fluxion.spring.wsclient.SOAPFluxionService
The SOAPFluxionService uses a WebServiceTemplate instance to actually send the messages to the remote service.
setXOffset(int) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatMarkerEntity
 
setXOffset(int) - Method in class net.sourceforge.fluxion.pussycat.svg.CircularLinkMap
 
setXOffset(int) - Method in class net.sourceforge.fluxion.pussycat.svg.ConceptGlyph
 
setXOffset(int) - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
setXOffset(int) - Method in interface net.sourceforge.fluxion.pussycat.svg.PussycatMap
 
setXOffset(int) - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
setYOffset(int) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatMarkerEntity
 
setYOffset(int) - Method in class net.sourceforge.fluxion.pussycat.svg.CircularLinkMap
 
setYOffset(int) - Method in class net.sourceforge.fluxion.pussycat.svg.ConceptGlyph
 
setYOffset(int) - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
setYOffset(int) - Method in interface net.sourceforge.fluxion.pussycat.svg.PussycatMap
 
setYOffset(int) - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
simpleHrefLinker() - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatLinkerFactory
 
SimpleJSONError(String) - Static method in class net.sourceforge.fluxion.ajax.util.JSONUtils
 
SimpleJSONResponse(String) - Static method in class net.sourceforge.fluxion.ajax.util.JSONUtils
 
SOAPFluxionService - Class in net.sourceforge.fluxion.spring.wsclient
Implementation of FluxionService that proxies through SOAP to a remote FluxionService web service endpoint.
SOAPFluxionService() - Constructor for class net.sourceforge.fluxion.spring.wsclient.SOAPFluxionService
 
sortSet(Set) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatUtils
 
sortStringSet(Set) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatUtils
 
SourceOWLGraphFactory - Class in net.sourceforge.fluxion.runcible.graph.factory
SourceGraphFactory generates a graph representing the selections in a mapping, and the relationships between them.
SourceOWLGraphFactory(URL) - Constructor for class net.sourceforge.fluxion.runcible.graph.factory.SourceOWLGraphFactory
 
SourceOWLGraphFactory(OWLOntology) - Constructor for class net.sourceforge.fluxion.runcible.graph.factory.SourceOWLGraphFactory
 
SparqlQueryRenderlet - Class in net.sourceforge.fluxion.pussycat.renderlets.impl
 
SparqlQueryRenderlet() - Constructor for class net.sourceforge.fluxion.pussycat.renderlets.impl.SparqlQueryRenderlet
 
SparqlQueryRenderletProvider - Class in net.sourceforge.fluxion.pussycat.renderlets.impl
Makes MyRenderlet discoverable by SPI.
SparqlQueryRenderletProvider() - Constructor for class net.sourceforge.fluxion.pussycat.renderlets.impl.SparqlQueryRenderletProvider
 
Spi - Annotation Type in net.sourceforge.fluxion.spi
An annotation that marks an interface as being an Service Provider Interface (SPI).
SPIManager - Class in net.sourceforge.fluxion.spi
A Manager class for Service Provider utilities.
SPIManager() - Constructor for class net.sourceforge.fluxion.spi.SPIManager
 
SpiProcessor - Class in net.sourceforge.fluxion.spi
Process Spi and SpiProcessor annotations, generating appropriate files in META-INF/services.
SpiProcessor() - Constructor for class net.sourceforge.fluxion.spi.SpiProcessor
 
SPIUtils - Class in net.sourceforge.fluxion.spi.utils
Utils classes for accessing methods related to this implementation of the Sun SPI framework.
SPIUtils() - Constructor for class net.sourceforge.fluxion.spi.utils.SPIUtils
 
SQLBeanFactory - Class in net.sourceforge.fluxion.datapublisher.sql.impl
An implementation of BeanFactory that generates beans from an SQL datasource connection.
SQLBeanFactory() - Constructor for class net.sourceforge.fluxion.datapublisher.sql.impl.SQLBeanFactory
 
SQLQuery<T> - Class in net.sourceforge.fluxion.datapublisher.sql.impl
Models a query against a MySQL bean.
SQLQuery(Class<T>, Filter, String, String, String) - Constructor for class net.sourceforge.fluxion.datapublisher.sql.impl.SQLQuery
 
SQLQueryFactory - Class in net.sourceforge.fluxion.datapublisher.sql.impl
Generates a Query that can be executed against a MySQL database.
SQLQueryFactory(String, String, String) - Constructor for class net.sourceforge.fluxion.datapublisher.sql.impl.SQLQueryFactory
 
StandardRule - Class in net.sourceforge.fluxion.runcible.impl
Javadocs go here.
StandardRule() - Constructor for class net.sourceforge.fluxion.runcible.impl.StandardRule
 
startDocument(OWLOntology) - Method in class net.sourceforge.fluxion.spring.xml.FluxionOWLXMLWriter
 
startScript(StringBuffer) - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatJavascriptUtils
 
storeChangeCommand(ChangeCommand) - Method in interface net.sourceforge.fluxion.runcible.io.command.ChangeInvoker
 
storeChangeCommand(ChangeCommand) - Method in class net.sourceforge.fluxion.runcible.io.command.impl.DefaultChangeInvoker
 
submitCommand(ChangeCommand) - Method in class net.sourceforge.fluxion.runcible.io.command.Transaction
 
submitOntology(OWLOntology) - Method in class net.sourceforge.fluxion.spring.xml.OWLDOMinator
 
supports(Class) - Method in class net.sourceforge.fluxion.beans.utils.FileUploadValidator
 
SVGElementUtils - Class in net.sourceforge.fluxion.runcible.graph.view.utils
Javadocs go here.
SVGElementUtils() - Constructor for class net.sourceforge.fluxion.runcible.graph.view.utils.SVGElementUtils
 
SvgService - Class in net.sourceforge.fluxion.pussycat.spring.service
Created by IntelliJ IDEA.
SvgService() - Constructor for class net.sourceforge.fluxion.pussycat.spring.service.SvgService
 
SVGUtils - Class in net.sourceforge.fluxion.pussycat.svg
 
SVGUtils() - Constructor for class net.sourceforge.fluxion.pussycat.svg.SVGUtils
 

T

TableNameAnn - Annotation Type in net.sourceforge.fluxion.annotations
An annotation that describes the name of the table that this bean models.
TargetOWLGraphFactory - Class in net.sourceforge.fluxion.runcible.graph.factory
Javadocs go here.
TargetOWLGraphFactory(URL) - Constructor for class net.sourceforge.fluxion.runcible.graph.factory.TargetOWLGraphFactory
 
TargetOWLGraphFactory(OWLOntology) - Constructor for class net.sourceforge.fluxion.runcible.graph.factory.TargetOWLGraphFactory
 
taskFinished() - Method in class net.sourceforge.fluxion.pussycat.util.ReasonerProgressMonitor
 
taskStarted() - Method in class net.sourceforge.fluxion.pussycat.util.ReasonerProgressMonitor
 
terminateDatasourceConnection() - Method in interface net.sourceforge.fluxion.datapublisher.beangen.BeanFactory
Close the connection to the underlying datasource.
terminateDatasourceConnection() - Method in class net.sourceforge.fluxion.datapublisher.biomart.impl.BiomartBeanFactory
 
terminateDatasourceConnection() - Method in class net.sourceforge.fluxion.datapublisher.mysql.impl.MySQLBeanFactory
 
terminateDatasourceConnection() - Method in class net.sourceforge.fluxion.datapublisher.odbc.impl.ODBCBeanFactory
 
terminateDatasourceConnection() - Method in class net.sourceforge.fluxion.datapublisher.postgresql.impl.PostgresqlBeanFactory
 
test(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.AjaxTestBean
 
test(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.pussycat.spring.beans.AjaxTestBean
 
ThreadedClassifier - Class in net.sourceforge.fluxion.pussycat.manager
 
ThreadedClassifier() - Constructor for class net.sourceforge.fluxion.pussycat.manager.ThreadedClassifier
 
ThreadedRealiser - Class in net.sourceforge.fluxion.pussycat.manager
 
ThreadedRealiser() - Constructor for class net.sourceforge.fluxion.pussycat.manager.ThreadedRealiser
 
toString() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.DirectClassHierarchyEntity
 
toString() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.IndirectClassHierarchyEntity
 
toString() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatClassHierarchyEntity
 
toString() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatEntityListEntity
 
toString() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatLayoutListEntity
 
toString() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatMarkerEntity
 
toString() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatOntologySummaryEntity
 
toString() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatRenderletListEntity
 
toString() - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatResourceViewEntity
 
toString() - Method in interface net.sourceforge.fluxion.pussycat.entity.RenderableInPussycat
 
toString() - Method in class net.sourceforge.fluxion.pussycat.svg.ConceptGlyph
 
toString() - Method in class net.sourceforge.fluxion.pussycat.svg.MappingHit
 
toString() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
toString() - Method in class net.sourceforge.fluxion.pussycat.svg.PussycatMappingHitEntity
 
toString() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
toString() - Method in class net.sourceforge.fluxion.pussycat.svg.VertSVGMap
 
toString() - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
Transaction - Class in net.sourceforge.fluxion.runcible.io.command
A Transaction is a group of commands, which must be in some way associated.
transformQueryRequest(QueryTransformerConfiguration, OntologyURIPair) - Method in interface net.sourceforge.fluxion.spring.QueryTransformer
Transform a query request using the specified configuration, transforming both query ontology and query class URI from the exposed ontology into the underlying ontology for this configuration
transformQueryResponse(QueryTransformerConfiguration, OWLOntology) - Method in interface net.sourceforge.fluxion.spring.QueryTransformer
Transform a query response from the underlying ontology defined by the configuration into the exposed ontology
TripleParamFactory<Param1,Param2,Param3,Return,T extends java.lang.Throwable> - Interface in net.sourceforge.fluxion.pussycat.renderlets
 
TripleParamService - Interface in net.sourceforge.fluxion.pussycat.renderlets
 
TypeOfAnn - Annotation Type in net.sourceforge.fluxion.annotations
An annotation describing the type of a bean.

U

undo() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddDataConstantNodeCommand
 
undo() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddDataValueNodeCommand
 
undo() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddIndividualNodeCommand
 
undo() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddMemberNodeCommand
 
undo() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddObjectValueNodeCommand
 
undo() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddRestrictedNodeCommand
 
undo() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddWalkedToDataNodeCommand
 
undo() - Method in class net.sourceforge.fluxion.runcible.graph.command.AddWalkedToObjectNodeCommand
 
undo() - Method in class net.sourceforge.fluxion.runcible.graph.command.ChangeNodeOWLObjectType
 
undo() - Method in class net.sourceforge.fluxion.runcible.graph.command.DuplicateSubtreeCommand
 
undo() - Method in class net.sourceforge.fluxion.runcible.graph.command.MappingCreationCommand
 
undo() - Method in class net.sourceforge.fluxion.runcible.graph.command.RenameNodeCommand
 
undo() - Method in class net.sourceforge.fluxion.runcible.graph.command.RunciblePlotChangesCommand
 
undo() - Method in interface net.sourceforge.fluxion.runcible.io.command.ChangeCommand
Undo this command
undo() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddDataClauseCommand
 
undo() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddDataConstantAssertionCommand
 
undo() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddDataConstantCommand
 
undo() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddDataValueAssertionCommand
 
undo() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddIndividualAxiomCommand
 
undo() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddInPlaceCommand
 
undo() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddObjectValueAssertionCommand
 
undo() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddRootAtCommand
 
undo() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddRuleCommand
 
undo() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.AddSelectIndividualValueCommand
 
undo() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.CompositeCommand
 
undo() - Method in class net.sourceforge.fluxion.runcible.io.command.impl.RuncibleUpdateCommand
 
undock() - Method in class net.sourceforge.fluxion.pussycat.entity.AbstractDockable
 
undock() - Method in interface net.sourceforge.fluxion.pussycat.entity.DockableInPussycat
 
UniqueIdAnn - Annotation Type in net.sourceforge.fluxion.annotations
An Annotation indicating that this property should be used to make the unique ID of an OWLIndividual.
unload() - Method in class net.sourceforge.fluxion.runcible.graph.mapping.MappingManager
Remove an existing mapping.
unloadAllOntologies() - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
unloadOntology(URI) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatSessionManager
 
unregister(String) - Method in class net.sourceforge.fluxion.pussycat.manager.PussycatRenderletNexus
 
UnsupportedFormatException - Exception in net.sourceforge.fluxion.runcible.graph.view.renderer
An Exception which should be thrown when an unsupported graph format is supplied to a GraphViewRenderer.
UnsupportedFormatException() - Constructor for exception net.sourceforge.fluxion.runcible.graph.view.renderer.UnsupportedFormatException
 
UnsupportedFormatException(Throwable) - Constructor for exception net.sourceforge.fluxion.runcible.graph.view.renderer.UnsupportedFormatException
 
UnsupportedFormatException(String) - Constructor for exception net.sourceforge.fluxion.runcible.graph.view.renderer.UnsupportedFormatException
 
UnsupportedFormatException(String, Throwable) - Constructor for exception net.sourceforge.fluxion.runcible.graph.view.renderer.UnsupportedFormatException
 
UnsupportedTypeException - Exception in net.sourceforge.fluxion.runcible.graph.exception
An Exception that is thrown whenever some resource is set on a OWLNode or OWLEdge which cannot handle this type.
UnsupportedTypeException() - Constructor for exception net.sourceforge.fluxion.runcible.graph.exception.UnsupportedTypeException
 
UnsupportedTypeException(String) - Constructor for exception net.sourceforge.fluxion.runcible.graph.exception.UnsupportedTypeException
 
UnsupportedTypeException(String, Throwable) - Constructor for exception net.sourceforge.fluxion.runcible.graph.exception.UnsupportedTypeException
 
UnsupportedTypeException(Throwable) - Constructor for exception net.sourceforge.fluxion.runcible.graph.exception.UnsupportedTypeException
 
unwrap(Class<T>) - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
unwrapElementName(Element) - Static method in class net.sourceforge.fluxion.runcible.graph.view.utils.SVGElementUtils
 
update(long, long, int) - Method in class net.sourceforge.fluxion.ajax.beans.util.FileUploadListener
 
update(String, String) - Method in class net.sourceforge.fluxion.pussycat.container.PussycatRenderletContainer
 
update(O) - Method in interface net.sourceforge.fluxion.pussycat.renderlets.Renderlet
 
update(String, String) - Method in interface net.sourceforge.fluxion.pussycat.renderlets.RenderletContainer
Look up the renderlet by its id, and lookup the referenced object that is being changed.
update(O) - Method in class net.sourceforge.fluxion.pussycat.renderlets.template.PussycatRenderlet
 
update(long, long, int) - Method in class net.sourceforge.fluxion.pussycat.util.FileUploadListener
 
updateBounds(double, double, double) - Method in class net.sourceforge.fluxion.pussycat.entity.impl.PussycatMarkerEntity
 
updateMapScrollBounds(double, double) - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
updateMapScrollBounds(double, double) - Method in interface net.sourceforge.fluxion.pussycat.svg.PussycatMap
 
updateMapScrollBounds(double, double) - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
updateMultipliers() - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
updateMultipliers(double, double) - Method in class net.sourceforge.fluxion.pussycat.svg.ModelMap
 
updateMultipliers(double, double) - Method in interface net.sourceforge.fluxion.pussycat.svg.PussycatMap
 
updateMultipliers() - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
updateMultipliers(double, double) - Method in class net.sourceforge.fluxion.pussycat.svg.SequenceMap
 
updateProgress() - Method in class net.sourceforge.fluxion.pussycat.util.ReasonerProgressMonitor
 
updateRenderlets(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.RenderletService
 
uploadFromUrl(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.UrlUploadService
 
UriAsDatasourceValidationBean - Class in net.sourceforge.fluxion.beans
Created by IntelliJ IDEA.
UriAsDatasourceValidationBean() - Constructor for class net.sourceforge.fluxion.beans.UriAsDatasourceValidationBean
 
UriAsResolvableUrlValidationBean - Class in net.sourceforge.fluxion.beans
Created by IntelliJ IDEA.
UriAsResolvableUrlValidationBean() - Constructor for class net.sourceforge.fluxion.beans.UriAsResolvableUrlValidationBean
 
uriLinker() - Static method in class net.sourceforge.fluxion.pussycat.util.PussycatLinkerFactory
 
UrlUploadService - Class in net.sourceforge.fluxion.pussycat.spring.service.ajaxified
Created by IntelliJ IDEA.
UrlUploadService() - Constructor for class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.UrlUploadService
 
user - Variable in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLQuery
 
USER_LEVEL - Static variable in class net.sourceforge.fluxion.pussycat.util.PussycatUtils
 
useTableFiltering(File) - Method in interface net.sourceforge.fluxion.datapublisher.beangen.BeanFactory
Enables filtering of tables by parsing a plain text file.
useTableFiltering(File) - Method in class net.sourceforge.fluxion.datapublisher.biomart.impl.BiomartBeanFactory
 
useTableFiltering(File) - Method in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLBeanFactory
 
usingTableFiltering - Variable in class net.sourceforge.fluxion.datapublisher.sql.impl.SQLBeanFactory
 

V

validate(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.UriAsDatasourceValidationBean
 
validate(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.UriAsResolvableUrlValidationBean
 
validate(Object, Errors) - Method in class net.sourceforge.fluxion.beans.utils.FileUploadValidator
 
validate() - Method in class net.sourceforge.fluxion.datapublisher.sql.connection.DatasourceConnection
 
validateURI(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.beans.UriAsResolvableUrlValidationBean
 
ValueEdge - Class in net.sourceforge.fluxion.runcible.graph
An edge representing some value property.
ValueEdge() - Constructor for class net.sourceforge.fluxion.runcible.graph.ValueEdge
 
valueOf(String) - Static method in enum net.sourceforge.fluxion.ajax.beans.util.LineBreak
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum net.sourceforge.fluxion.annotations.AccessorMode
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum net.sourceforge.fluxion.beans.RuncibleConstants
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum net.sourceforge.fluxion.datapublisher.mysql.impl.MySQLBeanFactory.DataType
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum net.sourceforge.fluxion.datapublisher.odbc.impl.ODBCBeanFactory.DataType
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum net.sourceforge.fluxion.datapublisher.postgresql.impl.PostgresqlBeanFactory.DataType
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum net.sourceforge.fluxion.graph.view.renderer.AbstractGraphViewRenderer.Operating_System
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum net.sourceforge.fluxion.maven.plugins.DBMSBindings
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum net.sourceforge.fluxion.pussycat.manager.NexusWiring
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum net.sourceforge.fluxion.pussycat.renderlets.ContextType
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum net.sourceforge.fluxion.pussycat.renderlets.DisplayType
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum net.sourceforge.fluxion.pussycat.renderlets.RenderletPackage
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum net.sourceforge.fluxion.pussycat.renderlets.RenderletType
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum net.sourceforge.fluxion.pussycat.util.PussycatUtils.Operating_System
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum net.sourceforge.fluxion.runcible.graph.factory.OntologyGraphFactory.Type
Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.comparagrid.fluxion.plugins.PublisherMojo.Dbms
Returns the enum constant of this type with the specified name.
values() - Static method in enum net.sourceforge.fluxion.ajax.beans.util.LineBreak
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum net.sourceforge.fluxion.annotations.AccessorMode
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum net.sourceforge.fluxion.beans.RuncibleConstants
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum net.sourceforge.fluxion.datapublisher.mysql.impl.MySQLBeanFactory.DataType
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum net.sourceforge.fluxion.datapublisher.odbc.impl.ODBCBeanFactory.DataType
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum net.sourceforge.fluxion.datapublisher.postgresql.impl.PostgresqlBeanFactory.DataType
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum net.sourceforge.fluxion.graph.view.renderer.AbstractGraphViewRenderer.Operating_System
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum net.sourceforge.fluxion.maven.plugins.DBMSBindings
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum net.sourceforge.fluxion.pussycat.manager.NexusWiring
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum net.sourceforge.fluxion.pussycat.renderlets.ContextType
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum net.sourceforge.fluxion.pussycat.renderlets.DisplayType
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum net.sourceforge.fluxion.pussycat.renderlets.RenderletPackage
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum net.sourceforge.fluxion.pussycat.renderlets.RenderletType
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum net.sourceforge.fluxion.pussycat.util.PussycatUtils.Operating_System
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum net.sourceforge.fluxion.runcible.graph.factory.OntologyGraphFactory.Type
Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.comparagrid.fluxion.plugins.PublisherMojo.Dbms
Returns an array containing the constants of this enum type, in the order they are declared.
VertSVGMap - Class in net.sourceforge.fluxion.pussycat.svg
The SVGMap class
VertSVGMap(Reasoner, OWLOntology) - Constructor for class net.sourceforge.fluxion.pussycat.svg.VertSVGMap
 
VertSVGMap(Reasoner, OWLOntology, Hashtable<String, String>) - Constructor for class net.sourceforge.fluxion.pussycat.svg.VertSVGMap
 
visit(Edge) - Method in interface net.sourceforge.fluxion.graph.visitor.EdgeVisitor
Visit this Edge
visit(Graph) - Method in interface net.sourceforge.fluxion.graph.visitor.GraphVisitor
Visits the supplied Graph.
visit(Node) - Method in interface net.sourceforge.fluxion.graph.visitor.NodeVisitor
Visit the given Node
visit(O) - Method in class net.sourceforge.fluxion.pussycat.util.AbstractPussycatSearcher
 
visit(OWLOntology) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLOntologyAnnotationAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLSubClassAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLNegativeObjectPropertyAssertionAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLAntiSymmetricObjectPropertyAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLReflexiveObjectPropertyAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLDisjointClassesAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLDataPropertyDomainAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLImportsDeclaration) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLAxiomAnnotationAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLObjectPropertyDomainAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLEquivalentObjectPropertiesAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLNegativeDataPropertyAssertionAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLDifferentIndividualsAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLDisjointDataPropertiesAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLDisjointObjectPropertiesAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLObjectPropertyRangeAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLObjectPropertyAssertionAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLFunctionalObjectPropertyAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLObjectSubPropertyAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLDisjointUnionAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLDeclarationAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLEntityAnnotationAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLSymmetricObjectPropertyAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLDataPropertyRangeAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLFunctionalDataPropertyAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLEquivalentDataPropertiesAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLClassAssertionAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLEquivalentClassesAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLDataPropertyAssertionAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLTransitiveObjectPropertyAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLIrreflexiveObjectPropertyAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLDataSubPropertyAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLInverseFunctionalObjectPropertyAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLSameIndividualsAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLObjectPropertyChainSubPropertyAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLClass) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLObjectIntersectionOf) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLObjectUnionOf) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLObjectComplementOf) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLObjectSomeRestriction) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLObjectAllRestriction) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLObjectValueRestriction) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLObjectMinCardinalityRestriction) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLObjectExactCardinalityRestriction) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLObjectMaxCardinalityRestriction) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLObjectSelfRestriction) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLObjectOneOf) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLDataSomeRestriction) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLDataAllRestriction) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLDataValueRestriction) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLDataMinCardinalityRestriction) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLDataExactCardinalityRestriction) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLDataMaxCardinalityRestriction) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLDataType) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLDataComplementOf) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLDataOneOf) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLDataRangeRestriction) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLDataRangeFacetRestriction) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLTypedConstant) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLUntypedConstant) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLObjectProperty) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLObjectPropertyInverse) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLDataProperty) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLIndividual) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLInverseObjectPropertiesAxiom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLConstantAnnotation) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLObjectAnnotation) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(SWRLRule) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(SWRLClassAtom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(SWRLDataRangeAtom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(SWRLDifferentFromAtom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(SWRLSameAsAtom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(SWRLObjectPropertyAtom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(SWRLDataValuedPropertyAtom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(SWRLBuiltInAtom) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(SWRLAtomDVariable) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(SWRLAtomIVariable) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(SWRLAtomIndividualObject) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(SWRLAtomConstantObject) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatHTMLAxiomRenderer
 
visit(OWLOntology) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatOntologySearcher
 
visit(OWLClass) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatRenderingVisitor
 
visit(OWLIndividual) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatRenderingVisitor
 
visit(OWLObjectProperty) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatRenderingVisitor
 
visit(OWLDataProperty) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatRenderingVisitor
 
visit(OWLConstant) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatRenderingVisitor
 
visit(OWLDataType) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatRenderingVisitor
 
visit(OWLAnnotation) - Method in class net.sourceforge.fluxion.pussycat.util.PussycatRenderingVisitor
 
visit(O) - Method in interface net.sourceforge.fluxion.pussycat.util.PussycatSearcher
 
visit(Rule) - Method in class net.sourceforge.fluxion.runcible.graph.factory.SourceOWLGraphFactory
 
visit(Rule) - Method in class net.sourceforge.fluxion.runcible.graph.factory.TargetOWLGraphFactory
 
visit(Edge) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotEdgeViewFactory
 
visit(NestedEdge) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotEdgeViewFactory
 
visit(ValueEdge) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotEdgeViewFactory
 
visit(WalkEdge) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotEdgeViewFactory
 
visit(IsAEdge) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotEdgeViewFactory
 
visit(Graph) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotGraphViewFactory
 
visit(Node) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotNodeViewFactory
 
visit(DataValueNode) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotNodeViewFactory
 
visit(DataConstantNode) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotNodeViewFactory
 
visit(ObjectValueNode) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotNodeViewFactory
 
visit(IndividualNode) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotNodeViewFactory
 
visit(MemberOfNode) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotNodeViewFactory
 
visit(RestrictedNode) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotNodeViewFactory
 
visit(WalkedToObjectNode) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotNodeViewFactory
 
visit(WalkedToDataNode) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotNodeViewFactory
 
visit(Edge) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexEdgeViewFactory
 
visit(NestedEdge) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexEdgeViewFactory
 
visit(ValueEdge) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexEdgeViewFactory
 
visit(WalkEdge) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexEdgeViewFactory
 
visit(IsAEdge) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexEdgeViewFactory
 
visit(Graph) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexGraphViewFactory
 
visit(Node) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexNodeViewFactory
 
visit(DataValueNode) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexNodeViewFactory
 
visit(DataConstantNode) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexNodeViewFactory
 
visit(ObjectValueNode) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexNodeViewFactory
 
visit(IndividualNode) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexNodeViewFactory
 
visit(MemberOfNode) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexNodeViewFactory
 
visit(RestrictedNode) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexNodeViewFactory
 
visit(WalkedToObjectNode) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexNodeViewFactory
 
visit(WalkedToDataNode) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexNodeViewFactory
 
visit(Rule) - Method in interface net.sourceforge.fluxion.runcible.visitor.RuleVisitor
 
voidSession(HttpSession, JSONObject) - Method in class net.sourceforge.fluxion.pussycat.spring.service.ajaxified.SessionManagementService
 

W

WalkEdge - Class in net.sourceforge.fluxion.runcible.graph
An edge representing a walk operation down a property.
WalkEdge() - Constructor for class net.sourceforge.fluxion.runcible.graph.WalkEdge
 
WalkedToDataNode - Class in net.sourceforge.fluxion.runcible.graph
Javadocs go here.
WalkedToDataNode() - Constructor for class net.sourceforge.fluxion.runcible.graph.WalkedToDataNode
 
WalkedToObjectNode - Class in net.sourceforge.fluxion.runcible.graph
Javadocs go here.
WalkedToObjectNode() - Constructor for class net.sourceforge.fluxion.runcible.graph.WalkedToObjectNode
 
walkGraph(Graph, NodeView, Edge, Set<Node>) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.DotGraphViewFactory
 
walkGraph(Graph, NodeView, Edge, Set<Node>) - Method in class net.sourceforge.fluxion.runcible.graph.view.factory.FlexGraphViewFactory
 
writeAnnotationURIAttribute(URI) - Method in class net.sourceforge.fluxion.spring.xml.FluxionOWLXMLWriter
 
writeBeans(Set<BeanConfig>) - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanWriter
 
writeCardinalityAttribute(int) - Method in class net.sourceforge.fluxion.spring.xml.FluxionOWLXMLWriter
 
writeDatatypeAttribute(URI) - Method in class net.sourceforge.fluxion.spring.xml.FluxionOWLXMLWriter
 
writeEndElement() - Method in class net.sourceforge.fluxion.spring.xml.FluxionOWLXMLWriter
 
writeFacetAttribute(URI) - Method in class net.sourceforge.fluxion.spring.xml.FluxionOWLXMLWriter
 
writeManager(Class, String...) - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanWriter
 
writeManager(String, List<String>) - Method in class net.sourceforge.fluxion.datapublisher.beangen.BeanWriter
 
writeNameAttribute(URI) - Method in class net.sourceforge.fluxion.spring.xml.FluxionOWLXMLWriter
 
writeStartElement(URI) - Method in class net.sourceforge.fluxion.spring.xml.FluxionOWLXMLWriter
 
writeTextContent(String) - Method in class net.sourceforge.fluxion.spring.xml.FluxionOWLXMLWriter
 

Y

YELLOWS - Static variable in class net.sourceforge.fluxion.graph.ColorSchemes
 

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