Index (SciJava Common 2.99.2 API)

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

A

about() - Method in class org.scijava.app.AbstractApp
about() - Method in interface org.scijava.app.App: Displays information about the application.
about() - Method in interface org.scijava.platform.AppEventService: Deprecated.
Use App.about() instead.
about() - Method in class org.scijava.platform.DefaultAppEventService: Deprecated.
AbstractApp - Class in org.scijava.app: Abstract superclass of App implementations.
AbstractApp() - Constructor for class org.scijava.app.AbstractApp
AbstractAutoCompleter - Class in org.scijava.script: Abstract base class for AutoCompleter implementations.
AbstractAutoCompleter(ScriptLanguage) - Constructor for class org.scijava.script.AbstractAutoCompleter
AbstractBasicDetails - Class in org.scijava: Abstract superclass of BasicDetails implementations.
AbstractBasicDetails() - Constructor for class org.scijava.AbstractBasicDetails
AbstractCodeRunner - Class in org.scijava.run: Abstract superclass of CodeRunner implementations.
AbstractCodeRunner() - Constructor for class org.scijava.run.AbstractCodeRunner
AbstractConsoleArgument - Class in org.scijava.console: Abstract superclass of ConsoleArgument implementations.
AbstractConsoleArgument() - Constructor for class org.scijava.console.AbstractConsoleArgument
AbstractConsoleArgument(String...) - Constructor for class org.scijava.console.AbstractConsoleArgument
AbstractConsoleArgument(int, String...) - Constructor for class org.scijava.console.AbstractConsoleArgument
AbstractConsolePane<C> - Class in org.scijava.ui.console: Abstract base class of ConsolePane implementations.
AbstractConsolePane(Context) - Constructor for class org.scijava.ui.console.AbstractConsolePane
AbstractContextual - Class in org.scijava: Abstract base class for Contextual objects.
AbstractContextual() - Constructor for class org.scijava.AbstractContextual
AbstractConverter<I,O> - Class in org.scijava.convert: Abstract superclass for Converter plugins.
AbstractConverter() - Constructor for class org.scijava.convert.AbstractConverter
AbstractConvertService - Class in org.scijava.convert: Abstract superclass for ConvertService implementations.
AbstractConvertService() - Constructor for class org.scijava.convert.AbstractConvertService
AbstractDataHandle<L extends Location> - Class in org.scijava.io.handle: Abstract base class for DataHandle plugins.
AbstractDataHandle() - Constructor for class org.scijava.io.handle.AbstractDataHandle
AbstractDelegateConverter<I,D,O> - Class in org.scijava.convert: Abstract superclass for Converter plugins that delegate to other converters to chain two conversion steps together.
AbstractDelegateConverter() - Constructor for class org.scijava.convert.AbstractDelegateConverter
AbstractDisplay<T> - Class in org.scijava.display: Abstract superclass of Display implementations.
AbstractDisplay(Class<T>) - Constructor for class org.scijava.display.AbstractDisplay
AbstractDisplayViewer<T> - Class in org.scijava.ui.viewer: The AbstractDisplayViewer provides some basic generic implementations for a DisplayViewer such as storing and providing the display, window and panel for a DisplayViewer.
AbstractDisplayViewer() - Constructor for class org.scijava.ui.viewer.AbstractDisplayViewer
AbstractDragAndDropData - Class in org.scijava.ui.dnd: Abstract superclass for DragAndDropData implementations.
AbstractDragAndDropData() - Constructor for class org.scijava.ui.dnd.AbstractDragAndDropData
AbstractDragAndDropHandler<D> - Class in org.scijava.ui.dnd: Abstract superclass for DragAndDropHandlers.
AbstractDragAndDropHandler() - Constructor for class org.scijava.ui.dnd.AbstractDragAndDropHandler
AbstractGateway - Class in org.scijava: Abstract superclass for Gateway implementations.
AbstractGateway() - Constructor for class org.scijava.AbstractGateway
AbstractGateway(String, Context) - Constructor for class org.scijava.AbstractGateway
AbstractHandlerPlugin<D> - Class in org.scijava.plugin: Abstract base class for HandlerPlugin implementations.
AbstractHandlerPlugin() - Constructor for class org.scijava.plugin.AbstractHandlerPlugin
AbstractHandlerService<DT,PT extends HandlerPlugin<DT>> - Class in org.scijava.plugin: Abstract base class for HandlerServices.
AbstractHandlerService() - Constructor for class org.scijava.plugin.AbstractHandlerService
AbstractHigherOrderHandle<L extends Location> - Class in org.scijava.io.handle: Abstract superclass for DataHandles that operate over other DataHandles.
AbstractHigherOrderHandle(DataHandle<L>) - Constructor for class org.scijava.io.handle.AbstractHigherOrderHandle
AbstractIndexWriter - Class in org.scijava.annotations: Writes annotations as JSON-formatted files.
AbstractIndexWriter() - Constructor for class org.scijava.annotations.AbstractIndexWriter
AbstractIndexWriter.StreamFactory - Interface in org.scijava.annotations
AbstractInputHarvester<P,W> - Class in org.scijava.widget: Abstract superclass for InputHarvesters.
AbstractInputHarvester() - Constructor for class org.scijava.widget.AbstractInputHarvester
AbstractInputHarvesterPlugin<P,W> - Class in org.scijava.ui: AbstractInputHarvesterPlugin is an InputHarvester that implements the PreprocessorPlugin interface.
AbstractInputHarvesterPlugin() - Constructor for class org.scijava.ui.AbstractInputHarvesterPlugin
AbstractInputPanel<P,W> - Class in org.scijava.widget: Abstract superclass of UI-specific InputPanel implementations.
AbstractInputPanel() - Constructor for class org.scijava.widget.AbstractInputPanel
AbstractInputWidget<T,W> - Class in org.scijava.widget: Base class for input widgets.
AbstractInputWidget() - Constructor for class org.scijava.widget.AbstractInputWidget
AbstractIOPlugin<D> - Class in org.scijava.io: Abstract base class for IOPlugins.
AbstractIOPlugin() - Constructor for class org.scijava.io.AbstractIOPlugin
AbstractLocation - Class in org.scijava.io.location: Abstract base class for Location implementations.
AbstractLocation() - Constructor for class org.scijava.io.location.AbstractLocation
AbstractLocationResolver - Class in org.scijava.io.location: Abstract super class for LocationResolver plugins.
AbstractLocationResolver(String...) - Constructor for class org.scijava.io.location.AbstractLocationResolver
AbstractLogService - Class in org.scijava.log: Base class for LogService implementations.
AbstractLogService() - Constructor for class org.scijava.log.AbstractLogService
AbstractLogService(Properties) - Constructor for class org.scijava.log.AbstractLogService
AbstractMenuCreator<T,M> - Class in org.scijava.menu: Abstract helper class for generating a menu structure.
AbstractMenuCreator() - Constructor for class org.scijava.menu.AbstractMenuCreator
AbstractModule - Class in org.scijava.module: Abstract superclass of Module implementations.
AbstractModule() - Constructor for class org.scijava.module.AbstractModule
AbstractModuleInfo - Class in org.scijava.module: Abstract superclass of ModuleInfo implementation.
AbstractModuleInfo() - Constructor for class org.scijava.module.AbstractModuleInfo
AbstractModuleItem<T> - Class in org.scijava.module: Abstract superclass of ModuleItem implementations.
AbstractModuleItem(ModuleInfo) - Constructor for class org.scijava.module.AbstractModuleItem
AbstractPlatform - Class in org.scijava.platform: Abstract superclass of platform implementations.
AbstractPlatform() - Constructor for class org.scijava.platform.AbstractPlatform
AbstractPostprocessorPlugin - Class in org.scijava.module.process: Abstract base class for plugin postprocessors.
AbstractPostprocessorPlugin() - Constructor for class org.scijava.module.process.AbstractPostprocessorPlugin
AbstractPrefService - Class in org.scijava.prefs: Abstract PrefService implementation.
AbstractPrefService() - Constructor for class org.scijava.prefs.AbstractPrefService
AbstractPreprocessorPlugin - Class in org.scijava.module.process: Abstract base class for plugin preprocessors.
AbstractPreprocessorPlugin() - Constructor for class org.scijava.module.process.AbstractPreprocessorPlugin
AbstractPrimitiveArray<ArrayType,BaseType> - Class in org.scijava.util: Abstract base class for primitive-type extensible arrays.
AbstractPrimitiveArray(Class<BaseType>) - Constructor for class org.scijava.util.AbstractPrimitiveArray: Constructs an extensible array of primitive type elements, backed by a fixed-size array.
AbstractPrimitiveArray(Class<BaseType>, int) - Constructor for class org.scijava.util.AbstractPrimitiveArray: Constructs an extensible array of primitive type elements, backed by a fixed-size array.
AbstractPrimitiveArray(Class<BaseType>, ArrayType) - Constructor for class org.scijava.util.AbstractPrimitiveArray: Constructs an extensible array of primitive type elements, backed by the given fixed-size array.
AbstractProxySubscriber - Class in org.scijava.event.bushe: Common base class for EventService Proxies.
AbstractProxySubscriber(Object, Method, ReferenceStrength, EventService, boolean) - Constructor for class org.scijava.event.bushe.AbstractProxySubscriber
AbstractProxySubscriber(Object, Method, ReferenceStrength, int, EventService, boolean) - Constructor for class org.scijava.event.bushe.AbstractProxySubscriber
AbstractPTService<PT extends SciJavaPlugin> - Class in org.scijava.plugin: Abstract base class for PTServices.
AbstractPTService() - Constructor for class org.scijava.plugin.AbstractPTService
AbstractRemoteLocation - Class in org.scijava.io.location: Abstract base class for RemoteLocation implementations.
AbstractRemoteLocation() - Constructor for class org.scijava.io.location.AbstractRemoteLocation
AbstractRichPlugin - Class in org.scijava.plugin: Abstract base class for RichPlugin implementations.
AbstractRichPlugin() - Constructor for class org.scijava.plugin.AbstractRichPlugin
AbstractScriptContext - Class in org.scijava.script: A minimal implementation of ScriptContext for use in the AbstractScriptEngine.
AbstractScriptContext() - Constructor for class org.scijava.script.AbstractScriptContext
AbstractScriptEngine - Class in org.scijava.script: This class implements dummy versions for ScriptEngine's methods that are not needed by the SciJava scripting framework.
AbstractScriptEngine() - Constructor for class org.scijava.script.AbstractScriptEngine
AbstractScriptHeader - Class in org.scijava.script: Abstract superclass for ScriptHeader implementations.
AbstractScriptHeader() - Constructor for class org.scijava.script.AbstractScriptHeader
AbstractScriptLanguage - Class in org.scijava.script: Abstract superclass for ScriptLanguage implementations.
AbstractScriptLanguage() - Constructor for class org.scijava.script.AbstractScriptLanguage
AbstractSeekableStreamHandle<L extends Location> - Class in org.scijava.io.handle
AbstractSeekableStreamHandle() - Constructor for class org.scijava.io.handle.AbstractSeekableStreamHandle
AbstractService - Class in org.scijava.service: Abstract superclass of Service implementations.
AbstractService() - Constructor for class org.scijava.service.AbstractService
AbstractSingleInputPreprocessor - Class in org.scijava.module.process: Abstract superclass for PreprocessorPlugin implementations that populate singleton inputs.
AbstractSingleInputPreprocessor() - Constructor for class org.scijava.module.process.AbstractSingleInputPreprocessor
AbstractSingletonService<PT extends SingletonPlugin> - Class in org.scijava.plugin: Abstract base class for SingletonServices.
AbstractSingletonService() - Constructor for class org.scijava.plugin.AbstractSingletonService
AbstractStreamHandle<L extends Location> - Class in org.scijava.io.handle: Abstract base class for StreamHandle implementations.
AbstractStreamHandle() - Constructor for class org.scijava.io.handle.AbstractStreamHandle
AbstractTextDisplayViewer - Class in org.scijava.ui.viewer.text: Implements the UI-independent elements of a text viewer.
AbstractTextDisplayViewer() - Constructor for class org.scijava.ui.viewer.text.AbstractTextDisplayViewer
AbstractTextFormat - Class in org.scijava.text: Abstract superclass of TextFormat implementations.
AbstractTextFormat() - Constructor for class org.scijava.text.AbstractTextFormat
AbstractTool - Class in org.scijava.tool: Abstract base class for Tool implementations.
AbstractTool() - Constructor for class org.scijava.tool.AbstractTool
AbstractTypedIOService<D> - Class in org.scijava.io: Abstract base class for typed IOPlugins.
AbstractTypedIOService() - Constructor for class org.scijava.io.AbstractTypedIOService
AbstractTypedPlugin<D> - Class in org.scijava.plugin: Abstract base class for TypedPlugins.
AbstractTypedPlugin() - Constructor for class org.scijava.plugin.AbstractTypedPlugin
AbstractTypedService<DT,PT extends TypedPlugin<DT>> - Class in org.scijava.plugin: Abstract base class for TypedServices.
AbstractTypedService() - Constructor for class org.scijava.plugin.AbstractTypedService
AbstractUIDetails - Class in org.scijava: Abstract superclass of UIDetails implementations.
AbstractUIDetails() - Constructor for class org.scijava.AbstractUIDetails
AbstractUIInputWidget<T,W> - Class in org.scijava.ui: Abstract superclass of InputWidget implementations that belong to a specific UI.
AbstractUIInputWidget() - Constructor for class org.scijava.ui.AbstractUIInputWidget
AbstractUserInterface - Class in org.scijava.ui: Abstract superclass for UserInterface implementations.
AbstractUserInterface() - Constructor for class org.scijava.ui.AbstractUserInterface
AbstractWrapperPlugin<D> - Class in org.scijava.plugin: Abstract base class for WrapperPlugins.
AbstractWrapperPlugin() - Constructor for class org.scijava.plugin.AbstractWrapperPlugin
AbstractWrapperService<DT,PT extends WrapperPlugin<DT>> - Class in org.scijava.plugin: Abstract base class for WrapperServices.
AbstractWrapperService() - Constructor for class org.scijava.plugin.AbstractWrapperService
Accelerator - Class in org.scijava.input: A keyboard shortcut, consisting of a KeyCode plus InputModifiers.
Accelerator(KeyCode, InputModifiers) - Constructor for class org.scijava.input.Accelerator
acquireDrawer(Tool) - Method in interface org.scijava.tool.IconService
activate() - Method in interface org.scijava.tool.Tool: Informs the tool that it is now active.
activate() - Method in interface org.scijava.ui.ApplicationFrame: Activate the application frame, bringing it to the front.
ActiveDisplayPreprocessor - Class in org.scijava.display: Assigns the active Display when there is one single unresolved Display parameter.
ActiveDisplayPreprocessor() - Constructor for class org.scijava.display.ActiveDisplayPreprocessor
adapt(Object) - Method in class org.scijava.annotations.AbstractIndexWriter
adapt(A) - Method in class org.scijava.annotations.AbstractIndexWriter
AdaptedScriptEngine - Class in org.scijava.script: Abstract superclass for ScriptEngine implementations which adapt an existing ScriptEngine.
AdaptedScriptEngine(ScriptEngine) - Constructor for class org.scijava.script.AdaptedScriptEngine
AdaptedScriptLanguage - Class in org.scijava.script: Abstract superclass for ScriptLanguage implementations which adapt an existing ScriptEngineFactory.
AdaptedScriptLanguage(ScriptEngineFactory) - Constructor for class org.scijava.script.AdaptedScriptLanguage: Creates a new AdaptedScriptLanguage wrapping the given ScriptEngineFactory.
AdaptedScriptLanguage(String) - Constructor for class org.scijava.script.AdaptedScriptLanguage: Creates a new AdaptedScriptLanguage wrapping the ScriptEngineFactory with the given name.
add(Map<String, Object>, String, String) - Method in class org.scijava.annotations.AbstractIndexWriter
add(A, String) - Method in class org.scijava.annotations.DirectoryIndexer
add(int, T) - Method in class org.scijava.display.AbstractDisplay
add(T) - Method in class org.scijava.display.AbstractDisplay
add(String) - Method in class org.scijava.io.DefaultRecentFileService
add(String) - Method in interface org.scijava.io.RecentFileService: Adds or refreshes a path on the list of recent files.
add(ModuleInfo) - Method in class org.scijava.menu.ShadowMenu: Adds the given module to the menu structure.
add(E, String) - Method in class org.scijava.object.NamedObjectIndex
add(E, Class<?>, String, boolean) - Method in class org.scijava.object.NamedObjectIndex
add(E) - Method in class org.scijava.object.ObjectIndex
add(E, boolean) - Method in class org.scijava.object.ObjectIndex: Adds the object to all compatible type lists.
add(E, Class<?>, boolean) - Method in class org.scijava.object.ObjectIndex: Adds an object to type lists beneath the given type hierarchy.
add(ScriptEngineFactory, boolean) - Method in class org.scijava.script.ScriptLanguageIndex
add(ScriptLanguage) - Method in class org.scijava.script.ScriptLanguageIndex
add(int, BaseType) - Method in class org.scijava.util.AbstractPrimitiveArray
add(int, Boolean) - Method in class org.scijava.util.BoolArray
add(int, Byte) - Method in class org.scijava.util.ByteArray
add(int, Character) - Method in class org.scijava.util.CharArray
add(int, Double) - Method in class org.scijava.util.DoubleArray
add(int, Float) - Method in class org.scijava.util.FloatArray
add(int, Integer) - Method in class org.scijava.util.IntArray
add(T) - Method in class org.scijava.util.LastRecentlyUsed: Add a new newest entry.
add(int, Long) - Method in class org.scijava.util.LongArray
add(int, E) - Method in class org.scijava.util.ObjectArray
add(int, Short) - Method in class org.scijava.util.ShortArray
addAlias(String, Class<?>) - Method in class org.scijava.script.DefaultScriptService
addAlias(Class<?>) - Method in interface org.scijava.script.ScriptService: TODO
addAlias(String, Class<?>) - Method in interface org.scijava.script.ScriptService: TODO
addAll(int, Collection<? extends T>) - Method in class org.scijava.display.AbstractDisplay
addAll(Collection<? extends T>) - Method in class org.scijava.display.AbstractDisplay
addAll(Collection<? extends ModuleInfo>) - Method in class org.scijava.menu.ShadowMenu: Adds the given modules to the menu structure.
addAll(Collection<? extends E>) - Method in class org.scijava.object.ObjectIndex
addAll(Collection<? extends E>) - Method in class org.scijava.object.SortedObjectIndex
addAll(int, Collection<? extends Boolean>) - Method in class org.scijava.util.BoolArray
addAll(int, Collection<? extends Byte>) - Method in class org.scijava.util.ByteArray
addAll(int, Collection<? extends Character>) - Method in class org.scijava.util.CharArray
addAll(int, Collection<? extends Double>) - Method in class org.scijava.util.DoubleArray
addAll(int, Collection<? extends Float>) - Method in class org.scijava.util.FloatArray
addAll(int, Collection<? extends Integer>) - Method in class org.scijava.util.IntArray
addAll(Collection<? extends T>) - Method in class org.scijava.util.LastRecentlyUsed
addAll(int, Collection<? extends Long>) - Method in class org.scijava.util.LongArray
addAll(int, Collection<? extends E>) - Method in class org.scijava.util.ObjectArray
addAll(int, Collection<? extends Short>) - Method in class org.scijava.util.ShortArray
addArgDelimiter() - Method in interface org.scijava.script.CodeGenerator: Deprecated.

Adds delimiter character between arguments (typically a ',').
addArgDelimiter() - Method in class org.scijava.script.CodeGeneratorJava: Deprecated.
addArgument(ParameterObject) - Method in interface org.scijava.script.CodeGenerator: Deprecated.
addArgument(ParameterObject) - Method in class org.scijava.script.CodeGeneratorJava: Deprecated.
addChildren(List<? extends TreeNode<?>>) - Method in interface org.scijava.util.TreeNode: Adds the given list of children to this node.
addDisplayViewer(DisplayViewer<?>) - Method in class org.scijava.ui.DefaultUIService
addDisplayViewer(DisplayViewer<?>) - Method in interface org.scijava.ui.UIService: Registers the given viewer with the service.
addEventToCache(Object, String, Object) - Method in class org.scijava.event.bushe.ThreadSafeEventService: Adds an event to the event cache, if appropriate.
addInput(ModuleItem<?>) - Method in class org.scijava.module.DefaultMutableModuleInfo
addInput(String, Class<T>) - Method in interface org.scijava.module.MutableModule: Adds an input to the list.
addInput(ModuleItem<?>) - Method in interface org.scijava.module.MutableModule: Adds an input to the list.
addInput(ModuleItem<?>) - Method in interface org.scijava.module.MutableModuleInfo: Adds an input to the list.
addLater(LazyObjects<? extends E>) - Method in class org.scijava.object.ObjectIndex: Registers objects which will be created lazily as needed.
addLeafToMenu(ShadowMenu, M) - Method in class org.scijava.menu.AbstractMenuCreator
addLeafToTop(ShadowMenu, T) - Method in class org.scijava.menu.AbstractMenuCreator
addListener(EventHistoryListener) - Method in class org.scijava.event.DefaultEventHistory
addListener(EventHistoryListener) - Method in interface org.scijava.event.EventHistory: Adds an event history listener.
addLogListener(LogListener) - Method in class org.scijava.log.AbstractLogService
addLogListener(LogListener) - Method in class org.scijava.log.DefaultLogger
addLogListener(LogListener) - Method in interface org.scijava.log.Logger: Adds an item to the list of registered listeners.
addMain(String, String...) - Method in class org.scijava.main.DefaultMainService
addMain(String, String...) - Method in interface org.scijava.main.MainService: Registers a main class to be executed by MainService.execMains().
addModule(ModuleInfo) - Method in class org.scijava.module.DefaultModuleService
addModule(ModuleInfo) - Method in interface org.scijava.module.ModuleService: Manually registers a module with the module service.
addModuleCalled(String) - Method in interface org.scijava.script.CodeGenerator: Deprecated.
addModuleCalled(String) - Method in class org.scijava.script.CodeGeneratorJava: Deprecated.
addModules(Collection<? extends ModuleInfo>) - Method in class org.scijava.module.DefaultModuleService
addModules(Collection<? extends ModuleInfo>) - Method in interface org.scijava.module.ModuleService: Manually registers a list of modules with the module service.
addNonLeafToMenu(ShadowMenu, M) - Method in class org.scijava.menu.AbstractMenuCreator
addNonLeafToTop(ShadowMenu, T) - Method in class org.scijava.menu.AbstractMenuCreator
addObject(Object) - Method in interface org.scijava.object.ObjectService: Registers an object with the object service.
addObject(Object, String) - Method in interface org.scijava.object.ObjectService: Registers a named object with the object service.
addOperation(Runnable) - Method in class org.scijava.startup.DefaultStartupService
addOperation(Runnable) - Method in interface org.scijava.startup.StartupService: Adds an operation that will run as soon as the application starts up.
addOutput(ModuleItem<?>) - Method in class org.scijava.module.DefaultMutableModuleInfo
addOutput(String, Class<T>) - Method in interface org.scijava.module.MutableModule: Adds an output to the list.
addOutput(ModuleItem<?>) - Method in interface org.scijava.module.MutableModule: Adds an output to the list.
addOutput(ModuleItem<?>) - Method in interface org.scijava.module.MutableModuleInfo: Adds an output to the list.
addOutputListener(OutputListener) - Method in interface org.scijava.console.ConsoleService: Adds a listener for output sent to stdout or stderr.
addOutputListener(OutputListener) - Method in class org.scijava.console.DefaultConsoleService
addOutputStream(OutputStream) - Method in class org.scijava.console.MultiOutputStream: Adds an output stream to those receiving this stream's output.
addParameter(String, Class<?>, Object) - Method in class org.scijava.script.InvocationObject: Deprecated.
addPlugin(PluginInfo<?>) - Method in class org.scijava.plugin.DefaultPluginService
addPlugin(PluginInfo<?>) - Method in interface org.scijava.plugin.PluginService: Manually registers a plugin with the plugin service.
addPlugins(Collection<T>) - Method in class org.scijava.plugin.DefaultPluginService
addPlugins(Collection<T>) - Method in interface org.scijava.plugin.PluginService: Manually registers plugins with the plugin service.
addPropertyChangeListener(PropertyChangeListener) - Method in interface org.scijava.ui.Arrangeable
addScriptDirectory(File) - Method in class org.scijava.script.DefaultScriptService
addScriptDirectory(File, MenuPath) - Method in class org.scijava.script.DefaultScriptService
addScriptDirectory(File) - Method in interface org.scijava.script.ScriptService: Adds a base directory to scan for scripts.
addScriptDirectory(File, MenuPath) - Method in interface org.scijava.script.ScriptService: Adds a base directory to scan for scripts, placing discovered scripts beneath the given menu path prefix.
addSeparatorToMenu(M) - Method in class org.scijava.menu.AbstractMenuCreator
addSeparatorToTop(T) - Method in class org.scijava.menu.AbstractMenuCreator
addTiming(Object) - Method in class org.scijava.util.Timing
addTiming(long, Object) - Method in class org.scijava.util.Timing
addToEnd(T) - Method in class org.scijava.util.LastRecentlyUsed: Add a new oldest entry.
addToList(E, List<E>, boolean) - Method in class org.scijava.object.ObjectIndex
addToList(E, List<E>, boolean) - Method in class org.scijava.object.SortedObjectIndex
addUI(UserInterface) - Method in class org.scijava.ui.DefaultUIService
addUI(String, UserInterface) - Method in class org.scijava.ui.DefaultUIService
addUI(UserInterface) - Method in interface org.scijava.ui.UIService: Adds the given UI to those managed by the service.
addUI(String, UserInterface) - Method in interface org.scijava.ui.UIService: Adds the given UI to those managed by the service.
addValue(boolean) - Method in class org.scijava.util.BoolArray
addValue(int, boolean) - Method in class org.scijava.util.BoolArray
addValue(byte) - Method in class org.scijava.util.ByteArray
addValue(int, byte) - Method in class org.scijava.util.ByteArray
addValue(char) - Method in class org.scijava.util.CharArray
addValue(int, char) - Method in class org.scijava.util.CharArray
addValue(double) - Method in class org.scijava.util.DoubleArray
addValue(int, double) - Method in class org.scijava.util.DoubleArray
addValue(float) - Method in class org.scijava.util.FloatArray
addValue(int, float) - Method in class org.scijava.util.FloatArray
addValue(int) - Method in class org.scijava.util.IntArray
addValue(int, int) - Method in class org.scijava.util.IntArray
addValue(long) - Method in class org.scijava.util.LongArray
addValue(int, long) - Method in class org.scijava.util.LongArray
addValue(E) - Method in class org.scijava.util.ObjectArray
addValue(int, E) - Method in class org.scijava.util.ObjectArray
addValue(short) - Method in class org.scijava.util.ShortArray
addValue(int, short) - Method in class org.scijava.util.ShortArray
addWidget(InputWidget<?, W>) - Method in class org.scijava.widget.AbstractInputPanel
addWidget(InputWidget<?, W>) - Method in interface org.scijava.widget.InputPanel: Adds a widget to the panel.
advance(long) - Method in interface org.scijava.io.handle.StreamHandle: Increments the handle's offset by the given amount.
ALICEBLUE - Static variable in class org.scijava.util.Colors
allocate(FileChannel, FileChannel.MapMode, long, int) - Method in class org.scijava.io.nio.DefaultNIOService
allocate(FileChannel, FileChannel.MapMode, long, int) - Method in interface org.scijava.io.nio.NIOService: Allocates or maps the desired file data into memory.
allocate(long...) - Static method in class org.scijava.util.ArrayUtils: Allocates a 1-dimensional byte array matching the product of the given sizes.
alwaysLog(int, Object, Throwable) - Method in class org.scijava.log.AbstractLogService
alwaysLog(int, Object, Throwable) - Method in class org.scijava.log.DefaultLogger
alwaysLog(int, Object, Throwable) - Method in interface org.scijava.log.Logger: Logs a message with an exception.
ANALYZE_LABEL - Static variable in class org.scijava.menu.MenuConstants
ANALYZE_MNEMONIC - Static variable in class org.scijava.menu.MenuConstants
ANALYZE_WEIGHT - Static variable in class org.scijava.menu.MenuConstants
annotation() - Method in class org.scijava.annotations.IndexItem: Obtains the annotation values.
AnnotationCombiner - Class in org.scijava.annotations: Combines annotation indexes from all JAR files on the classpath.
AnnotationCombiner() - Constructor for class org.scijava.annotations.AnnotationCombiner
AnnotationProcessor - Class in org.scijava.annotations: The annotation processor for use with Java 8 and earlier.
AnnotationProcessor() - Constructor for class org.scijava.annotations.AnnotationProcessor
ANTIQUEWHITE - Static variable in class org.scijava.util.Colors
app() - Method in class org.scijava.AbstractGateway
App - Interface in org.scijava.app: Metadata about a SciJava-based application, used by the AppService.
app() - Method in interface org.scijava.Gateway: Gets this application context's AppService.
AppAboutEvent - Class in org.scijava.platform.event: An event sent when the application is asked to open its about window.
AppAboutEvent() - Constructor for class org.scijava.platform.event.AppAboutEvent
append(String) - Method in class org.scijava.display.DefaultTextDisplay
append(String) - Method in interface org.scijava.display.TextDisplay: Add a line to the display.
append(OutputEvent) - Method in interface org.scijava.ui.console.ConsolePane: Appends the given output to the console.
append(String) - Method in interface org.scijava.ui.viewer.text.TextDisplayPanel
append(String) - Method in class org.scijava.util.StringMaker
append(String, Object) - Method in class org.scijava.util.StringMaker
append(String, Object, Object) - Method in class org.scijava.util.StringMaker
appendBytes(byte[], int) - Method in interface org.scijava.io.ByteBank: Appends the given bytes to the buffer
appendBytes(byte[], int, int) - Method in interface org.scijava.io.ByteBank: Appends the given bytes to the buffer
appendContents(Collection<URL>, URL) - Static method in class org.scijava.util.FileUtils: Recursively adds contents from the referenced directory to an existing collection.
appendContents(Collection<URL>, URL, boolean, boolean) - Static method in class org.scijava.util.FileUtils: Add contents from the referenced directory to an existing collection.
appEvent() - Method in class org.scijava.AbstractGateway
appEvent() - Method in interface org.scijava.Gateway: Gets this application context's AppEventService.
AppEventService - Interface in org.scijava.platform: Deprecated.
Use AppService and App instead.
AppFocusEvent - Class in org.scijava.platform.event: An event sent when the application has become the foreground app, or when it has resigned being the foreground app.
AppFocusEvent(boolean) - Constructor for class org.scijava.platform.event.AppFocusEvent
APPLICATION_MENU_ROOT - Static variable in annotation type org.scijava.plugin.Plugin: Deprecated.
Use UIDetails.APPLICATION_MENU_ROOT instead.
APPLICATION_MENU_ROOT - Static variable in interface org.scijava.UIDetails: The default, application-level menu root.
ApplicationEvent - Class in org.scijava.platform.event: An event indicating an application-level occurrence.
ApplicationEvent() - Constructor for class org.scijava.platform.event.ApplicationEvent
ApplicationFrame - Interface in org.scijava.ui: Common interface for top-level application frames.
AppMenusCreatedEvent - Class in org.scijava.platform.event: An event sent when the application has created and populated its menus.
AppMenusCreatedEvent(Object) - Constructor for class org.scijava.platform.event.AppMenusCreatedEvent
AppOpenFilesEvent - Class in org.scijava.platform.event: An event sent when the application is asked to re-open itself.
AppOpenFilesEvent(List<File>) - Constructor for class org.scijava.platform.event.AppOpenFilesEvent
AppPreferencesEvent - Class in org.scijava.platform.event: An event sent when the application is asked to open its preferences window.
AppPreferencesEvent() - Constructor for class org.scijava.platform.event.AppPreferencesEvent
AppPrintEvent - Class in org.scijava.platform.event: An event sent when the app is asked to print a list of files.
AppPrintEvent() - Constructor for class org.scijava.platform.event.AppPrintEvent
AppQuitEvent - Class in org.scijava.platform.event: An event sent when the application is asked to quit.
AppQuitEvent() - Constructor for class org.scijava.platform.event.AppQuitEvent
AppReOpenEvent - Class in org.scijava.platform.event: An event sent when the application is asked to re-open itself.
AppReOpenEvent() - Constructor for class org.scijava.platform.event.AppReOpenEvent
AppScreenSleepEvent - Class in org.scijava.platform.event: An event sent when the displays attached to the system enter and exit power save sleep.
AppScreenSleepEvent(boolean) - Constructor for class org.scijava.platform.event.AppScreenSleepEvent
AppService - Interface in org.scijava.app: Interface for application-level functionality.
AppSleepEvent - Class in org.scijava.platform.event: An event sent when a device enters or exits power save sleep.
AppSleepEvent(boolean) - Constructor for class org.scijava.platform.event.AppSleepEvent
AppSystemSleepEvent - Class in org.scijava.platform.event: An event sent when the system enters and exits power save sleep.
AppSystemSleepEvent(boolean) - Constructor for class org.scijava.platform.event.AppSystemSleepEvent
AppUserSessionEvent - Class in org.scijava.platform.event: An event sent when the the user session has been changed via Fast User Switching.
AppUserSessionEvent(boolean) - Constructor for class org.scijava.platform.event.AppUserSessionEvent
AppUtils - Class in org.scijava.util: Useful methods for obtaining details of the SciJava application environment.
AppVisibleEvent - Class in org.scijava.platform.event: An event sent when the application has been hidden or shown.
AppVisibleEvent(boolean) - Constructor for class org.scijava.platform.event.AppVisibleEvent
AQUA - Static variable in class org.scijava.util.Colors
AQUAMARINE - Static variable in class org.scijava.util.Colors
AREA_STYLE - Static variable in interface org.scijava.widget.TextWidget: Widget style for text areas.
ARGBPlane - Class in org.scijava.ui: Represents a plane of ARGB pixel data.
ARGBPlane(int, int, int[]) - Constructor for class org.scijava.ui.ARGBPlane
ARGBPlane(int, int) - Constructor for class org.scijava.ui.ARGBPlane
args() - Method in interface org.scijava.main.MainService.Main: Gets the arguments to pass to the class's main method.
args(Type, Class<?>) - Static method in class org.scijava.util.Types: Gets the type arguments of a class/interface based on a subtype.
args(Class<?>, ParameterizedType) - Static method in class org.scijava.util.Types: Tries to determine the type arguments of a class/interface based on a super parameterized type's type arguments.
Arrangeable - Interface in org.scijava.ui: Arrangeable.
Arrangeable.Arrangement - Enum in org.scijava.ui
array(T...) - Static method in class org.scijava.util.ArrayUtils: Creates an array of the given type, containing the specified values.
array(Class<?>) - Static method in class org.scijava.util.Types: Gets the array class corresponding to the given element type.
array(Class<?>, int) - Static method in class org.scijava.util.Types: Gets the array class corresponding to the given element type and dimensionality.
array(Type) - Static method in class org.scijava.util.Types: Gets the array type—which might be a Class or a GenericArrayType depending on the argument—corresponding to the given element type.
ArrayConverters - Class in org.scijava.convert: Container class for all desired combinations of PrimitiveArrayUnwrapper and PrimitiveArrayWrapper implementations.
ArrayConverters() - Constructor for class org.scijava.convert.ArrayConverters
ArrayConverters.BoolArrayUnwrapper - Class in org.scijava.convert
ArrayConverters.BoolArrayWrapper - Class in org.scijava.convert
ArrayConverters.ByteArrayUnwrapper - Class in org.scijava.convert
ArrayConverters.ByteArrayWrapper - Class in org.scijava.convert
ArrayConverters.CharArrayUnwrapper - Class in org.scijava.convert
ArrayConverters.CharArrayWrapper - Class in org.scijava.convert
ArrayConverters.DoubleArrayUnwrapper - Class in org.scijava.convert
ArrayConverters.DoubleArrayWrapper - Class in org.scijava.convert
ArrayConverters.FloatArrayUnwrapper - Class in org.scijava.convert
ArrayConverters.FloatArrayWrapper - Class in org.scijava.convert
ArrayConverters.IntArrayUnwrapper - Class in org.scijava.convert
ArrayConverters.IntArrayWrapper - Class in org.scijava.convert
ArrayConverters.LongArrayUnwrapper - Class in org.scijava.convert
ArrayConverters.LongArrayWrapper - Class in org.scijava.convert
ArrayConverters.ShortArrayUnwrapper - Class in org.scijava.convert
ArrayConverters.ShortArrayWrapper - Class in org.scijava.convert
ArrayToStringConverter - Class in org.scijava.convert: A Converter that specializes in converting n-dimensional arrays into Strings.
ArrayToStringConverter() - Constructor for class org.scijava.convert.ArrayToStringConverter
ArrayUtils - Class in org.scijava.util: Utility class for working with arrays, particularly arrays of primitives.
as(Object, Class<T>) - Method in class org.scijava.script.process.DirectiveScriptProcessor: Coerces some object into another object of the given type.
asBigDecimal(Number) - Static method in class org.scijava.util.NumberUtils
asBigInteger(Number) - Static method in class org.scijava.util.NumberUtils
asHTML(File) - Method in class org.scijava.text.DefaultTextService
asHTML(String) - Method in interface org.scijava.text.TextFormat: Expresses the given text string in HTML format.
asHTML(File) - Method in interface org.scijava.text.TextService: Expresses the given text string as HTML.
asList(Object, Class<T>) - Method in class org.scijava.script.process.DirectiveScriptProcessor: Coerces some object into a list of objects of the given type.
asMap() - Method in interface org.scijava.parse.Items: Gets the parsed items as a map.
assertConsistency() - Method in class org.scijava.util.LastRecentlyUsed
assignProperties(MenuEntry) - Method in class org.scijava.MenuEntry: Updates any default properties of this menu entry to match those of the given menu entry.
asType(ModuleItem<?>, Class<T>) - Method in class org.scijava.command.InteractiveCommand
attach(Object) - Method in class org.scijava.log.LogMessage: Attach object to this log message.
attachments() - Method in class org.scijava.log.LogMessage: Collection of objects that have been attached to this message with LogMessage.attach(Object).
Attr - Annotation Type in org.scijava.plugin: A name/value attribute pair, used to extend the @Plugin annotation.
autocomplete(String, int, ScriptEngine) - Method in class org.scijava.script.AbstractAutoCompleter
autocomplete(String, ScriptEngine) - Method in interface org.scijava.script.AutoCompleter
autocomplete(String, int, ScriptEngine) - Method in interface org.scijava.script.AutoCompleter
AutoCompleter - Interface in org.scijava.script: Helper for generating autocomplete suggestions for code fragments.
AutoCompletionResult - Class in org.scijava.script: Data structure housing suggestions given by AutoCompleter helpers.
AutoCompletionResult(List<String>) - Constructor for class org.scijava.script.AutoCompletionResult
AutoCompletionResult(List<String>, int) - Constructor for class org.scijava.script.AutoCompletionResult
available(long) - Method in interface org.scijava.io.handle.DataHandle: Gets the number of bytes which can be read from, or written to, the data handle, bounded by the specified number of bytes.
available() - Method in class org.scijava.io.handle.DataHandleInputStream
AZURE - Static variable in class org.scijava.util.Colors

B

base64(byte[]) - Static method in class org.scijava.util.DigestUtils: Converts the given byte array to a base64 string.
BasicDetails - Interface in org.scijava: An interface defining basic characteristics including name, label, description, and a table of key/value pairs.
basicRangeCheck(long, long) - Method in interface org.scijava.io.ByteBank: Ensures that the requested range satisfies basic sanity criteria.
begin(ScriptInfo) - Method in class org.scijava.script.process.DirectiveScriptProcessor
begin(ScriptInfo) - Method in class org.scijava.script.process.ParameterScriptProcessor
begin(ScriptInfo) - Method in interface org.scijava.script.process.ScriptProcessor
begin(ScriptInfo) - Method in class org.scijava.script.process.ShebangScriptProcessor
BEIGE - Static variable in class org.scijava.util.Colors
best(String) - Static method in class org.scijava.util.DigestUtils: Gets the given string's best available hash.
best(byte[]) - Static method in class org.scijava.util.DigestUtils: Gets the given byte array's best available hash.
bestBase64(String) - Static method in class org.scijava.util.DigestUtils: Gets the base64 string of the given string's best available hash.
bestBase64(byte[]) - Static method in class org.scijava.util.DigestUtils: Gets the base64 string of the given byte array's best available hash.
bestHex(String) - Static method in class org.scijava.util.DigestUtils: Gets the hex string of the given string's best available hash.
bestHex(byte[]) - Static method in class org.scijava.util.DigestUtils: Gets the hex string of the given byte array's best available hash.
BigIntegerToBigDecimalConverter() - Constructor for class org.scijava.convert.NumberConverters.BigIntegerToBigDecimalConverter
BISQUE - Static variable in class org.scijava.util.Colors
BLACK - Static variable in class org.scijava.util.Colors
BLANCHEDALMOND - Static variable in class org.scijava.util.Colors
BLUE - Static variable in class org.scijava.util.Colors
BLUEVIOLET - Static variable in class org.scijava.util.Colors
BoolArray - Class in org.scijava.util: An extensible array of boolean elements.
BoolArray() - Constructor for class org.scijava.util.BoolArray: Constructs an extensible array of booleans, backed by a fixed-size array.
BoolArray(int) - Constructor for class org.scijava.util.BoolArray: Constructs an extensible array of booleans, backed by a fixed-size array.
BoolArray(boolean[]) - Constructor for class org.scijava.util.BoolArray: Constructs an extensible array of booleans, backed by the given fixed-size array.
BoolArrayUnwrapper() - Constructor for class org.scijava.convert.ArrayConverters.BoolArrayUnwrapper
BoolArrayWrapper() - Constructor for class org.scijava.convert.ArrayConverters.BoolArrayWrapper
box(Class<T>) - Static method in class org.scijava.util.Types: Returns the non-primitive Class closest to the given type.
BROWN - Static variable in class org.scijava.util.Colors
BrowsableLocation - Interface in org.scijava.io.location: A Location that offers methods to browse other locations relative to it.
buffer - Variable in class org.scijava.util.LineOutputStream
buffer - Variable in class org.scijava.util.ReadInto
buildPanel(InputPanel<P, W>, Module) - Method in class org.scijava.widget.AbstractInputHarvester
buildPanel(InputPanel<P, W>, Module) - Method in interface org.scijava.widget.InputHarvester: Populates the given InputPanel with widgets corresponding to the given Module instance.
BURLYWOOD - Static variable in class org.scijava.util.Colors
Button - Interface in org.scijava.widget: A interface used for marking input fields of plugin parameter dialogs as button fields.
ButtonWidget - Interface in org.scijava.widget: Widget interface for buttons.
ByteArray - Class in org.scijava.util: An extensible array of byte elements.
ByteArray() - Constructor for class org.scijava.util.ByteArray: Constructs an extensible array of bytes, backed by a fixed-size array.
ByteArray(int) - Constructor for class org.scijava.util.ByteArray: Constructs an extensible array of bytes, backed by a fixed-size array.
ByteArray(byte[]) - Constructor for class org.scijava.util.ByteArray: Constructs an extensible array of bytes, backed by the given fixed-size array.
ByteArrayByteBank - Class in org.scijava.io: ByteBank implementation backed by a ByteArray.
ByteArrayByteBank() - Constructor for class org.scijava.io.ByteArrayByteBank: Creates a ByteArrayByteBank.
ByteArrayByteBank(int) - Constructor for class org.scijava.io.ByteArrayByteBank: Creates a ByteArrayByteBank with the specified initial capacity.
ByteArrayByteBank(byte[]) - Constructor for class org.scijava.io.ByteArrayByteBank: Creates a ByteArrayByteBank that wraps the provided byte array.
ByteArrayByteBank(ByteArray) - Constructor for class org.scijava.io.ByteArrayByteBank: Creates a ByteArrayByteBank that wraps the specified ByteArray.
ByteArrayUnwrapper() - Constructor for class org.scijava.convert.ArrayConverters.ByteArrayUnwrapper
ByteArrayWrapper() - Constructor for class org.scijava.convert.ArrayConverters.ByteArrayWrapper
ByteBank - Interface in org.scijava.io: A ByteBank is a self-growing buffer over arbitrary bytes.
ByteBufferByteBank - Class in org.scijava.io.nio: A ByteBank backed by a ByteBuffer.
ByteBufferByteBank() - Constructor for class org.scijava.io.nio.ByteBufferByteBank
ByteBufferByteBank(Function<Integer, ByteBuffer>) - Constructor for class org.scijava.io.nio.ByteBufferByteBank
ByteBufferByteBank(Function<Integer, ByteBuffer>, int) - Constructor for class org.scijava.io.nio.ByteBufferByteBank
ByteBufferByteBank(int) - Constructor for class org.scijava.io.nio.ByteBufferByteBank
Bytes - Class in org.scijava.util: Useful methods for reading, writing, decoding and converting bytes and byte arrays.
bytes(String) - Static method in class org.scijava.util.DigestUtils: Converts the given string to a byte array.
bytes(int) - Static method in class org.scijava.util.DigestUtils: Converts the given integer into a byte array.
BytesHandle - Class in org.scijava.io.handle: DataHandle for a BytesLocation.
BytesHandle() - Constructor for class org.scijava.io.handle.BytesHandle
BytesHandle(BytesLocation) - Constructor for class org.scijava.io.handle.BytesHandle
BytesLocation - Class in org.scijava.io.location: Location backed by a ByteBank.
BytesLocation(ByteBank) - Constructor for class org.scijava.io.location.BytesLocation: Creates a BytesLocation backed by the specified ByteBank.
BytesLocation(ByteBank, String) - Constructor for class org.scijava.io.location.BytesLocation: Creates a BytesLocation backed by the specified ByteBank.
BytesLocation(int) - Constructor for class org.scijava.io.location.BytesLocation: Creates a BytesLocation backed by a ByteArrayByteBank with the specified initial capacity, but with a reported size of 0.
BytesLocation(int, String) - Constructor for class org.scijava.io.location.BytesLocation: Creates a BytesLocation backed by a ByteArrayByteBank with the specified initial capacity, but with a reported size of 0.
BytesLocation(ByteArray) - Constructor for class org.scijava.io.location.BytesLocation: Creates a BytesLocation backed by a ByteArrayByteBank that wraps the specified ByteArray.
BytesLocation(ByteArray, String) - Constructor for class org.scijava.io.location.BytesLocation: Creates a BytesLocation backed by a ByteArrayByteBank that wraps the specified ByteArray.
BytesLocation(byte[]) - Constructor for class org.scijava.io.location.BytesLocation: Creates a BytesLocation backed by a ByteArrayByteBank which wraps the specified array.
BytesLocation(byte[], String) - Constructor for class org.scijava.io.location.BytesLocation: Creates a BytesLocation backed by a ByteArrayByteBank which wraps the specified array.
BytesLocation(byte[], int, int) - Constructor for class org.scijava.io.location.BytesLocation: Creates a BytesLocation backed by a ByteArrayByteBank with the specified initial capacity and the provided data.
BytesLocation(byte[], int, int, String) - Constructor for class org.scijava.io.location.BytesLocation: Creates a BytesLocation backed by a ByteArrayByteBank with the specified initial capacity and the provided data.
ByteToBigDecimalConverter() - Constructor for class org.scijava.convert.NumberConverters.ByteToBigDecimalConverter
ByteToBigIntegerConverter() - Constructor for class org.scijava.convert.NumberConverters.ByteToBigIntegerConverter
ByteToDoubleConverter() - Constructor for class org.scijava.convert.NumberConverters.ByteToDoubleConverter
ByteToFloatConverter() - Constructor for class org.scijava.convert.NumberConverters.ByteToFloatConverter
ByteToIntegerConverter() - Constructor for class org.scijava.convert.NumberConverters.ByteToIntegerConverter
ByteToLongConverter() - Constructor for class org.scijava.convert.NumberConverters.ByteToLongConverter
ByteToShortConverter() - Constructor for class org.scijava.convert.NumberConverters.ByteToShortConverter

C

cacheAnnotatedObjects(Class<?>, Query) - Static method in class org.scijava.util.ClassUtils: This method scans the provided class, its superclasses and interfaces for all supported Annotation : AnnotatedElement pairs.
cachedLocation(Location) - Method in class org.scijava.download.DiskLocationCache
cachedLocation(Location) - Method in interface org.scijava.download.LocationCache: Gets the cache location of a given data source.
CacheService - Interface in org.scijava.cache: Base interface for cache services in SciJava
CADETBLUE - Static variable in class org.scijava.util.Colors
call() - Method in class org.scijava.module.ModuleRunner
callback(Module) - Method in class org.scijava.module.AbstractModuleItem
callback(Module) - Method in interface org.scijava.module.ModuleItem: Invokes this item's callback function, if any, on the given module.
callback() - Method in class org.scijava.widget.DefaultWidgetModel
callback() - Method in interface org.scijava.widget.WidgetModel: Executes the callback associated with this widget's associated input.
callbacks() - Method in class org.scijava.script.ScriptInfo: Gets the list of routines which should be invoked each time the script is about to execute.
CallingClassUtils - Class in org.scijava.log: Utility class for getting the calling class of a method.
canAssign(Class<?>, Class<?>) - Static method in class org.scijava.util.ConversionUtils: Deprecated.
use Types.isAssignable(java.lang.reflect.Type, java.lang.reflect.Type)
canAssign(Object, Class<?>) - Static method in class org.scijava.util.ConversionUtils: Deprecated.
use Types.isInstance(java.lang.Object, java.lang.Class<?>)
canCache(Location) - Method in class org.scijava.download.DiskLocationCache
canCache(Location) - Method in interface org.scijava.download.LocationCache: Gets whether the given location can be cached by this cache.
canCancel() - Method in class org.scijava.command.CommandInfo
canCancel() - Method in class org.scijava.command.DynamicCommandInfo
canCancel() - Method in interface org.scijava.module.ModuleInfo: Gets whether the module condones cancellation.
canCast(Class<?>, Class<?>) - Static method in class org.scijava.util.ClassUtils: Deprecated.
use Types.isAssignable(Type, Type)
canCast(Object, Class<?>) - Static method in class org.scijava.util.ClassUtils: Deprecated.
use Types.isInstance(Object, Class)
canCast(Class<?>, Class<?>) - Static method in class org.scijava.util.ConversionUtils: Deprecated.
use Types.isAssignable(java.lang.reflect.Type, java.lang.reflect.Type)
canCast(Object, Class<?>) - Static method in class org.scijava.util.ConversionUtils: Deprecated.
use Types.isInstance(java.lang.Object, java.lang.Class<?>)
cancel(String) - Method in interface org.scijava.Cancelable: Cancels the operation execution, with the given reason for doing so.
cancel() - Method in class org.scijava.command.CommandModule: Cancels the command, undoing the effects of any CommandModule.preview() calls.
cancel(String) - Method in class org.scijava.command.CommandModule
cancel(String) - Method in class org.scijava.command.ContextCommand: Cancels the command execution, with the given reason for doing so.
cancel(String) - Method in class org.scijava.command.DynamicCommand
cancel() - Method in class org.scijava.command.InteractiveCommand
cancel(String) - Method in class org.scijava.command.ModuleCommand
cancel() - Method in interface org.scijava.command.Previewable: Does whatever is necessary upon cancelation to reset things back to before the operation was executed.
cancel() - Method in class org.scijava.module.AbstractModule
cancel() - Method in interface org.scijava.module.Module: Performs necessary cleanup in response to cancellation of the module execution.
cancel(String) - Method in class org.scijava.module.process.AbstractPreprocessorPlugin
cancel() - Method in class org.scijava.options.OptionsPlugin
cancel(String) - Method in class org.scijava.task.DefaultTask
cancel(String) - Method in class org.scijava.ui.AbstractInputHarvesterPlugin
Cancelable - Interface in org.scijava: An operation that can be canceled.
canConvert(Class<?>, Class<?>) - Method in class org.scijava.convert.ArrayToStringConverter
canConvert(Object, Class<?>) - Method in class org.scijava.convert.ArrayToStringConverter
canConvert(Object, Class<?>) - Method in class org.scijava.convert.CastingConverter
canConvert(Class<?>, Type) - Method in class org.scijava.convert.CastingConverter
canConvert(Class<?>, Class<?>) - Method in class org.scijava.convert.CastingConverter
canConvert(ConversionRequest) - Method in interface org.scijava.convert.Converter: Checks whether a given ConversionRequest can be processed, by converting the desired ConversionRequest.sourceClass() to its ConversionRequest.destClass() or ConversionRequest.destType().
canConvert(Object, Type) - Method in interface org.scijava.convert.Converter: Checks whether the given object's type can be converted to the specified type.
canConvert(Object, Class<?>) - Method in interface org.scijava.convert.Converter: Checks whether the given object's type can be converted to the specified type.
canConvert(Class<?>, Type) - Method in interface org.scijava.convert.Converter: Checks whether objects of the given class can be converted to the specified type.
canConvert(Class<?>, Class<?>) - Method in interface org.scijava.convert.Converter: Checks whether objects of the given class can be converted to the specified type.
canConvert(Class<?>, Class<?>) - Method in class org.scijava.convert.DefaultConverter
canConvert(Object, Type) - Method in class org.scijava.convert.NullConverter
canConvert(Object, Class<?>) - Method in class org.scijava.convert.NullConverter
canConvert(Class<?>, Type) - Method in class org.scijava.convert.NullConverter
canConvert(Class<?>, Class<?>) - Method in class org.scijava.convert.NullConverter
canConvert(Object, Type) - Method in class org.scijava.convert.StringToArrayConverter
canConvert(Object, Class<?>) - Method in class org.scijava.convert.StringToArrayConverter
canConvert(Class<?>, Class<?>) - Method in class org.scijava.convert.StringToArrayConverter
canConvert(Object, Class<?>) - Method in class org.scijava.convert.StringToNumberConverter
canConvert(Class<?>, Class<?>) - Static method in class org.scijava.util.ClassUtils: Deprecated.
use ConversionUtils.canConvert(Class, Class)
canConvert(Object, Class<?>) - Static method in class org.scijava.util.ClassUtils: Deprecated.
use ConversionUtils.canConvert(Object, Class)
canConvert(Class<?>, Type) - Static method in class org.scijava.util.ConversionUtils: Deprecated.
canConvert(Class<?>, Class<?>) - Static method in class org.scijava.util.ConversionUtils: Deprecated.
canConvert(Object, Type) - Static method in class org.scijava.util.ConversionUtils: Deprecated.
canConvert(Object, Class<?>) - Static method in class org.scijava.util.ConversionUtils: Deprecated.
canDisplay(Class<?>) - Method in class org.scijava.display.AbstractDisplay
canDisplay(Class<?>) - Method in interface org.scijava.display.Display: Tests whether the display is capable of visualizing objects of the given class.
canDisplay(Object) - Method in interface org.scijava.display.Display: Tests whether the display is capable of visualizing the given object.
canHandleFile(File) - Method in class org.scijava.script.ScriptLanguageIndex
canHandleFile(String) - Method in class org.scijava.script.ScriptLanguageIndex
canHandleFile(File) - Method in interface org.scijava.script.ScriptService: TODO
canHandleFile(String) - Method in interface org.scijava.script.ScriptService: TODO
canOpen(String) - Method in class org.scijava.io.AbstractTypedIOService
canOpen(Location) - Method in class org.scijava.io.AbstractTypedIOService
canOpen(String) - Method in interface org.scijava.io.TypedIOService
canOpen(Location) - Method in interface org.scijava.io.TypedIOService
canPreview() - Method in class org.scijava.command.CommandInfo
canPreview() - Method in class org.scijava.command.DynamicCommandInfo
canPreview() - Method in interface org.scijava.module.ModuleInfo: Gets whether the module supports previews.
canRunHeadless() - Method in class org.scijava.command.CommandInfo
canRunHeadless() - Method in interface org.scijava.module.ModuleInfo: Gets whether the module condones headless execution.
canRunHeadless() - Method in class org.scijava.script.ScriptInfo
canSave(D, String) - Method in class org.scijava.io.AbstractTypedIOService
canSave(D, Location) - Method in class org.scijava.io.AbstractTypedIOService
canSave(D, String) - Method in interface org.scijava.io.TypedIOService
canSave(D, Location) - Method in interface org.scijava.io.TypedIOService
canView(Display<?>) - Method in class org.scijava.ui.headless.HeadlessDisplayViewer
canView(Display<?>) - Method in interface org.scijava.ui.viewer.DisplayViewer: Returns true if an instance of this display viewer can view the given display.
canView(Display<?>) - Method in interface org.scijava.ui.viewer.text.TextDisplayViewer
capacity() - Method in class org.scijava.util.AbstractPrimitiveArray: Gets the current capacity of the backing array.
capacity() - Method in interface org.scijava.util.PrimitiveArray: Gets the current capacity of the backing array.
cast(Object, Class<T>) - Static method in class org.scijava.util.ClassUtils: Deprecated.
use Types.cast(Object, Class)
cast(Object, Class<T>) - Static method in class org.scijava.util.ConversionUtils: Deprecated.
use Types.cast(java.lang.Object, java.lang.Class<T>)
cast(Object, Class<T>) - Static method in class org.scijava.util.Types: Casts the given object to the specified type, or null if the types are incompatible.
CastingConverter - Class in org.scijava.convert: Minimal Converter implementation to do direct casting.
CastingConverter() - Constructor for class org.scijava.convert.CastingConverter
cdata(String) - Method in class org.scijava.util.XML: Obtains the CDATA identified by the given XPath expression.
cdata(Node) - Static method in class org.scijava.util.XML: Gets the CData beneath the given node.
cdata(Element, String) - Static method in class org.scijava.util.XML: Gets the CData beneath the given element's specified child.
CharArray - Class in org.scijava.util: An extensible array of char elements.
CharArray() - Constructor for class org.scijava.util.CharArray: Constructs an extensible array of chars, backed by a fixed-size array.
CharArray(int) - Constructor for class org.scijava.util.CharArray: Constructs an extensible array of chars, backed by a fixed-size array.
CharArray(char[]) - Constructor for class org.scijava.util.CharArray: Constructs an extensible array of chars, backed by the given fixed-size array.
CharArrayUnwrapper() - Constructor for class org.scijava.convert.ArrayConverters.CharArrayUnwrapper
CharArrayWrapper() - Constructor for class org.scijava.convert.ArrayConverters.CharArrayWrapper
CHARTREUSE - Static variable in class org.scijava.util.Colors
check(D, Display<?>) - Method in class org.scijava.ui.dnd.AbstractDragAndDropHandler: Throws IllegalArgumentException if (data, display) pair is incompatible.
check(boolean) - Static method in class org.scijava.util.CheckSezpoz: Deprecated.
check(File) - Static method in class org.scijava.util.CheckSezpoz: Deprecated.
checkBounds(int) - Method in class org.scijava.util.AbstractPrimitiveArray: Checks that the index is less than the size of the array.
checkDirectory(File) - Static method in class org.scijava.util.CheckSezpoz: Deprecated.
checkDirectory(File, File, long) - Static method in class org.scijava.util.CheckSezpoz: Deprecated.
CheckInputsPreprocessor - Class in org.scijava.module.process: A preprocessor plugin that does a final check of input parameters, complaining if any required ones are null.
CheckInputsPreprocessor() - Constructor for class org.scijava.module.process.CheckInputsPreprocessor
checkJar(File) - Static method in class org.scijava.util.CheckSezpoz: Deprecated.
checkObject(Object) - Method in class org.scijava.display.AbstractDisplay
checkReadPos(long, long) - Method in interface org.scijava.io.ByteBank: Check if we can read from the specified range
CheckSezpoz - Class in org.scijava.util: Deprecated.
checksum() - Method in class org.scijava.download.MultiWriteHandle
checksum() - Method in interface org.scijava.io.handle.DataHandle: Gets a "fast" checksum which succinctly represents the contents of the data stream.
checkWritePos(long, long) - Method in interface org.scijava.io.ByteBank: Check if we can write to the specified range
child(String) - Method in interface org.scijava.io.location.BrowsableLocation: Obtains a location with the given name, for whom this location is the parent.
child(String) - Method in class org.scijava.io.location.FileLocation
children() - Method in interface org.scijava.io.location.BrowsableLocation: Obtains a collection of locations for whom this location is the parent.
children() - Method in class org.scijava.io.location.FileLocation
children() - Method in class org.scijava.util.DefaultTreeNode
children() - Method in interface org.scijava.util.TreeNode: Gets the node's children.
CHOCOLATE - Static variable in class org.scijava.util.Colors
ChoiceWidget - Interface in org.scijava.widget: Widget interface for multiple choice selectors.
chooseFile(File, String) - Method in class org.scijava.ui.DefaultUIService
chooseFile(String, File, String) - Method in class org.scijava.ui.DefaultUIService
chooseFile(String, File, String) - Method in class org.scijava.ui.headless.HeadlessUI
chooseFile(File, String) - Method in interface org.scijava.ui.UIService: Prompts the user to choose a file.
chooseFile(String, File, String) - Method in interface org.scijava.ui.UIService: Prompts the user to choose a file.
chooseFile(File, String) - Method in interface org.scijava.ui.UserInterface: Prompts the user to choose a file.
chooseFile(String, File, String) - Method in interface org.scijava.ui.UserInterface: Prompts the user to choose a file.
chooseFiles(File, File[], FileFilter, String) - Method in class org.scijava.ui.DefaultUIService
chooseFiles(File, List<File>, FileFilter, String) - Method in class org.scijava.ui.DefaultUIService
chooseFiles(File, File[], FileFilter, String) - Method in interface org.scijava.ui.UIService: Prompts the user to select one or multiple files.
chooseFiles(File, List<File>, FileFilter, String) - Method in interface org.scijava.ui.UIService: Prompts the user to select one or multiple files.
chooseFiles(File, File[], FileFilter, String) - Method in interface org.scijava.ui.UserInterface: Prompts the user to choose a list of files.
chooseFiles(File, List<File>, FileFilter, String) - Method in interface org.scijava.ui.UserInterface: Prompts the user to choose a list of files.
clampToRange(Class<?>, Number, Number, Number) - Static method in class org.scijava.util.NumberUtils
className() - Method in class org.scijava.annotations.IndexItem: Returns the name of the annotated class.
className() - Method in interface org.scijava.main.MainService.Main: Gets the name of the class containing the main method to run.
ClassUtils - Class in org.scijava.util: Useful methods for working with Class objects and primitive types.
cleanup() - Method in class org.scijava.io.handle.AbstractHigherOrderHandle: Clean up data structures after a handle has been closed in the AbstractHigherOrderHandle.close() method.
cleanup() - Method in class org.scijava.io.handle.ReadBufferDataHandle
cleanup() - Method in class org.scijava.io.handle.WriteBufferDataHandle
CLEANUP_PERIOD_MS_DEFAULT - Static variable in class org.scijava.event.bushe.ThreadSafeEventService
CLEANUP_START_THRESHOLD_DEFAULT - Static variable in class org.scijava.event.bushe.ThreadSafeEventService
CLEANUP_STOP_THRESHOLD_DEFAULT - Static variable in class org.scijava.event.bushe.ThreadSafeEventService
clear() - Method in class org.scijava.display.AbstractDisplay
clear() - Method in class org.scijava.event.DefaultEventHistory
clear() - Method in interface org.scijava.event.EventHistory: Clears the recorded event history.
clear() - Method in class org.scijava.io.ByteArrayByteBank
clear() - Method in interface org.scijava.io.ByteBank: Clears the buffer
clear() - Method in class org.scijava.io.DefaultRecentFileService
clear() - Method in class org.scijava.io.nio.ByteBufferByteBank
clear() - Method in interface org.scijava.io.RecentFileService: Clears the list of recent files.
clear() - Method in class org.scijava.menu.ShadowMenu
clear() - Method in class org.scijava.object.ObjectIndex
clear(Class<?>) - Method in class org.scijava.prefs.DefaultPrefService
clear(String, String) - Method in class org.scijava.prefs.DefaultPrefService: Deprecated.
clear(Class<?>, String) - Method in class org.scijava.prefs.DefaultPrefService: Deprecated.
clear(Class<?>) - Method in interface org.scijava.prefs.PrefService: Deletes all of the given Class's keys from persistent storage.
clear(String) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.remove(Class, String) or PrefService.clear(Class).
clear(String, String) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.remove(Class, String).
clear(Class<?>, String) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.remove(Class, String).
clear() - Method in interface org.scijava.ui.viewer.text.TextDisplayPanel
clear() - Method in class org.scijava.util.AbstractPrimitiveArray
clear() - Method in class org.scijava.util.LastRecentlyUsed: Empties the data structure.
clear(Class<?>) - Static method in class org.scijava.util.Prefs: Deprecated.
clear(String) - Static method in class org.scijava.util.Prefs: Deprecated.

Clears the node.
clear(Preferences, String) - Static method in class org.scijava.util.Prefs: Deprecated.
clearAll() - Method in class org.scijava.prefs.DefaultPrefService
clearAll() - Method in interface org.scijava.prefs.PrefService: Deletes all information from the data store.
clearAll() - Static method in class org.scijava.util.Prefs: Deprecated.

Clears everything.
clearAllSubscribers() - Method in class org.scijava.event.bushe.ThreadSafeEventService
clearCache(Class) - Method in class org.scijava.event.bushe.ThreadSafeEventService: Clears the event cache for a specific event class or interface and it's any of it's subclasses or implementing classes.
clearCache(String) - Method in class org.scijava.event.bushe.ThreadSafeEventService: Clears the topic data cache for a specific topic name.
clearCache(Pattern) - Method in class org.scijava.event.bushe.ThreadSafeEventService: Clears the topic data cache for all topics that match a particular pattern.
clearCache() - Method in class org.scijava.event.bushe.ThreadSafeEventService: Clear all event caches for all topics and event.
clearParameters() - Method in class org.scijava.module.AbstractModuleInfo: Clears input and output parameters.
clearParameters() - Method in class org.scijava.script.ScriptInfo
clearStatus() - Method in class org.scijava.app.DefaultStatusService
clearStatus() - Method in interface org.scijava.app.StatusService: Clears the status message.
clone() - Method in class org.scijava.util.MersenneTwisterFast
close() - Method in class org.scijava.annotations.legacy.LegacyReader
close() - Method in class org.scijava.console.MultiOutputStream
close() - Method in class org.scijava.Context
close() - Method in class org.scijava.display.AbstractDisplay
close() - Method in interface org.scijava.display.Display: Closes the display and disposes its resources.
close() - Method in class org.scijava.download.MultiWriteHandle
close() - Method in class org.scijava.io.handle.AbstractHigherOrderHandle
close() - Method in class org.scijava.io.handle.BytesHandle
close() - Method in class org.scijava.io.handle.DataHandleInputStream
close() - Method in class org.scijava.io.handle.DataHandleOutputStream
close() - Method in class org.scijava.io.handle.DummyHandle
close() - Method in class org.scijava.io.handle.FileHandle
close() - Method in interface org.scijava.io.handle.StreamHandle
close() - Method in interface org.scijava.ui.viewer.DisplayWindow
close() - Method in class org.scijava.util.LineOutputStream: Flushes the current line buffer if any bytes are left in it.
CloseConfirmable - Interface in org.scijava.ui: Interface for UI components that require the user to deal with changed state before the component can be closed.
closeLine(SourceDataLine) - Method in class org.scijava.util.TunePlayer
closeOnEOF - Variable in class org.scijava.util.ReadInto
CodeGenerator - Interface in org.scijava.script: Deprecated.
To be removed in SciJava Common 3.0.0.
CodeGeneratorJava - Class in org.scijava.script: Deprecated.
To be removed in SciJava Common 3.0.0.
CodeGeneratorJava() - Constructor for class org.scijava.script.CodeGeneratorJava: Deprecated.
CodeRunner - Interface in org.scijava.run: A plugin which extends the RunService's execution handling.
ColorRGB - Class in org.scijava.util: A color with red, green and blue color components.
ColorRGB(int, int, int) - Constructor for class org.scijava.util.ColorRGB
ColorRGB(String) - Constructor for class org.scijava.util.ColorRGB: Parses a color from the given string.
ColorRGBA - Class in org.scijava.util: A color with red, green, blue and alpha color components.
ColorRGBA(int, int, int, int) - Constructor for class org.scijava.util.ColorRGBA
Colors - Class in org.scijava.util: Predefined ColorRGB objects and related utility methods.
ColorWidget - Interface in org.scijava.widget: Widget interface for color choosers.
combine(File) - Method in class org.scijava.annotations.AnnotationCombiner: Reads in annotations from all available resources and combines them.
combine() - Method in class org.scijava.util.CombineAnnotations: Deprecated.
Use AnnotationCombiner.combine(File) instead.
combine(File) - Method in interface org.scijava.util.Combiner: Combines a collection of items and writes the result to the provided directory.
combine(File) - Method in class org.scijava.util.ServiceCombiner
CombineAnnotations - Class in org.scijava.util: Deprecated.
Use AnnotationCombiner instead.
CombineAnnotations() - Constructor for class org.scijava.util.CombineAnnotations: Deprecated.
Use AnnotationCombiner() instead.
Combiner - Interface in org.scijava.util: Interface for combining structurally-delicate items (such as annotations) which need to be unified to a single output.
command() - Method in class org.scijava.AbstractGateway
Command - Interface in org.scijava.command: Command is a plugin that is executable.
command() - Method in interface org.scijava.Gateway: Gets this application context's CommandService.
CommandCodeRunner - Class in org.scijava.command.run: Runs the given Command class.
CommandCodeRunner() - Constructor for class org.scijava.command.run.CommandCodeRunner
CommandInfo - Class in org.scijava.command: A collection of metadata about a particular Command.
CommandInfo(String) - Constructor for class org.scijava.command.CommandInfo: Creates a new command metadata object.
CommandInfo(String, Plugin) - Constructor for class org.scijava.command.CommandInfo: Creates a new command metadata object.
CommandInfo(Class<? extends Command>) - Constructor for class org.scijava.command.CommandInfo: Creates a new command metadata object.
CommandInfo(Class<? extends Command>, Plugin) - Constructor for class org.scijava.command.CommandInfo: Creates a new command metadata object.
CommandInfo(PluginInfo<Command>) - Constructor for class org.scijava.command.CommandInfo: Creates a new command metadata object describing the same command as the given PluginInfo.
CommandInfo(PluginInfo<Command>, String, Class<? extends Command>, Plugin) - Constructor for class org.scijava.command.CommandInfo
CommandModule - Class in org.scijava.command: Module adapter class for working with a Command instance.
CommandModule(CommandInfo) - Constructor for class org.scijava.command.CommandModule: Creates a command module for the given PluginInfo.
CommandModule(CommandInfo, Command) - Constructor for class org.scijava.command.CommandModule: Creates a command module for the given CommandInfo, around the specified Command instance.
CommandModuleItem<T> - Class in org.scijava.command: ModuleItem implementation describing an input or output of a command.
CommandModuleItem(ModuleInfo, Field) - Constructor for class org.scijava.command.CommandModuleItem
CommandService - Interface in org.scijava.command: Interface for service that keeps track of available commands.
commandService() - Method in class org.scijava.platform.DefaultPlatformService
commandService() - Method in interface org.scijava.platform.PlatformService
compare(Prioritized, Prioritized) - Static method in class org.scijava.Priority: Compares two Prioritized objects.
compare(Class<?>, Class<?>) - Static method in class org.scijava.util.ClassUtils: Compares two Class objects using their fully qualified names.
compare(T, T) - Static method in class org.scijava.util.MiscUtils: Compares two comparable objects, even if one or both of them are null.
compare(T, T, boolean) - Static method in class org.scijava.util.MiscUtils: Compares two comparable objects, even if one or both of them are null.
compare(String, String) - Static method in class org.scijava.util.VersionUtils: Compares two version strings.
compareTo(ShadowMenu) - Method in class org.scijava.menu.ShadowMenu
compareTo(Prioritized) - Method in interface org.scijava.Prioritized
compareTo(Prioritized) - Method in interface org.scijava.UIDetails
compareTo(POM) - Method in class org.scijava.util.POM
compareVersions(String, String) - Static method in class org.scijava.util.POM: Compares two version strings.
component(Type) - Static method in class org.scijava.util.Types: Gets the component type of the given array type, or null if not an array.
configure(PlatformService) - Method in class org.scijava.platform.AbstractPlatform
configure(PlatformService) - Method in interface org.scijava.platform.Platform: Activates and configures the platform.
configure() - Method in interface org.scijava.tool.Tool: Occurs when the user right clicks this tool's icon.
confirmClose() - Method in interface org.scijava.ui.CloseConfirmable
console() - Method in class org.scijava.AbstractGateway
console() - Method in interface org.scijava.Gateway: Gets this application context's ConsoleService.
ConsoleArgument - Interface in org.scijava.console: A plugin which extends an application's command line argument handling.
ConsolePane<C> - Interface in org.scijava.ui.console: A panel which displays stdout and stderr console output.
ConsoleService - Interface in org.scijava.console: Interface for service that manages interaction with the console.
ConsoleUtils - Class in org.scijava.console: Deprecated.
Use alternatives instead (see individual method docs).
ConsoleUtils() - Constructor for class org.scijava.console.ConsoleUtils: Deprecated.
consume() - Method in class org.scijava.event.SciJavaEvent
contains(Object) - Method in class org.scijava.display.AbstractDisplay
contains(Object) - Method in class org.scijava.menu.ShadowMenu
contains(Object) - Method in class org.scijava.object.ObjectIndex
contains(Object) - Method in class org.scijava.object.SortedObjectIndex
contains(byte[], byte) - Static method in class org.scijava.util.ArrayUtils: Returns true if the given value is contained in the specified array.
contains(boolean[], boolean) - Static method in class org.scijava.util.ArrayUtils: Returns true if the given value is contained in the specified array.
contains(char[], char) - Static method in class org.scijava.util.ArrayUtils: Returns true if the given value is contained in the specified array.
contains(double[], double) - Static method in class org.scijava.util.ArrayUtils: Returns true if the given value is contained in the specified array.
contains(float[], float) - Static method in class org.scijava.util.ArrayUtils: Returns true if the given value is contained in the specified array.
contains(int[], int) - Static method in class org.scijava.util.ArrayUtils: Returns true if the given value is contained in the specified array.
contains(long[], long) - Static method in class org.scijava.util.ArrayUtils: Returns true if the given value is contained in the specified array.
contains(short[], short) - Static method in class org.scijava.util.ArrayUtils: Returns true if the given value is contained in the specified array.
contains(Object[], Object) - Static method in class org.scijava.util.ArrayUtils: Returns true if the given value is contained in the specified array.
contains(boolean) - Method in class org.scijava.util.BoolArray
contains(Object) - Method in class org.scijava.util.BoolArray
contains(byte) - Method in class org.scijava.util.ByteArray
contains(Object) - Method in class org.scijava.util.ByteArray
contains(char) - Method in class org.scijava.util.CharArray
contains(Object) - Method in class org.scijava.util.CharArray
contains(double) - Method in class org.scijava.util.DoubleArray
contains(Object) - Method in class org.scijava.util.DoubleArray
contains(float) - Method in class org.scijava.util.FloatArray
contains(Object) - Method in class org.scijava.util.FloatArray
contains(int) - Method in class org.scijava.util.IntArray
contains(Object) - Method in class org.scijava.util.IntArray
contains(IntCoords) - Method in class org.scijava.util.IntRect: Tests whether the given coordinates lie within the rectangle.
contains(Object) - Method in class org.scijava.util.LastRecentlyUsed
contains(long) - Method in class org.scijava.util.LongArray
contains(Object) - Method in class org.scijava.util.LongArray
contains(Object) - Method in class org.scijava.util.ObjectArray
contains(RealCoords) - Method in class org.scijava.util.RealRect: Tests whether the given coordinates lie within the rectangle.
contains(short) - Method in class org.scijava.util.ShortArray
contains(Object) - Method in class org.scijava.util.ShortArray
containsAll(Collection<?>) - Method in class org.scijava.display.AbstractDisplay
containsAll(Collection<?>) - Method in class org.scijava.menu.ShadowMenu
containsAll(Collection<?>) - Method in class org.scijava.object.ObjectIndex
containsAll(Collection<?>) - Method in class org.scijava.object.SortedObjectIndex
containsAll(Collection<?>) - Method in class org.scijava.util.BoolArray
containsAll(Collection<?>) - Method in class org.scijava.util.ByteArray
containsAll(Collection<?>) - Method in class org.scijava.util.CharArray
containsAll(Collection<?>) - Method in class org.scijava.util.DoubleArray
containsAll(Collection<?>) - Method in class org.scijava.util.FloatArray
containsAll(Collection<?>) - Method in class org.scijava.util.IntArray
containsAll(Collection<?>) - Method in class org.scijava.util.LastRecentlyUsed
containsAll(Collection<?>) - Method in class org.scijava.util.LongArray
containsAll(Collection<?>) - Method in class org.scijava.util.ObjectArray
containsAll(Collection<?>) - Method in class org.scijava.util.ShortArray
containsTypeVars(Type) - Static method in class org.scijava.util.Types: Learn, recursively, whether any of the type parameters associated with type are bound to variables.
context() - Method in class org.scijava.AbstractContextual
context() - Method in class org.scijava.command.CommandModule
context() - Method in class org.scijava.command.DynamicCommand
Context - Class in org.scijava: Top-level SciJava application context, which initializes and maintains a list of services.
Context() - Constructor for class org.scijava.Context: Creates a new SciJava application context with all available services.
Context(boolean) - Constructor for class org.scijava.Context: Creates a new SciJava application context.
Context(boolean, boolean) - Constructor for class org.scijava.Context: Creates a new SciJava application context.
Context(Class...) - Constructor for class org.scijava.Context: Creates a new SciJava application context with the specified services (and any required service dependencies).
Context(Collection<Class<? extends Service>>) - Constructor for class org.scijava.Context: Creates a new SciJava application context with the specified services (and any required service dependencies).
Context(Collection<Class<? extends Service>>, boolean) - Constructor for class org.scijava.Context: Creates a new SciJava application context with the specified services (and any required service dependencies).
Context(PluginIndex) - Constructor for class org.scijava.Context: Creates a new SciJava application context with all available services from the specified PluginIndex.
Context(Collection<Class<? extends Service>>, PluginIndex) - Constructor for class org.scijava.Context: Creates a new SciJava application context with the specified services (and any required service dependencies).
Context(Collection<Class<? extends Service>>, PluginIndex, boolean) - Constructor for class org.scijava.Context: Creates a new SciJava application context with the specified services (and any required service dependencies).
context() - Method in interface org.scijava.Contextual: Gets the application context to which the object belongs.
context() - Method in class org.scijava.script.ScriptInfo
context() - Method in class org.scijava.script.ScriptModule
CONTEXT_MENU_ROOT - Static variable in annotation type org.scijava.plugin.Plugin: Deprecated.
Use a context-specific menu root string instead. This one is too general. There is no such thing as a "default context menu" since such a thing wouldn't be a context menu!
ContextCommand - Class in org.scijava.command: A command that knows its context.
ContextCommand() - Constructor for class org.scijava.command.ContextCommand
ContextCreatedEvent - Class in org.scijava.event: Event to be published immediately after a context has been fully created with all services initialized.
ContextCreatedEvent() - Constructor for class org.scijava.event.ContextCreatedEvent
ContextDisposingEvent - Class in org.scijava.event: Event to be published just before disposing a context.
ContextDisposingEvent() - Constructor for class org.scijava.event.ContextDisposingEvent
Contextual - Interface in org.scijava: An object that belongs to a SciJava application context.
conversionBuffer() - Method in class org.scijava.io.handle.AbstractDataHandle
conversionBuffer() - Method in interface org.scijava.io.handle.DataHandle
ConversionRequest - Class in org.scijava.convert: Currency for use in Converter and ConvertService methods.
ConversionRequest(Object, Type) - Constructor for class org.scijava.convert.ConversionRequest
ConversionRequest(Type, Type) - Constructor for class org.scijava.convert.ConversionRequest
ConversionRequest(Object, Type, Type) - Constructor for class org.scijava.convert.ConversionRequest
ConversionUtils - Class in org.scijava.util: Deprecated.
use ConvertService and Types
convert() - Method in class org.scijava.AbstractGateway
convert(Object, Class<T>) - Method in class org.scijava.convert.AbstractDelegateConverter
convert(Object, Type) - Method in class org.scijava.convert.ArrayToStringConverter
convert(Object, Class<T>) - Method in class org.scijava.convert.ArrayToStringConverter
convert(Object, Class<T>) - Method in class org.scijava.convert.CastingConverter
convert(ConversionRequest) - Method in interface org.scijava.convert.Converter: Converts the given ConversionRequest.sourceObject() to the specified ConversionRequest.destClass() or ConversionRequest.destType().
convert(Object, Type) - Method in interface org.scijava.convert.Converter: As Converter.convert(Object, Class) but capable of creating and populating multi-element objects (Collections and array types).
convert(Object, Class<T>) - Method in interface org.scijava.convert.Converter: Converts the given object to an object of the specified type.
convert(Object, Type) - Method in interface org.scijava.convert.ConvertService
convert(Object, Class<T>) - Method in interface org.scijava.convert.ConvertService
convert(ConversionRequest) - Method in interface org.scijava.convert.ConvertService
convert(Object, Type) - Method in class org.scijava.convert.DefaultConverter
convert(Object, Class<T>) - Method in class org.scijava.convert.DefaultConverter
convert(Object, Class<T>) - Method in class org.scijava.convert.FileListConverters.FileArrayToStringConverter
convert(Object, Class<T>) - Method in class org.scijava.convert.FileListConverters.FileToStringConverter
convert(Object, Class<T>) - Method in class org.scijava.convert.FileListConverters.StringToFileArrayConverter
convert(Object, Class<T>) - Method in class org.scijava.convert.FileListConverters.StringToFileConverter
convert(Object, Class<T>) - Method in class org.scijava.convert.FileToPathConverter
convert(Object, Class<T>) - Method in class org.scijava.convert.NullConverter
convert(Number) - Method in class org.scijava.convert.NumberToBigDecimalConverter
convert(Number) - Method in class org.scijava.convert.NumberToBigIntegerConverter
convert(Number) - Method in class org.scijava.convert.NumberToDoubleConverter
convert(Number) - Method in class org.scijava.convert.NumberToFloatConverter
convert(Number) - Method in class org.scijava.convert.NumberToIntegerConverter
convert(Number) - Method in class org.scijava.convert.NumberToLongConverter
convert(Object, Class<T>) - Method in class org.scijava.convert.NumberToNumberConverter
convert(Number) - Method in class org.scijava.convert.NumberToNumberConverter
convert(Number) - Method in class org.scijava.convert.NumberToShortConverter
convert(Object, Class<T>) - Method in class org.scijava.convert.PathToFileConverter
convert(Object, Class<T>) - Method in class org.scijava.convert.PrimitiveArrayUnwrapper
convert(Object, Class<T>) - Method in class org.scijava.convert.PrimitiveArrayWrapper
convert(Object, Type) - Method in class org.scijava.convert.StringToArrayConverter
convert(Object, Class<T>) - Method in class org.scijava.convert.StringToArrayConverter
convert(Object, Class<T>) - Method in class org.scijava.convert.StringToNumberConverter
convert(Object, Class<T>) - Static method in class org.scijava.util.ClassUtils: Deprecated.
use ConversionUtils.convert(Object, Class)
convert(Object, Type) - Static method in class org.scijava.util.ConversionUtils: Deprecated.
convert(Object, Class<T>) - Static method in class org.scijava.util.ConversionUtils: Deprecated.
convertData(DragAndDropData) - Method in class org.scijava.ui.dnd.AbstractDragAndDropHandler
convertData(DragAndDropData) - Method in interface org.scijava.ui.dnd.DragAndDropHandler: Converts the given DragAndDropData to the type of data object supported by this handler.
convertDataUnchecked(DragAndDropData) - Method in class org.scijava.ui.dnd.AbstractDragAndDropHandler: Converts the given data to this handler's native data type, without verifying compatibility first.
Converter<I,O> - Interface in org.scijava.convert: Extensible conversion Plugin for converting between classes and types.
convertObject(Object) - Method in class org.scijava.ui.dnd.AbstractDragAndDropHandler
convertObject(Object) - Method in interface org.scijava.ui.dnd.DragAndDropHandler: Converts the given object to the type of data object supported by this handler.
convertObjectUnchecked(Object) - Method in class org.scijava.ui.dnd.AbstractDragAndDropHandler: Converts the given object to this handler's native data type, without verifying compatibility first.
ConvertService - Interface in org.scijava.convert: Service for converting between types using an Converter plugins.
convertToEnum(String, Class<T>) - Static method in class org.scijava.util.ConversionUtils: Deprecated.
use Types.enumValue(java.lang.String, java.lang.Class<T>)
copy(DataHandle<Location>, DataHandle<Location>) - Static method in class org.scijava.io.handle.DataHandles: Copies all bytes from the input to the output handle.
copy(DataHandle<Location>, DataHandle<Location>, Task) - Static method in class org.scijava.io.handle.DataHandles: Copies all bytes from the input to the output handle, reporting the progress to the provided task.
copy(DataHandle<Location>, DataHandle<Location>, int) - Static method in class org.scijava.io.handle.DataHandles: Copies up to length bytes from the input to the output handle.
copy(DataHandle<Location>, DataHandle<Location>, long, Task) - Static method in class org.scijava.io.handle.DataHandles: Copies up to length bytes from the input to the output handle, reporting the progress to the provided task.
copy(DataHandle<Location>, DataHandle<Location>, long, Task, int) - Static method in class org.scijava.io.handle.DataHandles: Copies up to length bytes from the input to the output handle, reporting the progress to the provided task.
copyArray() - Method in class org.scijava.util.AbstractPrimitiveArray
copyArray() - Method in interface org.scijava.util.PrimitiveArray: Returns a copy of the primitive-array array.
CORAL - Static variable in class org.scijava.util.Colors
CORNFLOWERBLUE - Static variable in class org.scijava.util.Colors
CORNSILK - Static variable in class org.scijava.util.Colors
create(String) - Static method in class org.scijava.input.Accelerator: Creates an accelerator from the given string representation.
create(Class<? extends SciJavaPlugin>) - Static method in class org.scijava.plugin.PluginInfo: Creates a PluginInfo for the given plugin class.
create(Class, Class<PT>) - Static method in class org.scijava.plugin.PluginInfo: Creates a PluginInfo for the given plugin class of the specified plugin type.
create(Class) - Method in interface org.scijava.plugin.PTService: Creates an instance of the given plugin class.
create(Class) - Method in interface org.scijava.plugin.SingletonService
create(D) - Method in interface org.scijava.plugin.WrapperService: Creates a new plugin instance wrapping the given associated data object.
createBindings() - Method in class org.scijava.script.AbstractScriptEngine
createBindings() - Method in class org.scijava.script.AdaptedScriptEngine
createDisplay(Object) - Method in class org.scijava.display.DefaultDisplayService
createDisplay(String, Object) - Method in class org.scijava.display.DefaultDisplayService
createDisplay(Object) - Method in interface org.scijava.display.DisplayService: Creates a display for the given object, publishing a DisplayCreatedEvent to notify interested parties.
createDisplay(String, Object) - Method in interface org.scijava.display.DisplayService: Creates a display for the given object, publishing a DisplayCreatedEvent to notify interested parties.
createDisplayQuietly(Object) - Method in class org.scijava.display.DefaultDisplayService
createDisplayQuietly(Object) - Method in interface org.scijava.display.DisplayService: Creates a display for the given object, without publishing a DisplayCreatedEvent.
createDisplayWindow(Display<?>) - Method in class org.scijava.ui.headless.HeadlessUI
createDisplayWindow(Display<?>) - Method in interface org.scijava.ui.UserInterface: Creates a new display window housing the given display, or null if not applicable.
createExactService(Class<S>) - Method in class org.scijava.service.ServiceHelper: Instantiates a service of the given class, registering it in the index.
createInputPanel() - Method in interface org.scijava.widget.InputHarvester: Constructs an empty InputPanel.
createInstance() - Method in class org.scijava.command.CommandInfo
createInstance() - Method in interface org.scijava.Instantiable: Creates an object.
createInstance(PluginInfo<PT>) - Method in class org.scijava.plugin.DefaultPluginService
createInstance() - Method in class org.scijava.plugin.PluginInfo
createInstance(PluginInfo<PT>) - Method in interface org.scijava.plugin.PluginService: Creates an instance of the given plugin.
createInstances(List<PluginInfo<PT>>) - Method in class org.scijava.plugin.DefaultPluginService
createInstances(List<PluginInfo<PT>>) - Method in interface org.scijava.plugin.PluginService: Creates an instance of each of the plugins on the given list.
createInstancesOfType(Class<PT>) - Method in class org.scijava.plugin.DefaultPluginService
createInstancesOfType(Class<PT>) - Method in interface org.scijava.plugin.PluginService: Creates one instance each of the available plugins of the given type.
createMenus(ShadowMenu, T) - Method in class org.scijava.menu.AbstractMenuCreator
createMenus(ShadowMenu, T) - Method in interface org.scijava.menu.MenuCreator
createMenus(MenuCreator<T>, T) - Method in interface org.scijava.menu.MenuService: Populates a UI-specific application menu structure.
createMenus(String, MenuCreator<T>, T) - Method in interface org.scijava.menu.MenuService: Populates a UI-specific menu structure.
createModel(InputPanel<?, ?>, Module, ModuleItem<?>, List<?>) - Method in interface org.scijava.widget.WidgetService: Create a WidgetModel for the given module input.
createModule(Command) - Method in class org.scijava.command.CommandInfo: Instantiates the module described by this module info, around the specified existing command instance.
createModule() - Method in class org.scijava.command.CommandInfo
createModule(ModuleInfo) - Method in class org.scijava.module.DefaultModuleService
createModule() - Method in interface org.scijava.module.ModuleInfo: Instantiates the module described by this module info.
createModule(ModuleInfo) - Method in interface org.scijava.module.ModuleService: Creates an instance of the given module.
createModule() - Method in interface org.scijava.module.MutableModuleInfo
createModule() - Method in class org.scijava.script.ScriptInfo
createPath(File, String) - Static method in class org.scijava.test.TestUtils: Creates an empty file at the given path, creating intermediate directories as necessary.
createTask(String) - Method in class org.scijava.task.DefaultTaskService
createTask(String) - Method in interface org.scijava.task.TaskService: Creates a new, empty Task.
createTemporaryDirectory(String) - Static method in class org.scijava.test.TestUtils: Makes a temporary directory for use with unit tests.
createTemporaryDirectory(String, Class<?>) - Static method in class org.scijava.test.TestUtils: Makes a temporary directory for use with unit tests.
createTemporaryDirectory(String, Class<?>, String) - Static method in class org.scijava.test.TestUtils: Makes a temporary directory for use with unit tests.
createTemporaryDirectory(String) - Static method in class org.scijava.util.FileUtils: Creates a temporary directory.
createTemporaryDirectory(String, String) - Static method in class org.scijava.util.FileUtils: Creates a temporary directory.
createTemporaryDirectory(String, String, File) - Static method in class org.scijava.util.FileUtils: Creates a temporary directory.
createUI() - Method in class org.scijava.ui.AbstractUserInterface: Subclasses override to control UI creation.
CRIMSON - Static variable in class org.scijava.util.Colors
CustomDrawnTool - Interface in org.scijava.tool: Tools that would like to define how they are drawn implement this interface.
CYAN - Static variable in class org.scijava.util.Colors

D

DARKBLUE - Static variable in class org.scijava.util.Colors
DARKCYAN - Static variable in class org.scijava.util.Colors
DARKGOLDENROD - Static variable in class org.scijava.util.Colors
DARKGRAY - Static variable in class org.scijava.util.Colors
DARKGREEN - Static variable in class org.scijava.util.Colors
DARKGREY - Static variable in class org.scijava.util.Colors
DARKKHAKI - Static variable in class org.scijava.util.Colors
DARKMAGENTA - Static variable in class org.scijava.util.Colors
DARKOLIVEGREEN - Static variable in class org.scijava.util.Colors
DARKORANGE - Static variable in class org.scijava.util.Colors
DARKORCHID - Static variable in class org.scijava.util.Colors
DARKRED - Static variable in class org.scijava.util.Colors
DARKSALMON - Static variable in class org.scijava.util.Colors
DARKSEAGREEN - Static variable in class org.scijava.util.Colors
DARKSLATEBLUE - Static variable in class org.scijava.util.Colors
DARKSLATEGRAY - Static variable in class org.scijava.util.Colors
DARKSLATEGREY - Static variable in class org.scijava.util.Colors
DARKTURQUOISE - Static variable in class org.scijava.util.Colors
DARKVIOLET - Static variable in class org.scijava.util.Colors
data() - Method in class org.scijava.util.DefaultTreeNode
data() - Method in interface org.scijava.util.TreeNode: Gets the data associated with the node.
DataHandle<L extends Location> - Interface in org.scijava.io.handle: A data handle is a plugin which provides both streaming and random access to bytes at a Location (e.g., files or arrays).
DataHandle.ByteOrder - Enum in org.scijava.io.handle
DataHandleInputStream<L extends Location> - Class in org.scijava.io.handle: InputStream backed by a DataHandle.
DataHandleInputStream(DataHandle<L>) - Constructor for class org.scijava.io.handle.DataHandleInputStream: Creates an input stream around the given DataHandle.
DataHandleOutputStream<L extends Location> - Class in org.scijava.io.handle: OutputStream backed by a DataHandle.
DataHandleOutputStream(DataHandle<L>) - Constructor for class org.scijava.io.handle.DataHandleOutputStream: Creates an output stream around the given DataHandle.
DataHandles - Class in org.scijava.io.handle: Utility methods for working with DataHandles.
DataHandleService - Interface in org.scijava.io.handle: Interface for low-level data I/O: reading and writing bytes using DataHandles.
DataOpenedEvent - Class in org.scijava.io.event: An event indicating that data has been opened from a location.
DataOpenedEvent(Location, Object) - Constructor for class org.scijava.io.event.DataOpenedEvent
DataOpenedEvent(String, Object) - Constructor for class org.scijava.io.event.DataOpenedEvent: Deprecated.
use DataOpenedEvent(Location, Object) instead
DataSavedEvent - Class in org.scijava.io.event: An event indicating that data has been saved to a destination.
DataSavedEvent(Location, Object) - Constructor for class org.scijava.io.event.DataSavedEvent
DataSavedEvent(String, Object) - Constructor for class org.scijava.io.event.DataSavedEvent: Deprecated.
use DataSavedEvent(Location, Object) instead
DateWidget - Interface in org.scijava.widget: Widget interface for dates.
deactivate() - Method in interface org.scijava.tool.Tool: Informs the tool that it is no longer active.
debug(Object) - Method in interface org.scijava.log.Logger
debug(Throwable) - Method in interface org.scijava.log.Logger
debug(Object, Throwable) - Method in interface org.scijava.log.Logger
DEBUG - Static variable in class org.scijava.log.LogLevel
DEBUG - Static variable in interface org.scijava.log.LogService: Deprecated.
Use LogLevel.DEBUG.
debug() - Method in class org.scijava.script.ScriptREPL
DebugPostprocessor - Class in org.scijava.module.process: A postprocessor plugin that dumps parameter values to the log.
DebugPostprocessor() - Constructor for class org.scijava.module.process.DebugPostprocessor
DebugPreprocessor - Class in org.scijava.module.process: A preprocessor plugin that dumps information to the log.
DebugPreprocessor() - Constructor for class org.scijava.module.process.DebugPreprocessor
DebugUtils - Class in org.scijava.util: Useful methods for debugging programs.
decode(Object) - Method in interface org.scijava.script.ScriptLanguage: Performs any necessary conversion of an encoded object retrieved from the language's script engine.
decWeakRefPlusProxySubscriberCount() - Method in class org.scijava.event.bushe.ThreadSafeEventService: Decrement the count of stale proxies
DEEPPINK - Static variable in class org.scijava.util.Colors
DEEPSKYBLUE - Static variable in class org.scijava.util.Colors
DEFAULT_BLOCK_SIZE - Static variable in interface org.scijava.io.handle.DataHandle: Default block size to use when searching through the stream.
DEFAULT_PAD_CHAR - Static variable in class org.scijava.util.StringUtils
DEFAULT_SHORTENER_THRESHOLD - Static variable in class org.scijava.util.FileUtils
DEFAULT_WEIGHT - Static variable in class org.scijava.MenuEntry
DefaultAppEventService - Class in org.scijava.platform: Deprecated.
Use AppService and App instead.
DefaultAppEventService() - Constructor for class org.scijava.platform.DefaultAppEventService: Deprecated.
DefaultAppService - Class in org.scijava.app: Default service for application-level functionality.
DefaultAppService() - Constructor for class org.scijava.app.DefaultAppService
DefaultAutoCompleter - Class in org.scijava.script: Default implementation of AutoCompleter.
DefaultAutoCompleter(ScriptLanguage) - Constructor for class org.scijava.script.DefaultAutoCompleter
DefaultCacheService - Class in org.scijava.cache: Trivial CacheService implementation.
DefaultCacheService() - Constructor for class org.scijava.cache.DefaultCacheService
DefaultCommandService - Class in org.scijava.command: Default service for working with Commands.
DefaultCommandService() - Constructor for class org.scijava.command.DefaultCommandService
DefaultConsoleService - Class in org.scijava.console: Default service for managing interaction with the console.
DefaultConsoleService() - Constructor for class org.scijava.console.DefaultConsoleService
DefaultConverter - Class in org.scijava.convert: Default Converter implementation.
DefaultConverter() - Constructor for class org.scijava.convert.DefaultConverter
DefaultConvertService - Class in org.scijava.convert: Default ConvertService implementation.
DefaultConvertService() - Constructor for class org.scijava.convert.DefaultConvertService
DefaultDataHandleService - Class in org.scijava.io.handle: Default implementation of DataHandleService.
DefaultDataHandleService() - Constructor for class org.scijava.io.handle.DefaultDataHandleService
DefaultDisplay - Class in org.scijava.display: Default display for objects, when no other displays are available.
DefaultDisplay() - Constructor for class org.scijava.display.DefaultDisplay
DefaultDisplayService - Class in org.scijava.display: Default service for working with Displays.
DefaultDisplayService() - Constructor for class org.scijava.display.DefaultDisplayService
DefaultDownloadService - Class in org.scijava.download: Default implementation of DownloadService.
DefaultDownloadService() - Constructor for class org.scijava.download.DefaultDownloadService
DefaultDragAndDropData - Class in org.scijava.ui.dnd: Default implementation of DragAndDropData, which provides a UI-agnostic way to bundle an object together with its MIME type.
DefaultDragAndDropData(Context, MIMEType, Object) - Constructor for class org.scijava.ui.dnd.DefaultDragAndDropData
DefaultDragAndDropService - Class in org.scijava.ui.dnd: Default service for handling drag and drop events.
DefaultDragAndDropService() - Constructor for class org.scijava.ui.dnd.DefaultDragAndDropService
DefaultEventBus - Class in org.scijava.event: An org.scijava.event.bushe.EventService implementation for SciJava.
DefaultEventBus(ThreadService, LogService) - Constructor for class org.scijava.event.DefaultEventBus
DefaultEventHistory - Class in org.scijava.event: Default service for keeping a history of SciJava events.
DefaultEventHistory() - Constructor for class org.scijava.event.DefaultEventHistory
DefaultEventService - Class in org.scijava.event: Default service for publishing and subscribing to SciJava events.
DefaultEventService() - Constructor for class org.scijava.event.DefaultEventService
DefaultInputService - Class in org.scijava.input: Default implementation of InputService.
DefaultInputService() - Constructor for class org.scijava.input.DefaultInputService
DefaultIOService - Class in org.scijava.io: Default implementation of IOService.
DefaultIOService() - Constructor for class org.scijava.io.DefaultIOService
DefaultLocationService - Class in org.scijava.io.location: Default LocationService implementation.
DefaultLocationService() - Constructor for class org.scijava.io.location.DefaultLocationService
DefaultLogger - Class in org.scijava.log: Default implementation of Logger.
DefaultLogger(LogListener, LogSource, int) - Constructor for class org.scijava.log.DefaultLogger
DefaultMainService - Class in org.scijava.main: Default implementation of MainService.
DefaultMainService() - Constructor for class org.scijava.main.DefaultMainService
DefaultMenuService - Class in org.scijava.menu: Default service for keeping track of the application's menu structure.
DefaultMenuService() - Constructor for class org.scijava.menu.DefaultMenuService
DefaultModuleService - Class in org.scijava.module: Default service for keeping track of and executing available modules.
DefaultModuleService() - Constructor for class org.scijava.module.DefaultModuleService
DefaultMutableModule - Class in org.scijava.module: Default MutableModule implementation, intended for subclassing.
DefaultMutableModule() - Constructor for class org.scijava.module.DefaultMutableModule
DefaultMutableModule(MutableModuleInfo) - Constructor for class org.scijava.module.DefaultMutableModule
DefaultMutableModuleInfo - Class in org.scijava.module: Default MutableModuleInfo implementation.
DefaultMutableModuleInfo() - Constructor for class org.scijava.module.DefaultMutableModuleInfo
DefaultMutableModuleItem<T> - Class in org.scijava.module: Default MutableModuleItem implementation, for use with custom MutableModule implementations.
DefaultMutableModuleItem(Module, String, Class<T>) - Constructor for class org.scijava.module.DefaultMutableModuleItem
DefaultMutableModuleItem(ModuleInfo, String, Class<T>) - Constructor for class org.scijava.module.DefaultMutableModuleItem
DefaultMutableModuleItem(ModuleInfo, ModuleItem<T>) - Constructor for class org.scijava.module.DefaultMutableModuleItem: Creates a new module item with the same values as the given item.
defaultName() - Method in interface org.scijava.io.location.Location: Gets the default name used when no explicit name is assigned.
DefaultNIOService - Class in org.scijava.io.nio: Default service for working with the java.nio package, particularly NIO ByteBuffer objects.
DefaultNIOService() - Constructor for class org.scijava.io.nio.DefaultNIOService
DefaultObjectService - Class in org.scijava.object: Default service for keeping track of registered objects.
DefaultObjectService() - Constructor for class org.scijava.object.DefaultObjectService
DefaultOptionsService - Class in org.scijava.options: Default service for keeping track of the available options and their settings.
DefaultOptionsService() - Constructor for class org.scijava.options.DefaultOptionsService
DefaultParseService - Class in org.scijava.parse: Default service for parsing strings.
DefaultParseService() - Constructor for class org.scijava.parse.DefaultParseService
DefaultPlatform - Class in org.scijava.platform: A platform implementation for default handling of platform issues.
DefaultPlatform() - Constructor for class org.scijava.platform.DefaultPlatform
DefaultPlatformService - Class in org.scijava.platform: Default service for handling platform-specific deployment issues.
DefaultPlatformService() - Constructor for class org.scijava.platform.DefaultPlatformService
DefaultPluginFinder - Class in org.scijava.plugin: Default SciJava plugin discovery mechanism.
DefaultPluginFinder() - Constructor for class org.scijava.plugin.DefaultPluginFinder
DefaultPluginFinder(ClassLoader) - Constructor for class org.scijava.plugin.DefaultPluginFinder
DefaultPluginService - Class in org.scijava.plugin: Default service for keeping track of available plugins.
DefaultPluginService() - Constructor for class org.scijava.plugin.DefaultPluginService
DefaultPrefService - Class in org.scijava.prefs: Default PrefService implementation, which persists preferences to disk using the Preferences API.
DefaultPrefService() - Constructor for class org.scijava.prefs.DefaultPrefService
DefaultRecentFileService - Class in org.scijava.io: Default service for managing the Recently Used Files menu.
DefaultRecentFileService() - Constructor for class org.scijava.io.DefaultRecentFileService
DefaultRunService - Class in org.scijava.run: Default service for managing available CodeRunner plugins.
DefaultRunService() - Constructor for class org.scijava.run.DefaultRunService
DefaultScriptHeaderService - Class in org.scijava.script: Default ScriptHeaderService implementation.
DefaultScriptHeaderService() - Constructor for class org.scijava.script.DefaultScriptHeaderService
DefaultScriptInterpreter - Class in org.scijava.script: The default implementation of a ScriptInterpreter.
DefaultScriptInterpreter(PrefService, ScriptService, ScriptLanguage) - Constructor for class org.scijava.script.DefaultScriptInterpreter: Deprecated.
Use DefaultScriptInterpreter(ScriptLanguage) instead.
DefaultScriptInterpreter(ScriptLanguage) - Constructor for class org.scijava.script.DefaultScriptInterpreter: Creates a new script interpreter for the given script language.
DefaultScriptInterpreter(ScriptLanguage, ScriptEngine) - Constructor for class org.scijava.script.DefaultScriptInterpreter: Creates a new script interpreter for the given script language, using the specified script engine.
DefaultScriptProcessorService - Class in org.scijava.script.process: Default implementation of ScriptProcessorService.
DefaultScriptProcessorService() - Constructor for class org.scijava.script.process.DefaultScriptProcessorService
DefaultScriptService - Class in org.scijava.script: Default service for working with scripts.
DefaultScriptService() - Constructor for class org.scijava.script.DefaultScriptService
DefaultStartupService - Class in org.scijava.startup: Default implementation of StartupService.
DefaultStartupService() - Constructor for class org.scijava.startup.DefaultStartupService
DefaultStatusService - Class in org.scijava.app: Default service for status notifications.
DefaultStatusService() - Constructor for class org.scijava.app.DefaultStatusService
DefaultTask - Class in org.scijava.task: Default implementation of Task.
DefaultTask(ThreadService, EventService) - Constructor for class org.scijava.task.DefaultTask: Creates a new task.
DefaultTaskService - Class in org.scijava.task: Default implementation of TaskService.
DefaultTaskService() - Constructor for class org.scijava.task.DefaultTaskService
DefaultTextDisplay - Class in org.scijava.display: Default display for text.
DefaultTextDisplay() - Constructor for class org.scijava.display.DefaultTextDisplay
DefaultTextIOService - Class in org.scijava.text.io: Default TextIOService implementation for opening and saving text data
DefaultTextIOService() - Constructor for class org.scijava.text.io.DefaultTextIOService
DefaultTextService - Class in org.scijava.text: Default service for working with text formats.
DefaultTextService() - Constructor for class org.scijava.text.DefaultTextService
DefaultThreadService - Class in org.scijava.thread: Default service for managing active threads.
DefaultThreadService() - Constructor for class org.scijava.thread.DefaultThreadService
DefaultToolService - Class in org.scijava.tool: Default service for keeping track of available tools, including which tool is active, and delegating UI events to the active tool.
DefaultToolService() - Constructor for class org.scijava.tool.DefaultToolService
DefaultTreeNode<T> - Class in org.scijava.util: Default implementation of TreeNode.
DefaultTreeNode(T, TreeNode<?>) - Constructor for class org.scijava.util.DefaultTreeNode: Creates a new tree node wrapping the given data, located in the tree beneath the specified parent.
DefaultUIService - Class in org.scijava.ui: Default service for handling SciJava user interfaces.
DefaultUIService() - Constructor for class org.scijava.ui.DefaultUIService
DefaultUncaughtExceptionHandler - Class in org.scijava.log: A handler for otherwise uncaught exceptions.
DefaultUncaughtExceptionHandler(LogService) - Constructor for class org.scijava.log.DefaultUncaughtExceptionHandler
defaultValue() - Method in class org.scijava.util.BoolArray
defaultValue() - Method in class org.scijava.util.ByteArray
defaultValue() - Method in class org.scijava.util.CharArray
defaultValue() - Method in class org.scijava.util.DoubleArray
defaultValue() - Method in class org.scijava.util.FloatArray
defaultValue() - Method in class org.scijava.util.IntArray
defaultValue() - Method in class org.scijava.util.LongArray
defaultValue() - Method in class org.scijava.util.ObjectArray
defaultValue() - Method in interface org.scijava.util.PrimitiveArray
defaultValue() - Method in class org.scijava.util.ShortArray
DefaultValuePreprocessor - Class in org.scijava.module.process: A preprocessor plugin that populates default parameter values.
DefaultValuePreprocessor() - Constructor for class org.scijava.module.process.DefaultValuePreprocessor
DefaultWelcomeService - Class in org.scijava.welcome: Default service for displaying the welcome greeting.
DefaultWelcomeService() - Constructor for class org.scijava.welcome.DefaultWelcomeService
DefaultWidgetModel - Class in org.scijava.widget: The backing data model for a particular InputWidget.
DefaultWidgetModel(Context, InputPanel<?, ?>, Module, ModuleItem<?>, List<?>) - Constructor for class org.scijava.widget.DefaultWidgetModel
DefaultWidgetService - Class in org.scijava.widget: Default service for managing available InputWidgets.
DefaultWidgetService() - Constructor for class org.scijava.widget.DefaultWidgetService
DELAY_IN_MICROSECONDS - Static variable in class org.scijava.util.MirrorWebsite
delete(int, int) - Method in class org.scijava.util.AbstractPrimitiveArray: Shifts the array to delete space starting at a specified index.
delete(int, int) - Method in interface org.scijava.util.PrimitiveArray: Shifts the array to delete space starting at a specified index.
deleteRecursively(File) - Static method in class org.scijava.util.FileUtils: Deletes a directory recursively.
Desktop - Interface in org.scijava.ui: Marker interface for MDI Desktop manager
destClass() - Method in class org.scijava.convert.ConversionRequest
destination() - Method in interface org.scijava.download.Download
destType() - Method in class org.scijava.convert.ConversionRequest
DialogPrompt - Interface in org.scijava.ui: TODO
dialogPrompt(String, String, DialogPrompt.MessageType, DialogPrompt.OptionType) - Method in class org.scijava.ui.headless.HeadlessUI
dialogPrompt(String, String, DialogPrompt.MessageType, DialogPrompt.OptionType) - Method in interface org.scijava.ui.UserInterface: Creates a dialog prompter.
DialogPrompt.MessageType - Enum in org.scijava.ui
DialogPrompt.OptionType - Enum in org.scijava.ui
DialogPrompt.Result - Enum in org.scijava.ui
digest(String, byte[]) - Static method in class org.scijava.util.DigestUtils: Gets the given byte array's hash value according to the specified algorithm.
DigestUtils - Class in org.scijava.util: Utility class for computing cryptographic hashes.
DIMGRAY - Static variable in class org.scijava.util.Colors
DIMGREY - Static variable in class org.scijava.util.Colors
DirectiveScriptProcessor - Class in org.scijava.script.process: Abstract base class for ScriptProcessor plugins that parse lines of the form #@directive(...) ....
DirectiveScriptProcessor(Predicate<String>) - Constructor for class org.scijava.script.process.DirectiveScriptProcessor
DIRECTORIES_ONLY - Static variable in interface org.scijava.widget.FileListWidget: Widget style to allow directory selection only
DIRECTORY_STYLE - Static variable in interface org.scijava.widget.FileWidget: Widget style for directory chooser dialogs.
DirectoryIndexer - Class in org.scijava.annotations: Indexes a directory of classes.
DirectoryIndexer() - Constructor for class org.scijava.annotations.DirectoryIndexer
discover() - Method in class org.scijava.plugin.PluginIndex: Adds all plugins discovered by the attached PluginFinder to this index, or does nothing if the attached PluginFinder is null.
discoverAnnotations(File, String, ClassLoader) - Method in class org.scijava.annotations.DirectoryIndexer
DiskLocationCache - Class in org.scijava.download: A file-based implementation of LocationCache.
DiskLocationCache() - Constructor for class org.scijava.download.DiskLocationCache
display() - Method in class org.scijava.AbstractGateway
display(Object) - Method in class org.scijava.display.AbstractDisplay
Display<T> - Interface in org.scijava.display: A display is a particular type of plugin intended to collect objects for visualization.
display(Object) - Method in interface org.scijava.display.Display: Displays the given object in this display.
display() - Method in interface org.scijava.Gateway: Gets this application context's DisplayService.
Displayable - Interface in org.scijava.display: An interface used by classes that can draw on demand.
DisplayActivatedEvent - Class in org.scijava.display.event: An event indicating a display has become the active one.
DisplayActivatedEvent(Display<?>) - Constructor for class org.scijava.display.event.DisplayActivatedEvent
DisplayCreatedEvent - Class in org.scijava.display.event: An event indicating a new display has been created.
DisplayCreatedEvent(Display<?>) - Constructor for class org.scijava.display.event.DisplayCreatedEvent
DisplayDeletedEvent - Class in org.scijava.display.event: An event indicating a display has been deleted.
DisplayDeletedEvent(Display<?>) - Constructor for class org.scijava.display.event.DisplayDeletedEvent
DisplayEvent - Class in org.scijava.display.event: An event indicating something has happened to a Display.
DisplayEvent(Display<?>) - Constructor for class org.scijava.display.event.DisplayEvent
DisplayPanel - Interface in org.scijava.ui.viewer: The panel housing a particular Display.
DisplayPostprocessor - Class in org.scijava.display: Displays outputs upon completion of a module execution.
DisplayPostprocessor() - Constructor for class org.scijava.display.DisplayPostprocessor
DisplayService - Interface in org.scijava.display: Interface for service that tracks available Displays.
DisplayUpdatedEvent - Class in org.scijava.display.event: An event indicating a display has updated; e.g., an object has been added or removed.
DisplayUpdatedEvent(Display<?>, DisplayUpdatedEvent.DisplayUpdateLevel) - Constructor for class org.scijava.display.event.DisplayUpdatedEvent
DisplayUpdatedEvent.DisplayUpdateLevel - Enum in org.scijava.display.event: The display update level gives a hint about how much work needs to be done during the update.
DisplayViewer<T> - Interface in org.scijava.ui.viewer: A display viewer is a UI widget that shows a display to a user.
displayWelcome() - Method in class org.scijava.welcome.DefaultWelcomeService
displayWelcome() - Method in interface org.scijava.welcome.WelcomeService: Displays the welcome greeting.
DisplayWindow - Interface in org.scijava.ui.viewer: A user interface window associated with a Display, containing a DisplayPanel.
Disposable - Interface in org.scijava: An object that knows how to clean up after itself.
dispose() - Method in class org.scijava.console.DefaultConsoleService
dispose() - Method in class org.scijava.Context
dispose() - Method in interface org.scijava.Disposable: Performs any needed cleanup of the object's services, in preparation for the object being retired (e.g., to make garbage collection possible).
dispose() - Method in class org.scijava.event.DefaultEventService
dispose() - Method in interface org.scijava.Gateway
dispose() - Method in class org.scijava.io.DefaultRecentFileService
dispose() - Method in class org.scijava.platform.DefaultPlatformService
dispose() - Method in class org.scijava.thread.DefaultThreadService
dispose() - Method in class org.scijava.ui.DefaultUIService
dispose() - Method in class org.scijava.ui.headless.HeadlessUI
dispose() - Method in interface org.scijava.ui.viewer.DisplayViewer
DODGERBLUE - Static variable in class org.scijava.util.Colors
done - Variable in class org.scijava.util.ReadInto
done() - Method in class org.scijava.util.ReadInto
doRefresh() - Method in class org.scijava.ui.AbstractUIInputWidget: Performs the intended AbstractUIInputWidget.refreshWidget() operation.
DoubleArray - Class in org.scijava.util: An extensible array of double elements.
DoubleArray() - Constructor for class org.scijava.util.DoubleArray: Constructs an extensible array of doubles, backed by a fixed-size array.
DoubleArray(int) - Constructor for class org.scijava.util.DoubleArray: Constructs an extensible array of doubles, backed by a fixed-size array.
DoubleArray(double[]) - Constructor for class org.scijava.util.DoubleArray: Constructs an extensible array of doubles, backed by the given fixed-size array.
DoubleArrayUnwrapper() - Constructor for class org.scijava.convert.ArrayConverters.DoubleArrayUnwrapper
DoubleArrayWrapper() - Constructor for class org.scijava.convert.ArrayConverters.DoubleArrayWrapper
DoubleToBigDecimalConverter() - Constructor for class org.scijava.convert.NumberConverters.DoubleToBigDecimalConverter
download(Location, Location) - Method in class org.scijava.download.DefaultDownloadService
download(Location, Location, LocationCache) - Method in class org.scijava.download.DefaultDownloadService
Download - Interface in org.scijava.download: Object representing an asynchronous download task.
download(Location, Location) - Method in interface org.scijava.download.DownloadService: Downloads data from the given source, storing it into the given destination.
download(Location, Location, LocationCache) - Method in interface org.scijava.download.DownloadService: Downloads data from the given source, storing it into the given destination.
DownloadService - Interface in org.scijava.download: Service for managing retrieval of remote resources.
downOctave() - Method in class org.scijava.util.TunePlayer
DragAndDropData - Interface in org.scijava.ui.dnd: Interface for drag-and-drop data.
DragAndDropEvent - Class in org.scijava.ui.dnd.event: An event indicating drag-and-drop activity in a display.
DragAndDropEvent(Display<?>) - Constructor for class org.scijava.ui.dnd.event.DragAndDropEvent
DragAndDropEvent(Display<?>, DragAndDropData) - Constructor for class org.scijava.ui.dnd.event.DragAndDropEvent
DragAndDropEvent(Display<?>, InputModifiers, int, int, DragAndDropData) - Constructor for class org.scijava.ui.dnd.event.DragAndDropEvent
DragAndDropHandler<D> - Interface in org.scijava.ui.dnd: Interface for drag-and-drop handlers.
DragAndDropService - Interface in org.scijava.ui.dnd: Interface for service that handles drag and drop events.
DragEnterEvent - Class in org.scijava.ui.dnd.event: An event indicating an object was dragged onto a display.
DragEnterEvent(Display<?>, InputModifiers, int, int, DragAndDropData) - Constructor for class org.scijava.ui.dnd.event.DragEnterEvent
DragExitEvent - Class in org.scijava.ui.dnd.event: An event indicating an object was dragged off of a display.
DragExitEvent(Display<?>) - Constructor for class org.scijava.ui.dnd.event.DragExitEvent
DragOverEvent - Class in org.scijava.ui.dnd.event: An event indicating an object was dragged within a display.
DragOverEvent(Display<?>, InputModifiers, int, int, DragAndDropData) - Constructor for class org.scijava.ui.dnd.event.DragOverEvent
draw() - Method in interface org.scijava.display.Displayable: Render self when called.
drawIcon() - Method in interface org.scijava.tool.CustomDrawnTool
drop(D, Display<?>) - Method in interface org.scijava.ui.dnd.DragAndDropHandler: Performs a drop operation with the given data object in the specified Display.
drop(DragAndDropData, Display<?>) - Method in interface org.scijava.ui.dnd.DragAndDropService: Performs a drag-and-drop operation in the given display with the specified DragAndDropData, using the first available compatible handler.
drop(Object, Display<?>) - Method in interface org.scijava.ui.dnd.DragAndDropService: Performs a drag-and-drop operation in the given display with the specified data object, using the first available compatible handler.
drop(File, Display<?>) - Method in class org.scijava.ui.dnd.FileDragAndDropHandler
drop(List<?>, Display<?>) - Method in class org.scijava.ui.dnd.ListDragAndDropHandler
drop(File, Display<?>) - Method in class org.scijava.ui.dnd.ScriptFileDragAndDropHandler
dropData(DragAndDropData, Display<?>) - Method in class org.scijava.ui.dnd.AbstractDragAndDropHandler
dropData(DragAndDropData, Display<?>) - Method in interface org.scijava.ui.dnd.DragAndDropHandler: Performs a drop operation with the given data in the specified Display.
DropEvent - Class in org.scijava.ui.dnd.event: An event indicating an object was dropped onto a display.
DropEvent(Display<?>, InputModifiers, int, int, DragAndDropData) - Constructor for class org.scijava.ui.dnd.event.DropEvent
dropObject(Object, Display<?>) - Method in class org.scijava.ui.dnd.AbstractDragAndDropHandler
dropObject(Object, Display<?>) - Method in interface org.scijava.ui.dnd.DragAndDropHandler: Performs a drop operation with the given data in the specified Display.
DummyHandle - Class in org.scijava.io.handle: A DataHandle which reads all zeroes, and writes no actual data.
DummyHandle() - Constructor for class org.scijava.io.handle.DummyHandle
DummyHandle(DummyLocation) - Constructor for class org.scijava.io.handle.DummyHandle
DummyLocation - Class in org.scijava.io.location: Location backed by nothing whatsoever.
DummyLocation() - Constructor for class org.scijava.io.location.DummyLocation
DummyTool - Class in org.scijava.tool: A tool that does nothing.
DummyTool() - Constructor for class org.scijava.tool.DummyTool
dumpStack() - Method in class org.scijava.event.SciJavaEvent: Gets a stack trace for the calling thread when the event was published.
DynamicCommand - Class in org.scijava.command: A command with a variable number of inputs and outputs.
DynamicCommand() - Constructor for class org.scijava.command.DynamicCommand
DynamicCommandInfo - Class in org.scijava.command: Helper class for maintaining a DynamicCommand's associated ModuleInfo.
DynamicCommandInfo(CommandInfo, Class<? extends DynamicCommand>) - Constructor for class org.scijava.command.DynamicCommandInfo

E

EclipseHelper - Class in org.scijava.annotations: Helps Eclipse's lack of support for annotation processing in incremental build mode.
EclipseHelper() - Constructor for class org.scijava.annotations.EclipseHelper
EDIT_LABEL - Static variable in class org.scijava.menu.MenuConstants
EDIT_MNEMONIC - Static variable in class org.scijava.menu.MenuConstants
EDIT_WEIGHT - Static variable in class org.scijava.menu.MenuConstants
elements(String) - Method in class org.scijava.util.XML: Obtains the elements identified by the given XPath expression.
elements(NodeList) - Static method in class org.scijava.util.XML: Gets the element nodes from the given node list.
elements(Element, String) - Static method in class org.scijava.util.XML: Gets the given element's specified child elements.
end() - Method in class org.scijava.script.process.ParameterScriptProcessor
end() - Method in interface org.scijava.script.process.ScriptProcessor
engineScopeBindings - Variable in class org.scijava.script.AbstractScriptEngine
ensure(int) - Method in class org.scijava.util.LineOutputStream: Increases the size of the line buffer if necessary.
ensureCapacity(int) - Method in class org.scijava.util.AbstractPrimitiveArray
ensureCapacity(int) - Method in interface org.scijava.util.PrimitiveArray: Makes sure the backing array at least a specified capacity.
ensureCapacity(int) - Method in class org.scijava.util.SizableArrayList
ensureOpen() - Method in class org.scijava.io.handle.AbstractHigherOrderHandle
ensureOpen() - Method in class org.scijava.io.handle.WriteBufferDataHandle
ensureReadable(long) - Method in interface org.scijava.io.handle.DataHandle: Ensures that the handle has sufficient bytes available to read.
ensureReadable(long) - Method in interface org.scijava.io.handle.StreamHandle
ensureWritable(long) - Method in interface org.scijava.io.handle.DataHandle: Ensures that the handle has the correct length to be written to, and extends it as required.
ensureWritable(long) - Method in interface org.scijava.io.handle.StreamHandle
enumFromLabel(String, Class<T>) - Static method in class org.scijava.util.Types: Converts the given string label to an enumeration constant of the specified type.
enumFromString(String, Class<T>) - Static method in class org.scijava.util.Types: Converts the given string value or label to an enumeration constant of the specified type.
enumValue(String, Class<T>) - Static method in class org.scijava.util.Types: Converts the given string value to an enumeration constant of the specified type.
equal(Object, Object) - Static method in class org.scijava.util.MiscUtils: Deprecated.
Use Objects.equals(Object, Object) instead.
equals(Object) - Method in class org.scijava.event.bushe.AbstractProxySubscriber
equals(Object) - Method in class org.scijava.input.Accelerator
equals(Object) - Method in class org.scijava.input.InputModifiers
equals(Object) - Method in class org.scijava.io.location.AbstractLocation
equals(Object) - Method in class org.scijava.io.location.BytesLocation
equals(Object) - Method in class org.scijava.ui.dnd.MIMEType
equals(Object) - Method in class org.scijava.util.ColorRGB
equals(Object) - Method in class org.scijava.util.IntCoords
equals(Object) - Method in class org.scijava.util.IntRect
equals(Object) - Method in class org.scijava.util.RealCoords
equals(Object) - Method in class org.scijava.util.RealRect
error(Object) - Method in interface org.scijava.log.Logger
error(Throwable) - Method in interface org.scijava.log.Logger
error(Object, Throwable) - Method in interface org.scijava.log.Logger
ERROR - Static variable in class org.scijava.log.LogLevel
ERROR - Static variable in interface org.scijava.log.LogService: Deprecated.
Use LogLevel.ERROR.
errorWriter - Variable in class org.scijava.script.AbstractScriptContext
eval(String) - Method in class org.scijava.script.AbstractScriptEngine
eval(Reader) - Method in class org.scijava.script.AbstractScriptEngine
eval(String, ScriptContext) - Method in class org.scijava.script.AbstractScriptEngine
eval(Reader, ScriptContext) - Method in class org.scijava.script.AbstractScriptEngine
eval(String, Bindings) - Method in class org.scijava.script.AbstractScriptEngine
eval(Reader, Bindings) - Method in class org.scijava.script.AbstractScriptEngine
eval(String, ScriptContext) - Method in class org.scijava.script.AdaptedScriptEngine
eval(Reader, ScriptContext) - Method in class org.scijava.script.AdaptedScriptEngine
eval(String) - Method in class org.scijava.script.AdaptedScriptEngine
eval(Reader) - Method in class org.scijava.script.AdaptedScriptEngine
eval(String, Bindings) - Method in class org.scijava.script.AdaptedScriptEngine
eval(Reader, Bindings) - Method in class org.scijava.script.AdaptedScriptEngine
eval(String) - Method in class org.scijava.script.DefaultScriptInterpreter
eval(String) - Method in interface org.scijava.script.ScriptInterpreter: Evaluates a command.
evaluate(String) - Method in class org.scijava.script.ScriptREPL: Evaluates the line, including handling of special colon-prefixed REPL commands.
event() - Method in class org.scijava.AbstractGateway
event() - Method in interface org.scijava.Gateway: Gets this application context's EventService.
EventDetails - Class in org.scijava.event: Caches details of a particular SciJavaEvent, without saving the event itself (since doing so could leave dangling references).
EventDetails(SciJavaEvent) - Constructor for class org.scijava.event.EventDetails
EventHandler - Annotation Type in org.scijava.event: Annotation identifying an event handler method.
eventHistory() - Method in class org.scijava.AbstractGateway
EventHistory - Interface in org.scijava.event: Interface for service that keeps a history of SciJava events.
eventHistory() - Method in interface org.scijava.Gateway: Gets this application context's EventHistory.
EventHistoryListener - Interface in org.scijava.event: Listener for event history changes.
eventOccurred(EventDetails) - Method in interface org.scijava.event.EventHistoryListener
eventService() - Method in interface org.scijava.command.CommandService
eventService() - Method in class org.scijava.command.DefaultCommandService
eventService() - Method in class org.scijava.display.DefaultDisplayService
eventService() - Method in interface org.scijava.display.DisplayService
EventService - Interface in org.scijava.event: Interface for the event handling service.
eventService() - Method in class org.scijava.input.DefaultInputService
eventService() - Method in interface org.scijava.input.InputService
eventService() - Method in class org.scijava.object.DefaultObjectService
eventService() - Method in interface org.scijava.object.ObjectService
eventService - Variable in class org.scijava.options.OptionsPlugin
eventService() - Method in class org.scijava.platform.DefaultPlatformService
eventService() - Method in interface org.scijava.platform.PlatformService
EventSubscriber<T> - Interface in org.scijava.event.bushe: Callback interface for class-based subscribers of an EventService.
EventSubscriber<E extends SciJavaEvent> - Interface in org.scijava.event: Interface for subscribers that wish to be notified of SciJava events.
exec() - Method in interface org.scijava.main.MainService.Main: Runs the main method with the associated arguments.
exec(String...) - Method in class org.scijava.platform.DefaultPlatformService
exec(String...) - Method in interface org.scijava.platform.PlatformService: Executes a native program and waits for it to return.
exec(File, PrintStream, PrintStream, String...) - Static method in class org.scijava.util.ProcessUtils: Executes a program.
exec(File, InputStream, PrintStream, PrintStream, String...) - Static method in class org.scijava.util.ProcessUtils: Executes a program.
exec(String) - Method in class org.scijava.util.ReflectedUniverse: Executes a command in the universe.
execMains() - Method in class org.scijava.main.DefaultMainService
execMains() - Method in interface org.scijava.main.MainService: Executes registered main classes, in the order they were registered.
execute(Object, Object...) - Method in class org.scijava.module.MethodRef
executeOperations() - Method in class org.scijava.startup.DefaultStartupService
executeOperations() - Method in interface org.scijava.startup.StartupService: Execute all registered startup operations, in the order they were registered, blocking until complete.
exists() - Method in class org.scijava.download.MultiWriteHandle
exists() - Method in class org.scijava.io.handle.AbstractHigherOrderHandle
exists() - Method in class org.scijava.io.handle.BytesHandle
exists() - Method in interface org.scijava.io.handle.DataHandle: Tests whether this handle's location actually exists at the source.
exists(Location) - Method in interface org.scijava.io.handle.DataHandleService: Convenience method to test whether it describes an existing file.
exists() - Method in class org.scijava.io.handle.DummyHandle
exists() - Method in class org.scijava.io.handle.FileHandle
EXTREMELY_HIGH - Static variable in class org.scijava.Priority: Priority for items that very strongly prefer to be sorted early.
EXTREMELY_LOW - Static variable in class org.scijava.Priority: Priority for items that very strongly prefer to be sorted late.

F

field(Class<?>, String) - Static method in class org.scijava.util.Types: Gets the field with the specified name, of the given class, or superclass thereof.
FIELD_STYLE - Static variable in interface org.scijava.widget.TextWidget: Widget style for text fields.
fieldType(Field, Class<?>) - Static method in class org.scijava.util.Types: Returns the "safe" generic type of the given field, as viewed from the given type.
FILE_AND_DIRECTORY_STYLE - Static variable in interface org.scijava.widget.FileWidget: Widget style for directory chooser dialogs.
FILE_LABEL - Static variable in class org.scijava.menu.MenuConstants
FILE_MNEMONIC - Static variable in class org.scijava.menu.MenuConstants
FILE_NAME - Static variable in class org.scijava.util.CheckSezpoz: Deprecated.
FILE_WEIGHT - Static variable in class org.scijava.menu.MenuConstants
FileArrayToStringConverter() - Constructor for class org.scijava.convert.FileListConverters.FileArrayToStringConverter
FileDragAndDropHandler - Class in org.scijava.ui.dnd: Drag-and-drop handler for files.
FileDragAndDropHandler() - Constructor for class org.scijava.ui.dnd.FileDragAndDropHandler
FileHandle - Class in org.scijava.io.handle: DataHandle for a FileLocation.
FileHandle() - Constructor for class org.scijava.io.handle.FileHandle
FileHandle(FileLocation) - Constructor for class org.scijava.io.handle.FileHandle
FileListConverters - Class in org.scijava.convert: A collection of Converter plugins for going between String, File and File[].
FileListConverters() - Constructor for class org.scijava.convert.FileListConverters
FileListConverters.FileArrayToStringConverter - Class in org.scijava.convert
FileListConverters.FileToStringConverter - Class in org.scijava.convert
FileListConverters.StringToFileArrayConverter - Class in org.scijava.convert
FileListConverters.StringToFileConverter - Class in org.scijava.convert
FileListPreprocessor - Class in org.scijava.ui
FileListPreprocessor() - Constructor for class org.scijava.ui.FileListPreprocessor
FileListWidget - Interface in org.scijava.widget
FileLocation - Class in org.scijava.io.location: Location backed by a File on disk.
FileLocation(File) - Constructor for class org.scijava.io.location.FileLocation
FileLocation(String) - Constructor for class org.scijava.io.location.FileLocation
FileLocation(URI) - Constructor for class org.scijava.io.location.FileLocation
FileLocationResolver - Class in org.scijava.io.location: Implementation of LocationResolver for FileLocation.
FileLocationResolver() - Constructor for class org.scijava.io.location.FileLocationResolver
FilePreprocessor - Class in org.scijava.ui: A preprocessor plugin that handles single unresolved parameters of type File using a UI prompt.
FilePreprocessor() - Constructor for class org.scijava.ui.FilePreprocessor
FILES_AND_DIRECTORIES - Static variable in interface org.scijava.widget.FileListWidget: Widget style to allow selection of both files and directories
FILES_ONLY - Static variable in interface org.scijava.widget.FileListWidget: Widget style to allow file selection only
FileToPathConverter - Class in org.scijava.convert: A Converter used to convert Files into Paths.
FileToPathConverter() - Constructor for class org.scijava.convert.FileToPathConverter
FileToStringConverter() - Constructor for class org.scijava.convert.FileListConverters.FileToStringConverter
FileUtils - Class in org.scijava.util: Useful methods for working with file paths.
FileWidget - Interface in org.scijava.widget: Widget interface for file selectors.
filterInstances(List<Platform>) - Method in class org.scijava.platform.DefaultPlatformService
filterInstances(List<PT>) - Method in interface org.scijava.plugin.SingletonService: Filters the given list of instances by this service's inclusion criteria.
find(DT) - Method in interface org.scijava.plugin.TypedService: Gets a new instance of the highest priority plugin managed by this service which supports the given data object according to the Typed interface.
findDisplayContentScreenX() - Method in interface org.scijava.ui.viewer.DisplayWindow: Finds the x coordinate on the screen of the origin of the display window's content.
findDisplayContentScreenY() - Method in interface org.scijava.ui.viewer.DisplayWindow: Finds the y coordinate on the screen of the origin of the display window's content.
findPlugins(List<PluginInfo<?>>) - Method in class org.scijava.plugin.DefaultPluginFinder
findPlugins(List<PluginInfo<?>>) - Method in interface org.scijava.plugin.PluginFinder: Populates the given list with all available SciJava plugins.
findPluginsOfClass(String, List<? extends PluginInfo<?>>, List<T>) - Static method in class org.scijava.plugin.DefaultPluginService: Transfers plugins of the given class from the source list to the destination list.
findResources(String, String, File) - Static method in class org.scijava.util.FileUtils: Finds URLs of available resources.
findResources(String, Iterable<URL>) - Static method in class org.scijava.util.FileUtils: Finds URLs of resources known to the system.
findScripts(List<ScriptInfo>) - Method in class org.scijava.script.ScriptFinder: Discovers the scripts.
findString(String...) - Method in interface org.scijava.io.handle.DataHandle: Reads a string ending with one of the given terminating substrings.
findString(boolean, String...) - Method in interface org.scijava.io.handle.DataHandle: Reads or skips a string ending with one of the given terminating substrings.
findString(int, String...) - Method in interface org.scijava.io.handle.DataHandle: Reads a string ending with one of the given terminating substrings, using the specified block size for buffering.
findString(boolean, int, String...) - Method in interface org.scijava.io.handle.DataHandle: Reads or skips a string ending with one of the given terminating substrings, using the specified block size for buffering.
finish() - Method in class org.scijava.task.DefaultTask
finish() - Method in interface org.scijava.task.Task: reports that the task is finished - synchronous job
FIREBRICK - Static variable in class org.scijava.util.Colors
FIRST - Static variable in class org.scijava.Priority: Priority for items that must be sorted first.
first(List<T>) - Static method in class org.scijava.util.ListUtils: Gets the first element of the given list, or null if none.
FIRST_PRIORITY - Static variable in class org.scijava.Priority: Deprecated.
Use Priority.FIRST instead.
fix(File, File) - Static method in class org.scijava.util.CheckSezpoz: Deprecated.
FloatArray - Class in org.scijava.util: An extensible array of float elements.
FloatArray() - Constructor for class org.scijava.util.FloatArray: Constructs an extensible array of floats, backed by a fixed-size array.
FloatArray(int) - Constructor for class org.scijava.util.FloatArray: Constructs an extensible array of floats, backed by a fixed-size array.
FloatArray(float[]) - Constructor for class org.scijava.util.FloatArray: Constructs an extensible array of floats, backed by the given fixed-size array.
FloatArrayUnwrapper() - Constructor for class org.scijava.convert.ArrayConverters.FloatArrayUnwrapper
FloatArrayWrapper() - Constructor for class org.scijava.convert.ArrayConverters.FloatArrayWrapper
FloatToBigDecimalConverter() - Constructor for class org.scijava.convert.NumberConverters.FloatToBigDecimalConverter
FloatToDoubleConverter() - Constructor for class org.scijava.convert.NumberConverters.FloatToDoubleConverter
FLORALWHITE - Static variable in class org.scijava.util.Colors
flush() - Method in class org.scijava.console.MultiOutputStream
flush() - Method in class org.scijava.io.handle.DataHandleOutputStream
flush() - Method in class org.scijava.util.LineOutputStream: If any bytes are in the current line buffer, output the line via LineOutputStream.println(String), stripping any trailing new-line characters.
FORESTGREEN - Static variable in class org.scijava.util.Colors
format(double) - Static method in class org.scijava.util.UnitUtils
foundAnnotations() - Method in class org.scijava.annotations.AbstractIndexWriter
fromDouble(double, boolean) - Static method in class org.scijava.util.Bytes: Translates the double value into an array of eight bytes.
fromDoubles(double[], boolean) - Static method in class org.scijava.util.Bytes: Translates an array of double values into an array of byte values.
fromFloat(float, boolean) - Static method in class org.scijava.util.Bytes: Translates the float value into an array of four bytes.
fromFloats(float[], boolean) - Static method in class org.scijava.util.Bytes: Translates an array of float values into an array of byte values.
fromHSVColor(double, double, double) - Static method in class org.scijava.util.ColorRGB
fromHTMLColor(String) - Static method in class org.scijava.util.ColorRGB: Convert a string in the format specified by CSS Color Module Level 3 - W3C Recommendation 07 June 2011 to a ColorRGB object.
fromInt(int, boolean) - Static method in class org.scijava.util.Bytes: Translates the int value into an array of four bytes.
fromInts(int[], boolean) - Static method in class org.scijava.util.Bytes: Translates an array of int values into an array of byte values.
fromLong(long, boolean) - Static method in class org.scijava.util.Bytes: Translates the long value into an array of eight bytes.
fromLongs(long[], boolean) - Static method in class org.scijava.util.Bytes: Translates an array of long values into an array of byte values.
fromShort(short, boolean) - Static method in class org.scijava.util.Bytes: Translates the short value into an array of two bytes.
fromShorts(short[], boolean) - Static method in class org.scijava.util.Bytes: Translates an array of short values into an array of byte values.
FUCHSIA - Static variable in class org.scijava.util.Colors

G

GAINSBORO - Static variable in class org.scijava.util.Colors
Gateway - Interface in org.scijava: Interface for convenience classes that wrap a Context to provide one-line access to a suite of Services.
GatewayPreprocessor - Class in org.scijava.module.process: The gateway preprocessor automatically populates module inputs that implement Gateway.
GatewayPreprocessor() - Constructor for class org.scijava.module.process.GatewayPreprocessor
GenericUtils - Class in org.scijava.util: Deprecated.
Use Types instead.
get(String) - Method in class org.scijava.AbstractBasicDetails
get(Class<S>) - Method in class org.scijava.AbstractGateway
get(String) - Method in class org.scijava.AbstractGateway
get(String) - Method in interface org.scijava.BasicDetails: Gets the value of the given key, or null if undefined.
get(Object) - Method in interface org.scijava.cache.CacheService
get(Object, Callable<V>) - Method in interface org.scijava.cache.CacheService
get(Object) - Method in class org.scijava.cache.DefaultCacheService
get(String) - Method in class org.scijava.command.CommandModuleItem
get(int) - Method in class org.scijava.display.AbstractDisplay
get(Class<S>) - Method in interface org.scijava.Gateway: Returns an implementation of the requested Service, if it exists in the underlying Context.
get(String) - Method in interface org.scijava.Gateway: Returns an implementation of the Service with the given class name, if it exists in the underlying Context.
get(int) - Static method in enum org.scijava.input.KeyCode: Gets the KeyCode corresponding to the given numeric code, or KeyCode.UNDEFINED if no such code.
get(String) - Static method in enum org.scijava.input.KeyCode: Gets the KeyCode with the given name, or KeyCode.UNDEFINED if no such code.
get() - Method in interface org.scijava.object.LazyObjects: Gets the collection of objects.
get(Class<?>) - Method in class org.scijava.object.ObjectIndex: Gets a list of registered objects compatible with the given type.
get() - Method in class org.scijava.plugin.AbstractWrapperPlugin
get(Class, PluginIndex) - Static method in class org.scijava.plugin.PluginInfo: Finds a PluginInfo of the given plugin class in the specified PluginIndex.
get(Class, Class<PT>, PluginIndex) - Static method in class org.scijava.plugin.PluginInfo: Finds a PluginInfo of the given plugin class and plugin type in the specified PluginIndex.
get(Class, Collection<? extends PluginInfo<PT>>) - Static method in class org.scijava.plugin.PluginInfo: Finds a PluginInfo of the given plugin class in the specified list of plugins.
get() - Method in interface org.scijava.plugin.WrapperPlugin: Gets the data object currently associated with this plugin.
get(Class<?>, String, String) - Method in class org.scijava.prefs.DefaultPrefService
get(Class<?>, String) - Method in interface org.scijava.prefs.PrefService: Gets a persisted key as a String.
get(Class<?>, String, String) - Method in interface org.scijava.prefs.PrefService: Gets a persisted key as a String.
get(String) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.get(Class, String).
get(String, String) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.get(Class, String, String).
get(String) - Method in class org.scijava.script.AbstractScriptEngine
get(String) - Method in class org.scijava.script.AdaptedScriptEngine
get(int) - Method in class org.scijava.util.BoolArray
get(int) - Method in class org.scijava.util.ByteArray
get(int) - Method in class org.scijava.util.CharArray
get(int) - Method in class org.scijava.util.DoubleArray
get(int) - Method in class org.scijava.util.FloatArray
get(int) - Method in class org.scijava.util.IntArray
get(int) - Method in class org.scijava.util.LastRecentlyUsed: Returns the entry for the given index.
get(int) - Method in class org.scijava.util.LongArray
get(String) - Method in class org.scijava.util.Manifest
get(int) - Method in class org.scijava.util.ObjectArray
get(String) - Static method in class org.scijava.util.Prefs: Deprecated.
get(String, String) - Static method in class org.scijava.util.Prefs: Deprecated.
get(Class<?>, String) - Static method in class org.scijava.util.Prefs: Deprecated.
get(Class<?>, String, String) - Static method in class org.scijava.util.Prefs: Deprecated.
get(File) - Static method in class org.scijava.util.PropertiesHelper
get(int) - Method in class org.scijava.util.ShortArray
get() - Method in class org.scijava.widget.AbstractInputWidget
get() - Method in interface org.scijava.widget.InputWidget: Gets the model object backing this widget.
getAbbreviatedByteLabel(double) - Static method in class org.scijava.util.UnitUtils
getAccelerator() - Method in class org.scijava.display.event.input.KyEvent: Converts the key event into a corresponding accelerator.
getAccelerator() - Method in class org.scijava.MenuEntry
getActiveDisplay() - Method in class org.scijava.display.DefaultDisplayService
getActiveDisplay(Class<D>) - Method in class org.scijava.display.DefaultDisplayService
getActiveDisplay() - Method in interface org.scijava.display.DisplayService: Gets the currently active display (of any Display type).
getActiveDisplay(Class<D>) - Method in interface org.scijava.display.DisplayService: Gets the most recently active display (of the specified Display type).
getActiveTool() - Method in class org.scijava.tool.DefaultToolService
getActiveTool() - Method in interface org.scijava.tool.ToolService
getAliases() - Method in class org.scijava.script.DefaultScriptService
getAliases() - Method in interface org.scijava.script.ScriptService: TODO
getAll() - Method in class org.scijava.object.ObjectIndex: Gets a list of all registered objects.
getAll() - Method in class org.scijava.util.Manifest
getAllPOMs() - Static method in class org.scijava.util.POM: Gets all available Maven POMs on the class path.
getAllVersions(File, String) - Static method in class org.scijava.util.FileUtils: Lists all versions of a given (possibly versioned) file name.
getAlpha(int, int) - Method in class org.scijava.ui.ARGBPlane
getAlpha() - Method in class org.scijava.util.ColorRGB
getAlpha() - Method in class org.scijava.util.ColorRGBA
getAlwaysActiveTools() - Method in class org.scijava.tool.DefaultToolService
getAlwaysActiveTools() - Method in interface org.scijava.tool.ToolService
getAnnotatedFields(Class<?>, Class<A>) - Static method in class org.scijava.util.ClassUtils: Gets the given class's Fields marked with the annotation of the specified class.
getAnnotatedFields(Class<?>, Class<A>, List<Field>) - Static method in class org.scijava.util.ClassUtils: Gets the given class's Fields marked with the annotation of the specified class.
getAnnotatedMethods(Class<?>, Class<A>) - Static method in class org.scijava.util.ClassUtils: Gets the given class's Methods marked with the annotation of the specified class.
getAnnotatedMethods(Class<?>, Class<A>, List<Method>) - Static method in class org.scijava.util.ClassUtils: Gets the given class's Methods marked with the annotation of the specified class.
getAnnotation() - Method in class org.scijava.plugin.PluginInfo: Gets the associated @Plugin annotation.
getAnnotationFiles() - Method in class org.scijava.annotations.AnnotationCombiner: Scans for annotations files in every resource on the classpath.
getAnnotationFiles() - Method in class org.scijava.util.CombineAnnotations: Deprecated.
Use AnnotationCombiner.getAnnotationFiles() instead.
getApp() - Method in class org.scijava.AbstractGateway
getApp() - Method in interface org.scijava.app.AppService: Gets the foremost application (the one with the highest priority).
getApp(String) - Method in interface org.scijava.app.AppService: Gets an application by name.
getApp(String) - Method in class org.scijava.app.DefaultAppService
getApp() - Method in interface org.scijava.Gateway
getAppEventService() - Method in class org.scijava.platform.DefaultPlatformService
getAppEventService() - Method in interface org.scijava.platform.PlatformService: Deprecated.
Use AppService and App instead.
getApplicationFrame() - Method in interface org.scijava.ui.UserInterface: Gets the main SciJava application frame, or null if not applicable.
getApps() - Method in interface org.scijava.app.AppService: Gets the table of associated applications, keyed by name.
getApps() - Method in class org.scijava.app.DefaultAppService
getArchiverVersion() - Method in class org.scijava.util.Manifest
getARGB(int, int) - Method in class org.scijava.ui.ARGBPlane
getARGB() - Method in class org.scijava.util.ColorRGB: Gets the color as a packed integer, 8 bits per color component.
getArrangement() - Method in interface org.scijava.ui.Arrangeable
getArray() - Method in class org.scijava.util.BoolArray
getArray() - Method in class org.scijava.util.ByteArray
getArray() - Method in class org.scijava.util.CharArray
getArray() - Method in class org.scijava.util.DoubleArray
getArray() - Method in class org.scijava.util.FloatArray
getArray() - Method in class org.scijava.util.IntArray
getArray() - Method in class org.scijava.util.LongArray
getArray() - Method in class org.scijava.util.ObjectArray
getArray() - Method in interface org.scijava.util.PrimitiveArray: Gets the fixed-size array backing this instance.
getArray() - Method in class org.scijava.util.ShortArray
getArrayClass(Class<?>) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.array(Class) instead.
getArtifactId() - Method in interface org.scijava.app.App: The Maven artifactId of the application.
getArtifactId() - Method in class org.scijava.app.SciJavaApp
getArtifactId() - Method in class org.scijava.util.POM: Gets the POM's artifactId.
getAttribute(String) - Method in class org.scijava.script.AbstractScriptContext
getAttribute(String, int) - Method in class org.scijava.script.AbstractScriptContext
getAttributesScope(String) - Method in class org.scijava.script.AbstractScriptContext
getAutoCompleter() - Method in interface org.scijava.script.ScriptLanguage: Gets a helper object capable of generating autocomplete suggestions for a code fragment.
getAvailableUIs() - Method in class org.scijava.ui.DefaultUIService
getAvailableUIs() - Method in interface org.scijava.ui.UIService: Gets the user interfaces available to the service.
getBase() - Method in class org.scijava.ui.dnd.MIMEType: Gets the MIME type with no parameter list.
getBaseClass() - Method in class org.scijava.object.ObjectIndex: Gets the base class of the items being managed.
getBaseDirectory() - Method in interface org.scijava.app.App: Gets the application's root directory.
getBaseDirectory() - Method in class org.scijava.download.DiskLocationCache
getBaseDirectory(String, Class<?>, String) - Static method in class org.scijava.util.AppUtils: Gets the application root directory.
getBaseDirectory(Class<?>) - Static method in class org.scijava.util.AppUtils: Gets the base file system directory containing the given class file.
getBaseDirectory(Class<?>, String) - Static method in class org.scijava.util.AppUtils: Gets the base file system directory containing the given class file.
getBaseDirectory(File, String) - Static method in class org.scijava.util.AppUtils: Gets the base file system directory from the given known class location.
getBindings(int) - Method in class org.scijava.script.AbstractScriptContext
getBindings(int) - Method in class org.scijava.script.AbstractScriptEngine
getBindings(int) - Method in class org.scijava.script.AdaptedScriptEngine
getBindings() - Method in class org.scijava.script.DefaultScriptInterpreter
getBindings() - Method in interface org.scijava.script.ScriptInterpreter: Returns the Bindings of the associated ScriptEngine at ScriptContext.ENGINE_SCOPE scope.
getBlue(int, int) - Method in class org.scijava.ui.ARGBPlane
getBlue() - Method in class org.scijava.util.ColorRGB
getBoolean(Class<?>, String, boolean) - Method in class org.scijava.prefs.DefaultPrefService
getBoolean(Class<?>, String, boolean) - Method in interface org.scijava.prefs.PrefService: Gets a persisted key as a boolean.
getBoolean(String, boolean) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.getBoolean(Class, String, boolean).
getBoolean(String, boolean) - Static method in class org.scijava.util.Prefs: Deprecated.
getBoolean(Class<?>, String, boolean) - Static method in class org.scijava.util.Prefs: Deprecated.
getBottomRight() - Method in class org.scijava.util.IntRect: Gets the bottom right coordinate of the rectangle.
getBottomRight() - Method in class org.scijava.util.RealRect: Gets the bottom right coordinate of the rectangle.
getBuildJdk() - Method in class org.scijava.util.Manifest
getBuildNumber(Class<?>) - Static method in class org.scijava.util.VersionUtils: Looks up the build number (typically an SCM revision) of the specified class.
getBuiltBy() - Method in class org.scijava.util.Manifest
getButton() - Method in class org.scijava.display.event.input.MsButtonEvent
getByExtension(String) - Method in class org.scijava.script.ScriptLanguageIndex
getByName(String) - Method in class org.scijava.script.ScriptLanguageIndex
getByte(long) - Method in class org.scijava.io.ByteArrayByteBank
getByte(long) - Method in interface org.scijava.io.ByteBank
getByte(long) - Method in class org.scijava.io.nio.ByteBufferByteBank
getByteBank() - Method in class org.scijava.io.location.BytesLocation: Gets the backing ByteBank.
getBytes(long, byte[], int, int) - Method in class org.scijava.io.ByteArrayByteBank
getBytes(long, byte[]) - Method in interface org.scijava.io.ByteBank
getBytes(long, byte[], int, int) - Method in interface org.scijava.io.ByteBank
getBytes(long, byte[], int, int) - Method in class org.scijava.io.nio.ByteBufferByteBank
getCachedEvents(Class) - Method in class org.scijava.event.bushe.ThreadSafeEventService
getCachedTopicData(String) - Method in class org.scijava.event.bushe.ThreadSafeEventService
getCacheSizeForEventClass(Class) - Method in class org.scijava.event.bushe.ThreadSafeEventService: Returns the number of events cached for a particular class of event.
getCacheSizeForTopic(String) - Method in class org.scijava.event.bushe.ThreadSafeEventService: Returns the number of cached data objects published on a particular topic.
getCallback() - Method in class org.scijava.command.CommandModuleItem
getCallback() - Method in class org.scijava.module.AbstractModuleItem
getCallback() - Method in class org.scijava.module.DefaultMutableModuleItem
getCallback() - Method in interface org.scijava.module.ModuleItem: Gets the function that is called whenever this item changes.
getCallingClass() - Static method in class org.scijava.log.CallingClassUtils: Deprecated.
Use CallingClassUtils.getCallingClassName() instead. Warning: This method throws a IllegalStateException as soon as it comes across a class that can't be loaded with the default class loader. Inspects the stack trace to return the class that calls this method, but ignores every class annotated with @IgnoreAsCallingClass.
getCallingClass(Class<?>) - Static method in class org.scijava.test.TestUtils: Returns the class of the caller (excluding the specified class).
getCallingClassName() - Static method in class org.scijava.log.CallingClassUtils: Inspects the stack trace to return the name of the class that calls this method, but ignores every class annotated with @IgnoreAsCallingClass.
getCallingCodeLocation(Class<?>) - Static method in class org.scijava.test.TestUtils: Returns the class and the method/line number of the caller (excluding the specified class).
getCallingThread() - Method in class org.scijava.event.SciJavaEvent: Gets the thread that published the event.
getCancelCallBack() - Method in class org.scijava.task.DefaultTask
getCancelCallBack() - Method in interface org.scijava.task.Task: Returns the current cancel callback runnable, This can be used to concatenate callbacks in order, for instance, to ask for a user confirmation before cancelling the task
getCancelReason() - Method in interface org.scijava.Cancelable: Gets a message describing why the operation was canceled.
getCancelReason() - Method in class org.scijava.command.CommandModule
getCancelReason() - Method in class org.scijava.command.ContextCommand
getCancelReason() - Method in class org.scijava.command.DynamicCommand
getCancelReason() - Method in class org.scijava.command.ModuleCommand
getCancelReason() - Method in class org.scijava.module.process.AbstractPreprocessorPlugin
getCancelReason() - Method in class org.scijava.task.DefaultTask
getCancelReason() - Method in class org.scijava.ui.AbstractInputHarvesterPlugin
getCharacter() - Method in class org.scijava.display.event.input.KyEvent
getChildren() - Method in class org.scijava.menu.ShadowMenu: Gets this node's children, sorted by weight.
getChoices() - Method in class org.scijava.command.CommandModuleItem
getChoices() - Method in class org.scijava.module.AbstractModuleItem
getChoices() - Method in class org.scijava.module.DefaultMutableModuleItem
getChoices() - Method in interface org.scijava.module.ModuleItem: Gets the list of possible values.
getChoices() - Method in class org.scijava.widget.DefaultWidgetModel
getChoices() - Method in interface org.scijava.widget.WidgetModel: Gets the multiple choice list for the module input.
getCIManagementSystem() - Method in class org.scijava.util.POM: Gets the CI management system.
getCIManagementURL() - Method in class org.scijava.util.POM: Gets the CI management URL.
getClass(Type) - Static method in class org.scijava.util.ConversionUtils: Deprecated.
use Types.raw(java.lang.reflect.Type)
getClass(Type) - Static method in class org.scijava.util.GenericUtils: Deprecated.
Use Types.raw(java.lang.reflect.Type) instead.
getClasses(Type) - Static method in class org.scijava.util.GenericUtils: Deprecated.
Use Types.raws(java.lang.reflect.Type) instead.
getClassLoader() - Static method in class org.scijava.Context: Gets the class loader to use.
getClassName() - Method in class org.scijava.command.CommandInfo
getClassName() - Method in interface org.scijava.Instantiable: Gets the fully qualified name of the Class of the objects that can be created.
getClassName() - Method in class org.scijava.plugin.PluginInfo
getCleanupPeriodMS() - Method in class org.scijava.event.bushe.ThreadSafeEventService: Get the cleanup interval.
getCleanupStartThreshhold() - Method in class org.scijava.event.bushe.ThreadSafeEventService: Gets the threshold above which cleanup starts.
getCleanupStopThreshold() - Method in class org.scijava.event.bushe.ThreadSafeEventService: Gets the threshold below which cleanup stops.
getClosestPresetColor(ColorRGB) - Static method in class org.scijava.util.Colors: Returns the preset color closest to a given color.
getCode() - Method in class org.scijava.display.event.input.KyEvent
getCode() - Method in enum org.scijava.input.KeyCode: Gets the key's numeric code.
getColor(String) - Static method in class org.scijava.util.Colors: Gets the preset color with the given name.
getColumnCount() - Method in class org.scijava.command.CommandModuleItem
getColumnCount() - Method in class org.scijava.module.AbstractModuleItem
getColumnCount() - Method in class org.scijava.module.DefaultMutableModuleItem
getColumnCount() - Method in interface org.scijava.module.ModuleItem: Gets the preferred width of the input field in characters (if applicable).
getCommand() - Method in class org.scijava.command.CommandModule: Gets the command instance handled by this module.
getCommand(Class<C>) - Method in interface org.scijava.command.CommandService: Gets the first available command of the given class, or null if none.
getCommand(String) - Method in interface org.scijava.command.CommandService: Gets the first available command of the given class name, or null if none.
getCommand(Class<C>) - Method in class org.scijava.command.DefaultCommandService
getCommand(String) - Method in class org.scijava.command.DefaultCommandService
getCommands() - Method in interface org.scijava.command.CommandService: Gets the list of all available Commands).
getCommands(List<PluginInfo<CT>>) - Method in interface org.scijava.command.CommandService: Gets the list of Commands corresponding to the given plugins.
getCommands() - Method in class org.scijava.command.DefaultCommandService
getCommands(List<PluginInfo<CT>>) - Method in class org.scijava.command.DefaultCommandService
getCommands() - Method in interface org.scijava.platform.AppEventService: Deprecated.
Tag relevant commands instead: attrs = { @Attr(name = "app-command") }
getCommands() - Method in class org.scijava.platform.DefaultAppEventService: Deprecated.
getCommandService() - Method in interface org.scijava.platform.PlatformService: Deprecated.
Use PlatformService.commandService() instead.
getCommandsOfClass(Class<C>) - Method in interface org.scijava.command.CommandService: Gets the list of commands of the given class.
getCommandsOfClass(String) - Method in interface org.scijava.command.CommandService: Gets the list of commands with the given class name.
getCommandsOfClass(Class<C>) - Method in class org.scijava.command.DefaultCommandService
getCommandsOfClass(String) - Method in class org.scijava.command.DefaultCommandService
getCommandsOfType(Class<CT>) - Method in interface org.scijava.command.CommandService: Gets the list of Commands of the given type.
getCommandsOfType(Class<CT>) - Method in class org.scijava.command.DefaultCommandService
getCompatibleInputClasses(Class<?>) - Method in interface org.scijava.convert.ConvertService
getCompatibleInputs(Class<?>) - Method in interface org.scijava.convert.ConvertService
getCompatibleOutputClasses(Class<?>) - Method in interface org.scijava.convert.ConvertService
getComponent() - Method in interface org.scijava.widget.UIComponent: Gets the user interface component housing this object.
getComponentClass(Type) - Static method in class org.scijava.util.ConversionUtils: Deprecated.
use Types.raws(java.lang.reflect.Type) and Types.component(java.lang.reflect.Type)
getComponentClass(Type) - Static method in class org.scijava.util.GenericUtils: Deprecated.
Use Types.component(java.lang.reflect.Type) and Types.raw(java.lang.reflect.Type) instead.
getComponentType(Type) - Static method in class org.scijava.util.GenericUtils: Deprecated.
Use Types.component(java.lang.reflect.Type) instead.
getComponentType() - Method in interface org.scijava.widget.UIComponent: Gets the type of the UI component housing the object.
getConsolePane() - Method in interface org.scijava.ui.UserInterface: Gets the main SciJava console pane, or null if not applicable.
getContext() - Method in class org.scijava.AbstractContextual
getContext() - Method in class org.scijava.command.CommandModule
getContext() - Method in class org.scijava.command.DynamicCommand
getContext() - Method in class org.scijava.command.ModuleCommand
getContext() - Method in interface org.scijava.Contextual: Gets the application context to which the object belongs, or null if Contextual.setContext(Context) has not yet been called on this object.
getContext() - Method in class org.scijava.script.AbstractScriptEngine
getContext() - Method in class org.scijava.script.AdaptedScriptEngine
getContext() - Method in class org.scijava.script.ScriptInfo
getContext() - Method in class org.scijava.script.ScriptModule
getContext() - Method in class org.scijava.service.AbstractService
getCreatedBy() - Method in class org.scijava.util.Manifest
getCursor() - Method in interface org.scijava.tool.Tool: The tool's mouse pointer.
getData() - Method in class org.scijava.io.event.IOEvent: Gets the data for which I/O took place.
getData() - Method in class org.scijava.ui.ARGBPlane
getData(MIMEType) - Method in class org.scijava.ui.dnd.DefaultDragAndDropData
getData(MIMEType) - Method in interface org.scijava.ui.dnd.DragAndDropData: Gets the data with respect to the given MIME type.
getData(Class<T>) - Method in interface org.scijava.ui.dnd.DragAndDropData: Gets the data as an object of the given Java class.
getData() - Method in class org.scijava.ui.dnd.event.DragAndDropEvent: Gets the drag-and-drop data.
getDataHandle() - Method in class org.scijava.io.handle.DataHandleInputStream
getDataType() - Method in interface org.scijava.io.IOPlugin: The type of data opened and/or saved by the plugin.
getDataType() - Method in class org.scijava.script.io.ScriptIOPlugin
getDataType() - Method in class org.scijava.text.io.TextIOPlugin
getDefaultCacheSizePerClassOrTopic() - Method in class org.scijava.event.bushe.ThreadSafeEventService
getDefaultUI() - Method in class org.scijava.ui.DefaultUIService
getDefaultUI() - Method in interface org.scijava.ui.UIService: Gets the default user interface.
getDefaultValue() - Method in class org.scijava.command.CommandModuleItem
getDefaultValue() - Method in class org.scijava.module.AbstractModuleItem
getDefaultValue(ModuleItem<T>) - Method in class org.scijava.module.DefaultModuleService
getDefaultValue() - Method in class org.scijava.module.DefaultMutableModuleItem
getDefaultValue() - Method in interface org.scijava.module.ModuleItem: Gets the default value.
getDefaultValue(ModuleItem<T>) - Method in interface org.scijava.module.ModuleService: Gets the default value of the given ModuleItem.
getDefaultValue(Number, Number, Class<?>) - Static method in class org.scijava.util.NumberUtils
getDelegateClass() - Method in class org.scijava.module.AbstractModuleItem
getDelegateClassName() - Method in class org.scijava.command.CommandInfo
getDelegateClassName() - Method in interface org.scijava.module.ModuleInfo: Gets the fully qualified name of the class containing the module's actual implementation.
getDelegateClassName() - Method in interface org.scijava.module.MutableModuleInfo
getDelegateClassName() - Method in class org.scijava.script.ScriptInfo
getDelegateObject() - Method in class org.scijava.command.CommandModule
getDelegateObject() - Method in class org.scijava.module.AbstractModule
getDelegateObject() - Method in interface org.scijava.module.Module: Gets the object containing the module's actual implementation.
getDelegateType() - Method in class org.scijava.convert.AbstractDelegateConverter
getDescription() - Method in class org.scijava.AbstractBasicDetails
getDescription() - Method in interface org.scijava.BasicDetails: Gets a string describing the object.
getDescription() - Method in class org.scijava.command.CommandModuleItem
getDescription() - Method in class org.scijava.command.DynamicCommandInfo
getDescription() - Method in class org.scijava.module.DefaultMutableModuleItem
getDescription() - Method in interface org.scijava.tool.Tool: Returns the text the tool provides when mouse hovers over tool
getDescriptor() - Method in class org.scijava.io.event.IOEvent: Deprecated.
use IOEvent.getLocation() instead
getDesktop() - Method in interface org.scijava.ui.UserInterface: Gets the desktop, for use with multi-document interfaces (MDI), or null if not applicable.
getDestination() - Method in class org.scijava.io.event.DataSavedEvent: Deprecated.
use IOEvent.getLocation() instead
getDisplay(String) - Method in class org.scijava.display.DefaultDisplayService
getDisplay(String) - Method in interface org.scijava.display.DisplayService: Gets a display by its name.
getDisplay() - Method in class org.scijava.display.event.DisplayEvent
getDisplay() - Method in class org.scijava.input.DefaultInputService
getDisplay() - Method in interface org.scijava.input.InputService: Gets the display associated with the last observed mouse cursor.
getDisplay() - Method in class org.scijava.ui.viewer.AbstractDisplayViewer
getDisplay() - Method in interface org.scijava.ui.viewer.DisplayPanel: Gets the panel's associated display.
getDisplay() - Method in interface org.scijava.ui.viewer.DisplayViewer: Gets the display being viewed.
getDisplay() - Method in class org.scijava.ui.viewer.text.AbstractTextDisplayViewer
getDisplay() - Method in interface org.scijava.ui.viewer.text.TextDisplayPanel
getDisplay() - Method in interface org.scijava.ui.viewer.text.TextDisplayViewer
getDisplayPlugin(Class<D>) - Method in class org.scijava.display.DefaultDisplayService
getDisplayPlugin(String) - Method in class org.scijava.display.DefaultDisplayService
getDisplayPlugin(Class<D>) - Method in interface org.scijava.display.DisplayService: Gets the display plugin of the given class, or null if none.
getDisplayPlugin(String) - Method in interface org.scijava.display.DisplayService: Gets the display plugin of the given class name, or null if none.
getDisplayPlugins() - Method in class org.scijava.display.DefaultDisplayService
getDisplayPlugins() - Method in interface org.scijava.display.DisplayService: Gets the list of known display plugins.
getDisplayPluginsOfType(Class<D>) - Method in class org.scijava.display.DefaultDisplayService
getDisplayPluginsOfType(Class<DT>) - Method in interface org.scijava.display.DisplayService: Gets the list of display plugins of the given type (e.g., ImageDisplay.class).
getDisplays() - Method in class org.scijava.display.DefaultDisplayService
getDisplays(Object) - Method in class org.scijava.display.DefaultDisplayService
getDisplays() - Method in interface org.scijava.display.DisplayService: Gets a list of all available displays.
getDisplays(Object) - Method in interface org.scijava.display.DisplayService: Gets a list of displays currently visualizing the given object.
getDisplaysOfType(Class<D>) - Method in class org.scijava.display.DefaultDisplayService
getDisplaysOfType(Class<DT>) - Method in interface org.scijava.display.DisplayService: Gets a list of all available displays of the given type (e.g., ImageDisplay.class).
getDisplayViewer(Display<?>) - Method in class org.scijava.ui.DefaultUIService
getDisplayViewer(Display<?>) - Method in interface org.scijava.ui.UIService: Gets the UI widget being used to visualize the given Display.
getDocument() - Method in class org.scijava.util.XML: Gets the XML's DOM representation.
getDouble(Class<?>, String, double) - Method in class org.scijava.prefs.DefaultPrefService
getDouble(Class<?>, String, double) - Method in interface org.scijava.prefs.PrefService: Gets a persisted key as a double.
getDouble(String, double) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.getDouble(Class, String, double).
getDouble(String, double) - Static method in class org.scijava.util.Prefs: Deprecated.
getDouble(Class<?>, String, double) - Static method in class org.scijava.util.Prefs: Deprecated.
getEncoding() - Method in class org.scijava.io.handle.AbstractDataHandle
getEncoding() - Method in interface org.scijava.io.handle.DataHandle: Gets the native encoding of the stream.
getEngine() - Method in class org.scijava.script.DefaultScriptInterpreter
getEngine() - Method in interface org.scijava.script.ScriptInterpreter: Returns the associated ScriptEngine.
getEngine() - Method in class org.scijava.script.ScriptModule: Gets the script engine used to execute the script.
getEngineName() - Method in class org.scijava.script.AbstractScriptLanguage
getEngineName() - Method in class org.scijava.script.AdaptedScriptLanguage
getEngineVersion() - Method in class org.scijava.script.AdaptedScriptLanguage
getEngineVersion() - Method in interface org.scijava.script.ScriptLanguage
getErrorWriter() - Method in class org.scijava.script.AbstractScriptContext
getEventClass() - Method in interface org.scijava.event.EventSubscriber
getEventService() - Method in interface org.scijava.command.CommandService: Deprecated.
Use CommandService.eventService() instead.
getEventService() - Method in interface org.scijava.display.DisplayService: Deprecated.
Use DisplayService.eventService() instead.
getEventService() - Method in class org.scijava.event.bushe.AbstractProxySubscriber
getEventService() - Method in interface org.scijava.input.InputService: Deprecated.
Use InputService.eventService() instead.
getEventService() - Method in interface org.scijava.object.ObjectService: Deprecated.
Use ObjectService.eventService() instead.
getEventService() - Method in interface org.scijava.platform.PlatformService: Deprecated.
Use PlatformService.eventService() instead.
getEventString() - Method in class org.scijava.event.EventDetails
getEventType() - Method in class org.scijava.event.EventDetails
getException() - Method in class org.scijava.module.event.ModuleErroredEvent
getExceptions() - Method in class org.scijava.plugin.PluginIndex: Gets the exceptions which occurred during the last invocation of PluginIndex.discover().
getExecutorService() - Method in class org.scijava.thread.DefaultThreadService
getExecutorService() - Method in interface org.scijava.thread.ThreadService: Gets the ExecutorService object used when ThreadService.run(java.util.concurrent.Callable<V>) is called.
getExtension(File) - Static method in class org.scijava.util.FileUtils: Extracts the file extension from a file.
getExtension(String) - Static method in class org.scijava.util.FileUtils: Extracts the file extension from a file path.
getExtensions() - Method in class org.scijava.script.AdaptedScriptLanguage
getExtensions() - Method in interface org.scijava.script.ScriptLanguage
getExtensions() - Method in interface org.scijava.text.TextFormat: Gets the list of filename extensions for text in this format.
getFactory() - Method in class org.scijava.script.AbstractScriptEngine
getFactory() - Method in class org.scijava.script.AdaptedScriptEngine
getField() - Method in class org.scijava.command.CommandModuleItem
getField(String, String) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.field(java.lang.Class<?>, java.lang.String) instead.
getField(Class<?>, String) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.field(java.lang.Class<?>, java.lang.String) instead.
getFieldClasses(Field, Class<?>) - Static method in class org.scijava.util.GenericUtils: Deprecated.
Use Types.fieldType(Field, Class) and Types.raws(java.lang.reflect.Type) instead.
getFieldName(Class<?>, int) - Static method in class org.scijava.util.DebugUtils: This method uses reflection to scan the values of the given class's static fields, returning the first matching field's name.
getFieldType(Field, Class<?>) - Static method in class org.scijava.util.GenericUtils: Deprecated.
Use Types.fieldType(Field, Class) instead.
getFile() - Method in class org.scijava.io.location.FileLocation: Gets the associated File.
getFileExtensions(ScriptLanguage) - Method in class org.scijava.script.ScriptLanguageIndex
getFiles() - Method in class org.scijava.platform.event.AppOpenFilesEvent
getFloat(Class<?>, String, float) - Method in class org.scijava.prefs.DefaultPrefService
getFloat(Class<?>, String, float) - Method in interface org.scijava.prefs.PrefService: Gets a persisted key as a float.
getFloat(String, float) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.getFloat(Class, String, float).
getFloat(String, float) - Static method in class org.scijava.util.Prefs: Deprecated.
getFloat(Class<?>, String, float) - Static method in class org.scijava.util.Prefs: Deprecated.
getGenericType() - Method in class org.scijava.command.CommandModuleItem
getGenericType() - Method in class org.scijava.module.AbstractModuleItem
getGenericType() - Method in class org.scijava.module.DefaultMutableModuleItem
getGenericType() - Method in interface org.scijava.module.ModuleItem: Gets the type of the item, including Java generic parameters.
getGenericType(Field, Class<?>) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.fieldType(Field, Class) instead.
getGreen(int, int) - Method in class org.scijava.ui.ARGBPlane
getGreen() - Method in class org.scijava.util.ColorRGB
getGroupId() - Method in interface org.scijava.app.App: The Maven groupId of the application.
getGroupId() - Method in class org.scijava.app.SciJavaApp
getGroupId() - Method in class org.scijava.util.POM: Gets the POM's groupId.
getHandler(Object, Type) - Method in interface org.scijava.convert.ConvertService
getHandler(Object, Class<?>) - Method in interface org.scijava.convert.ConvertService
getHandler(Class<?>, Type) - Method in interface org.scijava.convert.ConvertService
getHandler(Class<?>, Class<?>) - Method in interface org.scijava.convert.ConvertService
getHandler(DT) - Method in interface org.scijava.plugin.HandlerService: Gets the most appropriate handler for the given data object, or null if no handler supports it.
getHandler(File) - Method in interface org.scijava.text.TextService: Gets the text format which best handles the given file.
getHandler(DragAndDropData, Display<?>) - Method in interface org.scijava.ui.dnd.DragAndDropService: Gets the drag-and-drop handler which will be used to handle the given DragAndDropData dragged onto the specified display.
getHandler(Object, Display<?>) - Method in interface org.scijava.ui.dnd.DragAndDropService: Gets the drag-and-drop handler which will be used to handle the given object dragged onto the specified display.
getHeader() - Method in interface org.scijava.script.ScriptHeader
getHeader(ScriptLanguage) - Method in interface org.scijava.script.ScriptHeaderService: Searches for all ScriptHeaders capable of handling the given ScriptLanguage and combines the result of their ScriptHeader.getHeader() output to a single string.
getHeight() - Method in class org.scijava.ui.ARGBPlane
getIconPath() - Method in class org.scijava.AbstractUIDetails
getIconPath() - Method in class org.scijava.command.DynamicCommandInfo
getIconPath() - Method in class org.scijava.MenuEntry
getIconPath() - Method in interface org.scijava.UIDetails: Gets the resource path to an icon representing the object.
getIconRectangleHeight() - Method in interface org.scijava.tool.IconDrawer
getIconRectangleWidth() - Method in interface org.scijava.tool.IconDrawer
getIconURL() - Method in class org.scijava.command.CommandInfo
getIconURL() - Method in class org.scijava.menu.ShadowMenu: Gets the URL of the icon associated with this node's MenuEntry.
getIconURL() - Method in class org.scijava.plugin.PluginInfo: Gets the URL corresponding to the icon resource path.
getIdentifier() - Method in class org.scijava.command.CommandInfo
getIdentifier() - Method in interface org.scijava.Identifiable: Gets a string intended to function as an identifier for the object.
getIdentifier() - Method in interface org.scijava.module.ModuleInfo
getIdentifier() - Method in class org.scijava.plugin.PluginInfo
getIdentifier() - Method in interface org.scijava.plugin.RichPlugin
getIdentifier() - Method in class org.scijava.script.ScriptInfo
getImplementationBuild() - Method in class org.scijava.util.Manifest
getImplementationDate() - Method in class org.scijava.util.Manifest
getImplementationTitle() - Method in class org.scijava.util.Manifest
getImplementationVendor() - Method in class org.scijava.util.Manifest
getImplementationVendorId() - Method in class org.scijava.util.Manifest
getImplementationVersion() - Method in class org.scijava.util.Manifest
getIndex() - Method in class org.scijava.module.DefaultModuleService
getIndex() - Method in interface org.scijava.module.ModuleService: Gets the index of available modules.
getIndex() - Method in class org.scijava.object.DefaultObjectService
getIndex() - Method in interface org.scijava.object.ObjectService: Gets the index of available objects.
getIndex() - Method in class org.scijava.plugin.DefaultPluginService
getIndex() - Method in interface org.scijava.plugin.PluginService: Gets the index of available plugins.
getIndex() - Method in class org.scijava.script.DefaultScriptService
getIndex() - Method in interface org.scijava.script.ScriptService: Gets the index of available scripting languages.
getInfo(boolean) - Method in class org.scijava.AbstractGateway
getInfo(boolean) - Method in interface org.scijava.app.App: Gets a string with information about the application.
getInfo() - Method in class org.scijava.command.CommandModule
getInfo() - Method in class org.scijava.command.DynamicCommand
getInfo() - Method in class org.scijava.command.ModuleCommand
getInfo(boolean) - Method in interface org.scijava.Gateway
getInfo() - Method in class org.scijava.module.AbstractModuleItem
getInfo() - Method in class org.scijava.module.DefaultMutableModule
getInfo() - Method in interface org.scijava.module.Module: Gets metadata about this module.
getInfo() - Method in interface org.scijava.module.ModuleItem: Gets the ModuleInfo to which this item belongs.
getInfo() - Method in interface org.scijava.module.MutableModule
getInfo() - Method in class org.scijava.plugin.AbstractRichPlugin
getInfo() - Method in interface org.scijava.plugin.HasPluginInfo: Gets the PluginInfo metadata associated with the object.
getInfo() - Method in class org.scijava.script.ScriptModule
getInitializer() - Method in class org.scijava.command.CommandInfo
getInitializer() - Method in class org.scijava.command.CommandModuleItem
getInitializer() - Method in class org.scijava.command.DynamicCommandInfo
getInitializer() - Method in class org.scijava.module.AbstractModuleItem
getInitializer() - Method in class org.scijava.module.DefaultMutableModuleItem
getInitializer() - Method in interface org.scijava.module.ModuleInfo: Gets the function that is called to initialize the module's values.
getInitializer() - Method in interface org.scijava.module.ModuleItem: Gets the function that is called to initialize the item's value.
getInput(String) - Method in class org.scijava.command.CommandInfo
getInput(String, Class<T>) - Method in class org.scijava.command.CommandInfo
getInput(String) - Method in class org.scijava.command.CommandModule
getInput(String) - Method in class org.scijava.command.DynamicCommand
getInput(String) - Method in class org.scijava.module.AbstractModule
getInput(String) - Method in class org.scijava.module.AbstractModuleInfo
getInput(String, Class<T>) - Method in class org.scijava.module.AbstractModuleInfo
getInput(String) - Method in interface org.scijava.module.Module: Gets the value of the input with the given name.
getInput(String) - Method in interface org.scijava.module.ModuleInfo: Gets the input item with the given name.
getInput(String, Class<T>) - Method in interface org.scijava.module.ModuleInfo: Gets the input item with the given name and type.
getInputField(String) - Method in class org.scijava.command.DynamicCommandInfo: Gets the Field corresponding to the given @Parameter annotated module input, or null if the input does not exist or was not declared using the @Parameter mechanism.
getInputs() - Method in class org.scijava.module.AbstractModule
getInputs() - Method in interface org.scijava.module.Module: Gets a table of input values.
getInputType() - Method in class org.scijava.convert.ArrayConverters.BoolArrayUnwrapper
getInputType() - Method in class org.scijava.convert.ArrayConverters.BoolArrayWrapper
getInputType() - Method in class org.scijava.convert.ArrayConverters.ByteArrayUnwrapper
getInputType() - Method in class org.scijava.convert.ArrayConverters.ByteArrayWrapper
getInputType() - Method in class org.scijava.convert.ArrayConverters.CharArrayUnwrapper
getInputType() - Method in class org.scijava.convert.ArrayConverters.CharArrayWrapper
getInputType() - Method in class org.scijava.convert.ArrayConverters.DoubleArrayUnwrapper
getInputType() - Method in class org.scijava.convert.ArrayConverters.DoubleArrayWrapper
getInputType() - Method in class org.scijava.convert.ArrayConverters.FloatArrayUnwrapper
getInputType() - Method in class org.scijava.convert.ArrayConverters.FloatArrayWrapper
getInputType() - Method in class org.scijava.convert.ArrayConverters.IntArrayUnwrapper
getInputType() - Method in class org.scijava.convert.ArrayConverters.IntArrayWrapper
getInputType() - Method in class org.scijava.convert.ArrayConverters.LongArrayUnwrapper
getInputType() - Method in class org.scijava.convert.ArrayConverters.LongArrayWrapper
getInputType() - Method in class org.scijava.convert.ArrayConverters.ShortArrayUnwrapper
getInputType() - Method in class org.scijava.convert.ArrayConverters.ShortArrayWrapper
getInputType() - Method in class org.scijava.convert.ArrayToStringConverter
getInputType() - Method in class org.scijava.convert.CastingConverter
getInputType() - Method in interface org.scijava.convert.Converter
getInputType() - Method in class org.scijava.convert.DefaultConverter
getInputType() - Method in class org.scijava.convert.FileListConverters.FileArrayToStringConverter
getInputType() - Method in class org.scijava.convert.FileListConverters.FileToStringConverter
getInputType() - Method in class org.scijava.convert.FileListConverters.StringToFileArrayConverter
getInputType() - Method in class org.scijava.convert.FileListConverters.StringToFileConverter
getInputType() - Method in class org.scijava.convert.FileToPathConverter
getInputType() - Method in class org.scijava.convert.NullConverter
getInputType() - Method in class org.scijava.convert.NumberConverters.BigIntegerToBigDecimalConverter
getInputType() - Method in class org.scijava.convert.NumberConverters.ByteToBigDecimalConverter
getInputType() - Method in class org.scijava.convert.NumberConverters.ByteToBigIntegerConverter
getInputType() - Method in class org.scijava.convert.NumberConverters.ByteToDoubleConverter
getInputType() - Method in class org.scijava.convert.NumberConverters.ByteToFloatConverter
getInputType() - Method in class org.scijava.convert.NumberConverters.ByteToIntegerConverter
getInputType() - Method in class org.scijava.convert.NumberConverters.ByteToLongConverter
getInputType() - Method in class org.scijava.convert.NumberConverters.ByteToShortConverter
getInputType() - Method in class org.scijava.convert.NumberConverters.DoubleToBigDecimalConverter
getInputType() - Method in class org.scijava.convert.NumberConverters.FloatToBigDecimalConverter
getInputType() - Method in class org.scijava.convert.NumberConverters.FloatToDoubleConverter
getInputType() - Method in class org.scijava.convert.NumberConverters.IntegerToBigDecimalConverter
getInputType() - Method in class org.scijava.convert.NumberConverters.IntegerToBigIntegerConverter
getInputType() - Method in class org.scijava.convert.NumberConverters.IntegerToDoubleConverter
getInputType() - Method in class org.scijava.convert.NumberConverters.IntegerToLongConverter
getInputType() - Method in class org.scijava.convert.NumberConverters.LongToBigDecimalConverter
getInputType() - Method in class org.scijava.convert.NumberConverters.LongToBigIntegerConverter
getInputType() - Method in class org.scijava.convert.NumberConverters.ShortToBigDecimalConverter
getInputType() - Method in class org.scijava.convert.NumberConverters.ShortToBigIntegerConverter
getInputType() - Method in class org.scijava.convert.NumberConverters.ShortToDoubleConverter
getInputType() - Method in class org.scijava.convert.NumberConverters.ShortToFloatConverter
getInputType() - Method in class org.scijava.convert.NumberConverters.ShortToIntegerConverter
getInputType() - Method in class org.scijava.convert.NumberConverters.ShortToLongConverter
getInputType() - Method in class org.scijava.convert.PathToFileConverter
getInputType() - Method in class org.scijava.convert.StringToArrayConverter
getInputType() - Method in class org.scijava.convert.StringToNumberConverter
getInstance(Class) - Method in class org.scijava.plugin.AbstractSingletonService
getInstance(Class) - Method in interface org.scijava.plugin.SingletonService: Gets the singleton plugin instance of the given class.
getInstances() - Method in class org.scijava.options.DefaultOptionsService
getInstances() - Method in class org.scijava.plugin.AbstractSingletonService
getInstances() - Method in interface org.scijava.plugin.HandlerService: Gets the list of handlers.
getInstances() - Method in interface org.scijava.plugin.SingletonService: Gets the list of plugin instances.
getInstances() - Method in interface org.scijava.text.TextService: Gets the list of available text formats.
getInstances() - Method in interface org.scijava.ui.dnd.DragAndDropService: Gets the list of available drag-and-drop handlers, which are used to perform drag-and-drop operations.
getInt(Class<?>, String, int) - Method in class org.scijava.prefs.DefaultPrefService
getInt(Class<?>, String, int) - Method in interface org.scijava.prefs.PrefService: Gets a persisted key as an int.
getInt(String, int) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.getInt(Class, String, int).
getInt(String, int) - Static method in class org.scijava.util.Prefs: Deprecated.
getInt(Class<?>, String, int) - Static method in class org.scijava.util.Prefs: Deprecated.
getInterpretedLanguages() - Method in class org.scijava.script.ScriptREPL: Gets the list of languages compatible with the REPL.
getInterpreter() - Method in class org.scijava.script.ScriptREPL: Gets the script interpreter for the currently active language.
getIntX() - Method in class org.scijava.util.RealCoords
getIntY() - Method in class org.scijava.util.RealCoords
getIOType() - Method in class org.scijava.command.CommandModuleItem
getIOType() - Method in class org.scijava.module.AbstractModuleItem
getIOType() - Method in class org.scijava.module.DefaultMutableModuleItem
getIOType() - Method in interface org.scijava.module.ModuleItem: Gets the input/output type of the item.
getIssueManagementSystem() - Method in class org.scijava.util.POM: Gets the issue management system.
getIssueManagementURL() - Method in class org.scijava.util.POM: Gets the issue management URL.
getItem() - Method in class org.scijava.widget.DefaultWidgetModel
getItem() - Method in interface org.scijava.widget.WidgetModel: Gets the module input's associated item descriptor.
getItems() - Method in class org.scijava.object.event.ListEvent: Gets the list of affected items.
getIterable(Class<?>, String) - Method in class org.scijava.prefs.DefaultPrefService: Deprecated.
getIterable(Class<?>, String) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.getList(Class, String).
getIterable(String) - Method in interface org.scijava.prefs.PrefService: Deprecated.
User PrefService.getList(Class, String).
getKeyCode() - Method in class org.scijava.input.Accelerator
getLabel() - Method in class org.scijava.AbstractBasicDetails
getLabel() - Method in interface org.scijava.BasicDetails: Gets the name to appear in a UI, if applicable.
getLabel() - Method in class org.scijava.command.CommandModuleItem
getLabel() - Method in class org.scijava.command.DynamicCommandInfo
getLabel() - Method in class org.scijava.module.DefaultMutableModuleItem
getLanguage() - Method in class org.scijava.script.DefaultScriptInterpreter
getLanguage() - Method in class org.scijava.script.ScriptInfo: Gets the scripting language of the script.
getLanguage() - Method in interface org.scijava.script.ScriptInterpreter: Returns the associated ScriptLanguage.
getLanguage() - Method in class org.scijava.script.ScriptModule: Deprecated.
Use ScriptInfo.getLanguage() instead.
getLanguageByExtension(String) - Method in interface org.scijava.script.ScriptService: Gets the scripting language that handles the given file extension.
getLanguageByName(String) - Method in interface org.scijava.script.ScriptService: Gets the scripting language with the given name.
getLanguageName() - Method in class org.scijava.script.AbstractScriptLanguage
getLanguageName() - Method in class org.scijava.script.AdaptedScriptLanguage
getLanguages() - Method in interface org.scijava.script.ScriptService: Gets the available scripting languages.
getLanguageVersion() - Method in class org.scijava.script.AdaptedScriptLanguage
getLanguageVersion() - Method in interface org.scijava.script.ScriptLanguage
getLastEvent(Class) - Method in class org.scijava.event.bushe.ThreadSafeEventService
getLastTopicData(String) - Method in class org.scijava.event.bushe.ThreadSafeEventService
getLeaf() - Method in class org.scijava.MenuPath: Gets the final element of the menu path.
getLevel() - Method in class org.scijava.display.event.DisplayUpdatedEvent
getLevel() - Method in class org.scijava.log.AbstractLogService
getLevel() - Method in class org.scijava.log.DefaultLogger
getLevel() - Method in interface org.scijava.log.Logger: Returns the log level of this logger. see LogLevel
getList(Class<?>, String) - Method in class org.scijava.prefs.DefaultPrefService
getList(Class<?>) - Method in class org.scijava.prefs.DefaultPrefService: Deprecated.
getList(String, String) - Method in class org.scijava.prefs.DefaultPrefService: Deprecated.
getList(Class<?>, String) - Method in interface org.scijava.prefs.PrefService: Gets a persisted key as a List.
getList(Class<?>) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.getList(Class, String).
getList(String) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.getList(Class, String).
getList(String, String) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.getList(Class, String).
getList(String) - Static method in class org.scijava.util.Prefs: Deprecated.

Gets a List from the preferences.
getList(Preferences, String) - Static method in class org.scijava.util.Prefs: Deprecated.
getList(Preferences) - Static method in class org.scijava.util.Prefs: Deprecated.

Gets a List from the preferences.
getLocation() - Method in class org.scijava.io.event.IOEvent: Gets the data location (source or destination).
getLocation() - Method in interface org.scijava.Locatable: Gets the URL string defining the object's location.
getLocation() - Method in interface org.scijava.module.ModuleInfo
getLocation() - Method in class org.scijava.plugin.PluginInfo
getLocation() - Method in class org.scijava.script.ScriptInfo
getLocation(String) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.location(java.lang.Class<?>) and Types.load(java.lang.String) instead.
getLocation(String, ClassLoader) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.location(java.lang.Class<?>) and Types.load(java.lang.String) instead.
getLocation(Class<?>) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.location(java.lang.Class<?>) and Types.load(java.lang.String) instead.
getLocationX() - Method in interface org.scijava.ui.ApplicationFrame: Gets the X coordinate of the application frame's top left corner.
getLocationY() - Method in interface org.scijava.ui.ApplicationFrame: Gets the Y coordinate of the application frame's top left corner.
getLong(Class<?>, String, long) - Method in class org.scijava.prefs.DefaultPrefService
getLong(Class<?>, String, long) - Method in interface org.scijava.prefs.PrefService: Gets a persisted key as a long.
getLong(String, long) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.getLong(Class, String, long).
getLong(String, long) - Static method in class org.scijava.util.Prefs: Deprecated.
getLong(Class<?>, String, long) - Static method in class org.scijava.util.Prefs: Deprecated.
getLongX() - Method in class org.scijava.util.RealCoords
getLongY() - Method in class org.scijava.util.RealCoords
getMainClass() - Static method in class org.scijava.util.AppUtils: Gets the class whose main method launched the application.
getMainClassName() - Static method in class org.scijava.util.DebugUtils: Get the class whose main method launched the application.
getMains() - Method in class org.scijava.main.DefaultMainService
getMains() - Method in interface org.scijava.main.MainService: Gets the registered main classes to execute.
getManifest() - Method in class org.scijava.app.AbstractApp
getManifest() - Method in interface org.scijava.app.App: Gets the manifest containing metadata about the application.
getManifest(Class<?>) - Static method in class org.scijava.util.Manifest: Gets the JAR manifest associated with the given class.
getManifest(XML) - Static method in class org.scijava.util.Manifest: Gets the JAR manifest associated with the given XML document.
getManifest(File) - Static method in class org.scijava.util.Manifest: Gets the JAR manifest associated with the given JAR file.
getManifestVersion() - Method in class org.scijava.util.Manifest
getMap(Class<?>, String) - Method in class org.scijava.prefs.DefaultPrefService
getMap(Class<?>) - Method in class org.scijava.prefs.DefaultPrefService: Deprecated.
getMap(String, String) - Method in class org.scijava.prefs.DefaultPrefService: Deprecated.
getMap(Class<?>, String) - Method in interface org.scijava.prefs.PrefService: Gets a persisted key as a Map.
getMap(Class<?>) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.getMap(Class, String).
getMap(String) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.getMap(Class, String).
getMap(String, String) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.getMap(Class, String).
getMap(String) - Static method in class org.scijava.util.Prefs: Deprecated.

Gets a Map from the preferences.
getMap(Preferences, String) - Static method in class org.scijava.util.Prefs: Deprecated.
getMap(Preferences) - Static method in class org.scijava.util.Prefs: Deprecated.

Gets a Map from the preferences.
getMatches() - Method in class org.scijava.script.AutoCompletionResult
getMax() - Method in class org.scijava.widget.DefaultWidgetModel
getMax() - Method in interface org.scijava.widget.WidgetModel: Gets the maximum value for the module input.
getMaxBufferSize() - Method in class org.scijava.io.ByteArrayByteBank
getMaxBufferSize() - Method in interface org.scijava.io.ByteBank
getMaxBufferSize() - Method in class org.scijava.io.nio.ByteBufferByteBank
getMaximumGrowth() - Method in class org.scijava.util.AbstractPrimitiveArray
getMaximumGrowth() - Method in interface org.scijava.util.PrimitiveArray: Gets the maximal step size by which to grow the fixed-size array when running out of space.
getMaximumNumber(Class<?>) - Static method in class org.scijava.util.NumberUtils
getMaximumValue() - Method in class org.scijava.command.CommandModuleItem
getMaximumValue() - Method in class org.scijava.module.AbstractModuleItem
getMaximumValue() - Method in class org.scijava.module.DefaultMutableModuleItem
getMaximumValue() - Method in interface org.scijava.module.ModuleItem: Gets the maximum allowed value (if applicable).
getMenu(String) - Method in class org.scijava.menu.DefaultMenuService
getMenu() - Method in interface org.scijava.menu.MenuService: Gets the root node of the application menu structure.
getMenu(String) - Method in interface org.scijava.menu.MenuService: Gets the root node of a menu structure.
getMenu(MenuPath) - Method in class org.scijava.menu.ShadowMenu: Gets the node with the given menu path (relative to this node), or null if no such menu node.
getMenu(String) - Method in class org.scijava.menu.ShadowMenu
getMenuDepth() - Method in class org.scijava.menu.ShadowMenu: Gets how deep into the menu structure this node is.
getMenuEntry() - Method in class org.scijava.menu.ShadowMenu: Gets the menu entry corresponding to this node.
getMenuPath() - Method in class org.scijava.AbstractUIDetails
getMenuPath() - Method in class org.scijava.command.DynamicCommandInfo
getMenuPath() - Method in interface org.scijava.UIDetails: Gets the path to the object's suggested position in the menu structure.
getMenuPrefix(File) - Method in class org.scijava.script.DefaultScriptService
getMenuPrefix(File) - Method in interface org.scijava.script.ScriptService: Gets the menu path prefix for the given script directory, or null if none.
getMenuRoot() - Method in class org.scijava.AbstractUIDetails
getMenuRoot() - Method in class org.scijava.command.DynamicCommandInfo
getMenuRoot() - Method in interface org.scijava.UIDetails: Gets the name of the menu structure to which the object belongs.
getMenus() - Method in class org.scijava.platform.event.AppMenusCreatedEvent
getMenuString() - Method in class org.scijava.MenuPath: Gets the menu path as a string.
getMenuString(boolean) - Method in class org.scijava.MenuPath: Gets the menu path as a string, with or without the final element.
getMethodCallSyntax(String, String, String...) - Method in class org.scijava.script.AdaptedScriptLanguage
getMethodCallSyntax(String, String, String...) - Method in interface org.scijava.script.ScriptLanguage
getMethodReturnClasses(Method, Class<?>) - Static method in class org.scijava.util.GenericUtils: Deprecated.
Use Types.methodReturnType(java.lang.reflect.Method, java.lang.Class<?>) and Types.raws(java.lang.reflect.Type) instead.
getMethodReturnType(Method, Class<?>) - Static method in class org.scijava.util.GenericUtils: Deprecated.
Use Types.methodReturnType(java.lang.reflect.Method, java.lang.Class<?>) instead.
getMillis() - Method in class org.scijava.util.TunePlayer: Gets the current note length in milliseconds, by the current tempo.
getMIMEType(Class<?>) - Method in interface org.scijava.ui.dnd.DragAndDropData: Gets the best supported MIME type matching the given Java class.
getMimeTypes() - Method in class org.scijava.script.AdaptedScriptLanguage
getMimeTypes() - Method in interface org.scijava.script.ScriptLanguage
getMIMETypes() - Method in class org.scijava.ui.dnd.DefaultDragAndDropData
getMIMETypes() - Method in interface org.scijava.ui.dnd.DragAndDropData: Gets the list of supported MIME types.
getMin() - Method in class org.scijava.widget.DefaultWidgetModel
getMin() - Method in interface org.scijava.widget.WidgetModel: Gets the minimum value for the module input.
getMinimumNumber(Class<?>) - Static method in class org.scijava.util.NumberUtils
getMinimumValue() - Method in class org.scijava.command.CommandModuleItem
getMinimumValue() - Method in class org.scijava.module.AbstractModuleItem
getMinimumValue() - Method in class org.scijava.module.DefaultMutableModuleItem
getMinimumValue() - Method in interface org.scijava.module.ModuleItem: Gets the minimum allowed value (if applicable).
getMnemonic() - Method in class org.scijava.MenuEntry
getMode() - Method in class org.scijava.io.handle.FileHandle
getModifiedTime(File) - Static method in class org.scijava.util.FileUtils: Gets the Date of the file's last modification.
getModifiers() - Method in class org.scijava.display.event.input.InputEvent
getModifiers() - Method in class org.scijava.input.Accelerator
getModifiers() - Method in class org.scijava.input.DefaultInputService
getModifiers() - Method in interface org.scijava.input.InputService
getModule() - Method in class org.scijava.module.event.ModuleEvent
getModule() - Method in class org.scijava.widget.DefaultWidgetModel
getModule() - Method in interface org.scijava.widget.WidgetModel: Gets the module's associated module instance.
getModuleById(String) - Method in class org.scijava.module.DefaultModuleService
getModuleById(String) - Method in interface org.scijava.module.ModuleService: Gets the module with the given identifier string.
getModuleClass() - Method in class org.scijava.module.DefaultMutableModuleInfo
getModuleClass() - Method in interface org.scijava.module.MutableModuleInfo: Gets the module class described by this ModuleInfo.
getModuleForAccelerator(Accelerator) - Method in class org.scijava.module.DefaultModuleService
getModuleForAccelerator(Accelerator) - Method in interface org.scijava.module.ModuleService: Gets the module for a given keyboard shortcut.
getModuleInfo() - Method in class org.scijava.menu.ShadowMenu: Gets the module linked to this node, or null if node is not a leaf.
getModules() - Method in class org.scijava.module.DefaultModuleService
getModules() - Method in interface org.scijava.module.ModuleService: Gets the list of available modules.
getModuleService() - Method in interface org.scijava.command.CommandService: Deprecated.
Use CommandService.moduleService() instead.
getMutableInput(String, Class<T>) - Method in class org.scijava.command.DynamicCommandInfo: Gets the mutable input with the given name and type.
getMutableOutput(String, Class<T>) - Method in class org.scijava.command.DynamicCommandInfo: Gets the mutable output with the given name and type.
getName() - Method in class org.scijava.AbstractBasicDetails
getName() - Method in class org.scijava.command.CommandModuleItem
getName() - Method in class org.scijava.command.DynamicCommandInfo
getName() - Method in class org.scijava.display.AbstractDisplay
getName() - Method in class org.scijava.io.location.BytesLocation
getName() - Method in class org.scijava.io.location.FileLocation
getName() - Method in interface org.scijava.io.location.Location: Gets a (typically short) name expressing this location.
getName() - Method in interface org.scijava.log.Logger: Returns the name of this logger.
getName() - Method in class org.scijava.menu.ShadowMenu
getName() - Method in class org.scijava.MenuEntry
getName() - Method in class org.scijava.module.DefaultMutableModuleItem
getName() - Method in interface org.scijava.Named: Gets the name of the object.
getName(E) - Method in class org.scijava.object.NamedObjectIndex
getName(Object) - Method in interface org.scijava.object.ObjectService: Gets the name belonging to a given object.
getName() - Method in class org.scijava.task.DefaultTask
getName(ColorRGB) - Static method in class org.scijava.util.Colors: Gets the name of the preset matching the given color.
getNames() - Method in class org.scijava.script.AdaptedScriptLanguage
getNames() - Method in interface org.scijava.script.ScriptLanguage
getNextService(Class<S>, Class<? extends S>) - Method in class org.scijava.service.ServiceIndex: Gets the highest priority service compatible with class c, which is lower priority than the ref service.
getNonprimitiveType(Class<T>) - Static method in class org.scijava.util.ClassUtils: Deprecated.
use Types.box(Class)
getNonprimitiveType(Class<T>) - Static method in class org.scijava.util.ConversionUtils: Deprecated.
use Types.box(java.lang.Class<T>)
getNoteLength() - Method in class org.scijava.util.TunePlayer
getNullValue(Class<T>) - Static method in class org.scijava.util.ClassUtils: Deprecated.
use Types.nullValue(Class)
getNullValue(Class<T>) - Static method in class org.scijava.util.ConversionUtils: Deprecated.
Use Types.nullValue(java.lang.Class<T>) instead.
getNumClicks() - Method in class org.scijava.display.event.input.MsButtonEvent
getObject() - Method in class org.scijava.display.event.DisplayCreatedEvent
getObject() - Method in class org.scijava.display.event.DisplayDeletedEvent
getObject() - Method in class org.scijava.object.event.ObjectEvent
getObjectPool() - Method in class org.scijava.widget.DefaultWidgetModel
getObjectPool() - Method in interface org.scijava.widget.WidgetModel: Gets the available objects for use with the widget.
getObjects(Class<T>) - Method in interface org.scijava.object.ObjectService: Gets a list of all registered objects compatible with the given type.
getObjectService() - Method in interface org.scijava.display.DisplayService: Deprecated.
Use DisplayService.objectService() instead.
getOctave() - Method in class org.scijava.util.TunePlayer
getOpener(String) - Method in class org.scijava.io.DefaultIOService
getOpener(String) - Method in interface org.scijava.io.IOService: Gets the most appropriate IOPlugin for opening data from the given location.
getOpener(Location) - Method in interface org.scijava.io.IOService: Gets the most appropriate IOPlugin for opening data from the given location.
getOpener(String) - Method in interface org.scijava.io.TypedIOService: Gets the most appropriate IOPlugin for opening data from the given location.
getOpener(Location) - Method in interface org.scijava.io.TypedIOService: Gets the most appropriate IOPlugin for opening data from the given location.
getOptions(Class<O>) - Method in class org.scijava.options.DefaultOptionsService
getOptions() - Method in class org.scijava.options.event.OptionsEvent
getOptions(Class<O>) - Method in interface org.scijava.options.OptionsService: Gets the options plugin of the given class, or null if none.
getOrCreate(Class, PluginIndex) - Static method in class org.scijava.plugin.PluginInfo: Obtains a PluginInfo for the given plugin class.
getOrCreate(Class, Class<PT>, PluginIndex) - Static method in class org.scijava.plugin.PluginInfo: Obtains a PluginInfo for the given plugin class.
getOrder() - Method in class org.scijava.io.handle.AbstractDataHandle
getOrder() - Method in interface org.scijava.io.handle.DataHandle: Returns the byte order of the stream.
getOrganizationName() - Method in class org.scijava.util.POM: Gets the organization name.
getOrganizationURL() - Method in class org.scijava.util.POM: Gets the organization URL.
getOutput(String) - Method in class org.scijava.command.CommandInfo
getOutput(String, Class<T>) - Method in class org.scijava.command.CommandInfo
getOutput(String) - Method in class org.scijava.command.CommandModule
getOutput(String) - Method in class org.scijava.command.DynamicCommand
getOutput() - Method in class org.scijava.console.OutputEvent: Gets the output string.
getOutput(String) - Method in class org.scijava.module.AbstractModule
getOutput(String) - Method in class org.scijava.module.AbstractModuleInfo
getOutput(String, Class<T>) - Method in class org.scijava.module.AbstractModuleInfo
getOutput(String) - Method in interface org.scijava.module.Module: Gets the value of the output with the given name.
getOutput(String) - Method in interface org.scijava.module.ModuleInfo: Gets the output item with the given name.
getOutput(String, Class<T>) - Method in interface org.scijava.module.ModuleInfo: Gets the output item with the given name and type.
getOutputField(String) - Method in class org.scijava.command.DynamicCommandInfo: Gets the Field corresponding to the given @Parameter annotated module output, or null if the output does not exist or was not declared using the @Parameter mechanism.
getOutputs() - Method in class org.scijava.module.AbstractModule
getOutputs() - Method in interface org.scijava.module.Module: Gets a table of output values.
getOutputStatement(String) - Method in class org.scijava.script.AdaptedScriptLanguage
getOutputStatement(String) - Method in interface org.scijava.script.ScriptLanguage
getOutputType() - Method in class org.scijava.convert.ArrayConverters.BoolArrayUnwrapper
getOutputType() - Method in class org.scijava.convert.ArrayConverters.BoolArrayWrapper
getOutputType() - Method in class org.scijava.convert.ArrayConverters.ByteArrayUnwrapper
getOutputType() - Method in class org.scijava.convert.ArrayConverters.ByteArrayWrapper
getOutputType() - Method in class org.scijava.convert.ArrayConverters.CharArrayUnwrapper
getOutputType() - Method in class org.scijava.convert.ArrayConverters.CharArrayWrapper
getOutputType() - Method in class org.scijava.convert.ArrayConverters.DoubleArrayUnwrapper
getOutputType() - Method in class org.scijava.convert.ArrayConverters.DoubleArrayWrapper
getOutputType() - Method in class org.scijava.convert.ArrayConverters.FloatArrayUnwrapper
getOutputType() - Method in class org.scijava.convert.ArrayConverters.FloatArrayWrapper
getOutputType() - Method in class org.scijava.convert.ArrayConverters.IntArrayUnwrapper
getOutputType() - Method in class org.scijava.convert.ArrayConverters.IntArrayWrapper
getOutputType() - Method in class org.scijava.convert.ArrayConverters.LongArrayUnwrapper
getOutputType() - Method in class org.scijava.convert.ArrayConverters.LongArrayWrapper
getOutputType() - Method in class org.scijava.convert.ArrayConverters.ShortArrayUnwrapper
getOutputType() - Method in class org.scijava.convert.ArrayConverters.ShortArrayWrapper
getOutputType() - Method in class org.scijava.convert.ArrayToStringConverter
getOutputType() - Method in class org.scijava.convert.CastingConverter
getOutputType() - Method in interface org.scijava.convert.Converter
getOutputType() - Method in class org.scijava.convert.DefaultConverter
getOutputType() - Method in class org.scijava.convert.FileListConverters.FileArrayToStringConverter
getOutputType() - Method in class org.scijava.convert.FileListConverters.FileToStringConverter
getOutputType() - Method in class org.scijava.convert.FileListConverters.StringToFileArrayConverter
getOutputType() - Method in class org.scijava.convert.FileListConverters.StringToFileConverter
getOutputType() - Method in class org.scijava.convert.FileToPathConverter
getOutputType() - Method in class org.scijava.convert.NullConverter
getOutputType() - Method in class org.scijava.convert.NumberToBigDecimalConverter
getOutputType() - Method in class org.scijava.convert.NumberToBigIntegerConverter
getOutputType() - Method in class org.scijava.convert.NumberToDoubleConverter
getOutputType() - Method in class org.scijava.convert.NumberToFloatConverter
getOutputType() - Method in class org.scijava.convert.NumberToIntegerConverter
getOutputType() - Method in class org.scijava.convert.NumberToLongConverter
getOutputType() - Method in class org.scijava.convert.NumberToShortConverter
getOutputType() - Method in class org.scijava.convert.PathToFileConverter
getOutputType() - Method in class org.scijava.convert.StringToArrayConverter
getOutputType() - Method in class org.scijava.convert.StringToNumberConverter
getPackage() - Method in class org.scijava.util.Manifest
getPanel() - Method in class org.scijava.ui.viewer.AbstractDisplayViewer
getPanel() - Method in interface org.scijava.ui.viewer.DisplayViewer: Gets the display panel that hosts the gui elements.
getPanel() - Method in class org.scijava.widget.DefaultWidgetModel
getPanel() - Method in interface org.scijava.widget.WidgetModel: Gets the input panel intended to house the widget.
getParam(LinkedList<String>) - Method in class org.scijava.console.AbstractConsoleArgument: If the next argument is an appropriate parameter to a ConsoleArgument, retrieves it; otherwise, returns null.
getParameter() - Method in class org.scijava.command.CommandModuleItem
getParameter(String) - Method in class org.scijava.script.AdaptedScriptLanguage
getParameter(String) - Method in interface org.scijava.script.ScriptLanguage
getParameter(String) - Method in class org.scijava.ui.dnd.MIMEType: Gets the value of the parameter with the given name, or null if none.
getParameters() - Method in class org.scijava.ui.dnd.MIMEType: Gets the parameter names associated with this MIME type.
getParent() - Method in class org.scijava.console.MultiPrintStream
getParent() - Method in class org.scijava.menu.ShadowMenu: Gets this node's parent, or null if it is a root node.
getParent(Thread) - Method in class org.scijava.thread.DefaultThreadService
getParent(Thread) - Method in interface org.scijava.thread.ThreadService: Returns the thread that called the specified thread.
getParentArtifactId() - Method in class org.scijava.util.POM: Gets the POM's parent artifactId.
getParentGroupId() - Method in class org.scijava.util.POM: Gets the POM's parent groupId.
getParentVersion() - Method in class org.scijava.util.POM: Gets the POM's parent artifactId.
getPath() - Method in class org.scijava.script.ScriptInfo: Gets the path to the script on disk.
getPath(File) - Static method in class org.scijava.util.FileUtils: Gets the absolute path to the given file, with the directory separator standardized to forward slash, like most platforms use.
getPath(String, String) - Static method in class org.scijava.util.FileUtils: Gets a standardized path based on the given one, with the directory separator standardized from the specific separator to forward slash, like most platforms use.
getPath() - Method in class org.scijava.util.XML: Gets the path to the XML document, or null if none.
getPersistKey() - Method in class org.scijava.command.CommandModuleItem
getPersistKey() - Method in class org.scijava.module.AbstractModuleItem
getPersistKey() - Method in class org.scijava.module.DefaultMutableModuleItem
getPersistKey() - Method in interface org.scijava.module.ModuleItem: Gets the key to use for saving the value persistently.
getPlatformService() - Method in class org.scijava.platform.AbstractPlatform
getPlugin(Class) - Method in class org.scijava.plugin.DefaultPluginService
getPlugin(Class, Class<PT>) - Method in class org.scijava.plugin.DefaultPluginService
getPlugin(String) - Method in class org.scijava.plugin.DefaultPluginService
getPlugin(Class) - Method in interface org.scijava.plugin.PluginService: Gets the first available plugin of the given class, or null if none.
getPlugin(Class, Class<PT>) - Method in interface org.scijava.plugin.PluginService: Gets the first available plugin of the given class, or null if none.
getPlugin(String) - Method in interface org.scijava.plugin.PluginService: Gets the first available plugin of the given class name, or null if none.
getPluginClass() - Method in class org.scijava.command.CommandInfo
getPluginClass() - Method in class org.scijava.plugin.PluginInfo: Obtains the Class of the item objects, if that class has already been loaded.
getPluginIndex() - Method in class org.scijava.Context
getPlugins() - Method in class org.scijava.plugin.DefaultPluginService
getPlugins(Class<PT>) - Method in class org.scijava.plugin.PluginIndex: Gets a list of registered plugins compatible with the given type.
getPlugins() - Method in interface org.scijava.plugin.PluginService: Gets the list of known plugins.
getPlugins() - Method in interface org.scijava.plugin.PTService: Gets the plugins managed by this service.
getPluginService() - Method in interface org.scijava.display.DisplayService: Deprecated.
Use DisplayService.pluginService() instead.
getPluginService() - Method in interface org.scijava.plugin.PTService: Deprecated.
Use PTService.pluginService() instead.
getPluginsOfClass(Class) - Method in class org.scijava.plugin.DefaultPluginService
getPluginsOfClass(Class, Class<PT>) - Method in class org.scijava.plugin.DefaultPluginService
getPluginsOfClass(String) - Method in class org.scijava.plugin.DefaultPluginService
getPluginsOfClass(String, Class<PT>) - Method in class org.scijava.plugin.DefaultPluginService
getPluginsOfClass(Class) - Method in interface org.scijava.plugin.PluginService: Gets the list of plugins of the given class.
getPluginsOfClass(Class, Class<PT>) - Method in interface org.scijava.plugin.PluginService: Gets the list of plugins of the given class.
getPluginsOfClass(String) - Method in interface org.scijava.plugin.PluginService: Gets the list of plugins with the given class name.
getPluginsOfClass(String, Class<PT>) - Method in interface org.scijava.plugin.PluginService: Gets the list of plugins with the given class name.
getPluginsOfType(Class<PT>) - Method in class org.scijava.plugin.DefaultPluginService
getPluginsOfType(Class<PT>) - Method in interface org.scijava.plugin.PluginService: Gets the list of plugins of the given type (e.g., Service).
getPluginType() - Method in interface org.scijava.app.AppService
getPluginType() - Method in class org.scijava.command.DefaultCommandService
getPluginType() - Method in interface org.scijava.console.ConsoleService
getPluginType() - Method in interface org.scijava.convert.ConvertService
getPluginType() - Method in interface org.scijava.io.handle.DataHandleService
getPluginType() - Method in interface org.scijava.io.IOService
getPluginType() - Method in interface org.scijava.io.location.LocationService
getPluginType() - Method in interface org.scijava.io.TypedIOService
getPluginType() - Method in interface org.scijava.options.OptionsService
getPluginType() - Method in class org.scijava.platform.DefaultPlatformService
getPluginType(Class) - Static method in class org.scijava.plugin.DefaultPluginService: Gets the plugin type of the given plugin class, as declared by its @Plugin annotation (i.e., Plugin.type()).
getPluginType() - Method in class org.scijava.plugin.PluginInfo: Gets the type of plugin described by the metadata.
getPluginType() - Method in interface org.scijava.plugin.PTService: Gets the type of plugins managed by this service.
getPluginType() - Method in interface org.scijava.run.RunService
getPluginType() - Method in interface org.scijava.script.process.ScriptProcessorService
getPluginType() - Method in interface org.scijava.script.ScriptHeaderService
getPluginType() - Method in interface org.scijava.script.ScriptService
getPluginType() - Method in class org.scijava.text.DefaultTextService
getPluginType() - Method in interface org.scijava.tool.ToolService
getPluginType() - Method in interface org.scijava.ui.dnd.DragAndDropService
getPluginType() - Method in interface org.scijava.widget.WidgetService
getPOM() - Method in class org.scijava.app.AbstractApp
getPOM() - Method in interface org.scijava.app.App: Gets the Maven POM containing metadata about the application.
getPOM(Class<?>) - Static method in class org.scijava.util.POM: Gets the Maven POM associated with the given class.
getPOM(Class<?>, String, String) - Static method in class org.scijava.util.POM: Gets the Maven POM associated with the given class.
getPrefix(int) - Method in class org.scijava.log.AbstractLogService: Deprecated.
Use LogLevel.prefix(int) instead.
getPresets() - Method in class org.scijava.command.CommandInfo: Gets the table of items with fixed, preset values.
getPrevService(Class<S>, Class<? extends S>) - Method in class org.scijava.service.ServiceIndex: Gets the lowest priority service compatible with class c, which is higher priority than the ref service.
getPrimitiveType(Class<T>) - Static method in class org.scijava.util.ConversionUtils: Deprecated.
use Types.unbox(java.lang.Class<T>)
getPriority() - Method in class org.scijava.AbstractUIDetails
getPriority() - Method in class org.scijava.command.DynamicCommandInfo
getPriority() - Method in class org.scijava.event.bushe.AbstractProxySubscriber
getPriority() - Method in class org.scijava.plugin.AbstractRichPlugin
getPriority() - Method in interface org.scijava.Prioritized: Gets the sort priority of the object.
getProblems() - Method in class org.scijava.command.CommandInfo
getProblems() - Method in class org.scijava.command.DynamicCommandInfo
getProblems() - Method in class org.scijava.module.MethodRef
getProblems() - Method in interface org.scijava.module.ModuleInfo
getProblems() - Method in interface org.scijava.Validated: Gets the list of problems encountered while initializing the object.
getProcessedScript() - Method in class org.scijava.script.ScriptInfo: Gets the script contents after script processing.
getProcessor() - Method in class org.scijava.module.event.ModulePostprocessEvent
getProcessor() - Method in class org.scijava.module.event.ModulePreprocessEvent
getProcessor() - Method in class org.scijava.module.event.ModuleProcessEvent
getProgram(String...) - Method in class org.scijava.script.AdaptedScriptLanguage
getProgram(String...) - Method in interface org.scijava.script.ScriptLanguage
getProgressMaximum() - Method in class org.scijava.app.event.StatusEvent: Gets progress maximum.
getProgressMaximum() - Method in class org.scijava.task.DefaultTask
getProgressMaximum() - Method in interface org.scijava.task.Task: Gets the number of steps the task performs in total.
getProgressValue() - Method in class org.scijava.app.event.StatusEvent: Gets progress value.
getProgressValue() - Method in class org.scijava.task.DefaultTask
getProgressValue() - Method in interface org.scijava.task.Task: Gets the step the task is currently performing.
getProjectDescription() - Method in class org.scijava.util.POM: Gets the project description.
getProjectInceptionYear() - Method in class org.scijava.util.POM: Gets the project inception year.
getProjectName() - Method in class org.scijava.util.POM: Gets the project name.
getProjectURL() - Method in class org.scijava.util.POM: Gets the project URL.
getProxiedSubscriber() - Method in class org.scijava.event.bushe.AbstractProxySubscriber
getQueryMap() - Method in class org.scijava.io.location.URILocation
getQueryValue(String) - Method in class org.scijava.io.location.URILocation
getRandomAccessFile() - Method in class org.scijava.io.handle.FileHandle: Gets the random access file object backing this FileHandle.
getReader() - Method in class org.scijava.script.AbstractScriptContext
getReader() - Method in class org.scijava.script.ScriptInfo: Gets a reader which delivers the script's content.
getRealSubscriberAndCleanStaleSubscriberIfNecessary(Iterator, Object) - Method in class org.scijava.event.bushe.ThreadSafeEventService: Unsubscribe a subscriber if it is a stale ProxySubscriber.
getReason() - Method in class org.scijava.module.event.ModuleCanceledEvent
getRecentFiles() - Method in class org.scijava.io.DefaultRecentFileService
getRecentFiles() - Method in interface org.scijava.io.RecentFileService: Gets the list of recent files.
getRed(int, int) - Method in class org.scijava.ui.ARGBPlane
getRed() - Method in class org.scijava.util.ColorRGB
getReferenceStrength() - Method in class org.scijava.event.bushe.AbstractProxySubscriber
getResolver(URI) - Method in interface org.scijava.io.location.LocationService: Deprecated.
Use HandlerService.getHandler(DT) instead.
getResult() - Method in interface org.scijava.script.CodeGenerator: Deprecated.
getResult() - Method in class org.scijava.script.CodeGeneratorJava: Deprecated.
getReturnValue() - Method in class org.scijava.script.ScriptModule: Gets the return value of the script.
getSampleRate() - Method in class org.scijava.util.TunePlayer
getSaver(D, String) - Method in class org.scijava.io.DefaultIOService
getSaver(D, String) - Method in interface org.scijava.io.IOService: Gets the most appropriate IOPlugin for saving data to the given location.
getSaver(D, Location) - Method in interface org.scijava.io.IOService: Gets the most appropriate IOPlugin for saving data to the given location.
getSaver(D, String) - Method in interface org.scijava.io.TypedIOService: Gets the most appropriate IOPlugin for saving data to the given location.
getSaver(D, Location) - Method in interface org.scijava.io.TypedIOService: Gets the most appropriate IOPlugin for saving data to the given location.
getSCMConnection() - Method in class org.scijava.util.POM: Gets the SCM connection string.
getSCMDeveloperConnection() - Method in class org.scijava.util.POM: Gets the SCM developerConnection string.
getSCMTag() - Method in class org.scijava.util.POM: Gets the SCM tag.
getSCMURL() - Method in class org.scijava.util.POM: Gets the SCM URL.
getScopes() - Method in class org.scijava.script.AbstractScriptContext
getScript(File) - Method in class org.scijava.script.DefaultScriptService
getScript(File) - Method in interface org.scijava.script.ScriptService: Gets the cached ScriptInfo metadata for the script at the given file, creating it if it does not already exist.
getScriptDirectories() - Method in class org.scijava.script.DefaultScriptService
getScriptDirectories() - Method in interface org.scijava.script.ScriptService: Gets the base directories to scan for scripts.
getScriptEngine() - Method in class org.scijava.script.AdaptedScriptLanguage
getScripts() - Method in class org.scijava.script.DefaultScriptService
getScripts() - Method in interface org.scijava.script.ScriptService: Gets all available scripts.
getSelectionGroup() - Method in class org.scijava.AbstractUIDetails
getSelectionGroup() - Method in class org.scijava.command.DynamicCommandInfo
getSelectionGroup() - Method in interface org.scijava.UIDetails: Gets the name of the selection group to which the object belongs.
getService(Class<S>) - Method in class org.scijava.Context: Gets the service of the given class, or null if there is no matching service.
getService(String) - Method in class org.scijava.Context: Gets the service of the given class name (useful for scripts).
getService(Class<S>) - Method in class org.scijava.service.ServiceIndex: Gets the first available service compatible with the given class.
getServiceIndex() - Method in class org.scijava.Context
getShortName() - Method in class org.scijava.AbstractGateway
getShortName() - Method in interface org.scijava.Gateway: Gets a very succinct name for use referring to this gateway, e.g. as a variable name for scripting.
getSingleInput(Module, Class<T>) - Method in class org.scijava.module.DefaultModuleService
getSingleInput(Module, Collection<Class<?>>) - Method in class org.scijava.module.DefaultModuleService
getSingleInput(Module, Class<T>) - Method in interface org.scijava.module.ModuleService: Checks the given module for a solitary unresolved fillable input of the given type, returning the relevant ModuleItem if found, or null if not exactly one unresolved fillable input of that type.
getSingleInput(Module, Collection<Class<?>>) - Method in interface org.scijava.module.ModuleService: As ModuleService.getSingleInput(Module, Class) but will match with a set of potential classes, at the cost of generic parameter safety.
getSingleInput(Module, Class<?>) - Method in class org.scijava.module.process.AbstractSingleInputPreprocessor: Helper method to look up the name of singleton module inputs of a given type.
getSingleOutput(Module, Class<T>) - Method in class org.scijava.module.DefaultModuleService
getSingleOutput(Module, Collection<Class<?>>) - Method in class org.scijava.module.DefaultModuleService
getSingleOutput(Module, Class<T>) - Method in interface org.scijava.module.ModuleService: Checks the given module for a solitary unresolved output of the given type, returning the relevant ModuleItem if found, or null if not exactly one unresolved output of that type.
getSingleOutput(Module, Collection<Class<?>>) - Method in interface org.scijava.module.ModuleService: As ModuleService.getSingleOutput(Module, Class) but will match with a set of potential classes, at the cost of generic parameter safety.
getSoftMax() - Method in class org.scijava.widget.DefaultWidgetModel
getSoftMax() - Method in interface org.scijava.widget.WidgetModel: Gets the "soft" maximum value for the module input.
getSoftMaximum() - Method in class org.scijava.module.AbstractModuleItem
getSoftMaximum() - Method in class org.scijava.module.DefaultMutableModuleItem
getSoftMaximum() - Method in interface org.scijava.module.ModuleItem: Gets the "soft" maximum value (if applicable).
getSoftMin() - Method in class org.scijava.widget.DefaultWidgetModel
getSoftMin() - Method in interface org.scijava.widget.WidgetModel: Gets the "soft" minimum value for the module input.
getSoftMinimum() - Method in class org.scijava.module.AbstractModuleItem
getSoftMinimum() - Method in class org.scijava.module.DefaultMutableModuleItem
getSoftMinimum() - Method in interface org.scijava.module.ModuleItem: Gets the "soft" minimum value (if applicable).
getSource() - Method in class org.scijava.console.OutputEvent: Gets the source of the output.
getSource() - Method in class org.scijava.io.event.DataOpenedEvent: Deprecated.
use IOEvent.getLocation() instead
getSource() - Method in class org.scijava.log.AbstractLogService
getSource() - Method in class org.scijava.log.DefaultLogger
getSource() - Method in interface org.scijava.log.Logger: Returns the LogSource associated with this logger.
getSpecificationTitle() - Method in class org.scijava.util.Manifest
getSpecificationVendor() - Method in class org.scijava.util.Manifest
getSpecificationVersion() - Method in class org.scijava.util.Manifest
getStackDump(Thread) - Static method in class org.scijava.util.DebugUtils: Provides a stack dump of the given thread.
getStackDump(Thread, StackTraceElement[]) - Static method in class org.scijava.util.DebugUtils: Provides a stack dump of the given thread + call stack.
getStackDump() - Static method in class org.scijava.util.DebugUtils: Provides a complete stack dump of all threads.
getStackTrace() - Method in class org.scijava.event.SciJavaEvent: Gets the stack trace of the calling thread when the event was published.
getStackTrace(Throwable) - Static method in class org.scijava.util.DebugUtils: Extracts the given exception's corresponding stack trace to a string.
getStartIndex() - Method in class org.scijava.script.AutoCompletionResult
getStatusBar() - Method in interface org.scijava.ui.UserInterface: Gets the main SciJava status bar, or null if not applicable.
getStatusMessage(String, StatusEvent) - Method in class org.scijava.app.DefaultStatusService
getStatusMessage() - Method in class org.scijava.app.event.StatusEvent: Gets status message, or null for no change.
getStatusMessage(String, StatusEvent) - Method in interface org.scijava.app.StatusService: Gets the status message of the given event.
getStatusMessage() - Method in class org.scijava.task.DefaultTask
getStatusMessage() - Method in interface org.scijava.task.Task: Gets a status message describing what the task is currently doing.
getStatusMessage(StatusEvent) - Method in class org.scijava.ui.DefaultUIService
getStatusMessage(StatusEvent) - Method in interface org.scijava.ui.UIService: Gets the status message associated with the given event.
getStepSize() - Method in class org.scijava.command.CommandModuleItem
getStepSize() - Method in class org.scijava.module.AbstractModuleItem
getStepSize() - Method in class org.scijava.module.DefaultMutableModuleItem
getStepSize() - Method in interface org.scijava.module.ModuleItem: Gets the preferred step size to use when rendering the item in a user interface (if applicable).
getStepSize() - Method in class org.scijava.widget.DefaultWidgetModel
getStepSize() - Method in interface org.scijava.widget.WidgetModel: Gets the step size between values for the module input.
getStyleModifier(String, String) - Static method in class org.scijava.widget.WidgetStyle: Get the modifying value for a given style attribute in a style declaration.
getStyleModifiers(String, String) - Static method in class org.scijava.widget.WidgetStyle: Get an array of all modifying values for a given style attribute.
getSubscribers(Class<T>) - Method in class org.scijava.event.bushe.ThreadSafeEventService
getSubscribers(Type) - Method in class org.scijava.event.bushe.ThreadSafeEventService
getSubscribers(String) - Method in class org.scijava.event.bushe.ThreadSafeEventService
getSubscribers(Pattern) - Method in class org.scijava.event.bushe.ThreadSafeEventService
getSubscribers(Class<E>) - Method in class org.scijava.event.DefaultEventService
getSubscribers(Class<E>) - Method in interface org.scijava.event.EventService: Gets a list of all subscribers to the given event class (and subclasses thereof).
getSubscribersByPattern(String) - Method in class org.scijava.event.bushe.ThreadSafeEventService
getSubscribersToClass(Class<T>) - Method in class org.scijava.event.bushe.ThreadSafeEventService
getSubscribersToExactClass(Class<T>) - Method in class org.scijava.event.bushe.ThreadSafeEventService
getSubscribersToPattern(Pattern) - Method in class org.scijava.event.bushe.ThreadSafeEventService
getSubscribersToTopic(String) - Method in class org.scijava.event.bushe.ThreadSafeEventService
getSubscriptionMethod() - Method in class org.scijava.event.bushe.AbstractProxySubscriber
getSystemClipboard() - Method in interface org.scijava.ui.UserInterface: Gets the system clipboard associated with this UI, or null if not applicable.
getSystemProperty() - Method in interface org.scijava.app.App: A system property which, if set, overrides the base directory of the application.
getTargetPlatforms() - Method in class org.scijava.platform.DefaultPlatformService
getTargetPlatforms() - Method in interface org.scijava.platform.PlatformService: Gets the platform handlers applicable to this platform.
getTask() - Method in class org.scijava.task.event.TaskEvent
getTempo() - Method in class org.scijava.util.TunePlayer
getText() - Method in class org.scijava.widget.DefaultWidgetModel
getText() - Method in interface org.scijava.widget.WidgetModel: Gets the input's value rendered as a string.
getThreadContext(Thread) - Method in class org.scijava.thread.DefaultThreadService
getThreadContext(Thread) - Method in interface org.scijava.thread.ThreadService: Analyzes the Context of the given thread.
getTimeout() - Method in class org.scijava.io.location.AbstractRemoteLocation
getTimeout() - Method in interface org.scijava.io.location.RemoteLocation: Gets the connection timeout for this location.
getTimestamp() - Method in class org.scijava.event.EventDetails
getTitle() - Method in class org.scijava.AbstractGateway
getTitle() - Method in interface org.scijava.app.App: Gets the title of the application.
getTitle() - Method in class org.scijava.command.CommandInfo
getTitle() - Method in class org.scijava.command.DynamicCommandInfo
getTitle() - Method in interface org.scijava.Gateway
getTitle() - Method in interface org.scijava.module.ModuleInfo
getTitle() - Method in interface org.scijava.UIDetails: Gets an appropriate title for the object, for use in a user interface.
getTone(int, char) - Method in class org.scijava.util.TunePlayer: Gets the value of the given tone for the current octave.
getTool(String) - Method in class org.scijava.tool.DefaultToolService
getTool() - Method in class org.scijava.tool.event.ToolEvent
getTool(String) - Method in interface org.scijava.tool.ToolService
getTool(Class<T>) - Method in interface org.scijava.tool.ToolService: Get a tool given its class.
getToolBar() - Method in interface org.scijava.ui.UserInterface: Gets the main SciJava toolbar, or null if not applicable.
getTools() - Method in class org.scijava.tool.DefaultToolService
getTools() - Method in interface org.scijava.tool.ToolService
getTopLeft() - Method in class org.scijava.util.IntRect: Gets the top left coordinate of the rectangle.
getTopLeft() - Method in class org.scijava.util.RealRect: Gets the top left coordinate of the rectangle.
getType() - Method in class org.scijava.command.CommandModuleItem
getType() - Method in interface org.scijava.console.ConsoleArgument
getType() - Method in interface org.scijava.console.ConsoleService
getType() - Method in interface org.scijava.convert.Converter
getType() - Method in interface org.scijava.convert.ConvertService
getType() - Method in class org.scijava.download.MultiWriteHandle
getType() - Method in class org.scijava.io.handle.AbstractHigherOrderHandle
getType() - Method in class org.scijava.io.handle.BytesHandle
getType() - Method in interface org.scijava.io.handle.DataHandleService
getType() - Method in class org.scijava.io.handle.DummyHandle
getType() - Method in class org.scijava.io.handle.FileHandle
getType() - Method in interface org.scijava.io.IOPlugin
getType() - Method in interface org.scijava.io.IOService
getType() - Method in class org.scijava.io.location.AbstractLocationResolver
getType() - Method in interface org.scijava.io.location.LocationService
getType() - Method in interface org.scijava.io.TypedIOService
getType() - Method in class org.scijava.module.DefaultMutableModuleItem
getType() - Method in interface org.scijava.module.ModuleItem: Gets the type of the item.
getType(E) - Method in class org.scijava.object.ObjectIndex: Return the type by which to index the object.
getType(PluginInfo<?>) - Method in class org.scijava.plugin.PluginIndex: Overrides the type by which the entries are indexed.
getType() - Method in interface org.scijava.run.CodeRunner
getType() - Method in interface org.scijava.run.RunService
getType() - Method in interface org.scijava.script.ScriptHeader
getType() - Method in interface org.scijava.script.ScriptHeaderService
getType() - Method in class org.scijava.text.DefaultTextService
getType() - Method in interface org.scijava.text.TextFormat
getType() - Method in interface org.scijava.Typed: Gets the type associated with the object.
getType() - Method in interface org.scijava.ui.dnd.DragAndDropService
getType() - Method in class org.scijava.ui.dnd.FileDragAndDropHandler
getType() - Method in class org.scijava.ui.dnd.ListDragAndDropHandler
getType() - Method in class org.scijava.ui.dnd.ScriptFileDragAndDropHandler
getType() - Method in interface org.scijava.widget.InputWidget
getType() - Method in interface org.scijava.widget.WidgetService
getTypeParameter(Type, Class<?>, int) - Static method in class org.scijava.util.GenericUtils: Deprecated.
Use Types.param(java.lang.reflect.Type, java.lang.Class<?>, int) instead.
getTypes(Class<?>) - Static method in class org.scijava.object.ObjectIndex: Gets a new set containing the type and all its supertypes.
getTypes(Field, Class<?>) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.fieldType(Field, Class) and Types.raws(java.lang.reflect.Type) instead.
getUI() - Method in class org.scijava.ui.AbstractInputHarvesterPlugin: Gets the name (or class name) of the input harvester's affiliated UI.
getUI(String) - Method in class org.scijava.ui.DefaultUIService
getUI() - Method in class org.scijava.ui.event.UIEvent: Gets the user interface.
getUI(String) - Method in interface org.scijava.ui.UIService: Gets the UI with the given name (or class name).
getURI() - Method in class org.scijava.io.location.FileLocation
getURI() - Method in interface org.scijava.io.location.Location: Gets the location expressed as a URI, or null if the location cannot be expressed as such.
getURI() - Method in class org.scijava.io.location.URILocation
getURI() - Method in class org.scijava.io.location.URLLocation: Gets the associated URI, or null if this URL is not formatted strictly according to RFC2396 and cannot be converted to a URI.
getURL() - Method in class org.scijava.io.location.URLLocation: Gets the associated URL.
getURL() - Method in class org.scijava.script.ScriptInfo: Gets the URL of the script.
getValidater() - Method in class org.scijava.command.CommandModuleItem
getValidater() - Method in class org.scijava.module.AbstractModuleItem
getValidater() - Method in class org.scijava.module.DefaultMutableModuleItem
getValidater() - Method in interface org.scijava.module.ModuleItem: Gets the function that is called to validate the item's value.
getValue(Module) - Method in class org.scijava.module.AbstractModuleItem
getValue(Module) - Method in interface org.scijava.module.ModuleItem: Gets the item's current value with respect to the given module.
getValue(int) - Method in class org.scijava.util.BoolArray
getValue(int) - Method in class org.scijava.util.ByteArray
getValue(int) - Method in class org.scijava.util.CharArray
getValue(Field, Object) - Static method in class org.scijava.util.ClassUtils: Gets the given field's value of the specified object instance, or null if the value cannot be obtained.
getValue(int) - Method in class org.scijava.util.DoubleArray
getValue(int) - Method in class org.scijava.util.FloatArray
getValue(int) - Method in class org.scijava.util.IntArray
getValue(int) - Method in class org.scijava.util.LongArray
getValue(int) - Method in class org.scijava.util.ObjectArray
getValue(int) - Method in class org.scijava.util.ShortArray
getValue(String) - Method in class org.scijava.widget.AbstractInputPanel
getValue() - Method in class org.scijava.widget.DefaultWidgetModel
getValue(String) - Method in interface org.scijava.widget.InputPanel: Returns the value of the given widget's input.
getValue() - Method in interface org.scijava.widget.InputWidget: Gets the current widget value.
getValue() - Method in interface org.scijava.widget.WidgetModel: Gets the current value of the module input.
getVar(String) - Method in class org.scijava.util.ReflectedUniverse: Returns the value of a variable or field in the universe.
getVersion() - Method in class org.scijava.AbstractGateway
getVersion() - Method in interface org.scijava.app.App: Gets the version of the application.
getVersion() - Method in interface org.scijava.module.ModuleInfo
getVersion() - Method in class org.scijava.plugin.PluginInfo
getVersion() - Method in class org.scijava.script.ScriptInfo
getVersion() - Method in class org.scijava.util.Manifest
getVersion() - Method in class org.scijava.util.POM: Gets the POM's version.
getVersion(Class<?>) - Static method in class org.scijava.util.VersionUtils: Looks up the version of the specified class using any means available, appending the build number to any SNAPSHOT version.
getVersion(Class<?>, String, String) - Static method in class org.scijava.util.VersionUtils: Looks up the version of the specified class using any means available, appending the build number to any SNAPSHOT version.
getVersion() - Method in interface org.scijava.Versioned: Gets the version of the object.
getVersionFromManifest(Class<?>) - Static method in class org.scijava.util.VersionUtils: Looks up the version of the specified class using a JAR manifest if available, appending the build number to any SNAPSHOT version.
getVersionFromPOM(Class<?>, String, String) - Static method in class org.scijava.util.VersionUtils: Looks up the version of the specified class using the specified POM, or base POM directory if groupId and artifactId are null.
getVetoEventListeners(String) - Method in class org.scijava.event.bushe.ThreadSafeEventService
getVetoSubscribers(Class<T>) - Method in class org.scijava.event.bushe.ThreadSafeEventService
getVetoSubscribers(String) - Method in class org.scijava.event.bushe.ThreadSafeEventService: Deprecated.
use getVetoSubscribersToTopic instead for direct replacement, or use getVetoEventListeners to get topic and pattern matchers. In EventBus 2.0 this name will replace getVetoEventListeners() and have it's union functionality
getVetoSubscribers(Pattern) - Method in class org.scijava.event.bushe.ThreadSafeEventService
getVetoSubscribersByPattern(String) - Method in class org.scijava.event.bushe.ThreadSafeEventService
getVetoSubscribersToClass(Class<T>) - Method in class org.scijava.event.bushe.ThreadSafeEventService
getVetoSubscribersToExactClass(Class<T>) - Method in class org.scijava.event.bushe.ThreadSafeEventService
getVetoSubscribersToTopic(String) - Method in class org.scijava.event.bushe.ThreadSafeEventService
getViewerPlugins() - Method in class org.scijava.ui.DefaultUIService
getViewerPlugins() - Method in interface org.scijava.ui.UIService: Gets the list of known viewer plugins.
getVisibility() - Method in class org.scijava.command.CommandModuleItem
getVisibility() - Method in class org.scijava.module.AbstractModuleItem
getVisibility() - Method in class org.scijava.module.DefaultMutableModuleItem
getVisibility() - Method in interface org.scijava.module.ModuleItem: Gets the visibility of the item.
getVisibleUIs() - Method in class org.scijava.ui.DefaultUIService
getVisibleUIs() - Method in interface org.scijava.ui.UIService: Gets the user interfaces that are currently visible.
getWeight() - Method in class org.scijava.MenuEntry
getWheelRotation() - Method in class org.scijava.display.event.input.MsWheelEvent
getWidget(String) - Method in class org.scijava.widget.AbstractInputPanel
getWidget(String) - Method in interface org.scijava.widget.InputPanel: Gets the widget with the provided name.
getWidgetComponentType() - Method in interface org.scijava.widget.InputPanel: Gets the type of the UI component housing the panel's widgets.
getWidgetCount() - Method in class org.scijava.widget.AbstractInputPanel
getWidgetCount() - Method in interface org.scijava.widget.InputPanel: Gets the number of active widgets in the input panel.
getWidgetLabel() - Method in class org.scijava.widget.DefaultWidgetModel
getWidgetLabel() - Method in interface org.scijava.widget.WidgetModel: Gets the text to use when labeling this widget.
getWidgetStyle() - Method in class org.scijava.command.CommandModuleItem
getWidgetStyle() - Method in class org.scijava.module.AbstractModuleItem
getWidgetStyle() - Method in class org.scijava.module.DefaultMutableModuleItem
getWidgetStyle() - Method in interface org.scijava.module.ModuleItem: Gets the preferred widget style to use when rendering the item in a user interface.
getWidth() - Method in class org.scijava.ui.ARGBPlane
getWindow() - Method in class org.scijava.display.event.window.WinEvent: Gets the actual UI-specific window.
getWindow() - Method in class org.scijava.ui.viewer.AbstractDisplayViewer
getWindow() - Method in interface org.scijava.ui.viewer.DisplayPanel: Gets the window housing this panel.
getWindow() - Method in interface org.scijava.ui.viewer.DisplayViewer: Gets the window in which the view is displayed.
getWriter() - Method in class org.scijava.script.AbstractScriptContext
getX() - Method in class org.scijava.display.event.input.InputEvent
getX() - Method in class org.scijava.input.DefaultInputService
getX() - Method in interface org.scijava.input.InputService: Gets the last observed X coordinate of the mouse cursor, relative to a specific display.
getY() - Method in class org.scijava.display.event.input.InputEvent
getY() - Method in class org.scijava.input.DefaultInputService
getY() - Method in interface org.scijava.input.InputService: Gets the last observed Y coordinate of the mouse cursor, relative to a specific display.
GHOSTWHITE - Static variable in class org.scijava.util.Colors
GOLD - Static variable in class org.scijava.util.Colors
GOLDENROD - Static variable in class org.scijava.util.Colors
GRAY - Static variable in class org.scijava.util.Colors
GREEN - Static variable in class org.scijava.util.Colors
GREENYELLOW - Static variable in class org.scijava.util.Colors
GREY - Static variable in class org.scijava.util.Colors

H

handle(LinkedList<String>) - Method in class org.scijava.command.console.RunArgument: Deprecated.
handle(LinkedList<String>) - Method in interface org.scijava.console.ConsoleArgument: Handles the front of the given list of arguments.
handle(LinkedList<String>) - Method in class org.scijava.console.SystemPropertyArgument
handle(LinkedList<String>) - Method in class org.scijava.io.console.OpenArgument
handle() - Method in class org.scijava.io.handle.AbstractHigherOrderHandle
handle(Exception) - Method in class org.scijava.log.DefaultUncaughtExceptionHandler
handle(LinkedList<String>) - Method in class org.scijava.main.console.MainArgument
handle(LinkedList<String>) - Method in class org.scijava.run.console.RunArgument
handle(LinkedList<String>) - Method in class org.scijava.script.console.RunScriptArgument: Deprecated.
handle(LinkedList<String>) - Method in class org.scijava.ui.console.HeadlessArgument
handle(LinkedList<String>) - Method in class org.scijava.ui.console.ShowUIArgument
handle(LinkedList<String>) - Method in class org.scijava.ui.console.UIArgument
handledType() - Method in class org.scijava.script.AbstractScriptHeader
handleException(Object, Throwable, StackTraceElement[], EventSubscriber) - Method in class org.scijava.event.bushe.ThreadSafeEventService: Called during event handling exceptions, calls handleException
handleException(String, Object, String, Object, Throwable, StackTraceElement[], String) - Method in class org.scijava.event.bushe.ThreadSafeEventService: All exception handling goes through this method.
HandlerPlugin<D> - Interface in org.scijava.plugin: Interface for plugins which "handle" a particular subset of data objects.
HandlerService<DT,PT extends HandlerPlugin<DT>> - Interface in org.scijava.plugin: A service for managing HandlerPlugins of a particular type.
handleVeto(VetoEventListener, Object, VetoTopicEventListener, String, Object) - Method in class org.scijava.event.bushe.ThreadSafeEventService: Handle vetos of an event or topic, by default logs finely.
harvest() - Method in class org.scijava.command.Inputs
harvest(Module) - Method in interface org.scijava.widget.InputHarvester: Performs the harvesting process.
harvestInputs(InputPanel<P, W>, Module) - Method in interface org.scijava.widget.InputHarvester: Gathers input values from the user or other source.
hasClass(String) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.load(String) instead.
hasClass(String, ClassLoader) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.load(String, ClassLoader) instead.
hash(String) - Static method in class org.scijava.util.DigestUtils: Gets the Java hash code of the given string, as a byte array.
hash(byte[]) - Static method in class org.scijava.util.DigestUtils: Gets the hash code of the given byte array, as a byte array.
hashCode() - Method in class org.scijava.event.bushe.AbstractProxySubscriber
hashCode() - Method in class org.scijava.input.Accelerator
hashCode() - Method in class org.scijava.input.InputModifiers
hashCode() - Method in class org.scijava.io.location.AbstractLocation
hashCode() - Method in class org.scijava.io.location.BytesLocation
hashCode() - Method in class org.scijava.ui.dnd.MIMEType
hashCode() - Method in class org.scijava.util.ColorRGB
hashCode() - Method in class org.scijava.util.IntCoords
hashCode() - Method in class org.scijava.util.IntRect
hashCode() - Method in class org.scijava.util.RealCoords
hashCode() - Method in class org.scijava.util.RealRect
hasLogLevel() - Method in class org.scijava.log.LogSource
hasMoreElements() - Method in class org.scijava.util.IteratorPlus
hasNext() - Method in class org.scijava.menu.ShadowMenuIterator
hasNext() - Method in class org.scijava.util.IteratorPlus
hasParam(LinkedList<String>) - Static method in class org.scijava.console.ConsoleUtils: Deprecated.
Use AbstractConsoleArgument.getParam(LinkedList) instead.
HasPluginInfo - Interface in org.scijava.plugin: A object with associated PluginInfo metadata.
hasWidgets() - Method in class org.scijava.widget.AbstractInputPanel
hasWidgets() - Method in interface org.scijava.widget.InputPanel: Gets whether the input panel has any active widgets.
HeadlessArgument - Class in org.scijava.ui.console: Handles the --headless argument to signal that no UI will be opened and the enclosing Context will not be used after the ConsoleService argument processing is complete.
HeadlessArgument() - Constructor for class org.scijava.ui.console.HeadlessArgument
HeadlessDisplayViewer - Class in org.scijava.ui.headless: A display viewer used when running headless.
HeadlessDisplayViewer() - Constructor for class org.scijava.ui.headless.HeadlessDisplayViewer
HeadlessUI - Class in org.scijava.ui.headless: A no-op user interface used when the application is running headless.
HeadlessUI() - Constructor for class org.scijava.ui.headless.HeadlessUI
HeadlessUI - Class in org.scijava.ui.headlessUI: Deprecated.
Use HeadlessUI instead.
HeadlessUI() - Constructor for class org.scijava.ui.headlessUI.HeadlessUI: Deprecated.
height - Variable in class org.scijava.util.IntRect
height - Variable in class org.scijava.util.RealRect
help() - Method in class org.scijava.script.ScriptREPL: Prints a usage guide.
HELP_LABEL - Static variable in class org.scijava.menu.MenuConstants
HELP_MNEMONIC - Static variable in class org.scijava.menu.MenuConstants
HELP_WEIGHT - Static variable in class org.scijava.menu.MenuConstants
hex(byte[]) - Static method in class org.scijava.util.DigestUtils: Converts the given byte array to a hexidecimal string.
HIGH - Static variable in class org.scijava.Priority: Priority for items that prefer to be sorted earlier.
HIGH_PRIORITY - Static variable in class org.scijava.Priority: Deprecated.
Use Priority.HIGH instead.
hoard - Variable in class org.scijava.object.ObjectIndex: "Them as counts counts moren them as dont count."
HONEYDEW - Static variable in class org.scijava.util.Colors
HOTPINK - Static variable in class org.scijava.util.Colors

I

icon() - Method in class org.scijava.AbstractGateway
icon() - Method in interface org.scijava.Gateway: Gets this application context's IconService.
IconDrawer - Interface in org.scijava.tool: CustomDrawnTools use IconDrawers to draw their icon on screen.
IconService - Interface in org.scijava.tool: IconService allows a Tool to obtain the IconDrawer.
Identifiable - Interface in org.scijava: An object which can express itself by some unique string.
IgnoreAsCallingClass - Annotation Type in org.scijava.log: Classes annotated with IgnoreAsCallingClass are ignored by CallingClassUtils.getCallingClassName().
IMAGE_LABEL - Static variable in class org.scijava.menu.MenuConstants
IMAGE_MNEMONIC - Static variable in class org.scijava.menu.MenuConstants
IMAGE_WEIGHT - Static variable in class org.scijava.menu.MenuConstants
in() - Method in interface org.scijava.io.handle.StreamHandle: Gets an input stream for reading data, positioned at the current offset.
incWeakRefPlusProxySubscriberCount() - Method in class org.scijava.event.bushe.ThreadSafeEventService: Increment the count of stale proxies and start a cleanup task if necessary
index(File) - Method in class org.scijava.annotations.DirectoryIndexer
Index<A extends Annotation> - Class in org.scijava.annotations: Makes the annotation indexes accessible.
Indexable - Annotation Type in org.scijava.annotations: Meta annotation for indexable annotations.
IndexItem<A extends Annotation> - Class in org.scijava.annotations: Allows access to individual annotations.
indexOf(Object) - Method in class org.scijava.display.AbstractDisplay
indexOf(boolean[], boolean) - Static method in class org.scijava.util.ArrayUtils: Returns the index of the first occurrence of the given value in the given array.
indexOf(byte[], byte) - Static method in class org.scijava.util.ArrayUtils: Returns the index of the first occurrence of the given value in the given array.
indexOf(char[], char) - Static method in class org.scijava.util.ArrayUtils: Returns the index of the first occurrence of the given value in the given array.
indexOf(double[], double) - Static method in class org.scijava.util.ArrayUtils: Returns the index of the first occurrence of the given value in the given array.
indexOf(float[], float) - Static method in class org.scijava.util.ArrayUtils: Returns the index of the first occurrence of the given value in the given array.
indexOf(int[], int) - Static method in class org.scijava.util.ArrayUtils: Returns the index of the first occurrence of the given value in the given array.
indexOf(long[], long) - Static method in class org.scijava.util.ArrayUtils: Returns the index of the first occurrence of the given value in the given array.
indexOf(short[], short) - Static method in class org.scijava.util.ArrayUtils: Returns the index of the first occurrence of the given value in the given array.
indexOf(Object[], Object) - Static method in class org.scijava.util.ArrayUtils: Returns the index of the first occurrence of the given value in the given Object array.
indexOf(boolean) - Method in class org.scijava.util.BoolArray
indexOf(Object) - Method in class org.scijava.util.BoolArray
indexOf(byte) - Method in class org.scijava.util.ByteArray
indexOf(Object) - Method in class org.scijava.util.ByteArray
indexOf(char) - Method in class org.scijava.util.CharArray
indexOf(Object) - Method in class org.scijava.util.CharArray
indexOf(double) - Method in class org.scijava.util.DoubleArray
indexOf(Object) - Method in class org.scijava.util.DoubleArray
indexOf(float) - Method in class org.scijava.util.FloatArray
indexOf(Object) - Method in class org.scijava.util.FloatArray
indexOf(int) - Method in class org.scijava.util.IntArray
indexOf(Object) - Method in class org.scijava.util.IntArray
indexOf(long) - Method in class org.scijava.util.LongArray
indexOf(Object) - Method in class org.scijava.util.LongArray
indexOf(Object) - Method in class org.scijava.util.ObjectArray
indexOf(short) - Method in class org.scijava.util.ShortArray
indexOf(Object) - Method in class org.scijava.util.ShortArray
INDIANRED - Static variable in class org.scijava.util.Colors
INDIGO - Static variable in class org.scijava.util.Colors
info(Object) - Method in interface org.scijava.log.Logger
info(Throwable) - Method in interface org.scijava.log.Logger
info(Object, Throwable) - Method in interface org.scijava.log.Logger
INFO - Static variable in class org.scijava.log.LogLevel
INFO - Static variable in interface org.scijava.log.LogService: Deprecated.
Use LogLevel.INFO.
info() - Method in class org.scijava.script.process.DirectiveScriptProcessor: Gets the active ScriptInfo instance.
Initializable - Interface in org.scijava: Interface for objects which can be initialized.
initialize() - Method in class org.scijava.cache.DefaultCacheService
initialize() - Method in class org.scijava.command.DefaultCommandService
initialize() - Method in class org.scijava.event.DefaultEventService
initialize() - Method in interface org.scijava.Initializable: Initializes the object.
initialize() - Method in class org.scijava.io.DefaultRecentFileService
initialize() - Method in class org.scijava.module.AbstractModule
initialize(Module) - Method in class org.scijava.module.AbstractModuleItem
initialize() - Method in class org.scijava.module.DefaultModuleService
initialize() - Method in interface org.scijava.module.Module: Initializes the module.
initialize(Module) - Method in interface org.scijava.module.ModuleItem: Invokes this item's initializer function, if any, on the given module.
initialize() - Method in class org.scijava.object.DefaultObjectService
initialize() - Method in class org.scijava.platform.DefaultPlatformService
initialize() - Method in class org.scijava.plugin.DefaultPluginService
initialize() - Method in interface org.scijava.plugin.SingletonService
initialize() - Method in interface org.scijava.plugin.WrapperService
initialize() - Method in class org.scijava.prefs.AbstractPrefService
initialize() - Method in class org.scijava.script.DefaultScriptService
initialize() - Method in class org.scijava.script.ScriptREPL: Outputs a greeting, and sets up the initial language and variables of the REPL.
initialize(boolean) - Method in class org.scijava.script.ScriptREPL: Sets up the initial language and variables of the REPL.
initialize() - Method in interface org.scijava.service.Service: Performs any needed initialization when the service is first loaded.
InitPreprocessor - Class in org.scijava.module.process: A preprocessor plugin that populates initial parameter values.
InitPreprocessor() - Constructor for class org.scijava.module.process.InitPreprocessor
inject(Object) - Method in class org.scijava.Context: Injects the application context into the given object.
inject(Object) - Method in class org.scijava.plugin.PluginInfo: Injects the metadata into the given object.
inject(Object, double) - Static method in class org.scijava.Priority: Injects the specified priority into the given object.
input() - Method in class org.scijava.AbstractGateway
input() - Method in interface org.scijava.Gateway: Gets this application context's InputService.
InputEvent - Class in org.scijava.display.event.input: An event indicating input device (e.g., keyboard or mouse) activity in a display.
InputEvent(Display<?>, InputModifiers, int, int) - Constructor for class org.scijava.display.event.input.InputEvent
InputHarvester<P,W> - Interface in org.scijava.widget: An input harvester collects Module input values, according to the following steps: Create an InputPanel with widgets corresponding to the module inputs.
inputList() - Method in class org.scijava.module.AbstractModuleInfo: Gets AbstractModuleInfo.outputMap, initializing if needed.
inputMap() - Method in class org.scijava.module.AbstractModuleInfo: Gets AbstractModuleInfo.inputMap, initializing if needed.
InputModifiers - Class in org.scijava.input: A UI-independent representation of keyboard and mouse modifier states.
InputModifiers(boolean, boolean, boolean, boolean, boolean, boolean, boolean, boolean) - Constructor for class org.scijava.input.InputModifiers
InputPanel<P,W> - Interface in org.scijava.widget: Flexible panel-building interface, for use with UIs that prompt for input values of various types.
inputs() - Method in class org.scijava.command.CommandInfo
Inputs - Class in org.scijava.command: A way to build a dynamic set of inputs, whose values are then harvested by the preprocessing framework.
Inputs(Context) - Constructor for class org.scijava.command.Inputs
inputs() - Method in class org.scijava.module.AbstractModuleInfo
inputs() - Method in interface org.scijava.module.ModuleInfo: Gets the list of input items.
InputService - Interface in org.scijava.input: Interface for service that tracks the current status of input devices (keyboard and mouse in particular).
InputWidget<T,W> - Interface in org.scijava.widget: Interface for input widgets.
insert(int, int) - Method in class org.scijava.util.AbstractPrimitiveArray: Shifts the array to insert space at a specified index.
insert(int, int) - Method in interface org.scijava.util.PrimitiveArray: Shifts the array to insert space at a specified index.
install(LogService) - Static method in class org.scijava.log.DefaultUncaughtExceptionHandler
Instantiable<T> - Interface in org.scijava: An interface declaring the ability to create objects.
InstantiableException - Exception in org.scijava: An exception thrown when an Instantiable cannot create an object.
InstantiableException() - Constructor for exception org.scijava.InstantiableException
InstantiableException(String) - Constructor for exception org.scijava.InstantiableException
InstantiableException(String, Throwable) - Constructor for exception org.scijava.InstantiableException
InstantiableException(Throwable) - Constructor for exception org.scijava.InstantiableException
IntArray - Class in org.scijava.util: An extensible array of int elements.
IntArray() - Constructor for class org.scijava.util.IntArray: Constructs an extensible array of ints, backed by a fixed-size array.
IntArray(int) - Constructor for class org.scijava.util.IntArray: Constructs an extensible array of ints, backed by a fixed-size array.
IntArray(int[]) - Constructor for class org.scijava.util.IntArray: Constructs an extensible array of ints, backed by the given fixed-size array.
IntArrayUnwrapper() - Constructor for class org.scijava.convert.ArrayConverters.IntArrayUnwrapper
IntArrayWrapper() - Constructor for class org.scijava.convert.ArrayConverters.IntArrayWrapper
IntCoords - Class in org.scijava.util: This class represents an (X, Y) coordinate pair in integer coordinates.
IntCoords(int, int) - Constructor for class org.scijava.util.IntCoords
IntegerToBigDecimalConverter() - Constructor for class org.scijava.convert.NumberConverters.IntegerToBigDecimalConverter
IntegerToBigIntegerConverter() - Constructor for class org.scijava.convert.NumberConverters.IntegerToBigIntegerConverter
IntegerToDoubleConverter() - Constructor for class org.scijava.convert.NumberConverters.IntegerToDoubleConverter
IntegerToLongConverter() - Constructor for class org.scijava.convert.NumberConverters.IntegerToLongConverter
Interactive - Interface in org.scijava.command: An operation (usually a Command) which is intended to be run interactively.
InteractiveCommand - Class in org.scijava.command: A command intended to be run interactively.
InteractiveCommand(String...) - Constructor for class org.scijava.command.InteractiveCommand: Creates a new interactive command.
interpret(String) - Method in class org.scijava.script.DefaultScriptInterpreter: Interprets the given line of code, which might be part of a multi-line statement.
interpret(String) - Method in interface org.scijava.script.ScriptInterpreter: Interprets the given line of code, which might be part of a multi-line statement.
interrupt() - Method in class org.scijava.util.ReadInto
intersection(IntRect) - Method in class org.scijava.util.IntRect: Returns a Rect representing the intersection of this Rect with the given Rect.
intersection(RealRect) - Method in class org.scijava.util.RealRect: Returns a Rect representing the intersection of this Rect with the given Rect.
intersects(IntRect) - Method in class org.scijava.util.IntRect: Returns true if this rect intersects the given rect.
intersects(RealRect) - Method in class org.scijava.util.RealRect: Returns true if this rect intersects the given rect.
IntRect - Class in org.scijava.util: A class for representing a rectangular region, in integer coordinates.
IntRect() - Constructor for class org.scijava.util.IntRect
IntRect(int, int, int, int) - Constructor for class org.scijava.util.IntRect
InvocationObject - Class in org.scijava.script: Deprecated.
To be removed in SciJava Common 3.0.0.
InvocationObject(String) - Constructor for class org.scijava.script.InvocationObject: Deprecated.
invoke(ScriptModule) - Method in interface org.scijava.script.process.ScriptCallback: Invokes the callback routine.
invoke(Runnable) - Method in class org.scijava.thread.DefaultThreadService
invoke(Runnable) - Method in interface org.scijava.thread.ThreadService: Executes the given code in a special dispatch thread, blocking until execution is complete.
invokeStatementBegin() - Method in interface org.scijava.script.CodeGenerator: Deprecated.
invokeStatementBegin() - Method in class org.scijava.script.CodeGeneratorJava: Deprecated.
invokeStatementEnd() - Method in interface org.scijava.script.CodeGenerator: Deprecated.
invokeStatementEnd() - Method in class org.scijava.script.CodeGeneratorJava: Deprecated.
io() - Method in class org.scijava.AbstractGateway
io() - Method in interface org.scijava.Gateway: Gets this application context's IOService.
IOEvent - Class in org.scijava.io.event: An event indicating that I/O (e.g., opening or saving) has occurred.
IOEvent(String, Object) - Constructor for class org.scijava.io.event.IOEvent: Deprecated.
use IOEvent(Location, Object) instead
IOEvent(Location, Object) - Constructor for class org.scijava.io.event.IOEvent
IOPlugin<D> - Interface in org.scijava.io: A plugin which extends an application's I/O capabilities.
ioService() - Method in class org.scijava.io.AbstractTypedIOService
IOService - Interface in org.scijava.io: Interface for high-level data I/O: opening and saving data.
is(String) - Method in class org.scijava.AbstractBasicDetails
is(String) - Method in interface org.scijava.BasicDetails: Returns true iff the given key is defined.
is(String) - Method in class org.scijava.command.CommandModuleItem
is(String, String) - Method in class org.scijava.script.process.DirectiveScriptProcessor: Checks whether some key matches the desired value, ignoring case.
isAccepted() - Method in class org.scijava.ui.dnd.event.DragEnterEvent: Gets whether the drag operation is valid.
isAccessibilityIgnored() - Method in class org.scijava.util.ReflectedUniverse: Gets whether access modifiers (protected, private, etc.) are ignored.
isActivated() - Method in class org.scijava.platform.event.AppUserSessionEvent
isActive() - Method in class org.scijava.event.DefaultEventHistory
isActive() - Method in interface org.scijava.event.EventHistory: Gets whether event history tracking is currently active.
isActiveInAppFrame() - Method in interface org.scijava.tool.Tool: When true, tool receives events when the main application frame is active.
isAltDown() - Method in class org.scijava.input.DefaultInputService
isAltDown() - Method in class org.scijava.input.InputModifiers
isAltDown() - Method in interface org.scijava.input.InputService
isAltGrDown() - Method in class org.scijava.input.DefaultInputService
isAltGrDown() - Method in class org.scijava.input.InputModifiers
isAltGrDown() - Method in interface org.scijava.input.InputService
isAlwaysActive() - Method in interface org.scijava.tool.Tool: When true, tool has no button but rather is active all the time.
isAssignable(Type, Type) - Static method in class org.scijava.util.Types: Discerns whether it would be legal to assign a reference of type source to a reference of type target.
isAutoFill() - Method in class org.scijava.command.CommandModuleItem
isAutoFill() - Method in class org.scijava.module.AbstractModuleItem
isAutoFill() - Method in class org.scijava.module.DefaultMutableModuleItem
isAutoFill() - Method in interface org.scijava.module.ModuleItem: Gets whether the item value is allowed to be auto-filled.
isBackground() - Method in class org.scijava.platform.event.AppFocusEvent
isBigEndian() - Method in interface org.scijava.io.handle.DataHandle: Returns true iff the stream's order is DataHandle.ByteOrder.BIG_ENDIAN.
isBoolean(Class<?>) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.isBoolean(java.lang.Class<?>) instead.
isBoolean(Class<?>) - Static method in class org.scijava.util.Types
isBoolean() - Method in class org.scijava.widget.DefaultWidgetModel
isBoolean() - Method in interface org.scijava.widget.WidgetModel: Gets whether the input is a boolean type (i.e., Boolean or boolean).
isButtonDown(int) - Method in class org.scijava.input.DefaultInputService
isButtonDown(int) - Method in interface org.scijava.input.InputService: Gets whether the given mouse button is currently pressed.
isByte(Class<?>) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.isByte(java.lang.Class<?>) instead.
isByte(Class<?>) - Static method in class org.scijava.util.Types
isCanceled() - Method in interface org.scijava.Cancelable: Gets whether the operation has been canceled.
isCanceled() - Method in class org.scijava.command.CommandModule
isCanceled() - Method in class org.scijava.command.ContextCommand
isCanceled() - Method in class org.scijava.command.DynamicCommand
isCanceled() - Method in class org.scijava.command.ModuleCommand
isCanceled() - Method in class org.scijava.module.process.AbstractPreprocessorPlugin
isCanceled() - Method in class org.scijava.task.DefaultTask
isCanceled() - Method in class org.scijava.ui.AbstractInputHarvesterPlugin
isCharacter(Class<?>) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.isCharacter(java.lang.Class<?>) instead.
isCharacter(Class<?>) - Static method in class org.scijava.util.Types
isCharacter() - Method in class org.scijava.widget.DefaultWidgetModel
isCharacter() - Method in interface org.scijava.widget.WidgetModel: Gets whether the input is a character type (i.e., Character or char).
isCheckBox() - Method in class org.scijava.menu.ShadowMenu: Returns true if this node is a checkbox.
isClassObsolete(String) - Method in interface org.scijava.annotations.AbstractIndexWriter.StreamFactory
isClosed - Variable in class org.scijava.display.AbstractDisplay
isCompatible(MIMEType) - Method in class org.scijava.ui.dnd.MIMEType: Gets whether this MIME type is compatible with the given one.
isCompatible(Class<?>) - Method in class org.scijava.ui.dnd.MIMEType: Gets whether this MIME type represents objects of the given Java class.
isCompatible(UserInterface) - Method in class org.scijava.ui.headless.HeadlessDisplayViewer
isCompatible(UserInterface) - Method in interface org.scijava.ui.viewer.DisplayViewer: Returns true if this display viewer can be used with the given UI.
isCompiledLanguage() - Method in interface org.scijava.script.ScriptLanguage: True iff this language requires a compilation step.
isConsumed() - Method in class org.scijava.event.SciJavaEvent
isContextual() - Method in class org.scijava.console.OutputEvent: Returns true if the output was produced outside of a specific SciJava Context.
isCtrlDown() - Method in class org.scijava.input.DefaultInputService
isCtrlDown() - Method in class org.scijava.input.InputModifiers
isCtrlDown() - Method in interface org.scijava.input.InputService
isCtrlReplacedWithMeta() - Static method in class org.scijava.input.Accelerator
isDebug() - Method in interface org.scijava.log.Logger
isDefaultUI(String) - Method in class org.scijava.ui.DefaultUIService
isDefaultUI(String) - Method in interface org.scijava.ui.UIService: Gets whether the UI with the given name (or class name) is the default one.
isDirectory() - Method in interface org.scijava.io.location.BrowsableLocation: Tests whether this location is a directory, meaning that it can have children.
isDirectory() - Method in class org.scijava.io.location.FileLocation
isDispatchThread() - Method in class org.scijava.thread.DefaultThreadService
isDispatchThread() - Method in interface org.scijava.thread.ThreadService: Gets whether the current thread is a dispatch thread for use with ThreadService.invoke(Runnable) and ThreadService.queue(Runnable).
isDisplaying(Object) - Method in interface org.scijava.display.Display: Tests whether the display is currently visualizing the given object.
isDone() - Method in class org.scijava.task.DefaultTask
isDone() - Method in interface org.scijava.task.Task: Checks whether the task has completed.
isDouble(Class<?>) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.isDouble(java.lang.Class<?>) instead.
isDouble(Class<?>) - Static method in class org.scijava.util.Types
isEmpty() - Method in class org.scijava.display.AbstractDisplay
isEmpty() - Method in class org.scijava.menu.ShadowMenu
isEmpty() - Method in class org.scijava.object.ObjectIndex
isEmpty() - Method in class org.scijava.util.LastRecentlyUsed
isEnabled() - Method in class org.scijava.AbstractUIDetails
isEnabled() - Method in class org.scijava.command.DynamicCommandInfo
isEnabled() - Method in interface org.scijava.UIDetails: Gets whether the object should be enabled in the user interface.
isError() - Method in interface org.scijava.log.Logger
isExpectingMoreInput() - Method in class org.scijava.script.DefaultScriptInterpreter
isExpectingMoreInput() - Method in interface org.scijava.script.ScriptInterpreter
isFileLocationCachingEnabled() - Method in class org.scijava.download.DiskLocationCache
isFirstRun() - Method in class org.scijava.welcome.DefaultWelcomeService
isFirstRun() - Method in interface org.scijava.welcome.WelcomeService: Returns true iff this version of the running SJC application has not run before.
isFlag(LinkedList<String>) - Method in class org.scijava.console.AbstractConsoleArgument: Check if the given list of arguments starts with a flag that matches this ConsoleArgument.
isFloat(Class<?>) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.isFloat(java.lang.Class<?>) instead.
isFloat(Class<?>) - Static method in class org.scijava.util.Types
isForeground() - Method in class org.scijava.platform.event.AppFocusEvent
isHeadless() - Method in class org.scijava.ui.DefaultUIService
isHeadless() - Method in interface org.scijava.ui.UIService: Gets whether the UI is running in headless mode (no UI).
isHidden() - Method in class org.scijava.platform.event.AppVisibleEvent
isInfo() - Method in interface org.scijava.log.Logger
isInitialized() - Method in class org.scijava.widget.DefaultWidgetModel
isInitialized() - Method in interface org.scijava.widget.WidgetModel: Gets the widget's initialization state.
isInjectable(Class<?>) - Method in class org.scijava.Context: Reports whether a parameter of the given type would be assigned a value as a consequence of calling Context.inject(Object).
isInput() - Method in class org.scijava.module.AbstractModuleItem
isInput() - Method in interface org.scijava.module.ModuleItem: Gets whether the item is a module input.
isInputResolved(String) - Method in class org.scijava.module.AbstractModule
isInputResolved(String) - Method in interface org.scijava.module.Module: Gets the resolution status of the input with the given name.
isInstance(Class<?>, Object) - Static method in class org.scijava.util.ReflectedUniverse: Returns whether the given object is compatible with the specified class for the purposes of reflection.
isInstance(Object, Class<?>) - Static method in class org.scijava.util.Types: Checks whether the given object can be cast to the specified type.
isInteger(Class<?>) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.isInteger(java.lang.Class<?>) instead.
isInteger(Class<?>) - Static method in class org.scijava.util.Types
isInteractive() - Method in class org.scijava.command.CommandInfo
isInteractive() - Method in class org.scijava.command.DynamicCommandInfo
isInteractive() - Method in interface org.scijava.module.ModuleInfo: Gets whether the module is intended to be run interactively.
isKeyDown(KeyCode) - Method in class org.scijava.input.DefaultInputService
isKeyDown(KeyCode) - Method in interface org.scijava.input.InputService
isLabeled() - Method in interface org.scijava.widget.InputWidget: Returns true iff the widget should be labeled with the parameter label.
isLeaf() - Method in class org.scijava.menu.ShadowMenu: Returns true if this node has no children.
isLeftButtonDown() - Method in class org.scijava.input.InputModifiers
isLevel(int) - Method in interface org.scijava.log.Logger
isLinux() - Static method in class org.scijava.util.PlatformUtils: Whether the operating system is Linux-based.
isList() - Method in interface org.scijava.parse.Items: Returns true iff there are no named key/value pairs among the items.
isLittleEndian() - Method in interface org.scijava.io.handle.DataHandle: Returns true iff the stream's order is DataHandle.ByteOrder.LITTLE_ENDIAN.
isLong(Class<?>) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.isLong(java.lang.Class<?>) instead.
isLong(Class<?>) - Static method in class org.scijava.util.Types
isMac() - Static method in class org.scijava.util.PlatformUtils: Whether the operating system is Mac-based.
isMap() - Method in interface org.scijava.parse.Items: Returns true iff all items are named key/value pairs.
isMessage() - Method in class org.scijava.widget.DefaultWidgetModel
isMessage() - Method in interface org.scijava.widget.InputWidget: Returns true iff the widget should be considered a read-only "message" rather than a bidirectional input widget.
isMessage() - Method in interface org.scijava.widget.WidgetModel: Gets whether the input is a message.
isMessageOnly() - Method in class org.scijava.widget.AbstractInputPanel
isMessageOnly() - Method in interface org.scijava.widget.InputPanel: Returns true if the input panel consists of only messages.
isMetaDown() - Method in class org.scijava.input.DefaultInputService
isMetaDown() - Method in class org.scijava.input.InputModifiers
isMetaDown() - Method in interface org.scijava.input.InputService
isMiddleButtonDown() - Method in class org.scijava.input.InputModifiers
isMultipleChoice() - Method in class org.scijava.widget.DefaultWidgetModel
isMultipleChoice() - Method in interface org.scijava.widget.WidgetModel: Gets whether the input provides a restricted set of choices.
isNullOrEmpty(String) - Static method in class org.scijava.util.StringUtils
isNumber(Class<?>) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.isNumber(java.lang.Class<?>) instead.
isNumber(Class<?>) - Static method in class org.scijava.util.Types
isNumber() - Method in class org.scijava.widget.DefaultWidgetModel
isNumber() - Method in interface org.scijava.widget.WidgetModel: Gets whether the input is a number type (e.g., int, float or any Number implementation.
isOutput() - Method in class org.scijava.module.AbstractModuleItem
isOutput() - Method in interface org.scijava.module.ModuleItem: Gets whether the item is a module output.
isOutputResolved(String) - Method in class org.scijava.module.AbstractModule
isOutputResolved(String) - Method in interface org.scijava.module.Module: Gets the resolution status of the output with the given name.
isPersisted() - Method in class org.scijava.command.CommandModuleItem
isPersisted() - Method in class org.scijava.module.AbstractModuleItem
isPersisted() - Method in class org.scijava.module.DefaultMutableModuleItem
isPersisted() - Method in interface org.scijava.module.ModuleItem: Gets whether to remember the most recent value of the parameter.
isPopupTrigger() - Method in class org.scijava.display.event.input.MsButtonEvent
isPOSIX() - Static method in class org.scijava.util.PlatformUtils: Whether the operating system is POSIX compliant.
isRadioButton() - Method in class org.scijava.menu.ShadowMenu: Returns true if this node is a radio button.
isReadable() - Method in class org.scijava.download.MultiWriteHandle
isReadable() - Method in class org.scijava.io.handle.AbstractHigherOrderHandle
isReadable() - Method in class org.scijava.io.handle.BytesHandle
isReadable() - Method in interface org.scijava.io.handle.DataHandle: Gets whether reading from this handle is supported.
isReadable() - Method in class org.scijava.io.handle.DummyHandle
isReadable() - Method in class org.scijava.io.handle.FileHandle
isReadable() - Method in class org.scijava.io.handle.ReadBufferDataHandle
isReadable() - Method in class org.scijava.io.handle.WriteBufferDataHandle
isReadOnly() - Method in interface org.scijava.io.ByteBank
isReadOnly() - Method in class org.scijava.io.nio.ByteBufferByteBank
isReady() - Method in class org.scijava.script.DefaultScriptInterpreter
isReady() - Method in interface org.scijava.script.ScriptInterpreter
isRequired() - Method in class org.scijava.command.CommandModuleItem
isRequired() - Method in class org.scijava.module.AbstractModuleItem
isRequired() - Method in class org.scijava.module.DefaultMutableModuleItem
isRequired() - Method in interface org.scijava.module.ModuleItem: Gets whether the item value must be specified (i.e., no default).
isResolved(String) - Method in interface org.scijava.module.Module: Deprecated.
Use Module.isInputResolved(String) instead.
isReturnValueAppended() - Method in class org.scijava.script.ScriptInfo: Gets whether the return value is appended as an additional output.
isReturnValueDeclared() - Method in class org.scijava.script.ScriptInfo: Deprecated.
Use ScriptInfo.isReturnValueAppended() instead.
isRightButtonDown() - Method in class org.scijava.input.InputModifiers
isRoot() - Method in class org.scijava.log.LogSource
isSelectable() - Method in class org.scijava.AbstractUIDetails
isSelectable() - Method in class org.scijava.command.DynamicCommandInfo
isSelectable() - Method in interface org.scijava.UIDetails: Gets whether the object can be selected (e.g., checking and unchecking its menu item) in the user interface.
isSelected() - Method in class org.scijava.AbstractUIDetails
isSelected() - Method in class org.scijava.command.DynamicCommandInfo
isSelected() - Method in interface org.scijava.UIDetails: Gets whether the object is selected (e.g., its menu item is checked) in the user interface.
isSeparatorNeeded(Tool, Tool) - Method in interface org.scijava.tool.ToolService: Returns true if the two specified tools should have a separator between them on the tool bar.
isShiftDown() - Method in class org.scijava.input.DefaultInputService
isShiftDown() - Method in class org.scijava.input.InputModifiers
isShiftDown() - Method in interface org.scijava.input.InputService
isShort(Class<?>) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.isShort(java.lang.Class<?>) instead.
isShort(Class<?>) - Static method in class org.scijava.util.Types
isSleeping() - Method in class org.scijava.platform.event.AppSleepEvent
isStderr() - Method in class org.scijava.console.OutputEvent: Returns true of the source of the output is stderr.
isStdout() - Method in class org.scijava.console.OutputEvent: Returns true of the source of the output is stdout.
isStrict() - Method in class org.scijava.Context
isStyle(String) - Method in class org.scijava.widget.DefaultWidgetModel
isStyle(String) - Method in interface org.scijava.widget.WidgetModel: Gets whether the widget is the given style.
isStyle(String, String) - Static method in class org.scijava.widget.WidgetStyle: Check whether a given widget style contains the target style.
isStyle(ModuleItem<?>, String) - Static method in class org.scijava.widget.WidgetStyle: Check whether a given ModuleItem has the target style.
isSuccessful() - Method in class org.scijava.ui.dnd.event.DropEvent: Gets whether the drop operation was successful.
isSupported(MIMEType) - Method in class org.scijava.ui.dnd.DefaultDragAndDropData
isSupported(MIMEType) - Method in interface org.scijava.ui.dnd.DragAndDropData: Gets whether the data can be provided as an object with the given MIME type.
isSupported(Class<?>) - Method in interface org.scijava.ui.dnd.DragAndDropData: Gets whether the data can be provided as an object of the given Java class.
isTarget() - Method in interface org.scijava.platform.Platform: Determines whether the given platform is applicable to this runtime.
isText(Class<?>) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.isText(java.lang.Class<?>) instead.
isText(Class<?>) - Static method in class org.scijava.util.Types
isText() - Method in class org.scijava.widget.DefaultWidgetModel
isText() - Method in interface org.scijava.widget.WidgetModel: Gets whether the input is a text type (i.e., String, Character or char.
isToggle() - Method in class org.scijava.menu.ShadowMenu: Returns true if this node is selectable (checkbox or radio button).
isTrace() - Method in interface org.scijava.log.Logger
isType(Class<?>) - Method in class org.scijava.widget.DefaultWidgetModel
isType(Class<?>) - Method in interface org.scijava.widget.WidgetModel: Gets whether the input is compatible with the given type.
isUniqueName(String) - Method in class org.scijava.display.DefaultDisplayService
isUniqueName(String) - Method in interface org.scijava.display.DisplayService: Checks whether the given name is already taken by an existing display.
isValid() - Method in class org.scijava.command.CommandInfo
isValid() - Method in class org.scijava.command.DynamicCommandInfo
isValid() - Method in class org.scijava.module.MethodRef
isValid() - Method in interface org.scijava.module.ModuleInfo
isValid() - Method in interface org.scijava.Validated: Gets whether the object is completely valid (i.e., no problems during initialization).
isVisible() - Method in class org.scijava.AbstractUIDetails
isVisible() - Method in class org.scijava.platform.event.AppVisibleEvent
isVisible() - Method in class org.scijava.ui.AbstractUserInterface
isVisible() - Method in class org.scijava.ui.DefaultUIService
isVisible(String) - Method in class org.scijava.ui.DefaultUIService
isVisible() - Method in class org.scijava.ui.headless.HeadlessUI
isVisible() - Method in interface org.scijava.ui.UIService: Gets whether the default UI is visible.
isVisible(String) - Method in interface org.scijava.ui.UIService: Gets whether the UI with the given name or class name is visible.
isVisible() - Method in interface org.scijava.ui.UserInterface: Whether this UI is visible onscreen.
isVisible() - Method in interface org.scijava.UIDetails: Gets whether the object should be visible in the user interface.
isWaking() - Method in class org.scijava.platform.event.AppSleepEvent
isWarn() - Method in interface org.scijava.log.Logger
isWarning() - Method in class org.scijava.app.event.StatusEvent: Returns whether or not this is a warning event.
isWindows() - Static method in class org.scijava.util.PlatformUtils: Whether the operating system is Windows-based.
isWritable() - Method in class org.scijava.download.MultiWriteHandle
isWritable() - Method in class org.scijava.io.handle.AbstractHigherOrderHandle
isWritable() - Method in class org.scijava.io.handle.BytesHandle
isWritable() - Method in interface org.scijava.io.handle.DataHandle: Gets whether writing to this handle is supported.
isWritable() - Method in class org.scijava.io.handle.DummyHandle
isWritable() - Method in class org.scijava.io.handle.FileHandle
Item - Interface in org.scijava.parse: An item from the list of parsed items; i.e.: a name/value pair.
ItemIO - Enum in org.scijava: Defines the input/output type of a module.
Items - Interface in org.scijava.parse: An ordered list of items, some of which might be key/value pairs, and some of which might be raw values.
ItemVisibility - Enum in org.scijava: Defines the "visibility" of a parameter.
iterator() - Method in class org.scijava.annotations.Index
iterator() - Method in class org.scijava.display.AbstractDisplay
iterator() - Method in class org.scijava.menu.ShadowMenu
iterator() - Method in class org.scijava.object.ObjectIndex
iterator() - Method in class org.scijava.util.IteratorPlus
iterator() - Method in class org.scijava.util.LastRecentlyUsed: Returns an Iterator.
IteratorPlus<E> - Class in org.scijava.util: A class that provides more thorough support for iteration.
IteratorPlus(Iterable<E>) - Constructor for class org.scijava.util.IteratorPlus
IteratorPlus(Enumeration<E>) - Constructor for class org.scijava.util.IteratorPlus
IteratorPlus(Iterator<E>) - Constructor for class org.scijava.util.IteratorPlus
IVORY - Static variable in class org.scijava.util.Colors

J

javaVendor() - Method in interface org.scijava.platform.Platform: Java Runtime Environment vendor to match.
javaVersion() - Method in interface org.scijava.platform.Platform: Minimum required Java Runtime Environment version.
jump(long) - Method in interface org.scijava.io.handle.StreamHandle

K

KeyCode - Enum in org.scijava.input: A UI-independent enumeration of keyboard key codes.
KHAKI - Static variable in class org.scijava.util.Colors
KyEvent - Class in org.scijava.display.event.input: An event indicating keyboard activity in a display.
KyEvent(Display<?>, InputModifiers, int, int, char, KeyCode) - Constructor for class org.scijava.display.event.input.KyEvent
KyPressedEvent - Class in org.scijava.display.event.input: An event indicating a keyboard key was pressed in a display.
KyPressedEvent(Display<?>, InputModifiers, int, int, char, KeyCode) - Constructor for class org.scijava.display.event.input.KyPressedEvent
KyReleasedEvent - Class in org.scijava.display.event.input: An event indicating a keyboard key was released in a display.
KyReleasedEvent(Display<?>, InputModifiers, int, int, char, KeyCode) - Constructor for class org.scijava.display.event.input.KyReleasedEvent
KyTypedEvent - Class in org.scijava.display.event.input: An event indicating a keyboard key was typed (i.e., pressed and released) in a display.
KyTypedEvent(Display<?>, InputModifiers, int, int, char, KeyCode) - Constructor for class org.scijava.display.event.input.KyTypedEvent

L

lang(String) - Method in class org.scijava.script.ScriptREPL: Creates a new ScriptInterpreter to interpret statements, preserving existing variables from the previous interpreter.
lang(ScriptLanguage) - Method in class org.scijava.script.ScriptREPL: Creates a new ScriptInterpreter to interpret statements, preserving existing variables from the previous interpreter.
langs() - Method in class org.scijava.script.ScriptREPL
LAST - Static variable in class org.scijava.Priority: Priority for items that must be sorted last.
LAST_PRIORITY - Static variable in class org.scijava.Priority: Deprecated.
Use Priority.LAST instead.
lastIndexOf(Object) - Method in class org.scijava.display.AbstractDisplay
lastIndexOf(boolean) - Method in class org.scijava.util.BoolArray
lastIndexOf(Object) - Method in class org.scijava.util.BoolArray
lastIndexOf(byte) - Method in class org.scijava.util.ByteArray
lastIndexOf(Object) - Method in class org.scijava.util.ByteArray
lastIndexOf(char) - Method in class org.scijava.util.CharArray
lastIndexOf(Object) - Method in class org.scijava.util.CharArray
lastIndexOf(double) - Method in class org.scijava.util.DoubleArray
lastIndexOf(Object) - Method in class org.scijava.util.DoubleArray
lastIndexOf(float) - Method in class org.scijava.util.FloatArray
lastIndexOf(Object) - Method in class org.scijava.util.FloatArray
lastIndexOf(int) - Method in class org.scijava.util.IntArray
lastIndexOf(Object) - Method in class org.scijava.util.IntArray
lastIndexOf(long) - Method in class org.scijava.util.LongArray
lastIndexOf(Object) - Method in class org.scijava.util.LongArray
lastIndexOf(Object) - Method in class org.scijava.util.ObjectArray
lastIndexOf(short) - Method in class org.scijava.util.ShortArray
lastIndexOf(Object) - Method in class org.scijava.util.ShortArray
lastModified() - Method in class org.scijava.download.MultiWriteHandle
lastModified() - Method in interface org.scijava.io.handle.DataHandle: Gets the last modified timestamp of the location.
lastModified() - Method in class org.scijava.io.handle.FileHandle
LastRecentlyUsed<T> - Class in org.scijava.util: A simple container for N last-recently-used items.
LastRecentlyUsed(int) - Constructor for class org.scijava.util.LastRecentlyUsed
launch(String...) - Method in class org.scijava.AbstractGateway
launch(String...) - Method in interface org.scijava.Gateway: Perform launch operations associated with this gateway.
LAVENDER - Static variable in class org.scijava.util.Colors
LAVENDERBLUSH - Static variable in class org.scijava.util.Colors
LAWNGREEN - Static variable in class org.scijava.util.Colors
LazyObjects<T> - Interface in org.scijava.object: Interface for objects created lazily.
LEFT_BUTTON - Static variable in class org.scijava.display.event.input.MsButtonEvent
LegacyReader - Class in org.scijava.annotations.legacy: Reads legacy annotation indexes.
LegacyReader(InputStream) - Constructor for class org.scijava.annotations.legacy.LegacyReader
LEMONCHIFFON - Static variable in class org.scijava.util.Colors
len - Variable in class org.scijava.util.LineOutputStream
length() - Method in class org.scijava.download.MultiWriteHandle
length() - Method in class org.scijava.io.handle.AbstractHigherOrderHandle
length() - Method in class org.scijava.io.handle.BytesHandle
length() - Method in interface org.scijava.io.handle.DataHandle: Returns the length of the data in bytes.
length() - Method in class org.scijava.io.handle.DummyHandle
length() - Method in class org.scijava.io.handle.FileHandle
length() - Method in class org.scijava.io.handle.ReadBufferDataHandle
length() - Method in class org.scijava.io.handle.WriteBufferDataHandle
level() - Method in class org.scijava.log.LogMessage: Log level of the message.
LIGHTBLUE - Static variable in class org.scijava.util.Colors
LIGHTCORAL - Static variable in class org.scijava.util.Colors
LIGHTCYAN - Static variable in class org.scijava.util.Colors
LIGHTGOLDENRODYELLOW - Static variable in class org.scijava.util.Colors
LIGHTGRAY - Static variable in class org.scijava.util.Colors
LIGHTGREEN - Static variable in class org.scijava.util.Colors
LIGHTGREY - Static variable in class org.scijava.util.Colors
LIGHTPINK - Static variable in class org.scijava.util.Colors
LIGHTSALMON - Static variable in class org.scijava.util.Colors
LIGHTSEAGREEN - Static variable in class org.scijava.util.Colors
LIGHTSKYBLUE - Static variable in class org.scijava.util.Colors
LIGHTSLATEGRAY - Static variable in class org.scijava.util.Colors
LIGHTSLATEGREY - Static variable in class org.scijava.util.Colors
LIGHTSTEELBLUE - Static variable in class org.scijava.util.Colors
LIGHTYELLOW - Static variable in class org.scijava.util.Colors
LIME - Static variable in class org.scijava.util.Colors
LIMEGREEN - Static variable in class org.scijava.util.Colors
limitPath(String, int) - Static method in class org.scijava.util.FileUtils: Compacts a path into a given number of characters.
LINEN - Static variable in class org.scijava.util.Colors
LineOutputStream - Class in org.scijava.util: This class hides a line-based output behind an OutputStream.
LineOutputStream() - Constructor for class org.scijava.util.LineOutputStream
LIST_BOX_STYLE - Static variable in interface org.scijava.widget.ChoiceWidget: Widget style for list boxes.
listContents(URL) - Static method in class org.scijava.util.FileUtils: Recursively lists the contents of the referenced directory.
listContents(URL, boolean, boolean) - Static method in class org.scijava.util.FileUtils: Lists all contents of the referenced directory.
ListDragAndDropHandler - Class in org.scijava.ui.dnd: Drag-and-drop handler for lists of objects.
ListDragAndDropHandler() - Constructor for class org.scijava.ui.dnd.ListDragAndDropHandler
ListEvent<T> - Class in org.scijava.object.event: An event indicating something has happened to a list of items.
ListEvent(T) - Constructor for class org.scijava.object.event.ListEvent
ListEvent(Collection<? extends T>) - Constructor for class org.scijava.object.event.ListEvent
listIterator() - Method in class org.scijava.display.AbstractDisplay
listIterator(int) - Method in class org.scijava.display.AbstractDisplay
ListUtils - Class in org.scijava.util: Useful methods for working with Lists.
load(Class<A>) - Static method in class org.scijava.annotations.Index: Loads the index of all classes annotated with the specified annotation.
load(Class<A>, ClassLoader) - Static method in class org.scijava.annotations.Index: Loads the index of all classes annotated with the specified annotation.
load(ModuleItem<T>) - Method in class org.scijava.module.DefaultModuleService
load(ModuleItem<T>) - Method in interface org.scijava.module.ModuleService: Returns the value, if any, stored in the PrefService for the given ModuleItem.
load() - Method in class org.scijava.options.OptionsPlugin: Loads option values from persistent storage.
load(String) - Static method in class org.scijava.util.Types: Loads the class with the given name, using the current thread's context class loader, or null if it cannot be loaded.
load(String, ClassLoader) - Static method in class org.scijava.util.Types: Loads the class with the given name, using the specified ClassLoader, or null if it cannot be loaded.
load(String, boolean) - Static method in class org.scijava.util.Types: Loads the class with the given name, using the current thread's context class loader.
load(String, ClassLoader, boolean) - Static method in class org.scijava.util.Types: Loads the class with the given name, using the specified ClassLoader, or null if it cannot be loaded.
loadChecksum(Location) - Method in class org.scijava.download.DiskLocationCache
loadChecksum(Location) - Method in interface org.scijava.download.LocationCache: Loads the checksum value which corresponds to the cached location.
loadClass() - Method in class org.scijava.command.CommandInfo
loadClass() - Method in interface org.scijava.Instantiable: Loads the class corresponding to the objects that are created by Instantiable.createInstance().
loadClass() - Method in class org.scijava.plugin.PluginInfo
loadClass(String) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.load(String) instead.
loadClass(String, ClassLoader) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.load(String, ClassLoader) instead.
loadClass(String, boolean) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.load(String, boolean) instead.
loadClass(String, ClassLoader, boolean) - Static method in class org.scijava.util.ClassUtils: Deprecated.
Use Types.load(String, ClassLoader, boolean) instead.
loadDelegateClass() - Method in class org.scijava.command.CommandInfo
loadDelegateClass() - Method in interface org.scijava.module.ModuleInfo: Loads the class containing the module's actual implementation.
loadDelegateClass() - Method in interface org.scijava.module.MutableModuleInfo
loadDelegateClass() - Method in class org.scijava.script.ScriptInfo
loadInputs(Module) - Method in class org.scijava.module.DefaultModuleService
loadInputs(Module) - Method in interface org.scijava.module.ModuleService: Loads values from persistent storage into the given Module.
LoadInputsPreprocessor - Class in org.scijava.module.process: A preprocessor for loading populated input values from persistent storage.
LoadInputsPreprocessor() - Constructor for class org.scijava.module.process.LoadInputsPreprocessor
loadService(Class<S>) - Method in class org.scijava.service.ServiceHelper: Obtains a service compatible with the given class, instantiating it (and registering it in the index) if necessary.
loadServices() - Method in class org.scijava.service.ServiceHelper: Ensures all candidate service classes are registered in the index, locating and instantiating compatible services as needed.
loadValue() - Method in class org.scijava.module.AbstractModuleItem: Deprecated.
loadValue() - Method in interface org.scijava.module.ModuleItem: Deprecated.
loadXML(InputStream) - Static method in class org.scijava.util.XML: Loads an XML document from the given input stream.
loadXML(String) - Static method in class org.scijava.util.XML: Loads an XML document from the given input stream.
Locatable - Interface in org.scijava: An object whose location is defined by a URL string.
location() - Method in class org.scijava.AbstractGateway
location() - Method in interface org.scijava.Gateway: Gets this application context's LocationService.
Location - Interface in org.scijava.io.location: A location is a data descriptor, such as a file on disk, a remote URL, or a database connection.
location(Class<?>) - Static method in class org.scijava.util.Types: Gets the base location of the given class.
location(Class<?>, boolean) - Static method in class org.scijava.util.Types: Gets the base location of the given class.
LocationCache - Interface in org.scijava.download: An object which knows how to convert a slow (typically remote) Location to a faster (typically local) one.
LocationResolver - Interface in org.scijava.io.location: LocationResolver plugins allow resolving an URI to a Location.
locationService() - Method in class org.scijava.io.AbstractTypedIOService
LocationService - Interface in org.scijava.io.location: A service that allows resolving of URIs to Locations, using LocationResolver plugins for translation.
log() - Method in class org.scijava.AbstractGateway
log() - Method in class org.scijava.command.InteractiveCommand
LOG - Static variable in class org.scijava.event.bushe.ThreadSafeEventService
log() - Method in interface org.scijava.Gateway: Gets this application context's LogService.
log() - Method in interface org.scijava.log.Logged: Gets the LogService to use when logging activities.
log(int, Object) - Method in interface org.scijava.log.Logger: Logs a message.
log(int, Throwable) - Method in interface org.scijava.log.Logger: Logs an exception.
log(int, Object, Throwable) - Method in interface org.scijava.log.Logger: Logs a message with an exception.
log() - Method in interface org.scijava.plugin.RichPlugin
log() - Method in class org.scijava.script.AbstractScriptEngine
LOG_LEVEL_BY_SOURCE_PROPERTY - Static variable in interface org.scijava.log.LogService
LOG_LEVEL_PROPERTY - Static variable in interface org.scijava.log.LogService: System property to set for overriding the default logging level.
Logged - Interface in org.scijava.log: Interface for the objects which want to log their activities.
Logger - Interface in org.scijava.log: Interface for objects which can produce log messages.
LoggerPreprocessor - Class in org.scijava.module.process: This PreprocessorPlugin affects Modules with a single Parameter of type Logger.
LoggerPreprocessor() - Constructor for class org.scijava.module.process.LoggerPreprocessor
LogLevel - Class in org.scijava.log: Constants for specifying a logger's level of verbosity.
logLevel() - Method in class org.scijava.log.LogSource
LogListener - Interface in org.scijava.log: Callback function used by Logger.
LogMessage - Class in org.scijava.log: A log message broadcast by a Logger.
LogMessage(LogSource, int, Object, Throwable) - Constructor for class org.scijava.log.LogMessage
LogMessage(LogSource, int, Object) - Constructor for class org.scijava.log.LogMessage
LogService - Interface in org.scijava.log: Interface for the logging service.
LogSource - Class in org.scijava.log: Identifies where a LogMessage came from.
LongArray - Class in org.scijava.util: An extensible array of long elements.
LongArray() - Constructor for class org.scijava.util.LongArray: Constructs an extensible array of longs, backed by a fixed-size array.
LongArray(int) - Constructor for class org.scijava.util.LongArray: Constructs an extensible array of longs, backed by a fixed-size array.
LongArray(long[]) - Constructor for class org.scijava.util.LongArray: Constructs an extensible array of longs, backed by the given fixed-size array.
LongArrayUnwrapper() - Constructor for class org.scijava.convert.ArrayConverters.LongArrayUnwrapper
LongArrayWrapper() - Constructor for class org.scijava.convert.ArrayConverters.LongArrayWrapper
LongToBigDecimalConverter() - Constructor for class org.scijava.convert.NumberConverters.LongToBigDecimalConverter
LongToBigIntegerConverter() - Constructor for class org.scijava.convert.NumberConverters.LongToBigIntegerConverter
lookup(T) - Method in class org.scijava.util.LastRecentlyUsed: Looks up the index for a given entry.
lookupClass(String) - Method in class org.scijava.script.DefaultScriptService
lookupClass(String) - Method in interface org.scijava.script.ScriptService: TODO
loop() - Method in class org.scijava.script.ScriptREPL: Starts a Read-Eval-Print-Loop from the standard input stream, returning when the loop terminates.
loop(InputStream) - Method in class org.scijava.script.ScriptREPL: Starts a Read-Eval-Print-Loop from the given input stream, returning when the loop terminates.
loop(Supplier<?>) - Method in class org.scijava.script.ScriptREPL: Starts a Read-Eval-Print-Loop from the given source, returning when the loop terminates.
LOW - Static variable in class org.scijava.Priority: Priority for items that prefer to be sorted later.
LOW_PRIORITY - Static variable in class org.scijava.Priority: Deprecated.
Use Priority.LOW instead.

M

MAGENTA - Static variable in class org.scijava.util.Colors
main() - Method in class org.scijava.AbstractGateway
main(String[]) - Static method in class org.scijava.annotations.AnnotationCombiner
main(String...) - Static method in class org.scijava.annotations.EclipseHelper: Updates the annotation index in the current Eclipse project.
main() - Method in interface org.scijava.Gateway: Gets this application context's MainService.
main(String...) - Static method in class org.scijava.script.ScriptCLI
main(String...) - Static method in class org.scijava.script.ScriptREPL
main(String[]) - Static method in class org.scijava.util.CombineAnnotations: Deprecated.
Use AnnotationCombiner.main(String[]) instead.
main(String[]) - Static method in class org.scijava.util.MersenneTwisterFast: Tests the code.
main(String...) - Static method in class org.scijava.util.MetaInfCombiner
main(String[]) - Static method in class org.scijava.util.MirrorWebsite
main(String[]) - Static method in class org.scijava.util.ReflectedUniverse: Allows exploration of a reflected universe in an interactive environment.
main(String...) - Static method in class org.scijava.util.ServiceCombiner
MainArgument - Class in org.scijava.main.console: Handles the --main command line argument, which launches an alternative main class.
MainArgument() - Constructor for class org.scijava.main.console.MainArgument
MainCodeRunner - Class in org.scijava.main.run: Executes the given class's main method.
MainCodeRunner() - Constructor for class org.scijava.main.run.MainCodeRunner
MainService - Interface in org.scijava.main: Interface for services which manage dynamic execution of main methods.
MainService.Main - Interface in org.scijava.main: Data structure containing main class and argument values.
makeArray(byte[], int, boolean, boolean) - Static method in class org.scijava.util.Bytes: Converts a byte array to the appropriate 1D primitive type array.
makeArray2D(byte[], int, boolean, boolean, int) - Static method in class org.scijava.util.Bytes: Converts a byte array to the appropriate 2D primitive type array.
makeSigned(byte[]) - Static method in class org.scijava.util.Bytes
makeSigned(short[]) - Static method in class org.scijava.util.Bytes
makeSigned(int[]) - Static method in class org.scijava.util.Bytes
Manifest - Class in org.scijava.util: Helper class for working with JAR manifests.
map() - Static method in class org.scijava.util.Colors: Gets the table of all preset colors.
mark(int) - Method in class org.scijava.io.handle.DataHandleInputStream
markSupported() - Method in class org.scijava.io.handle.DataHandleInputStream
MAROON - Static variable in class org.scijava.util.Colors
matchVersionedFilename(String) - Static method in class org.scijava.util.FileUtils: Deprecated.
see FileUtils.stripFilenameVersion(String)
MAX_FILES_SHOWN - Static variable in interface org.scijava.io.RecentFileService
MAX_SEARCH_SIZE - Static variable in interface org.scijava.io.handle.DataHandle: Default bound on bytes to search when searching through the stream.
md5(byte[]) - Static method in class org.scijava.util.DigestUtils: Gets the given byte array's MD5 checksum, or null if unavailable.
MEDIUMAQUAMARINE - Static variable in class org.scijava.util.Colors
MEDIUMBLUE - Static variable in class org.scijava.util.Colors
MEDIUMORCHID - Static variable in class org.scijava.util.Colors
MEDIUMPURPLE - Static variable in class org.scijava.util.Colors
MEDIUMSEAGREEN - Static variable in class org.scijava.util.Colors
MEDIUMSLATEBLUE - Static variable in class org.scijava.util.Colors
MEDIUMSPRINGGREEN - Static variable in class org.scijava.util.Colors
MEDIUMTURQUOISE - Static variable in class org.scijava.util.Colors
MEDIUMVIOLETRED - Static variable in class org.scijava.util.Colors
menu() - Method in class org.scijava.AbstractGateway
menu() - Method in interface org.scijava.Gateway: Gets this application context's MenuService.
Menu - Annotation Type in org.scijava.plugin: One item of a Plugin's menu path.
MenuConstants - Class in org.scijava.menu: Useful constants when defining application menu entries.
MenuCreator<T> - Interface in org.scijava.menu: A menu builder responsible for translating a ShadowMenu structure into a menu for a particular user interface.
MenuEntry - Class in org.scijava: One component of a menu path, for use with MenuPath.
MenuEntry(String) - Constructor for class org.scijava.MenuEntry
MenuEntry(String, double) - Constructor for class org.scijava.MenuEntry
MenuEntry(String, double, char, Accelerator, String) - Constructor for class org.scijava.MenuEntry
MenuEvent - Class in org.scijava.menu.event: An event indicating something has happened to the MenuService's ShadowMenu.
MenuEvent(ShadowMenu) - Constructor for class org.scijava.menu.event.MenuEvent
MenuEvent(Collection<? extends ShadowMenu>) - Constructor for class org.scijava.menu.event.MenuEvent
MenuPath - Class in org.scijava: A path in a hierarchical menu structure, for use with UIDetails.
MenuPath() - Constructor for class org.scijava.MenuPath: Creates an empty menu path.
MenuPath(Collection<? extends MenuEntry>) - Constructor for class org.scijava.MenuPath: Creates a menu path with the given entries.
MenuPath(String) - Constructor for class org.scijava.MenuPath: Creates a menu path with entries parsed from the given string.
MenuPath(String, String) - Constructor for class org.scijava.MenuPath: Creates a menu path with entries parsed from the given string, splitting on the specified separator.
MenuPath(String, String, boolean) - Constructor for class org.scijava.MenuPath: Creates a menu path with entries parsed from the given string, splitting on the specified separator, and trimming whitespace if indicated.
MenusAddedEvent - Class in org.scijava.menu.event: An event indicating one or more menu items have been added to the MenuService's ShadowMenu.
MenusAddedEvent(ShadowMenu) - Constructor for class org.scijava.menu.event.MenusAddedEvent
MenusAddedEvent(Collection<? extends ShadowMenu>) - Constructor for class org.scijava.menu.event.MenusAddedEvent
MenuService - Interface in org.scijava.menu: Interface for service that tracks the application's menu structure.
MenusRemovedEvent - Class in org.scijava.menu.event: An event indicating one or more menu items have been removed from the MenuService's ShadowMenu.
MenusRemovedEvent(ShadowMenu) - Constructor for class org.scijava.menu.event.MenusRemovedEvent
MenusRemovedEvent(Collection<? extends ShadowMenu>) - Constructor for class org.scijava.menu.event.MenusRemovedEvent
MenusUpdatedEvent - Class in org.scijava.menu.event: An event indicating one or more menu items have been adjusted in the MenuService's ShadowMenu.
MenusUpdatedEvent(ShadowMenu) - Constructor for class org.scijava.menu.event.MenusUpdatedEvent
MenusUpdatedEvent(Collection<? extends ShadowMenu>) - Constructor for class org.scijava.menu.event.MenusUpdatedEvent
merge(String, AbstractIndexWriter.StreamFactory) - Method in class org.scijava.annotations.AbstractIndexWriter: Merges an existing annotation index into the currently-generated one.
MersenneTwisterFast - Class in org.scijava.util: MersenneTwister and MersenneTwisterFast Version 17, based on version MT199937(99/10/29) of the Mersenne Twister algorithm found at The Mersenne Twister Home Page, with the initialization improved using the new 2002/1/26 initialization algorithm By Sean Luke, October 2004.
MersenneTwisterFast() - Constructor for class org.scijava.util.MersenneTwisterFast: Constructor using the default seed.
MersenneTwisterFast(long) - Constructor for class org.scijava.util.MersenneTwisterFast: Constructor using a given seed.
MersenneTwisterFast(int[]) - Constructor for class org.scijava.util.MersenneTwisterFast: Constructor using an array of integers as seed.
messageLogged(LogMessage) - Method in class org.scijava.log.AbstractLogService
messageLogged(LogMessage) - Method in class org.scijava.log.DefaultLogger
messageLogged(LogMessage) - Method in interface org.scijava.log.LogListener: This method is normally called from many threads in parallel.
messageLogged(LogMessage) - Method in class org.scijava.log.StderrLogService
MessageWidget - Interface in org.scijava.widget: Widget interface for message labels.
MetaInfCombiner - Class in org.scijava.util: Accumulates information from the class path to make META-INF/ files appropriate for an uber jar.
MetaInfCombiner() - Constructor for class org.scijava.util.MetaInfCombiner
method(Class<?>, String, Class<?>...) - Static method in class org.scijava.util.Types: Gets the method with the specified name and argument types, of the given class, or superclass thereof.
MethodCallException - Exception in org.scijava.module: An exception thrown when a reflective method execution fails.
MethodCallException() - Constructor for exception org.scijava.module.MethodCallException
MethodCallException(String) - Constructor for exception org.scijava.module.MethodCallException
MethodCallException(String, Throwable) - Constructor for exception org.scijava.module.MethodCallException
MethodCallException(Throwable) - Constructor for exception org.scijava.module.MethodCallException
methodParamTypes(Method, Class<?>) - Static method in class org.scijava.util.Types: As Types.fieldType(Field, Class), but with respect to the parameter types of the given Method rather than a Field.
MethodRef - Class in org.scijava.module: A reference to a Method, which can be invoked at will.
MethodRef(Class<?>, String, Class<?>...) - Constructor for class org.scijava.module.MethodRef
methodReturnType(Method, Class<?>) - Static method in class org.scijava.util.Types: As Types.fieldType(Field, Class), but with respect to the return type of the given Method rather than a Field.
MIDDLE_BUTTON - Static variable in class org.scijava.display.event.input.MsButtonEvent
MIDNIGHTBLUE - Static variable in class org.scijava.util.Colors
MIMEType - Class in org.scijava.ui.dnd: A Multipurpose Internet Mail Extension (MIME) type, as defined in RFC 2045 and 2046.
MIMEType(String) - Constructor for class org.scijava.ui.dnd.MIMEType: Constructs a new MIME type object from the given MIME type string.
MIMEType(String, Class<?>) - Constructor for class org.scijava.ui.dnd.MIMEType: Constructs a new MIME type object from the given MIME type string.
MINTCREAM - Static variable in class org.scijava.util.Colors
mirror(String) - Method in class org.scijava.util.MirrorWebsite
MirrorWebsite - Class in org.scijava.util: This program mirrors a given website.
MirrorWebsite(String, File, int, long) - Constructor for class org.scijava.util.MirrorWebsite
MiscUtils - Class in org.scijava.util: Miscellaneous utility methods.
MISTYROSE - Static variable in class org.scijava.util.Colors
MOCCASIN - Static variable in class org.scijava.util.Colors
module() - Method in class org.scijava.AbstractGateway
module() - Method in interface org.scijava.Gateway: Gets this application context's ModuleService.
Module - Interface in org.scijava.module: A module is an encapsulated piece of functionality with inputs and outputs.
moduleCalled - Variable in class org.scijava.script.InvocationObject: Deprecated.
ModuleCanceledEvent - Class in org.scijava.module.event: An event indicating a Module execution has been canceled.
ModuleCanceledEvent(Module) - Constructor for class org.scijava.module.event.ModuleCanceledEvent
ModuleCanceledEvent(Module, String) - Constructor for class org.scijava.module.event.ModuleCanceledEvent
ModuleCanceledException - Exception in org.scijava.module: An exception thrown when a module execution is canceled.
ModuleCanceledException() - Constructor for exception org.scijava.module.ModuleCanceledException
ModuleCanceledException(String) - Constructor for exception org.scijava.module.ModuleCanceledException
ModuleCanceledException(String, Throwable) - Constructor for exception org.scijava.module.ModuleCanceledException
ModuleCanceledException(Throwable) - Constructor for exception org.scijava.module.ModuleCanceledException
ModuleCodeRunner - Class in org.scijava.module.run: Runs the given Identifiable SciJava module.
ModuleCodeRunner() - Constructor for class org.scijava.module.run.ModuleCodeRunner
ModuleCommand - Class in org.scijava.command: A command which implements Module directly (rather than using the CommandModule adapter class).
ModuleCommand() - Constructor for class org.scijava.command.ModuleCommand
ModuleErroredEvent - Class in org.scijava.module.event: An event indicating a module execution has thrown an exception.
ModuleErroredEvent(Module, Throwable) - Constructor for class org.scijava.module.event.ModuleErroredEvent
ModuleEvent - Class in org.scijava.module.event: An event indicating something has happened to a module.
ModuleEvent(Module) - Constructor for class org.scijava.module.event.ModuleEvent
ModuleException - Exception in org.scijava.module: An exception thrown when something goes wrong with a module.
ModuleException() - Constructor for exception org.scijava.module.ModuleException
ModuleException(String) - Constructor for exception org.scijava.module.ModuleException
ModuleException(String, Throwable) - Constructor for exception org.scijava.module.ModuleException
ModuleException(Throwable) - Constructor for exception org.scijava.module.ModuleException
ModuleExecutedEvent - Class in org.scijava.module.event: An event indicating a module has just been executed.
ModuleExecutedEvent(Module) - Constructor for class org.scijava.module.event.ModuleExecutedEvent
ModuleExecutingEvent - Class in org.scijava.module.event: An event indicating a module is about to be executed.
ModuleExecutingEvent(Module) - Constructor for class org.scijava.module.event.ModuleExecutingEvent
ModuleExecutionEvent - Class in org.scijava.module.event: An event relating to execution of a Module.
ModuleExecutionEvent(Module) - Constructor for class org.scijava.module.event.ModuleExecutionEvent
ModuleFinishedEvent - Class in org.scijava.module.event: An event indicating a module execution has been completed.
ModuleFinishedEvent(Module) - Constructor for class org.scijava.module.event.ModuleFinishedEvent
ModuleIndex - Class in org.scijava.module: Data structure for managing registered modules.
ModuleIndex() - Constructor for class org.scijava.module.ModuleIndex
ModuleInfo - Interface in org.scijava.module: A ModuleInfo object encapsulates metadata about a particular Module (but not a specific instance of it).
ModuleItem<T> - Interface in org.scijava.module: A ModuleItem represents metadata about one input or output of a module.
ModulePostprocessEvent - Class in org.scijava.module.event: An event indicating a ModulePostprocessor has been invoked as part of a module execution.
ModulePostprocessEvent(Module, ModulePostprocessor) - Constructor for class org.scijava.module.event.ModulePostprocessEvent
ModulePostprocessor - Interface in org.scijava.module.process: A module postprocessor defines a step that occurs immediately following the actual execution of a Module.
ModulePreprocessEvent - Class in org.scijava.module.event: An event indicating a ModulePreprocessor has been invoked as part of a module execution.
ModulePreprocessEvent(Module, ModulePreprocessor) - Constructor for class org.scijava.module.event.ModulePreprocessEvent
ModulePreprocessor - Interface in org.scijava.module.process: A module preprocessor defines a step that occurs just prior to the actual execution of a Module.
ModuleProcessEvent - Class in org.scijava.module.event: An event indicating a ModuleProcessor has been invoked as part of a module execution.
ModuleProcessEvent(Module, ModuleProcessor) - Constructor for class org.scijava.module.event.ModuleProcessEvent
ModuleProcessor - Interface in org.scijava.module.process: A module processor defines some sort of processing that occurs on a module instance, typically immediately preceding (see ModulePreprocessor) or following (see ModulePostprocessor) the module execution.
ModuleRunner - Class in org.scijava.module: Helper class for executing a Module, including pre- and post-processing and event notification.
ModuleRunner(Context, Module, List<? extends ModulePreprocessor>, List<? extends ModulePostprocessor>) - Constructor for class org.scijava.module.ModuleRunner
ModulesAddedEvent - Class in org.scijava.module.event: An event indicating one or more modules have been added to the ModuleService.
ModulesAddedEvent(ModuleInfo) - Constructor for class org.scijava.module.event.ModulesAddedEvent
ModulesAddedEvent(Collection<? extends ModuleInfo>) - Constructor for class org.scijava.module.event.ModulesAddedEvent
moduleService() - Method in interface org.scijava.command.CommandService
moduleService() - Method in class org.scijava.command.DefaultCommandService
moduleService - Variable in class org.scijava.command.DynamicCommand
ModuleService - Interface in org.scijava.module: Interface for service that tracks and executes available modules.
ModulesListEvent - Class in org.scijava.module.event: An event indicating something has happened to the list of plugins registered with the ModuleService.
ModulesListEvent(ModuleInfo) - Constructor for class org.scijava.module.event.ModulesListEvent
ModulesListEvent(Collection<? extends ModuleInfo>) - Constructor for class org.scijava.module.event.ModulesListEvent
ModulesRemovedEvent - Class in org.scijava.module.event: An event indicating one or more modules have been removed from the ModuleService.
ModulesRemovedEvent(ModuleInfo) - Constructor for class org.scijava.module.event.ModulesRemovedEvent
ModulesRemovedEvent(Collection<? extends ModuleInfo>) - Constructor for class org.scijava.module.event.ModulesRemovedEvent
ModuleStartedEvent - Class in org.scijava.module.event: An event indicating a module execution has begun.
ModuleStartedEvent(Module) - Constructor for class org.scijava.module.event.ModuleStartedEvent
ModulesUpdatedEvent - Class in org.scijava.module.event: An event indicating one or more module details have been updated.
ModulesUpdatedEvent(ModuleInfo) - Constructor for class org.scijava.module.event.ModulesUpdatedEvent
ModulesUpdatedEvent(Collection<? extends ModuleInfo>) - Constructor for class org.scijava.module.event.ModulesUpdatedEvent
MORE_INPUT_PENDING - Static variable in interface org.scijava.script.ScriptInterpreter: A special object returned by ScriptInterpreter.interpret(String) when the interpreter is expecting additional input before finishing the evaluation.
MouseCursor - Enum in org.scijava.input: A UI-independent enumeration of mouse cursors.
MsButtonEvent - Class in org.scijava.display.event.input: An event indicating mouse button activity in a display.
MsButtonEvent(Display<?>, InputModifiers, int, int, int, int, boolean) - Constructor for class org.scijava.display.event.input.MsButtonEvent
MsClickedEvent - Class in org.scijava.display.event.input: An event indicating a mouse button was clicked in a display.
MsClickedEvent(Display<?>, InputModifiers, int, int, int, int, boolean) - Constructor for class org.scijava.display.event.input.MsClickedEvent
MsDraggedEvent - Class in org.scijava.display.event.input: An event indicating a mouse was dragged in a display.
MsDraggedEvent(Display<?>, InputModifiers, int, int, int, int, boolean) - Constructor for class org.scijava.display.event.input.MsDraggedEvent
MsEnteredEvent - Class in org.scijava.display.event.input: An event indicating a mouse cursor entered a display.
MsEnteredEvent(Display<?>, InputModifiers, int, int) - Constructor for class org.scijava.display.event.input.MsEnteredEvent
MsEvent - Class in org.scijava.display.event.input: An event indicating mouse activity in a display.
MsEvent(Display<?>, InputModifiers, int, int) - Constructor for class org.scijava.display.event.input.MsEvent
MsExitedEvent - Class in org.scijava.display.event.input: An event indicating a mouse cursor exited a display.
MsExitedEvent(Display<?>, InputModifiers, int, int) - Constructor for class org.scijava.display.event.input.MsExitedEvent
MsMovedEvent - Class in org.scijava.display.event.input: An event indicating a mouse was moved in a display.
MsMovedEvent(Display<?>, InputModifiers, int, int) - Constructor for class org.scijava.display.event.input.MsMovedEvent
MsPressedEvent - Class in org.scijava.display.event.input: An event indicating a mouse button was pressed in a display.
MsPressedEvent(Display<?>, InputModifiers, int, int, int, int, boolean) - Constructor for class org.scijava.display.event.input.MsPressedEvent
MsReleasedEvent - Class in org.scijava.display.event.input: An event indicating a mouse button was released in a display.
MsReleasedEvent(Display<?>, InputModifiers, int, int, int, int, boolean) - Constructor for class org.scijava.display.event.input.MsReleasedEvent
MsWheelEvent - Class in org.scijava.display.event.input: An event indicating a mouse wheel was moved in a display.
MsWheelEvent(Display<?>, InputModifiers, int, int, int) - Constructor for class org.scijava.display.event.input.MsWheelEvent
MultiOutputStream - Class in org.scijava.console: A MultiOutputStream is a collection of constituent OutputStream objects, to which all output is forwarded.
MultiOutputStream(OutputStream...) - Constructor for class org.scijava.console.MultiOutputStream: Forwards output to a list of output streams.
MultiPrintStream - Class in org.scijava.console: A PrintStream that wraps a MultiOutputStream.
MultiPrintStream(OutputStream) - Constructor for class org.scijava.console.MultiPrintStream
MultiWriteHandle - Class in org.scijava.download: DataHandle plugin for writing to multiple DataHandles.
MultiWriteHandle(DataHandle<?>...) - Constructor for class org.scijava.download.MultiWriteHandle
MutableModule - Interface in org.scijava.module: Module extension allowing manipulation of its metadata.
MutableModuleInfo - Interface in org.scijava.module: ModuleInfo extension allowing manipulation of its metadata.
MutableModuleItem<T> - Interface in org.scijava.module: ModuleItem extension allowing manipulation of its metadata.

N

NAME - Static variable in class org.scijava.app.SciJavaApp
name() - Method in class org.scijava.log.LogSource: Returns the last entry in the list of strings.
name() - Method in interface org.scijava.parse.Item: Gets the name of the item, or null if unnamed (i.e., raw value with no equals sign).
NAME - Static variable in class org.scijava.ui.headless.HeadlessUI
NAME - Static variable in class org.scijava.ui.headlessUI.HeadlessUI: Deprecated.
Use HeadlessUI.NAME instead.
name(Type) - Static method in class org.scijava.util.Types: Gets a string representation of the given type.
Named - Interface in org.scijava: Interface for things that have names.
NamedObjectIndex<E> - Class in org.scijava.object: An ObjectIndex where each object can have an associated name.
NamedObjectIndex(Class<E>) - Constructor for class org.scijava.object.NamedObjectIndex
NAVAJOWHITE - Static variable in class org.scijava.util.Colors
NAVY - Static variable in class org.scijava.util.Colors
newRoot() - Static method in class org.scijava.log.LogSource: Returns the root log source.
newThread(Runnable) - Method in class org.scijava.thread.DefaultThreadService
next() - Method in class org.scijava.menu.ShadowMenuIterator
next() - Method in class org.scijava.util.IteratorPlus
next(int) - Method in class org.scijava.util.LastRecentlyUsed: Given the index of an entry, returns the index of the next newer entry.
nextBoolean() - Method in class org.scijava.util.MersenneTwisterFast
nextBoolean(float) - Method in class org.scijava.util.MersenneTwisterFast: This generates a coin flip with a probability probability of returning true, else returning false.
nextBoolean(double) - Method in class org.scijava.util.MersenneTwisterFast: This generates a coin flip with a probability probability of returning true, else returning false.
nextByte() - Method in class org.scijava.util.MersenneTwisterFast
nextBytes(byte[]) - Method in class org.scijava.util.MersenneTwisterFast
nextChar() - Method in class org.scijava.util.MersenneTwisterFast
nextDouble() - Method in class org.scijava.util.MersenneTwisterFast: Returns a random double in the half-open range from [0.0,1.0).
nextDouble(boolean, boolean) - Method in class org.scijava.util.MersenneTwisterFast: Returns a double in the range from 0.0 to 1.0, possibly inclusive of 0.0 and 1.0 themselves.
nextElement() - Method in class org.scijava.util.IteratorPlus
nextFloat() - Method in class org.scijava.util.MersenneTwisterFast: Returns a random float in the half-open range from [0.0f,1.0f).
nextFloat(boolean, boolean) - Method in class org.scijava.util.MersenneTwisterFast: Returns a float in the range from 0.0f to 1.0f, possibly inclusive of 0.0f and 1.0f themselves.
nextGaussian() - Method in class org.scijava.util.MersenneTwisterFast
nextInt() - Method in class org.scijava.util.MersenneTwisterFast
nextInt(int) - Method in class org.scijava.util.MersenneTwisterFast: Returns an integer drawn uniformly from 0 to n-1.
nextLong() - Method in class org.scijava.util.MersenneTwisterFast
nextLong(long) - Method in class org.scijava.util.MersenneTwisterFast: Returns a long drawn uniformly from 0 to n-1.
nextShort() - Method in class org.scijava.util.MersenneTwisterFast
NIOService - Interface in org.scijava.io.nio: Interface for services that work with the java.nio package, particularly NIO ByteBuffer objects.
NO_CONSOLE_PROPERTY - Static variable in interface org.scijava.ui.console.ConsolePane: System property which, if set, suppresses the SciJava console window.
NONE - Static variable in class org.scijava.log.LogLevel
NONE - Static variable in interface org.scijava.log.LogService: Deprecated.
Use LogLevel.NONE.
NORMAL - Static variable in class org.scijava.Priority: Default priority for items.
NORMAL_PRIORITY - Static variable in class org.scijava.Priority: Deprecated.
Use Priority.NORMAL instead.
normalize(float[]) - Static method in class org.scijava.util.Bytes: Normalize the given float array so that the minimum value maps to 0.0 and the maximum value maps to 1.0.
normalize(double[]) - Static method in class org.scijava.util.Bytes: Normalize the given double array so that the minimum value maps to 0.0 and the maximum value maps to 1.0.
NoSuchServiceException - Exception in org.scijava: An exception thrown when a Gateway cannot obtain a Service.
NoSuchServiceException() - Constructor for exception org.scijava.NoSuchServiceException
NoSuchServiceException(String) - Constructor for exception org.scijava.NoSuchServiceException
NoSuchServiceException(String, Throwable) - Constructor for exception org.scijava.NoSuchServiceException
NoSuchServiceException(Throwable) - Constructor for exception org.scijava.NoSuchServiceException
noteStructureChange() - Method in class org.scijava.display.AbstractDisplay
notifyListeners(OutputEvent) - Method in interface org.scijava.console.ConsoleService: Notifies listeners of output sent to stdout or stderr.
notifyListeners(OutputEvent) - Method in class org.scijava.console.DefaultConsoleService
notifyListeners(LogMessage) - Method in class org.scijava.log.AbstractLogService
notifyListeners(LogMessage) - Method in class org.scijava.log.DefaultLogger
notifyListeners(LogMessage) - Method in interface org.scijava.log.Logger: Broadcasts the given log message to the registered listeners.
NullContextException - Exception in org.scijava: An exception thrown when a Context is null, but shouldn't be.
NullContextException() - Constructor for exception org.scijava.NullContextException
NullContextException(String) - Constructor for exception org.scijava.NullContextException
NullContextException(String, Throwable) - Constructor for exception org.scijava.NullContextException
NullContextException(Throwable) - Constructor for exception org.scijava.NullContextException
NullConverter - Class in org.scijava.convert: Converter implementation for handling null values.
NullConverter() - Constructor for class org.scijava.convert.NullConverter
nullValue(Class<T>) - Static method in class org.scijava.util.Types: Gets the "null" value for the given type.
NumberConverters - Class in org.scijava.convert: Converter plugins that convert from primitive numeric types to other primitive numeric types.
NumberConverters.BigIntegerToBigDecimalConverter - Class in org.scijava.convert
NumberConverters.ByteToBigDecimalConverter - Class in org.scijava.convert
NumberConverters.ByteToBigIntegerConverter - Class in org.scijava.convert
NumberConverters.ByteToDoubleConverter - Class in org.scijava.convert
NumberConverters.ByteToFloatConverter - Class in org.scijava.convert
NumberConverters.ByteToIntegerConverter - Class in org.scijava.convert
NumberConverters.ByteToLongConverter - Class in org.scijava.convert
NumberConverters.ByteToShortConverter - Class in org.scijava.convert
NumberConverters.DoubleToBigDecimalConverter - Class in org.scijava.convert
NumberConverters.FloatToBigDecimalConverter - Class in org.scijava.convert
NumberConverters.FloatToDoubleConverter - Class in org.scijava.convert
NumberConverters.IntegerToBigDecimalConverter - Class in org.scijava.convert
NumberConverters.IntegerToBigIntegerConverter - Class in org.scijava.convert
NumberConverters.IntegerToDoubleConverter - Class in org.scijava.convert
NumberConverters.IntegerToLongConverter - Class in org.scijava.convert
NumberConverters.LongToBigDecimalConverter - Class in org.scijava.convert
NumberConverters.LongToBigIntegerConverter - Class in org.scijava.convert
NumberConverters.ShortToBigDecimalConverter - Class in org.scijava.convert
NumberConverters.ShortToBigIntegerConverter - Class in org.scijava.convert
NumberConverters.ShortToDoubleConverter - Class in org.scijava.convert
NumberConverters.ShortToFloatConverter - Class in org.scijava.convert
NumberConverters.ShortToIntegerConverter - Class in org.scijava.convert
NumberConverters.ShortToLongConverter - Class in org.scijava.convert
NumberToBigDecimalConverter<N extends Number> - Class in org.scijava.convert: Converts numbers to BigDecimals.
NumberToBigDecimalConverter() - Constructor for class org.scijava.convert.NumberToBigDecimalConverter
NumberToBigIntegerConverter<N extends Number> - Class in org.scijava.convert: Converts numbers to BigIntegers.
NumberToBigIntegerConverter() - Constructor for class org.scijava.convert.NumberToBigIntegerConverter
NumberToDoubleConverter<N extends Number> - Class in org.scijava.convert: Converts numbers to doubles.
NumberToDoubleConverter() - Constructor for class org.scijava.convert.NumberToDoubleConverter
NumberToFloatConverter<N extends Number> - Class in org.scijava.convert: Converts numbers to floats.
NumberToFloatConverter() - Constructor for class org.scijava.convert.NumberToFloatConverter
NumberToIntegerConverter<N extends Number> - Class in org.scijava.convert: Converts numbers to integers.
NumberToIntegerConverter() - Constructor for class org.scijava.convert.NumberToIntegerConverter
NumberToLongConverter<N extends Number> - Class in org.scijava.convert: Converts numbers to longs.
NumberToLongConverter() - Constructor for class org.scijava.convert.NumberToLongConverter
NumberToNumberConverter - Class in org.scijava.convert: Converts numbers to numbers, and throws IllegalArgumentException for null or invalid input.
NumberToNumberConverter() - Constructor for class org.scijava.convert.NumberToNumberConverter
NumberToShortConverter<N extends Number> - Class in org.scijava.convert: Converts numbers to shorts.
NumberToShortConverter() - Constructor for class org.scijava.convert.NumberToShortConverter
NumberUtils - Class in org.scijava.util: Useful methods for working with Number objects.
NumberWidget - Interface in org.scijava.widget: Widget interface for number choosers.

O

object() - Method in class org.scijava.AbstractGateway
object() - Method in interface org.scijava.Gateway: Gets this application context's ObjectService.
ObjectArray<E> - Class in org.scijava.util: An extensible, generic array of Object elements.
ObjectArray(Class<E>) - Constructor for class org.scijava.util.ObjectArray: Constructs an extensible array of objects, backed by a fixed-size array.
ObjectArray(Class<E>, int) - Constructor for class org.scijava.util.ObjectArray: Constructs an extensible array of objects, backed by a fixed-size array.
ObjectArray(E[]) - Constructor for class org.scijava.util.ObjectArray: Constructs an extensible array of objects, backed by the given fixed-size array.
ObjectCreatedEvent - Class in org.scijava.object.event: An event indicating a new object has been created.
ObjectCreatedEvent(Object) - Constructor for class org.scijava.object.event.ObjectCreatedEvent
ObjectDeletedEvent - Class in org.scijava.object.event: An event indicating an object has been deleted.
ObjectDeletedEvent(Object) - Constructor for class org.scijava.object.event.ObjectDeletedEvent
ObjectEvent - Class in org.scijava.object.event: An event indicating something has happened to an object.
ObjectEvent(Object) - Constructor for class org.scijava.object.event.ObjectEvent
ObjectIndex<E> - Class in org.scijava.object: Data structure for managing lists of registered objects.
ObjectIndex(Class<E>) - Constructor for class org.scijava.object.ObjectIndex
ObjectModifiedEvent - Class in org.scijava.object.event: An event indicating an object has been modified somehow.
ObjectModifiedEvent(Object) - Constructor for class org.scijava.object.event.ObjectModifiedEvent
ObjectsAddedEvent - Class in org.scijava.object.event: An event indicating one or more objects have been added to the ObjectService.
ObjectsAddedEvent(Object) - Constructor for class org.scijava.object.event.ObjectsAddedEvent
ObjectsAddedEvent(Collection<?>) - Constructor for class org.scijava.object.event.ObjectsAddedEvent
objectService() - Method in class org.scijava.display.DefaultDisplayService
objectService() - Method in interface org.scijava.display.DisplayService
ObjectService - Interface in org.scijava.object: Interface for object management service.
objectService() - Method in class org.scijava.plugin.AbstractSingletonService
objectService() - Method in interface org.scijava.plugin.SingletonService: Gets the ObjectService upon which this service depends.
ObjectsListEvent - Class in org.scijava.object.event: An event indicating something has happened to the list of objects registered with the ObjectService.
ObjectsListEvent(Object) - Constructor for class org.scijava.object.event.ObjectsListEvent
ObjectsListEvent(Collection<?>) - Constructor for class org.scijava.object.event.ObjectsListEvent
ObjectsRemovedEvent - Class in org.scijava.object.event: An event indicating one or more objects have been removed from the ObjectService.
ObjectsRemovedEvent(Object) - Constructor for class org.scijava.object.event.ObjectsRemovedEvent
ObjectsRemovedEvent(Collection<?>) - Constructor for class org.scijava.object.event.ObjectsRemovedEvent
ObjectWidget - Interface in org.scijava.widget: Widget interface for object selectors.
offset() - Method in class org.scijava.download.MultiWriteHandle
offset() - Method in class org.scijava.io.handle.AbstractStreamHandle
offset() - Method in class org.scijava.io.handle.BytesHandle
offset() - Method in interface org.scijava.io.handle.DataHandle: Returns the current offset in the stream.
offset() - Method in class org.scijava.io.handle.DummyHandle
offset() - Method in class org.scijava.io.handle.FileHandle
offset() - Method in class org.scijava.io.handle.ReadBufferDataHandle
offset() - Method in class org.scijava.io.handle.WriteBufferDataHandle
OLDLACE - Static variable in class org.scijava.util.Colors
OLIVE - Static variable in class org.scijava.util.Colors
OLIVEDRAB - Static variable in class org.scijava.util.Colors
onDisplayActivatedEvent(DisplayActivatedEvent) - Method in interface org.scijava.ui.viewer.DisplayViewer: Handles a display activated event directed at this viewer's display.
onDisplayDeletedEvent(DisplayDeletedEvent) - Method in interface org.scijava.ui.viewer.DisplayViewer: Removes the user interface when the display is deleted.
onDisplayUpdatedEvent(DisplayUpdatedEvent) - Method in interface org.scijava.ui.viewer.DisplayViewer: Synchronizes the user interface appearance with the display model.
onEvent(AppAboutEvent) - Method in class org.scijava.app.DefaultAppService
onEvent(AppPreferencesEvent) - Method in class org.scijava.app.DefaultAppService
onEvent(AppQuitEvent) - Method in class org.scijava.app.DefaultAppService
onEvent(PluginsRemovedEvent) - Method in class org.scijava.command.DefaultCommandService
onEvent(PluginsAddedEvent) - Method in class org.scijava.command.DefaultCommandService
onEvent(DisplayActivatedEvent) - Method in class org.scijava.command.InteractiveCommand
onEvent(WinClosedEvent) - Method in class org.scijava.display.DefaultDisplayService: Deletes the display when display window is closed.
onEvent(WinActivatedEvent) - Method in class org.scijava.display.DefaultDisplayService: Sets the display to active when its window is activated.
onEvent(DisplayDeletedEvent) - Method in class org.scijava.display.DefaultDisplayService: Removes a display from the display list when it is deleted
onEvent(T) - Method in interface org.scijava.event.bushe.EventSubscriber: Handle a published event.
onEvent(SciJavaEvent) - Method in class org.scijava.event.DefaultEventHistory
onEvent(E) - Method in interface org.scijava.event.EventSubscriber
onEvent(KyPressedEvent) - Method in class org.scijava.input.DefaultInputService
onEvent(KyReleasedEvent) - Method in class org.scijava.input.DefaultInputService
onEvent(MsMovedEvent) - Method in class org.scijava.input.DefaultInputService
onEvent(MsExitedEvent) - Method in class org.scijava.input.DefaultInputService
onEvent(MsPressedEvent) - Method in class org.scijava.input.DefaultInputService
onEvent(MsReleasedEvent) - Method in class org.scijava.input.DefaultInputService
onEvent(DisplayDeletedEvent) - Method in class org.scijava.input.DefaultInputService
onEvent(IOEvent) - Method in class org.scijava.io.DefaultRecentFileService
onEvent(ModulesAddedEvent) - Method in class org.scijava.menu.DefaultMenuService
onEvent(ModulesRemovedEvent) - Method in class org.scijava.menu.DefaultMenuService
onEvent(ModulesUpdatedEvent) - Method in class org.scijava.menu.DefaultMenuService
onEvent(ObjectCreatedEvent) - Method in class org.scijava.object.DefaultObjectService
onEvent(ObjectDeletedEvent) - Method in class org.scijava.object.DefaultObjectService
onEvent(AppAboutEvent) - Method in class org.scijava.platform.DefaultAppEventService: Deprecated.
onEvent(AppPreferencesEvent) - Method in class org.scijava.platform.DefaultAppEventService: Deprecated.
onEvent(AppQuitEvent) - Method in class org.scijava.platform.DefaultAppEventService: Deprecated.
onEvent(AppMenusCreatedEvent) - Method in class org.scijava.platform.DefaultPlatformService
onEvent(PluginsRemovedEvent) - Method in class org.scijava.plugin.AbstractSingletonService
onEvent(PluginsAddedEvent) - Method in class org.scijava.plugin.AbstractSingletonService
onEvent(KyPressedEvent) - Method in class org.scijava.tool.DefaultToolService
onEvent(KyReleasedEvent) - Method in class org.scijava.tool.DefaultToolService
onEvent(MsPressedEvent) - Method in class org.scijava.tool.DefaultToolService
onEvent(MsReleasedEvent) - Method in class org.scijava.tool.DefaultToolService
onEvent(MsClickedEvent) - Method in class org.scijava.tool.DefaultToolService
onEvent(MsMovedEvent) - Method in class org.scijava.tool.DefaultToolService
onEvent(MsDraggedEvent) - Method in class org.scijava.tool.DefaultToolService
onEvent(MsWheelEvent) - Method in class org.scijava.tool.DefaultToolService
onEvent(DisplayCreatedEvent) - Method in class org.scijava.ui.DefaultUIService: Called when a display is created.
onEvent(DisplayDeletedEvent) - Method in class org.scijava.ui.DefaultUIService: Called when a display is deleted.
onEvent(DisplayUpdatedEvent) - Method in class org.scijava.ui.DefaultUIService: Called when a display is updated.
onEvent(DisplayActivatedEvent) - Method in class org.scijava.ui.DefaultUIService: Called when a display is activated.
onEvent(AppQuitEvent) - Method in class org.scijava.ui.DefaultUIService
onEvent(StatusEvent) - Method in class org.scijava.ui.DefaultUIService
onEvent(DragEnterEvent) - Method in class org.scijava.ui.dnd.DefaultDragAndDropService
onEvent(DragExitEvent) - Method in class org.scijava.ui.dnd.DefaultDragAndDropService
onEvent(DragOverEvent) - Method in class org.scijava.ui.dnd.DefaultDragAndDropService
onEvent(DropEvent) - Method in class org.scijava.ui.dnd.DefaultDragAndDropService
onEvent(DisplayCreatedEvent) - Method in class org.scijava.ui.viewer.AbstractDisplayViewer
onEvent(DisplayUpdatedEvent) - Method in class org.scijava.ui.viewer.AbstractDisplayViewer
onEvent(UIShownEvent) - Method in class org.scijava.welcome.DefaultWelcomeService: Displays the welcome text when a UI is shown for the first time.
onEventException(String, Object, Throwable, StackTraceElement[], EventTopicSubscriber) - Method in class org.scijava.event.bushe.ThreadSafeEventService: Called during event handling exceptions, calls handleException
onKeyDown(KyPressedEvent) - Method in interface org.scijava.tool.Tool: Occurs when a key on the keyboard is pressed while the tool is active.
onKeyUp(KyReleasedEvent) - Method in interface org.scijava.tool.Tool: Occurs when a key on the keyboard is released while the tool is active.
onMouseClick(MsClickedEvent) - Method in interface org.scijava.tool.Tool: Occurs when a mouse button is double clicked while the tool is active.
onMouseDown(MsPressedEvent) - Method in interface org.scijava.tool.Tool: Occurs when a mouse button is pressed while the tool is active.
onMouseDrag(MsDraggedEvent) - Method in interface org.scijava.tool.Tool: Occurs when the mouse is dragged while the tool is active.
onMouseMove(MsMovedEvent) - Method in interface org.scijava.tool.Tool: Occurs when the mouse is moved while the tool is active.
onMouseUp(MsReleasedEvent) - Method in interface org.scijava.tool.Tool: Occurs when a mouse button is released while the tool is active.
onMouseWheel(MsWheelEvent) - Method in interface org.scijava.tool.Tool: Occurs when the mouse wheel is moved while the tool is active.
open(String) - Method in class org.scijava.io.AbstractIOPlugin
open(String) - Method in class org.scijava.io.AbstractTypedIOService
open(Location) - Method in class org.scijava.io.AbstractTypedIOService
open(String) - Method in class org.scijava.io.DefaultIOService
open(Location) - Method in class org.scijava.io.DefaultIOService
open(String) - Method in interface org.scijava.io.IOPlugin: Opens data from the given source.
open(Location) - Method in interface org.scijava.io.IOPlugin: Opens data from the given location.
open(String) - Method in interface org.scijava.io.IOService: Loads data from the given source.
open(Location) - Method in interface org.scijava.io.IOService: Loads data from the given location.
open(String) - Method in interface org.scijava.io.TypedIOService: Loads data from the given source.
open(Location) - Method in interface org.scijava.io.TypedIOService: Loads data from the given location.
open(URL) - Method in class org.scijava.platform.DefaultPlatform: Falls back to calling known browsers.
open(URL) - Method in class org.scijava.platform.DefaultPlatformService
open(URL) - Method in interface org.scijava.platform.Platform
open(URL) - Method in interface org.scijava.platform.PlatformService: Opens a URL in a platform-dependent way.
open(Location) - Method in class org.scijava.script.io.ScriptIOPlugin
open(File) - Method in class org.scijava.text.DefaultTextService
open(Location) - Method in class org.scijava.text.io.TextIOPlugin
open(File) - Method in interface org.scijava.text.TextService: Reads the data from the given file into a string.
OPEN_STYLE - Static variable in interface org.scijava.widget.FileWidget: Widget style for file opener dialogs.
OpenArgument - Class in org.scijava.io.console: Handles the --open command line argument.
OpenArgument() - Constructor for class org.scijava.io.console.OpenArgument
openInput(String) - Method in interface org.scijava.annotations.AbstractIndexWriter.StreamFactory
openLine() - Method in class org.scijava.util.TunePlayer
openOutput(String) - Method in interface org.scijava.annotations.AbstractIndexWriter.StreamFactory
Optional - Interface in org.scijava: A marker interface for optional SciJava components.
options() - Method in class org.scijava.AbstractGateway
options() - Method in interface org.scijava.Gateway: Gets this application context's OptionsService.
OptionsEvent - Class in org.scijava.options.event: Fired when an OptionsPlugin has changed an option.
OptionsEvent(OptionsPlugin) - Constructor for class org.scijava.options.event.OptionsEvent
OptionsPlugin - Class in org.scijava.options: Base class for all options-oriented plugins.
OptionsPlugin() - Constructor for class org.scijava.options.OptionsPlugin
OptionsService - Interface in org.scijava.options: Interface for the options handling service.
ORANGE - Static variable in class org.scijava.util.Colors
ORANGERED - Static variable in class org.scijava.util.Colors
ORCHID - Static variable in class org.scijava.util.Colors
org.scijava - package org.scijava
org.scijava.annotations - package org.scijava.annotations
org.scijava.annotations.legacy - package org.scijava.annotations.legacy
org.scijava.app - package org.scijava.app
org.scijava.app.event - package org.scijava.app.event
org.scijava.cache - package org.scijava.cache
org.scijava.command - package org.scijava.command
org.scijava.command.console - package org.scijava.command.console
org.scijava.command.run - package org.scijava.command.run
org.scijava.console - package org.scijava.console
org.scijava.convert - package org.scijava.convert
org.scijava.display - package org.scijava.display
org.scijava.display.event - package org.scijava.display.event
org.scijava.display.event.input - package org.scijava.display.event.input
org.scijava.display.event.window - package org.scijava.display.event.window
org.scijava.download - package org.scijava.download
org.scijava.event - package org.scijava.event
org.scijava.event.bushe - package org.scijava.event.bushe
org.scijava.input - package org.scijava.input
org.scijava.io - package org.scijava.io
org.scijava.io.console - package org.scijava.io.console
org.scijava.io.event - package org.scijava.io.event
org.scijava.io.handle - package org.scijava.io.handle
org.scijava.io.location - package org.scijava.io.location
org.scijava.io.nio - package org.scijava.io.nio
org.scijava.log - package org.scijava.log
org.scijava.main - package org.scijava.main
org.scijava.main.console - package org.scijava.main.console
org.scijava.main.run - package org.scijava.main.run
org.scijava.menu - package org.scijava.menu
org.scijava.menu.event - package org.scijava.menu.event
org.scijava.module - package org.scijava.module
org.scijava.module.event - package org.scijava.module.event
org.scijava.module.process - package org.scijava.module.process
org.scijava.module.run - package org.scijava.module.run
org.scijava.object - package org.scijava.object
org.scijava.object.event - package org.scijava.object.event
org.scijava.options - package org.scijava.options
org.scijava.options.event - package org.scijava.options.event
org.scijava.parse - package org.scijava.parse
org.scijava.platform - package org.scijava.platform
org.scijava.platform.event - package org.scijava.platform.event
org.scijava.plugin - package org.scijava.plugin
org.scijava.plugin.event - package org.scijava.plugin.event
org.scijava.prefs - package org.scijava.prefs
org.scijava.run - package org.scijava.run
org.scijava.run.console - package org.scijava.run.console
org.scijava.script - package org.scijava.script
org.scijava.script.console - package org.scijava.script.console
org.scijava.script.io - package org.scijava.script.io
org.scijava.script.process - package org.scijava.script.process
org.scijava.script.run - package org.scijava.script.run
org.scijava.service - package org.scijava.service
org.scijava.service.event - package org.scijava.service.event
org.scijava.startup - package org.scijava.startup
org.scijava.task - package org.scijava.task
org.scijava.task.event - package org.scijava.task.event
org.scijava.test - package org.scijava.test
org.scijava.text - package org.scijava.text
org.scijava.text.io - package org.scijava.text.io
org.scijava.thread - package org.scijava.thread
org.scijava.tool - package org.scijava.tool
org.scijava.tool.event - package org.scijava.tool.event
org.scijava.ui - package org.scijava.ui
org.scijava.ui.console - package org.scijava.ui.console
org.scijava.ui.dnd - package org.scijava.ui.dnd
org.scijava.ui.dnd.event - package org.scijava.ui.dnd.event
org.scijava.ui.event - package org.scijava.ui.event
org.scijava.ui.headless - package org.scijava.ui.headless
org.scijava.ui.headlessUI - package org.scijava.ui.headlessUI
org.scijava.ui.viewer - package org.scijava.ui.viewer
org.scijava.ui.viewer.text - package org.scijava.ui.viewer.text
org.scijava.util - package org.scijava.util
org.scijava.welcome - package org.scijava.welcome
org.scijava.welcome.event - package org.scijava.welcome.event
org.scijava.widget - package org.scijava.widget
osArch() - Method in interface org.scijava.platform.Platform: Operating system architecture to match.
osName() - Method in interface org.scijava.platform.Platform: Operating system name to match.
osName() - Static method in class org.scijava.util.PlatformUtils: Gets the name of the operating system.
osVersion() - Method in interface org.scijava.platform.Platform: Minimum required operating system version.
out() - Method in interface org.scijava.io.handle.StreamHandle: Gets an output stream for writing data, positioned at the current offset.
out - Variable in class org.scijava.util.ReadInto
OutputEvent - Class in org.scijava.console: An event indicating output occurred on stdout or stderr.
OutputEvent(Context, OutputEvent.Source, String, boolean) - Constructor for class org.scijava.console.OutputEvent: Creates a new output event.
OutputEvent.Source - Enum in org.scijava.console: Possible output sources.
outputList() - Method in class org.scijava.module.AbstractModuleInfo: Gets AbstractModuleInfo.outputList, initializing if needed.
OutputListener - Interface in org.scijava.console: Listener for output on stdout or stderr.
outputMap() - Method in class org.scijava.module.AbstractModuleInfo: Gets AbstractModuleInfo.inputList, initializing if needed.
outputOccurred(OutputEvent) - Method in interface org.scijava.console.OutputListener: Method called when output occurs on stdout or stderr.
outputOccurred(OutputEvent) - Method in class org.scijava.ui.console.AbstractConsolePane
outputs() - Method in class org.scijava.command.CommandInfo
outputs() - Method in class org.scijava.module.AbstractModuleInfo
outputs() - Method in interface org.scijava.module.ModuleInfo: Gets the list of output items.

P

pack() - Method in interface org.scijava.ui.viewer.DisplayWindow
padEnd(String, int) - Static method in class org.scijava.util.StringUtils: Calls StringUtils.padEnd(String, int, char) with the StringUtils.DEFAULT_PAD_CHAR
padEnd(String, int, char) - Static method in class org.scijava.util.StringUtils: Adds characters to the end of the String to make it the given length
padStart(String, int) - Static method in class org.scijava.util.StringUtils: Calls StringUtils.padStart(String, int, char) with the StringUtils.DEFAULT_PAD_CHAR
padStart(String, int, char) - Static method in class org.scijava.util.StringUtils: Adds characters to the start of the String to make it the given length
PALEGOLDENROD - Static variable in class org.scijava.util.Colors
PALEGREEN - Static variable in class org.scijava.util.Colors
PALETURQUOISE - Static variable in class org.scijava.util.Colors
PALEVIOLETRED - Static variable in class org.scijava.util.Colors
PAPAYAWHIP - Static variable in class org.scijava.util.Colors
param - Variable in class org.scijava.script.ParameterObject: Deprecated.
param(Type, Class<?>, int) - Static method in class org.scijava.util.Types: Gets the given type's nth type parameter of the specified class.
Parameter - Annotation Type in org.scijava.plugin: An annotation for indicating a field is an input or output parameter.
parameterize(Class<?>, Type...) - Static method in class org.scijava.util.Types: Creates a new ParameterizedType of the given class together with the specified type arguments.
parameterize(Class<?>, Map<TypeVariable<?>, Type>) - Static method in class org.scijava.util.Types: Create a parameterized type instance.
parameterizeWithOwner(Type, Class<?>, Type...) - Static method in class org.scijava.util.Types: Creates a new ParameterizedType of the given class together with the specified type arguments.
ParameterObject - Class in org.scijava.script: Deprecated.
To be removed in SciJava Common 3.0.0.
ParameterObject(String, Class<?>, Object) - Constructor for class org.scijava.script.ParameterObject: Deprecated.
parameterObjects - Variable in class org.scijava.script.InvocationObject: Deprecated.
ParameterScriptProcessor - Class in org.scijava.script.process: A ScriptProcessor which parses the script's input and output parameters from the script header.
ParameterScriptProcessor() - Constructor for class org.scijava.script.process.ParameterScriptProcessor
parent() - Method in interface org.scijava.io.location.BrowsableLocation: Obtains a location pointing to the parent directory of this one.
parent() - Method in class org.scijava.io.location.FileLocation
parent() - Method in class org.scijava.log.LogSource: Gets the parent of this source, or null if the source is a root.
parent() - Method in class org.scijava.util.DefaultTreeNode
parent() - Method in interface org.scijava.util.TreeNode: Gets the parent of this node.
parse(String, boolean) - Method in class org.scijava.parse.DefaultParseService
parse(String) - Method in interface org.scijava.parse.ParseService: Parses a comma-delimited list of data elements.
parse(String, boolean) - Method in interface org.scijava.parse.ParseService: Parses a comma-delimited list of data elements.
parseParameters() - Method in class org.scijava.module.AbstractModuleInfo: Parses input and output parameters.
parseParameters() - Method in class org.scijava.script.ScriptInfo: Performs script processing.
parseParameterString(String) - Static method in class org.scijava.console.ConsoleUtils: Deprecated.
Use ParseService instead.
parseParameterString(String, ModuleInfo) - Static method in class org.scijava.console.ConsoleUtils: Deprecated.
Use ParseService instead.
parseParameterString(String, LogService) - Static method in class org.scijava.console.ConsoleUtils: Deprecated.
Use ParseService instead.
parseParameterString(String, ModuleInfo, LogService) - Static method in class org.scijava.console.ConsoleUtils: Deprecated.
Use ParseService instead.
ParseService - Interface in org.scijava.parse: Interface for service that parses strings.
PASSWORD_STYLE - Static variable in interface org.scijava.widget.TextWidget: Widget style for password fields.
path() - Method in class org.scijava.log.LogSource: Returns the list of strings which is represented by this LogSource.
PATH_SEPARATOR - Static variable in class org.scijava.MenuPath: The separator between elements of a menu path string.
PathToFileConverter - Class in org.scijava.convert: A Converter used to convert Paths into Files.
PathToFileConverter() - Constructor for class org.scijava.convert.PathToFileConverter
PEACHPUFF - Static variable in class org.scijava.util.Colors
PERU - Static variable in class org.scijava.util.Colors
PINK - Static variable in class org.scijava.util.Colors
pixelsToSystemClipboard(ARGBPlane) - Method in interface org.scijava.ui.SystemClipboard: method that accepts a plane of ARGB data
platform() - Method in class org.scijava.AbstractGateway
platform() - Method in interface org.scijava.Gateway: Gets this application context's PlatformService.
Platform - Interface in org.scijava.platform: An interface for configuring a specific deployment platform, defined by criteria such as operating system, machine architecture or Java version.
PlatformService - Interface in org.scijava.platform: Interface for service that handles platform-specific deployment issues.
PlatformUtils - Class in org.scijava.util: Useful methods for platform-specific interrogation.
play(String) - Method in class org.scijava.util.TunePlayer
plugin() - Method in class org.scijava.AbstractGateway
plugin() - Method in interface org.scijava.Gateway: Gets this application context's PluginService.
Plugin - Annotation Type in org.scijava.plugin: Annotation identifying a plugin, which gets loaded by SciJava's dynamic discovery mechanism.
PluginFinder - Interface in org.scijava.plugin: Interface for mechanisms that define how SciJava plugins are discovered.
PluginIndex - Class in org.scijava.plugin: Data structure for managing registered plugins.
PluginIndex() - Constructor for class org.scijava.plugin.PluginIndex: Constructs a new plugin index which uses a DefaultPluginFinder to discover plugins.
PluginIndex(PluginFinder) - Constructor for class org.scijava.plugin.PluginIndex: Constructs a new plugin index which uses the given PluginFinder to discover plugins.
PluginInfo<PT extends SciJavaPlugin> - Class in org.scijava.plugin: A collection of metadata about a particular plugin.
PluginInfo(String, Class<PT>) - Constructor for class org.scijava.plugin.PluginInfo: Creates a new plugin metadata object.
PluginInfo(String, Class<PT>, Plugin) - Constructor for class org.scijava.plugin.PluginInfo: Creates a new plugin metadata object.
PluginInfo(String, Class<PT>, Plugin, ClassLoader) - Constructor for class org.scijava.plugin.PluginInfo: Creates a new plugin metadata object.
PluginInfo(Class<? extends PT>, Class<PT>) - Constructor for class org.scijava.plugin.PluginInfo: Creates a new plugin metadata object.
PluginInfo(Class<? extends PT>, Class<PT>, Plugin) - Constructor for class org.scijava.plugin.PluginInfo: Creates a new plugin metadata object.
PluginInfo(String, Class<? extends PT>, Class<PT>, Plugin, ClassLoader) - Constructor for class org.scijava.plugin.PluginInfo
PLUGINS_LABEL - Static variable in class org.scijava.menu.MenuConstants
PLUGINS_MNEMONIC - Static variable in class org.scijava.menu.MenuConstants
PLUGINS_WEIGHT - Static variable in class org.scijava.menu.MenuConstants
PluginsAddedEvent - Class in org.scijava.plugin.event: An event indicating one or more plugins have been added to the PluginService.
PluginsAddedEvent(PluginInfo<?>) - Constructor for class org.scijava.plugin.event.PluginsAddedEvent
PluginsAddedEvent(Collection<? extends PluginInfo<?>>) - Constructor for class org.scijava.plugin.event.PluginsAddedEvent
pluginService() - Method in class org.scijava.command.DefaultCommandService
pluginService - Variable in class org.scijava.command.DynamicCommand
pluginService() - Method in class org.scijava.display.DefaultDisplayService
pluginService() - Method in interface org.scijava.display.DisplayService
pluginService() - Method in class org.scijava.plugin.AbstractPTService
PluginService - Interface in org.scijava.plugin: Interface for service that keeps track of available plugins.
pluginService() - Method in interface org.scijava.plugin.PTService: Gets the service responsible for discovering and managing this service's plugins.
PluginsListEvent - Class in org.scijava.plugin.event: An event indicating something has happened to the list of plugins registered with the PluginService.
PluginsListEvent(PluginInfo<?>) - Constructor for class org.scijava.plugin.event.PluginsListEvent
PluginsListEvent(Collection<? extends PluginInfo<?>>) - Constructor for class org.scijava.plugin.event.PluginsListEvent
PluginsRemovedEvent - Class in org.scijava.plugin.event: An event indicating one or more plugins have been removed from the PluginService.
PluginsRemovedEvent(PluginInfo<?>) - Constructor for class org.scijava.plugin.event.PluginsRemovedEvent
PluginsRemovedEvent(Collection<? extends PluginInfo<?>>) - Constructor for class org.scijava.plugin.event.PluginsRemovedEvent
PLUM - Static variable in class org.scijava.util.Colors
POM - Class in org.scijava.util: Helper class for working with Maven POMs.
POM(File) - Constructor for class org.scijava.util.POM: Parses a POM from the given file.
POM(URL) - Constructor for class org.scijava.util.POM: Parses a POM from the given URL.
POM(InputStream) - Constructor for class org.scijava.util.POM: Parses a POM from the given input stream.
POM(String) - Constructor for class org.scijava.util.POM: Parses a POM from the given string.
populateInputCandidates(Collection<Object>) - Method in class org.scijava.convert.AbstractConverter
populateInputCandidates(Collection<Object>) - Method in interface org.scijava.convert.Converter: Populates the given collection with objects which are known to exist, and which are usable as inputs for this converter.
postProcess() - Method in class org.scijava.module.ModuleRunner: Feeds the module through the ModulePostprocessors.
PostprocessorPlugin - Interface in org.scijava.module.process: A postprocessor plugin defines a step that occurs immediately following the actual execution of a Module.
POWDERBLUE - Static variable in class org.scijava.util.Colors
prefix(int) - Static method in class org.scijava.log.LogLevel
prefs() - Method in class org.scijava.AbstractGateway
prefs() - Method in interface org.scijava.app.App: Displays application preferences.
prefs() - Method in interface org.scijava.platform.AppEventService: Deprecated.
Use App.prefs() instead.
prefs() - Method in class org.scijava.platform.DefaultAppEventService: Deprecated.
Prefs - Class in org.scijava.util: Deprecated.
See PrefService
PrefService - Interface in org.scijava.prefs: Service for storing and retrieving arbitrary preferences.
preProcess() - Method in class org.scijava.module.ModuleRunner: Feeds the module through the ModulePreprocessors.
PreprocessorPlugin - Interface in org.scijava.module.process: A preprocessor plugin defines a step that occurs just prior to the actual execution of a Module.
preview() - Method in class org.scijava.command.CommandModule: Computes a preview of the command's results.
preview() - Method in class org.scijava.command.InteractiveCommand
preview() - Method in interface org.scijava.command.Previewable: Computes a preview of the operation's results.
preview() - Method in class org.scijava.module.AbstractModule
preview() - Method in interface org.scijava.module.Module: Computes a preview of the module's execution results, if available.
Previewable - Interface in org.scijava.command: An operation (usually a Command) whose results can be previewed.
previous(int) - Method in class org.scijava.util.LastRecentlyUsed: Given the index of an entry, returns the index of the next older entry.
PrimitiveArray<ArrayType,BaseType> - Interface in org.scijava.util: Interface for primitive-type extensible arrays, modeled after ArrayList, but more performant.
PrimitiveArrayUnwrapper<I,O,W extends PrimitiveArray<I,O>> - Class in org.scijava.convert: Abstract Converter for converting from the SciJava PrimitiveArray classes to primitive arrays.
PrimitiveArrayUnwrapper() - Constructor for class org.scijava.convert.PrimitiveArrayUnwrapper
PrimitiveArrayWrapper<I,O,W extends PrimitiveArray<I,O>> - Class in org.scijava.convert: Abstract Converter for converting from primitive array classes to the SciJava PrimitiveArray classes.
PrimitiveArrayWrapper() - Constructor for class org.scijava.convert.PrimitiveArrayWrapper
println(String) - Method in class org.scijava.util.LineOutputStream: This method is all that needs to be implemented.
Prioritized - Interface in org.scijava: An object that can be sorted according to priority.
PRIORITY - Static variable in class org.scijava.event.DefaultEventService: The default event service's priority.
PRIORITY - Static variable in class org.scijava.module.process.SaveInputsPreprocessor
Priority - Class in org.scijava: Constants for specifying an item's priority.
PRIORITY - Static variable in interface org.scijava.widget.InputHarvester
process(Set<? extends TypeElement>, RoundEnvironment) - Method in class org.scijava.annotations.AnnotationProcessor
process(Module) - Method in class org.scijava.display.ActiveDisplayPreprocessor
process(Module) - Method in class org.scijava.display.DisplayPostprocessor
process(Module) - Method in class org.scijava.module.process.CheckInputsPreprocessor
process(Module) - Method in class org.scijava.module.process.DebugPostprocessor
process(Module) - Method in class org.scijava.module.process.DebugPreprocessor
process(Module) - Method in class org.scijava.module.process.DefaultValuePreprocessor
process(Module) - Method in class org.scijava.module.process.GatewayPreprocessor
process(Module) - Method in class org.scijava.module.process.InitPreprocessor
process(Module) - Method in class org.scijava.module.process.LoadInputsPreprocessor
process(Module) - Method in class org.scijava.module.process.LoggerPreprocessor
process(Module) - Method in interface org.scijava.module.process.ModuleProcessor: Performs a processing step on the given module instance.
process(Module) - Method in class org.scijava.module.process.SaveInputsPreprocessor
process(Module) - Method in class org.scijava.module.process.ServicePreprocessor
process(Module) - Method in class org.scijava.module.process.ValidityPreprocessor
process(String) - Method in class org.scijava.script.process.DirectiveScriptProcessor
process(String, Map<String, Object>, String) - Method in class org.scijava.script.process.DirectiveScriptProcessor: Processes the given directive.
process(String) - Method in class org.scijava.script.process.ParameterScriptProcessor
process(String, Map<String, Object>, String) - Method in class org.scijava.script.process.ScriptDirectiveScriptProcessor
process(String) - Method in interface org.scijava.script.process.ScriptProcessor
process(ScriptInfo) - Method in interface org.scijava.script.process.ScriptProcessorService: Invokes all ScriptProcessor plugins on the given script, line by line in sequence.
process(String) - Method in class org.scijava.script.process.ShebangScriptProcessor
process(Module) - Method in class org.scijava.ui.AbstractInputHarvesterPlugin
process(Module) - Method in class org.scijava.ui.FileListPreprocessor
process(Module) - Method in class org.scijava.ui.FilePreprocessor
process(Module) - Method in class org.scijava.ui.UIPreprocessor
PROCESS_LABEL - Static variable in class org.scijava.menu.MenuConstants
PROCESS_MNEMONIC - Static variable in class org.scijava.menu.MenuConstants
PROCESS_WEIGHT - Static variable in class org.scijava.menu.MenuConstants
processArgs(String...) - Method in interface org.scijava.console.ConsoleService: Handles arguments from an external source such as the command line.
processArgs(String...) - Method in class org.scijava.console.DefaultConsoleService
processResults(InputPanel<P, W>, Module) - Method in interface org.scijava.widget.InputHarvester: Does any needed processing, after input values have been harvested.
ProcessUtils - Class in org.scijava.util: Useful methods for working with processes.
prompt() - Method in class org.scijava.script.ScriptREPL: Outputs the prompt.
prompt() - Method in interface org.scijava.ui.DialogPrompt
PropertiesHelper - Class in org.scijava.util: Simple utility for reading and writing a property map to/from plain text.
PropertiesHelper() - Constructor for class org.scijava.util.PropertiesHelper
proxyUnsubscribed() - Method in class org.scijava.event.bushe.AbstractProxySubscriber: Called by EventServices to inform the proxy that it is unsubscribed.
PTService<PT extends SciJavaPlugin> - Interface in org.scijava.plugin: A service for managing a particular sort of SciJavaPlugin.
publish(StatusEvent) - Method in class org.scijava.app.DefaultStatusService: Publish the status event to the event service.
publish(Object) - Method in class org.scijava.event.bushe.ThreadSafeEventService
publish(Type, Object) - Method in class org.scijava.event.bushe.ThreadSafeEventService
publish(String, Object) - Method in class org.scijava.event.bushe.ThreadSafeEventService
publish(Object, String, Object, List, List, StackTraceElement[]) - Method in class org.scijava.event.bushe.ThreadSafeEventService: All publish methods call this method.
publish(Object) - Method in class org.scijava.event.DefaultEventBus
publish(Type, Object) - Method in class org.scijava.event.DefaultEventBus
publish(String, Object) - Method in class org.scijava.event.DefaultEventBus
publish(Object, String, Object, List, List, StackTraceElement[]) - Method in class org.scijava.event.DefaultEventBus
publish(E) - Method in class org.scijava.event.DefaultEventService
publish(E) - Method in interface org.scijava.event.EventService: Publishes the given event immediately, reporting it to all subscribers.
publishLater(Object) - Method in class org.scijava.event.DefaultEventBus
publishLater(Type, Object) - Method in class org.scijava.event.DefaultEventBus
publishLater(String, Object) - Method in class org.scijava.event.DefaultEventBus
publishLater(E) - Method in class org.scijava.event.DefaultEventService
publishLater(E) - Method in interface org.scijava.event.EventService: Queues the given event for publication, typically on a separate thread (called the "event dispatch thread").
publishNow(Object) - Method in class org.scijava.event.DefaultEventBus
publishNow(Type, Object) - Method in class org.scijava.event.DefaultEventBus
publishNow(String, Object) - Method in class org.scijava.event.DefaultEventBus
PURPLE - Static variable in class org.scijava.util.Colors
put(Object, Object) - Method in interface org.scijava.cache.CacheService: Stores the given object in the cache.
put(Object, Object) - Method in class org.scijava.cache.DefaultCacheService
put(Class<?>, String, String) - Method in class org.scijava.prefs.DefaultPrefService
put(Class<?>, String, boolean) - Method in class org.scijava.prefs.DefaultPrefService
put(Class<?>, String, double) - Method in class org.scijava.prefs.DefaultPrefService
put(Class<?>, String, float) - Method in class org.scijava.prefs.DefaultPrefService
put(Class<?>, String, int) - Method in class org.scijava.prefs.DefaultPrefService
put(Class<?>, String, long) - Method in class org.scijava.prefs.DefaultPrefService
put(Class<?>, String, Map<String, String>) - Method in class org.scijava.prefs.DefaultPrefService
put(Class<?>, String, Iterable<String>) - Method in class org.scijava.prefs.DefaultPrefService
put(Class<?>, String, String) - Method in interface org.scijava.prefs.PrefService: Saves a key/value pair in persistent storage.
put(Class<?>, String, boolean) - Method in interface org.scijava.prefs.PrefService: Saves a key/value pair in persistent storage.
put(Class<?>, String, double) - Method in interface org.scijava.prefs.PrefService: Saves a key/value pair in persistent storage.
put(Class<?>, String, float) - Method in interface org.scijava.prefs.PrefService: Saves a key/value pair in persistent storage.
put(Class<?>, String, int) - Method in interface org.scijava.prefs.PrefService: Saves a key/value pair in persistent storage.
put(Class<?>, String, long) - Method in interface org.scijava.prefs.PrefService: Saves a key/value pair in persistent storage.
put(Class<?>, String, Map<String, String>) - Method in interface org.scijava.prefs.PrefService: Saves a key/value pair in persistent storage.
put(Class<?>, String, Iterable<String>) - Method in interface org.scijava.prefs.PrefService: Saves a key/value pair in persistent storage.
put(String, String) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.put(Class, String, String).
put(String, boolean) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.put(Class, String, boolean).
put(String, double) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.put(Class, String, double).
put(String, float) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.put(Class, String, float).
put(String, int) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.put(Class, String, int).
put(String, long) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.put(Class, String, long).
put(String, Object) - Method in class org.scijava.script.AbstractScriptEngine
put(String, Object) - Method in class org.scijava.script.AdaptedScriptEngine
put(String, String) - Static method in class org.scijava.util.Prefs: Deprecated.
put(String, boolean) - Static method in class org.scijava.util.Prefs: Deprecated.
put(String, double) - Static method in class org.scijava.util.Prefs: Deprecated.
put(String, float) - Static method in class org.scijava.util.Prefs: Deprecated.
put(String, int) - Static method in class org.scijava.util.Prefs: Deprecated.
put(String, long) - Static method in class org.scijava.util.Prefs: Deprecated.
put(Class<?>, String, String) - Static method in class org.scijava.util.Prefs: Deprecated.
put(Class<?>, String, boolean) - Static method in class org.scijava.util.Prefs: Deprecated.
put(Class<?>, String, double) - Static method in class org.scijava.util.Prefs: Deprecated.
put(Class<?>, String, float) - Static method in class org.scijava.util.Prefs: Deprecated.
put(Class<?>, String, int) - Static method in class org.scijava.util.Prefs: Deprecated.
put(Class<?>, String, long) - Static method in class org.scijava.util.Prefs: Deprecated.
put(Map<String, String>, File) - Static method in class org.scijava.util.PropertiesHelper
putIterable(Class<?>, Iterable<String>, String) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.put(Class, String, Iterable).
putIterable(Iterable<String>, String) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.put(Class, String, Iterable).
putList(Class<?>, List<String>) - Method in class org.scijava.prefs.DefaultPrefService: Deprecated.
putList(String, List<String>, String) - Method in class org.scijava.prefs.DefaultPrefService: Deprecated.
putList(String, List<String>) - Method in class org.scijava.prefs.DefaultPrefService: Deprecated.
putList(Class<?>, List<String>, String) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.put(Class, String, Iterable).
putList(Class<?>, List<String>) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.put(Class, String, Iterable).
putList(List<String>, String) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.put(Class, String, Iterable).
putList(String, List<String>, String) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.put(Class, String, Iterable).
putList(String, List<String>) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.put(Class, String, Iterable).
putList(List<String>, String) - Static method in class org.scijava.util.Prefs: Deprecated.

Puts a list into the preferences.
putList(Preferences, List<String>, String) - Static method in class org.scijava.util.Prefs: Deprecated.
putList(Preferences, List<String>) - Static method in class org.scijava.util.Prefs: Deprecated.

Puts a list into the preferences.
putMap(Class<?>, Map<String, String>) - Method in class org.scijava.prefs.DefaultPrefService: Deprecated.
putMap(String, Map<String, String>, String) - Method in class org.scijava.prefs.DefaultPrefService: Deprecated.
putMap(String, Map<String, String>) - Method in class org.scijava.prefs.DefaultPrefService: Deprecated.
putMap(Class<?>, Map<String, String>, String) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.put(Class, String, Map).
putMap(Class<?>, Map<String, String>) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.put(Class, String, Map).
putMap(Map<String, String>, String) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.put(Class, String, Map).
putMap(String, Map<String, String>) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.put(Class, String, Map).
putMap(String, Map<String, String>, String) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.put(Class, String, Map).
putMap(Map<String, String>, String) - Static method in class org.scijava.util.Prefs: Deprecated.

Puts a map into the preferences.
putMap(Preferences, Map<String, String>, String) - Static method in class org.scijava.util.Prefs: Deprecated.
putMap(Preferences, Map<String, String>) - Static method in class org.scijava.util.Prefs: Deprecated.

Puts a map into the preferences.

Q

Query - Class in org.scijava.util: A map of annotations to annotated elements.
Query() - Constructor for class org.scijava.util.Query
Query(Query) - Constructor for class org.scijava.util.Query
queue(Runnable) - Method in class org.scijava.thread.DefaultThreadService
queue(String, Runnable) - Method in class org.scijava.thread.DefaultThreadService
queue(String, Callable<V>) - Method in class org.scijava.thread.DefaultThreadService
queue(Runnable) - Method in interface org.scijava.thread.ThreadService: Queues the given code for later execution in a special dispatch thread, returning immediately.
queue(String, Runnable) - Method in interface org.scijava.thread.ThreadService: Queues the given code for later execution in a dispatch thread associated with the specified ID, returning immediately.
queue(String, Callable<V>) - Method in interface org.scijava.thread.ThreadService: Queues the given code for later execution in a dispatch thread associated with the specified ID, returning immediately.
quit() - Method in interface org.scijava.app.App: Quits the application.
quit() - Method in interface org.scijava.platform.AppEventService: Deprecated.
Use App.quit() instead.
quit() - Method in class org.scijava.platform.DefaultAppEventService: Deprecated.

R

RADIO_BUTTON_HORIZONTAL_STYLE - Static variable in interface org.scijava.widget.ChoiceWidget: Widget style for radio buttons arranged on a single line.
RADIO_BUTTON_VERTICAL_STYLE - Static variable in interface org.scijava.widget.ChoiceWidget: Widget style for radio buttons arranged one per line.
raw(Type) - Static method in class org.scijava.util.Types: Gets the (first) raw class of the given type.
raws(Type) - Static method in class org.scijava.util.Types: Gets all raw classes corresponding to the given type.
read(byte[], int, int) - Method in class org.scijava.download.MultiWriteHandle
read(byte[], int, int) - Method in class org.scijava.io.handle.BytesHandle
read() - Method in interface org.scijava.io.handle.DataHandle: Reads the next byte of data from the stream.
read(byte[]) - Method in interface org.scijava.io.handle.DataHandle: Reads up to b.length bytes of data from the stream into an array of bytes.
read(byte[], int, int) - Method in interface org.scijava.io.handle.DataHandle: Reads up to len bytes of data from the stream into an array of bytes.
read() - Method in class org.scijava.io.handle.DataHandleInputStream
read(byte[], int, int) - Method in class org.scijava.io.handle.DataHandleInputStream
read(byte[], int, int) - Method in class org.scijava.io.handle.DummyHandle
read() - Method in class org.scijava.io.handle.FileHandle
read(byte[]) - Method in class org.scijava.io.handle.FileHandle
read(byte[], int, int) - Method in class org.scijava.io.handle.FileHandle
read(byte[], int, int) - Method in class org.scijava.io.handle.ReadBufferDataHandle
read() - Method in interface org.scijava.io.handle.StreamHandle
read(byte[], int, int) - Method in interface org.scijava.io.handle.StreamHandle
read(byte[], int, int) - Method in class org.scijava.io.handle.WriteBufferDataHandle
readBoolean() - Method in interface org.scijava.io.handle.DataHandle
readBoolean() - Method in class org.scijava.io.handle.FileHandle
readBuffer(DataHandle<Location>) - Method in interface org.scijava.io.handle.DataHandleService: Wraps the provided DataHandle in a read-only buffer for accelerated reading.
readBuffer(Location) - Method in interface org.scijava.io.handle.DataHandleService: Creates a DataHandle on the provided Location wrapped in a read-only buffer for accelerated reading.
ReadBufferDataHandle<L extends Location> - Class in org.scijava.io.handle: Read-only buffered DataHandle.
ReadBufferDataHandle(DataHandle<L>) - Constructor for class org.scijava.io.handle.ReadBufferDataHandle: Creates a ReadBufferDataHandle wrapping the provided handle using the default values for the size of the pages ( byte) and number of pages (ReadBufferDataHandle.DEFAULT_NUM_PAGES).
ReadBufferDataHandle(DataHandle<L>, int) - Constructor for class org.scijava.io.handle.ReadBufferDataHandle: Creates a ReadBufferDataHandle wrapping the provided handle using the default value for the number of pages (ReadBufferDataHandle.DEFAULT_NUM_PAGES).
ReadBufferDataHandle(DataHandle<L>, int, int) - Constructor for class org.scijava.io.handle.ReadBufferDataHandle: Creates a ReadBufferDataHandle wrapping the provided handle.
readByte() - Method in class org.scijava.download.MultiWriteHandle
readByte() - Method in class org.scijava.io.handle.BytesHandle
readByte() - Method in class org.scijava.io.handle.DummyHandle
readByte() - Method in class org.scijava.io.handle.FileHandle
readByte() - Method in class org.scijava.io.handle.ReadBufferDataHandle
readByte() - Method in interface org.scijava.io.handle.StreamHandle
readByte() - Method in class org.scijava.io.handle.WriteBufferDataHandle
readChar() - Method in interface org.scijava.io.handle.DataHandle
readCString() - Method in interface org.scijava.io.handle.DataHandle: Reads a string of arbitrary length, terminated by a null char.
readDouble() - Method in interface org.scijava.io.handle.DataHandle
reader - Variable in class org.scijava.script.AbstractScriptContext
reader - Variable in class org.scijava.util.ReadInto
readFile(File) - Static method in class org.scijava.util.FileUtils: Reads the contents of the given file into a new byte array.
readFloat() - Method in interface org.scijava.io.handle.DataHandle
readFully(byte[], int, int) - Method in class org.scijava.io.handle.BytesHandle
readFully(byte[]) - Method in interface org.scijava.io.handle.DataHandle
readFully(byte[], int, int) - Method in interface org.scijava.io.handle.DataHandle
readFully(byte[]) - Method in class org.scijava.io.handle.FileHandle
readFully(byte[], int, int) - Method in class org.scijava.io.handle.FileHandle
readHistory() - Method in class org.scijava.script.DefaultScriptInterpreter
readHistory() - Method in interface org.scijava.script.ScriptInterpreter: Reads the persisted history of the current script interpreter.
readInt() - Method in interface org.scijava.io.handle.DataHandle
ReadInto - Class in org.scijava.util: This class takes an InputStream and either accumulates the read bytes in a String or outputs to a PrintStream.
ReadInto(InputStream, PrintStream) - Constructor for class org.scijava.util.ReadInto: Construct a ReadInto thread and start it right away.
ReadInto(InputStream, PrintStream, boolean) - Constructor for class org.scijava.util.ReadInto: Construct a ReadInto thread and start it right away.
readLine() - Method in interface org.scijava.io.handle.DataHandle
readLine() - Method in class org.scijava.io.handle.FileHandle
readLong() - Method in interface org.scijava.io.handle.DataHandle
readObject() - Method in class org.scijava.annotations.legacy.LegacyReader
readOnlyException() - Static method in class org.scijava.io.handle.DataHandles
readShort() - Method in interface org.scijava.io.handle.DataHandle
readState(DataInputStream) - Method in class org.scijava.util.MersenneTwisterFast: Reads the entire state of the MersenneTwister RNG from the stream
readString(int) - Method in interface org.scijava.io.handle.DataHandle: Reads a string of up to length n.
readString(String) - Method in interface org.scijava.io.handle.DataHandle: Reads a string ending with one of the characters in the given string.
readUnsignedByte() - Method in interface org.scijava.io.handle.DataHandle
readUnsignedByte() - Method in class org.scijava.io.handle.FileHandle
readUnsignedShort() - Method in interface org.scijava.io.handle.DataHandle
readUTF() - Method in interface org.scijava.io.handle.DataHandle
readUTF() - Method in class org.scijava.io.handle.FileHandle
RealCoords - Class in org.scijava.util: This class represents an (X, Y) coordinate pair in real coordinates.
RealCoords(double, double) - Constructor for class org.scijava.util.RealCoords
RealRect - Class in org.scijava.util: A class for representing a rectangular region, in real coordinates.
RealRect() - Constructor for class org.scijava.util.RealRect
RealRect(double, double, double, double) - Constructor for class org.scijava.util.RealRect
rebuild() - Method in class org.scijava.display.AbstractDisplay
recentFile() - Method in class org.scijava.AbstractGateway
recentFile() - Method in interface org.scijava.Gateway: Gets this application context's RecentFileService.
RecentFileService - Interface in org.scijava.io: Interface for services that manage the Recently Used Files menu.
recreatePossible() - Method in class org.scijava.io.handle.AbstractSeekableStreamHandle: In some implementations of this class, the ability to recreate the stream depends on external factors (e.g. server support).
recreateStreamFromPos(long) - Method in class org.scijava.io.handle.AbstractSeekableStreamHandle: Recreates the internal input stream available through StreamHandle.in(), so that it starts from the specified position.
RED - Static variable in class org.scijava.util.Colors
redoLayout() - Method in interface org.scijava.ui.viewer.DisplayPanel: Rebuilds the display window to reflect the display's current views, dimensional lengths, etc.
redraw() - Method in interface org.scijava.ui.viewer.DisplayPanel: Redraws the contents of the panel.
ReferenceStrength - Enum in org.scijava.event.bushe: The two kinds of references that are used in the EventBus.
ReflectedUniverse - Class in org.scijava.util: A general-purpose reflection wrapper class.
ReflectedUniverse() - Constructor for class org.scijava.util.ReflectedUniverse: Constructs a new reflected universe.
ReflectedUniverse(URL[]) - Constructor for class org.scijava.util.ReflectedUniverse: Constructs a new reflected universe, with the given URLs representing additional search paths for imported classes (in addition to the CLASSPATH).
ReflectedUniverse(ClassLoader) - Constructor for class org.scijava.util.ReflectedUniverse: Constructs a new reflected universe that uses the given class loader.
ReflectException - Exception in org.scijava.util: An exception thrown when something goes wrong performing a reflected operation with ReflectedUniverse.
ReflectException() - Constructor for exception org.scijava.util.ReflectException
ReflectException(String) - Constructor for exception org.scijava.util.ReflectException
ReflectException(String, Throwable) - Constructor for exception org.scijava.util.ReflectException
ReflectException(Throwable) - Constructor for exception org.scijava.util.ReflectException
refresh() - Method in class org.scijava.widget.AbstractInputPanel
refresh() - Method in interface org.scijava.widget.InputPanel: Updates the widgets to reflect the most recent parameter value(s).
refreshWidget() - Method in class org.scijava.ui.AbstractUIInputWidget
refreshWidget() - Method in interface org.scijava.widget.InputWidget: Refreshes the widget to reflect the latest model value(s).
registerAppMenus(Object) - Method in class org.scijava.platform.DefaultPlatformService
registerAppMenus(Object) - Method in interface org.scijava.platform.Platform: Informs the platform of a UI's newly created application menu structure.
registerAppMenus(Object) - Method in interface org.scijava.platform.PlatformService: Informs the active platform handlers of a UI's newly created application menu structure.
registerEventHandlers() - Method in interface org.scijava.service.Service: Registers the service's event handler methods.
registerInput(ModuleItem<?>) - Method in class org.scijava.module.AbstractModuleInfo: Adds an input.
registerInput(ModuleItem<?>) - Method in class org.scijava.script.ScriptInfo
registerOutput(ModuleItem<?>) - Method in class org.scijava.module.AbstractModuleInfo: Adds an output.
registerOutput(ModuleItem<?>) - Method in class org.scijava.script.ScriptInfo
reloadPlugins() - Method in class org.scijava.plugin.DefaultPluginService
reloadPlugins() - Method in interface org.scijava.plugin.PluginService: Rediscovers all plugins available on the classpath.
RemoteLocation - Interface in org.scijava.io.location: A Location which resides on a remote machine.
remove(int) - Method in class org.scijava.display.AbstractDisplay
remove(Object) - Method in class org.scijava.display.AbstractDisplay
remove(String) - Method in class org.scijava.io.DefaultRecentFileService
remove(String) - Method in interface org.scijava.io.RecentFileService: Removes a path from the list of recent files.
remove(Object) - Method in class org.scijava.menu.ShadowMenu
remove() - Method in class org.scijava.menu.ShadowMenuIterator
remove(Object) - Method in class org.scijava.object.ObjectIndex
remove(Object, boolean) - Method in class org.scijava.object.ObjectIndex: Removes the object from all compatible type lists.
remove(Object, Class<?>, boolean) - Method in class org.scijava.object.ObjectIndex: Removes an object from type lists beneath the given type hierarchy.
remove(Object, boolean) - Method in class org.scijava.plugin.PluginIndex: Removes the plugin from all type lists compatible with its plugin type.
remove(Class<?>, String) - Method in class org.scijava.prefs.DefaultPrefService
remove(String, String) - Method in class org.scijava.prefs.DefaultPrefService: Deprecated.
remove(Class<?>, String) - Method in interface org.scijava.prefs.PrefService: Deletes a key from persistent storage.
remove(String, String) - Method in interface org.scijava.prefs.PrefService: Deprecated.
Use PrefService.remove(Class, String).
remove(int) - Method in class org.scijava.util.AbstractPrimitiveArray
remove(Object) - Method in class org.scijava.util.BoolArray
remove(Object) - Method in class org.scijava.util.ByteArray
remove(Object) - Method in class org.scijava.util.CharArray
remove(Object) - Method in class org.scijava.util.DoubleArray
remove(Object) - Method in class org.scijava.util.FloatArray
remove(Object) - Method in class org.scijava.util.IntArray
remove() - Method in class org.scijava.util.IteratorPlus
remove(Object) - Method in class org.scijava.util.LastRecentlyUsed
remove(Object) - Method in class org.scijava.util.LongArray
remove(Object) - Method in class org.scijava.util.ObjectArray
remove(Preferences, String) - Static method in class org.scijava.util.Prefs: Deprecated.

Removes the node.
remove(Object) - Method in class org.scijava.util.ShortArray
removeAll(Collection<?>) - Method in class org.scijava.display.AbstractDisplay
removeAll(Collection<?>) - Method in class org.scijava.menu.ShadowMenu
removeAll(Collection<?>) - Method in class org.scijava.object.ObjectIndex
removeAll(Collection<?>) - Method in class org.scijava.util.BoolArray
removeAll(Collection<?>) - Method in class org.scijava.util.ByteArray
removeAll(Collection<?>) - Method in class org.scijava.util.CharArray
removeAll(Collection<?>) - Method in class org.scijava.util.DoubleArray
removeAll(Collection<?>) - Method in class org.scijava.util.FloatArray
removeAll(Collection<?>) - Method in class org.scijava.util.IntArray
removeAll(Collection<?>) - Method in class org.scijava.util.LastRecentlyUsed
removeAll(Collection<?>) - Method in class org.scijava.util.LongArray
removeAll(Collection<?>) - Method in class org.scijava.util.ObjectArray
removeAll(Collection<?>) - Method in class org.scijava.util.ShortArray
removeAttribute(String, int) - Method in class org.scijava.script.AbstractScriptContext
removeFromList(Object, List<E>, boolean) - Method in class org.scijava.object.ObjectIndex
removeInput(ModuleItem<?>) - Method in class org.scijava.module.DefaultMutableModuleInfo
removeInput(ModuleItem<?>) - Method in interface org.scijava.module.MutableModule: Removes an input from the list.
removeInput(ModuleItem<?>) - Method in interface org.scijava.module.MutableModuleInfo: Removes an input from the list.
removeListener(EventHistoryListener) - Method in class org.scijava.event.DefaultEventHistory
removeListener(EventHistoryListener) - Method in interface org.scijava.event.EventHistory: Removes an event history listener.
removeLogListener(LogListener) - Method in class org.scijava.log.AbstractLogService
removeLogListener(LogListener) - Method in class org.scijava.log.DefaultLogger
removeLogListener(LogListener) - Method in interface org.scijava.log.Logger: Removes an item from the list of registered listeners.
removeModule(ModuleInfo) - Method in class org.scijava.module.DefaultModuleService
removeModule(ModuleInfo) - Method in interface org.scijava.module.ModuleService: Manually unregisters a module with the module service.
removeModules(Collection<? extends ModuleInfo>) - Method in class org.scijava.module.DefaultModuleService
removeModules(Collection<? extends ModuleInfo>) - Method in interface org.scijava.module.ModuleService: Manually unregisters a list of modules with the module service.
removeObject(Object) - Method in interface org.scijava.object.ObjectService: Deregisters an object with the object service.
removeOutput(ModuleItem<?>) - Method in class org.scijava.module.DefaultMutableModuleInfo
removeOutput(ModuleItem<?>) - Method in interface org.scijava.module.MutableModule: Removes an output from the list.
removeOutput(ModuleItem<?>) - Method in interface org.scijava.module.MutableModuleInfo: Removes an output from the list.
removeOutputListener(OutputListener) - Method in interface org.scijava.console.ConsoleService: Removes a listener for output sent to stdout or stderr.
removeOutputListener(OutputListener) - Method in class org.scijava.console.DefaultConsoleService
removeOutputStream(OutputStream) - Method in class org.scijava.console.MultiOutputStream: Removes an output stream from those receiving this stream's output.
removePlugin(PluginInfo<?>) - Method in class org.scijava.plugin.DefaultPluginService
removePlugin(PluginInfo<?>) - Method in interface org.scijava.plugin.PluginService: Manually unregisters a plugin with the plugin service.
removePlugins(Collection<T>) - Method in class org.scijava.plugin.DefaultPluginService
removePlugins(Collection<T>) - Method in interface org.scijava.plugin.PluginService: Manually unregisters plugins with the plugin service.
removePropertyChangeListener(PropertyChangeListener) - Method in interface org.scijava.ui.Arrangeable
removeProxySubscriber(ProxySubscriber, Iterator) - Method in class org.scijava.event.bushe.ThreadSafeEventService
removeScriptDirectory(File) - Method in class org.scijava.script.DefaultScriptService
removeScriptDirectory(File) - Method in interface org.scijava.script.ScriptService: Removes a base directory to scan for scripts.
removeValue(boolean) - Method in class org.scijava.util.BoolArray
removeValue(byte) - Method in class org.scijava.util.ByteArray
removeValue(char) - Method in class org.scijava.util.CharArray
removeValue(double) - Method in class org.scijava.util.DoubleArray
removeValue(float) - Method in class org.scijava.util.FloatArray
removeValue(int) - Method in class org.scijava.util.IntArray
removeValue(long) - Method in class org.scijava.util.LongArray
removeValue(E) - Method in class org.scijava.util.ObjectArray
removeValue(short) - Method in class org.scijava.util.ShortArray
replace(int, T) - Method in class org.scijava.util.LastRecentlyUsed
report(String) - Method in class org.scijava.util.Timing
reportLine(double, double, double, double) - Method in class org.scijava.tool.DefaultToolService
reportLine(double, double, double, double) - Method in interface org.scijava.tool.ToolService: Publishes line length and angle in the status bar.
reportLine(RealCoords, RealCoords) - Method in interface org.scijava.tool.ToolService: Publishes line length and angle in the status bar.
reportPoint(double, double) - Method in class org.scijava.tool.DefaultToolService
reportPoint(double, double) - Method in interface org.scijava.tool.ToolService: Publishes point coordinates to the status bar.
reportPoint(RealCoords) - Method in interface org.scijava.tool.ToolService: Publishes point coordinates to the status bar.
reportRectangle(double, double, double, double) - Method in class org.scijava.tool.DefaultToolService
reportRectangle(double, double, double, double) - Method in interface org.scijava.tool.ToolService: Publishes rectangle dimensions in the status bar.
reportRectangle(RealCoords, RealCoords) - Method in interface org.scijava.tool.ToolService: Publishes rectangle dimensions in the status bar.
requestFocus() - Method in interface org.scijava.ui.viewer.DisplayWindow
requiresEDT() - Method in class org.scijava.ui.headless.HeadlessUI
requiresEDT() - Method in interface org.scijava.ui.UserInterface: Returns true if this UI requires the EDT.
reset() - Method in class org.scijava.io.handle.DataHandleInputStream
reset() - Method in class org.scijava.options.OptionsPlugin: Clears option values from persistent storage.
reset() - Method in interface org.scijava.options.OptionsService: Clears all option values from persistent storage.
reset() - Method in class org.scijava.script.DefaultScriptInterpreter
reset() - Method in interface org.scijava.script.ScriptInterpreter: Clears the buffer of not-yet-evaluated lines of code, accumulated from previous calls to ScriptInterpreter.interpret(java.lang.String).
reset() - Method in class org.scijava.util.Timing
resetStream() - Method in interface org.scijava.io.handle.ResettableStreamHandle: Resets the stream to its start.
resetStream() - Method in interface org.scijava.io.handle.StreamHandle: Resets the stream to its start.
ResettableStreamHandle<L extends Location> - Interface in org.scijava.io.handle: A DataHandle backed by an InputStream and/or OutputStream.
resolve(URI) - Method in class org.scijava.io.location.FileLocationResolver
resolve(URI) - Method in interface org.scijava.io.location.LocationResolver: Resolves the given URI to a Location
resolve(String) - Method in interface org.scijava.io.location.LocationService: Turns the given string into a URI, then resolves it to a Location.
resolve(URI) - Method in interface org.scijava.io.location.LocationService: Resolves the given URI to a location.
resolveInput(String) - Method in class org.scijava.module.AbstractModule
resolveInput(String) - Method in interface org.scijava.module.Module: Marks the input with the given name as resolved.
resolveOutput(String) - Method in class org.scijava.module.AbstractModule
resolveOutput(String) - Method in interface org.scijava.module.Module: Marks the output with the given name as resolved.
restoreLocation() - Method in class org.scijava.ui.AbstractUserInterface
restoreLocation() - Method in class org.scijava.ui.headless.HeadlessUI
restoreLocation() - Method in interface org.scijava.ui.UserInterface: Restores the application frame's current location.
retainAll(Collection<?>) - Method in class org.scijava.display.AbstractDisplay
retainAll(Collection<?>) - Method in class org.scijava.menu.ShadowMenu
retainAll(Collection<?>) - Method in class org.scijava.object.ObjectIndex
retainAll(Collection<?>) - Method in class org.scijava.util.LastRecentlyUsed
retrieveList(Class<?>) - Method in class org.scijava.object.ObjectIndex: Retrieves the type list for the given type, creating it if necessary.
retrieveListsForType(Class<?>) - Method in class org.scijava.object.ObjectIndex
retryReflectiveCallUsingAccessibleObject(Object[], Method, Object, IllegalAccessException, String) - Method in class org.scijava.event.bushe.AbstractProxySubscriber
RETURN_VALUE - Static variable in class org.scijava.script.ScriptModule
RichPlugin - Interface in org.scijava.plugin: Base interface for Contextual, Prioritized plugins that retain access to their associated PluginInfo metadata via the HasPluginInfo interface.
RIGHT_BUTTON - Static variable in class org.scijava.display.event.input.MsButtonEvent
ROSYBROWN - Static variable in class org.scijava.util.Colors
ROYALBLUE - Static variable in class org.scijava.util.Colors
run() - Method in class org.scijava.command.CommandModule
run(String, boolean, Object...) - Method in interface org.scijava.command.CommandService: Executes the first command of the given class name.
run(String, boolean, Map<String, Object>) - Method in interface org.scijava.command.CommandService: Executes the first command of the given class name.
run(Class<C>, boolean, Object...) - Method in interface org.scijava.command.CommandService: Executes the first command of the given class.
run(Class<C>, boolean, Map<String, Object>) - Method in interface org.scijava.command.CommandService: Executes the first command of the given class.
run(CommandInfo, boolean, Object...) - Method in interface org.scijava.command.CommandService: Executes the given command.
run(CommandInfo, boolean, Map<String, Object>) - Method in interface org.scijava.command.CommandService: Executes the given command.
run(String, boolean, Object...) - Method in class org.scijava.command.DefaultCommandService
run(String, boolean, Map<String, Object>) - Method in class org.scijava.command.DefaultCommandService
run(Class<C>, boolean, Object...) - Method in class org.scijava.command.DefaultCommandService
run(Class<C>, boolean, Map<String, Object>) - Method in class org.scijava.command.DefaultCommandService
run(CommandInfo, boolean, Object...) - Method in class org.scijava.command.DefaultCommandService
run(CommandInfo, boolean, Map<String, Object>) - Method in class org.scijava.command.DefaultCommandService
run(Object, Object...) - Method in class org.scijava.command.run.CommandCodeRunner
run(Object, Map<String, Object>) - Method in class org.scijava.command.run.CommandCodeRunner
run() - Method in class org.scijava.command.UnimplementedCommand
run(Object, Object...) - Method in class org.scijava.main.run.MainCodeRunner
run(Object, Map<String, Object>) - Method in class org.scijava.main.run.MainCodeRunner
run() - Method in class org.scijava.menu.ShadowMenu: Executes the module linked to this node.
run(ModuleInfo, boolean, Object...) - Method in class org.scijava.module.DefaultModuleService
run(ModuleInfo, boolean, Map<String, Object>) - Method in class org.scijava.module.DefaultModuleService
run(ModuleInfo, List<? extends ModulePreprocessor>, List<? extends ModulePostprocessor>, Object...) - Method in class org.scijava.module.DefaultModuleService
run(ModuleInfo, List<? extends ModulePreprocessor>, List<? extends ModulePostprocessor>, Map<String, Object>) - Method in class org.scijava.module.DefaultModuleService
run(M, boolean, Object...) - Method in class org.scijava.module.DefaultModuleService
run(M, boolean, Map<String, Object>) - Method in class org.scijava.module.DefaultModuleService
run(M, List<? extends ModulePreprocessor>, List<? extends ModulePostprocessor>, Object...) - Method in class org.scijava.module.DefaultModuleService
run(M, List<? extends ModulePreprocessor>, List<? extends ModulePostprocessor>, Map<String, Object>) - Method in class org.scijava.module.DefaultModuleService
run() - Method in class org.scijava.module.ModuleRunner: Executes the module, including pre- and post-processing and event notification.
run(ModuleInfo, boolean, Object...) - Method in interface org.scijava.module.ModuleService: Executes the given module.
run(ModuleInfo, boolean, Map<String, Object>) - Method in interface org.scijava.module.ModuleService: Executes the given module.
run(ModuleInfo, List<? extends ModulePreprocessor>, List<? extends ModulePostprocessor>, Object...) - Method in interface org.scijava.module.ModuleService: Executes the given module.
run(ModuleInfo, List<? extends ModulePreprocessor>, List<? extends ModulePostprocessor>, Map<String, Object>) - Method in interface org.scijava.module.ModuleService: Executes the given module.
run(M, boolean, Object...) - Method in interface org.scijava.module.ModuleService: Executes the given module.
run(M, boolean, Map<String, Object>) - Method in interface org.scijava.module.ModuleService: Executes the given module.
run(M, List<? extends ModulePreprocessor>, List<? extends ModulePostprocessor>, Object...) - Method in interface org.scijava.module.ModuleService: Executes the given module.
run(M, List<? extends ModulePreprocessor>, List<? extends ModulePostprocessor>, Map<String, Object>) - Method in interface org.scijava.module.ModuleService: Executes the given module.
run() - Method in interface org.scijava.module.MutableModule
run(Object, Object...) - Method in class org.scijava.module.run.ModuleCodeRunner
run(Object, Map<String, Object>) - Method in class org.scijava.module.run.ModuleCodeRunner
run() - Method in class org.scijava.options.OptionsPlugin
run(Object, Object...) - Method in interface org.scijava.run.CodeRunner: Executes the code identified by the given object, passing the specified arguments as inputs.
run(Object, Map<String, Object>) - Method in interface org.scijava.run.CodeRunner: Executes the code identified by the given object, passing the arguments in the specified map as inputs.
run(Object, Object...) - Method in interface org.scijava.run.RunService: Executes the given code using the most appropriate handler, passing the specified arguments as inputs.
run(Object, Map<String, Object>) - Method in interface org.scijava.run.RunService: Executes the given code using the most appropriate handler, passing the arguments in the specified map as inputs.
run(File, boolean, Object...) - Method in class org.scijava.script.DefaultScriptService
run(File, boolean, Map<String, Object>) - Method in class org.scijava.script.DefaultScriptService
run(ScriptInfo, boolean, Object...) - Method in class org.scijava.script.DefaultScriptService
run(ScriptInfo, boolean, Map<String, Object>) - Method in class org.scijava.script.DefaultScriptService
run(Object, Object...) - Method in class org.scijava.script.run.ScriptCodeRunner
run(Object, Map<String, Object>) - Method in class org.scijava.script.run.ScriptCodeRunner
run() - Method in class org.scijava.script.ScriptModule
run(File, boolean, Object...) - Method in interface org.scijava.script.ScriptService: Executes the script in the given file.
run(File, boolean, Map<String, Object>) - Method in interface org.scijava.script.ScriptService: Executes the script in the given file.
run(String, String, boolean, Object...) - Method in interface org.scijava.script.ScriptService: Executes the given script.
run(String, String, boolean, Map<String, Object>) - Method in interface org.scijava.script.ScriptService: Executes the given script.
run(String, Reader, boolean, Object...) - Method in interface org.scijava.script.ScriptService: Executes the given script.
run(String, Reader, boolean, Map<String, Object>) - Method in interface org.scijava.script.ScriptService: Executes the given script.
run(ScriptInfo, boolean, Object...) - Method in interface org.scijava.script.ScriptService: Executes the given script.
run(ScriptInfo, boolean, Map<String, Object>) - Method in interface org.scijava.script.ScriptService: Executes the given script.
run(Runnable) - Method in class org.scijava.task.DefaultTask
run(Runnable) - Method in interface org.scijava.task.Task: Starts running the task - asynchronous job
run(Callable<V>) - Method in class org.scijava.thread.DefaultThreadService
run(Runnable) - Method in class org.scijava.thread.DefaultThreadService
run(Callable<V>) - Method in interface org.scijava.thread.ThreadService: Asynchronously executes the given code in a new thread, as decided by the thread service.
run(Runnable) - Method in interface org.scijava.thread.ThreadService: Asynchronously executes the given code in a new thread, as decided by the thread service.
run() - Method in class org.scijava.util.MirrorWebsite
run() - Method in class org.scijava.util.ReadInto: The main method.
RunArgument - Class in org.scijava.command.console: Deprecated.
Use RunArgument instead.
RunArgument() - Constructor for class org.scijava.command.console.RunArgument: Deprecated.
RunArgument - Class in org.scijava.run.console: Handles the --run command line argument.
RunArgument() - Constructor for class org.scijava.run.console.RunArgument
RunScriptArgument - Class in org.scijava.script.console: Deprecated.
Use RunArgument instead.
RunScriptArgument() - Constructor for class org.scijava.script.console.RunScriptArgument: Deprecated.
RunService - Interface in org.scijava.run: Interface for service that manages available CodeRunner plugins.

S

SADDLEBROWN - Static variable in class org.scijava.util.Colors
safeMultiply32(long...) - Static method in class org.scijava.util.ArrayUtils: Checks that the product of the given sizes does not exceed the 32-bit integer limit (i.e., Integer.MAX_VALUE).
safeMultiply64(long...) - Static method in class org.scijava.util.ArrayUtils: Checks that the product of the given sizes does not exceed the 64-bit integer limit (i.e., Long.MAX_VALUE).
SALMON - Static variable in class org.scijava.util.Colors
samePrefix(String, String) - Static method in class org.scijava.util.StringUtils: Checks if two filenames have the same prefix.
SANDYBROWN - Static variable in class org.scijava.util.Colors
sanitize(String) - Static method in class org.scijava.util.StringUtils: Removes unprintable characters from the given string.
sanitizeDouble(String) - Static method in class org.scijava.util.StringUtils: Normalizes the decimal separator for the user's locale.
save(D, String) - Method in class org.scijava.io.AbstractIOPlugin
save(D, String) - Method in class org.scijava.io.AbstractTypedIOService
save(D, Location) - Method in class org.scijava.io.AbstractTypedIOService
save(Object, String) - Method in class org.scijava.io.DefaultIOService
save(Object, Location) - Method in class org.scijava.io.DefaultIOService
save(D, String) - Method in interface org.scijava.io.IOPlugin: Saves the given data to the specified destination.
save(D, Location) - Method in interface org.scijava.io.IOPlugin: Saves the given data to the specified location.
save(Object, String) - Method in interface org.scijava.io.IOService: Saves data to the given destination.
save(Object, Location) - Method in interface org.scijava.io.IOService: Saves data to the given location.
save(D, String) - Method in interface org.scijava.io.TypedIOService: Saves data to the given destination.
save(D, Location) - Method in interface org.scijava.io.TypedIOService: Saves data to the given location.
save(ModuleItem<T>, T) - Method in class org.scijava.module.DefaultModuleService
save(ModuleItem<T>, T) - Method in interface org.scijava.module.ModuleService: Registers the given value for the given ModuleItem using the PrefService.
save() - Method in class org.scijava.options.OptionsPlugin: Saves option values to persistent storage.
SAVE_STYLE - Static variable in interface org.scijava.widget.FileWidget: Widget style for file saver dialogs.
saveChecksum(Location, String) - Method in class org.scijava.download.DiskLocationCache
saveChecksum(Location, String) - Method in interface org.scijava.download.LocationCache: Associates the given checksum value with the specified source location.
saveInputs() - Method in class org.scijava.command.DynamicCommand: Persists current input values.
saveInputs(Module) - Method in class org.scijava.module.DefaultModuleService
saveInputs(Module) - Method in interface org.scijava.module.ModuleService: Saves values to persistent storage from the given Module.
SaveInputsPreprocessor - Class in org.scijava.module.process: A preprocessor for saving populated input values to persistent storage.
SaveInputsPreprocessor() - Constructor for class org.scijava.module.process.SaveInputsPreprocessor
saveLocation() - Method in class org.scijava.ui.AbstractUserInterface
saveLocation() - Method in class org.scijava.ui.headless.HeadlessUI
saveLocation() - Method in interface org.scijava.ui.UserInterface: Persists the application frame's current location.
saveValue(T) - Method in class org.scijava.module.AbstractModuleItem: Deprecated.
saveValue(T) - Method in interface org.scijava.module.ModuleItem: Deprecated.
SciJava - Class in org.scijava: Main entry point into SciJava.
SciJava() - Constructor for class org.scijava.SciJava: Creates a new SciJava application context with all available services.
SciJava(boolean) - Constructor for class org.scijava.SciJava: Creates a new Scijava application context.
SciJava(Class...) - Constructor for class org.scijava.SciJava: Creates a new SciJava application context with the specified services (and any required service dependencies).
SciJava(Collection<Class<? extends Service>>) - Constructor for class org.scijava.SciJava: Creates a new SciJava application context with the specified services (and any required service dependencies).
SciJava(Context) - Constructor for class org.scijava.SciJava: Creates a new SciJava application context which wraps the given existing SciJava context.
SciJavaApp - Class in org.scijava.app: Application metadata about SciJava Common.
SciJavaApp() - Constructor for class org.scijava.app.SciJavaApp
SciJavaEvent - Class in org.scijava.event: Base class for all SciJava events.
SciJavaEvent() - Constructor for class org.scijava.event.SciJavaEvent
SciJavaPlugin - Interface in org.scijava.plugin: Top-level interface for plugins.
SciJavaService - Interface in org.scijava.service: Marker interface for core SciJava Common Services.
script() - Method in class org.scijava.AbstractGateway
script() - Method in interface org.scijava.Gateway: Gets this application context's ScriptService.
ScriptCallback - Interface in org.scijava.script.process: A routine which will be invoked just prior to script execution.
ScriptCLI - Class in org.scijava.script: A command-line entry point for running SciJava scripts.
ScriptCLI() - Constructor for class org.scijava.script.ScriptCLI
ScriptCodeRunner - Class in org.scijava.script.run: Runs the given script.
ScriptCodeRunner() - Constructor for class org.scijava.script.run.ScriptCodeRunner
scriptContext - Variable in class org.scijava.script.AbstractScriptEngine
ScriptDirectiveScriptProcessor - Class in org.scijava.script.process: A ScriptProcessor which parses the #@script directive.
ScriptDirectiveScriptProcessor() - Constructor for class org.scijava.script.process.ScriptDirectiveScriptProcessor
ScriptFileDragAndDropHandler - Class in org.scijava.ui.dnd: Drag-and-drop handler for script files.
ScriptFileDragAndDropHandler() - Constructor for class org.scijava.ui.dnd.ScriptFileDragAndDropHandler
ScriptFinder - Class in org.scijava.script: Discovers scripts.
ScriptFinder(Context) - Constructor for class org.scijava.script.ScriptFinder: Creates a new script finder.
ScriptFinder(Context, String) - Constructor for class org.scijava.script.ScriptFinder: Creates a new script finder.
ScriptFinder(ScriptService) - Constructor for class org.scijava.script.ScriptFinder: Deprecated.
Use ScriptFinder(Context) instead.
ScriptHeader - Interface in org.scijava.script: Represents one or more canned lines intended to go at the top of scripts of a given language.
ScriptHeaderService - Interface in org.scijava.script: Interface for a HandlerService capable of mapping ScriptLanguages to ScriptHeaders.
ScriptInfo - Class in org.scijava.script: Metadata about a script.
ScriptInfo(Context, File) - Constructor for class org.scijava.script.ScriptInfo: Creates a script metadata object which describes the given script file.
ScriptInfo(Context, String) - Constructor for class org.scijava.script.ScriptInfo: Creates a script metadata object which describes the given script file.
ScriptInfo(Context, URL, String) - Constructor for class org.scijava.script.ScriptInfo: Creates a script metadata object which describes a script at the given URL.
ScriptInfo(Context, String, Reader) - Constructor for class org.scijava.script.ScriptInfo: Creates a script metadata object which describes a script provided by the given Reader.
ScriptInterpreter - Interface in org.scijava.script: The contract for script interpreters.
ScriptIOPlugin - Class in org.scijava.script.io: IOPlugin for scripts.
ScriptIOPlugin() - Constructor for class org.scijava.script.io.ScriptIOPlugin
ScriptLanguage - Interface in org.scijava.script: The base interface for scripting language adapters.
ScriptLanguageIndex - Class in org.scijava.script: Data structure for managing registered scripting languages.
ScriptLanguageIndex() - Constructor for class org.scijava.script.ScriptLanguageIndex: Deprecated.
ScriptLanguageIndex(LogService) - Constructor for class org.scijava.script.ScriptLanguageIndex: Instantiates an index of the available script languages.
ScriptModule - Class in org.scijava.script: A Module which executes a script.
ScriptModule(ScriptInfo) - Constructor for class org.scijava.script.ScriptModule
ScriptProcessor - Interface in org.scijava.script.process: A script processor defines some sort of processing that primes a particular script for execution.
ScriptProcessorService - Interface in org.scijava.script.process: Interface for service that processes scripts.
ScriptREPL - Class in org.scijava.script: A REPL for SciJava script engines, which allows dynamic language switching.
ScriptREPL(Context) - Constructor for class org.scijava.script.ScriptREPL
ScriptREPL(Context, String) - Constructor for class org.scijava.script.ScriptREPL
ScriptREPL(Context, OutputStream) - Constructor for class org.scijava.script.ScriptREPL
ScriptREPL(Context, String, OutputStream) - Constructor for class org.scijava.script.ScriptREPL
ScriptREPL(Context, String, Consumer<String>) - Constructor for class org.scijava.script.ScriptREPL
SCRIPTS_PATH_PROPERTY - Static variable in interface org.scijava.script.ScriptService: System property for overriding the list of directories to scan for scripts.
SCRIPTS_RESOURCE_DIR - Static variable in interface org.scijava.script.ScriptService: Base directory for discovering scripts, including within classpath resources as well as beneath the application base directory.
ScriptService - Interface in org.scijava.script: Interface for service that works with scripts.
SCROLL_BAR_STYLE - Static variable in interface org.scijava.widget.NumberWidget: Widget style for scroll bar with spinner.
SEAGREEN - Static variable in class org.scijava.util.Colors
SEASHELL - Static variable in class org.scijava.util.Colors
seek(long) - Method in class org.scijava.download.MultiWriteHandle
seek(long) - Method in class org.scijava.io.handle.AbstractSeekableStreamHandle
seek(long) - Method in class org.scijava.io.handle.BytesHandle
seek(long) - Method in interface org.scijava.io.handle.DataHandle: Sets the stream offset, measured from the beginning of the stream, at which the next read or write occurs.
seek(long) - Method in class org.scijava.io.handle.DummyHandle
seek(long) - Method in class org.scijava.io.handle.FileHandle
seek(long) - Method in class org.scijava.io.handle.ReadBufferDataHandle
seek(long) - Method in interface org.scijava.io.handle.ResettableStreamHandle
seek(long) - Method in interface org.scijava.io.handle.SeekableStreamHandle
seek(long) - Method in interface org.scijava.io.handle.StreamHandle
seek(long) - Method in class org.scijava.io.handle.WriteBufferDataHandle
SeekableStreamHandle<L extends Location> - Interface in org.scijava.io.handle: A DataHandle backed by an InputStream and/or OutputStream.
SEPARATOR - Static variable in class org.scijava.log.LogSource
SEPARATOR_DISTANCE - Static variable in interface org.scijava.tool.ToolService
service(Class<S>) - Method in class org.scijava.Context: Gets the service of the given class.
service(String) - Method in class org.scijava.Context: Gets the service of the given class name (useful for scripts).
Service - Interface in org.scijava.service: A SciJava service, for a particular area of functionality.
serviceClassList(Class...) - Static method in class org.scijava.Context: Utility method for converting a varargs list of service classes to a List of those classes.
ServiceCombiner - Class in org.scijava.util: Combines Service information from all JAR files on the classpath.
ServiceCombiner() - Constructor for class org.scijava.util.ServiceCombiner
ServiceHelper - Class in org.scijava.service: Helper class for discovering and instantiating available services.
ServiceHelper(Context) - Constructor for class org.scijava.service.ServiceHelper: Creates a new service helper for discovering and instantiating services.
ServiceHelper(Context, Collection<Class<? extends Service>>) - Constructor for class org.scijava.service.ServiceHelper: Creates a new service helper for discovering and instantiating services.
ServiceHelper(Context, Collection<Class<? extends Service>>, boolean) - Constructor for class org.scijava.service.ServiceHelper: Creates a new service helper for discovering and instantiating services.
ServiceIndex - Class in org.scijava.service: Data structure for tracking registered services.
ServiceIndex() - Constructor for class org.scijava.service.ServiceIndex
ServicePreprocessor - Class in org.scijava.module.process: The service preprocessor automatically populates module inputs that implement Service.
ServicePreprocessor() - Constructor for class org.scijava.module.process.ServicePreprocessor
ServicesLoadedEvent - Class in org.scijava.service.event: An event which fires when a Context finishes initializing all its services.
ServicesLoadedEvent() - Constructor for class org.scijava.service.event.ServicesLoadedEvent
set(String, String) - Method in class org.scijava.AbstractBasicDetails
set(String, String) - Method in interface org.scijava.BasicDetails: Sets the value of the given key.
set(int, T) - Method in class org.scijava.display.AbstractDisplay
set(FileLocation) - Method in class org.scijava.io.handle.FileHandle
set(D) - Method in class org.scijava.plugin.AbstractWrapperPlugin
set(D) - Method in interface org.scijava.plugin.WrapperPlugin: Associates the given data object with this plugin.
set(int, BaseType) - Method in class org.scijava.util.AbstractPrimitiveArray
set(int, Boolean) - Method in class org.scijava.util.BoolArray
set(int, Byte) - Method in class org.scijava.util.ByteArray
set(int, Character) - Method in class org.scijava.util.CharArray
set(int, Double) - Method in class org.scijava.util.DoubleArray
set(int, Float) - Method in class org.scijava.util.FloatArray
set(int, Integer) - Method in class org.scijava.util.IntArray
set(int, Long) - Method in class org.scijava.util.LongArray
set(int, E) - Method in class org.scijava.util.ObjectArray
set(int, Short) - Method in class org.scijava.util.ShortArray
set(WidgetModel) - Method in class org.scijava.widget.AbstractInputWidget
set(WidgetModel) - Method in interface org.scijava.widget.InputWidget: Initializes the widget to use the given widget model.
setAccelerator(Accelerator) - Method in class org.scijava.MenuEntry
setAccepted(boolean) - Method in class org.scijava.ui.dnd.event.DragEnterEvent: Sets whether the drag operation is valid.
setAccessibilityIgnored(boolean) - Method in class org.scijava.util.ReflectedUniverse: Sets whether access modifiers (protected, private, etc.) are ignored.
setActive(boolean) - Method in class org.scijava.event.DefaultEventHistory
setActive(boolean) - Method in interface org.scijava.event.EventHistory: Activates or deactivates event history tracking.
setActiveDisplay(Display<?>) - Method in class org.scijava.display.DefaultDisplayService
setActiveDisplay(Display<?>) - Method in interface org.scijava.display.DisplayService: Set the active display.
setActiveTool(Tool) - Method in class org.scijava.tool.DefaultToolService
setActiveTool(Tool) - Method in interface org.scijava.tool.ToolService
setAlpha(int, int, int) - Method in class org.scijava.ui.ARGBPlane
setARGB(int, int, int) - Method in class org.scijava.ui.ARGBPlane
setArrangement(Arrangeable.Arrangement) - Method in interface org.scijava.ui.Arrangeable
setArray(boolean[]) - Method in class org.scijava.util.BoolArray
setArray(byte[]) - Method in class org.scijava.util.ByteArray
setArray(char[]) - Method in class org.scijava.util.CharArray
setArray(double[]) - Method in class org.scijava.util.DoubleArray
setArray(float[]) - Method in class org.scijava.util.FloatArray
setArray(int[]) - Method in class org.scijava.util.IntArray
setArray(long[]) - Method in class org.scijava.util.LongArray
setArray(E[]) - Method in class org.scijava.util.ObjectArray
setArray(ArrayType) - Method in interface org.scijava.util.PrimitiveArray: Sets the fixed-size array backing this instance.
setArray(short[]) - Method in class org.scijava.util.ShortArray
setAttribute(String, Object, int) - Method in class org.scijava.script.AbstractScriptContext
setAutoFill(boolean) - Method in class org.scijava.module.DefaultMutableModuleItem
setAutoFill(boolean) - Method in interface org.scijava.module.MutableModuleItem
setBaseDirectory(File) - Method in class org.scijava.download.DiskLocationCache
setBindings(Bindings, int) - Method in class org.scijava.script.AbstractScriptContext
setBindings(Bindings, int) - Method in class org.scijava.script.AbstractScriptEngine
setBindings(Bindings, int) - Method in class org.scijava.script.AdaptedScriptEngine
setBlue(int, int, int) - Method in class org.scijava.ui.ARGBPlane
setByte(long, byte) - Method in class org.scijava.io.ByteArrayByteBank
setByte(long, byte) - Method in interface org.scijava.io.ByteBank: Sets the byte at the given position
setByte(long, byte) - Method in class org.scijava.io.nio.ByteBufferByteBank
setBytes(long, byte[], int, int) - Method in class org.scijava.io.ByteArrayByteBank
setBytes(long, byte[], int, int) - Method in interface org.scijava.io.ByteBank: Sets the bytes starting form the given position to the values form the provided array.
setBytes(long, byte[], int, int) - Method in class org.scijava.io.nio.ByteBufferByteBank
setCacheSizeForEventClass(Class, int) - Method in class org.scijava.event.bushe.ThreadSafeEventService: Set the number of events cached for a particular class of event.
setCacheSizeForTopic(String, int) - Method in class org.scijava.event.bushe.ThreadSafeEventService: Set the number of published data objects cached for a particular event topic.
setCacheSizeForTopic(Pattern, int) - Method in class org.scijava.event.bushe.ThreadSafeEventService: Set the number of published data objects cached for topics matching a pattern.
setCallback(String) - Method in class org.scijava.module.DefaultMutableModuleItem
setCallback(String) - Method in interface org.scijava.module.MutableModuleItem
setCallingThread(Thread) - Method in class org.scijava.event.SciJavaEvent: Sets the thread that published the event.
setCancelCallBack(Runnable) - Method in class org.scijava.task.DefaultTask
setCancelCallBack(Runnable) - Method in interface org.scijava.task.Task: If the task is cancelled (external call to Cancelable.cancel(String)), the input runnable argument should be executed by task implementors.
setChoices(List<? extends T>) - Method in class org.scijava.module.DefaultMutableModuleItem
setChoices(List<? extends T>) - Method in interface org.scijava.module.MutableModuleItem
setCleanupPeriodMS(Long) - Method in class org.scijava.event.bushe.ThreadSafeEventService: Sets the cleanup interval.
setCleanupStartThreshhold(Integer) - Method in class org.scijava.event.bushe.ThreadSafeEventService: Sets the threshold above which cleanup starts.
setCleanupStopThreshold(Integer) - Method in class org.scijava.event.bushe.ThreadSafeEventService: Sets the threshold below which cleanup stops.
setColumnCount(int) - Method in class org.scijava.module.DefaultMutableModuleItem
setColumnCount(int) - Method in interface org.scijava.module.MutableModuleItem
setConsumed(boolean) - Method in class org.scijava.event.SciJavaEvent
setContent(DisplayPanel) - Method in interface org.scijava.ui.viewer.DisplayWindow
setContext(Context) - Method in class org.scijava.command.CommandModule
setContext(Context) - Method in class org.scijava.command.DynamicCommand
setContext(Context) - Method in class org.scijava.command.ModuleCommand
setContext(Context) - Method in interface org.scijava.Contextual: Sets the application context to which the object belongs.
setContext(ScriptContext) - Method in class org.scijava.script.AbstractScriptEngine
setContext(ScriptContext) - Method in class org.scijava.script.AdaptedScriptEngine
setContext(Context) - Method in class org.scijava.script.ScriptInfo
setContext(Context) - Method in class org.scijava.script.ScriptModule
setContext(Context) - Method in class org.scijava.service.AbstractService
setDefaultCacheSizePerClassOrTopic(int) - Method in class org.scijava.event.bushe.ThreadSafeEventService: Sets the default cache size for each kind of event, default is 0 (no caching).
setDefaultUI(UserInterface) - Method in class org.scijava.ui.DefaultUIService
setDefaultUI(UserInterface) - Method in interface org.scijava.ui.UIService: Sets the default user interface.
setDefaultValue(T) - Method in class org.scijava.module.DefaultMutableModuleItem
setDefaultValue(T) - Method in interface org.scijava.module.MutableModuleItem
setDelegateService(ConvertService, double) - Static method in class org.scijava.util.ConversionUtils: Deprecated.
This method should not be used anymore.
setDelegateService(PrefService, double) - Static method in class org.scijava.util.Prefs: Deprecated.

Sets the PrefService
setDescription(String) - Method in class org.scijava.AbstractBasicDetails
setDescription(String) - Method in interface org.scijava.BasicDetails: Sets a string describing the object.
setDescription(String) - Method in class org.scijava.command.DynamicCommandInfo
setDescription(String) - Method in class org.scijava.module.DefaultMutableModuleItem
setEnabled(boolean) - Method in class org.scijava.AbstractUIDetails
setEnabled(boolean) - Method in class org.scijava.command.DynamicCommandInfo
setEnabled(boolean) - Method in interface org.scijava.UIDetails: Sets whether the object should be enabled in the user interface.
setEncoding(String) - Method in class org.scijava.io.handle.AbstractDataHandle
setEncoding(String) - Method in interface org.scijava.io.handle.DataHandle: Sets the native encoding of the stream.
setErrorWriter(Writer) - Method in class org.scijava.script.AbstractScriptContext
setErrorWriter(Writer) - Method in class org.scijava.script.ScriptModule: Sets the writer used to record the standard error stream.
setExecutorService(ExecutorService) - Method in class org.scijava.thread.DefaultThreadService
setExecutorService(ExecutorService) - Method in interface org.scijava.thread.ThreadService: Sets the ExecutorService object used when ThreadService.run(java.util.concurrent.Callable<V>) is called.
setFileLocationCachingEnabled(boolean) - Method in class org.scijava.download.DiskLocationCache
setFirstRun(boolean) - Method in class org.scijava.welcome.DefaultWelcomeService
setFirstRun(boolean) - Method in interface org.scijava.welcome.WelcomeService: Sets a preference recording whether this version of the dominant SJC application has run.
setGreen(int, int, int) - Method in class org.scijava.ui.ARGBPlane
setHeadless(boolean) - Method in class org.scijava.ui.DefaultUIService
setHeadless(boolean) - Method in interface org.scijava.ui.UIService: Sets whether the application should run in headless mode (no UI).
setIconPath(String) - Method in class org.scijava.AbstractUIDetails
setIconPath(String) - Method in class org.scijava.command.DynamicCommandInfo
setIconPath(String) - Method in class org.scijava.MenuEntry
setIconPath(String) - Method in interface org.scijava.UIDetails: Sets the resource path to an icon representing the object.
setIconPixel(int, int, ColorRGB) - Method in interface org.scijava.tool.IconDrawer
setInfo(PluginInfo<?>) - Method in class org.scijava.plugin.AbstractRichPlugin
setInfo(PluginInfo<?>) - Method in interface org.scijava.plugin.HasPluginInfo: Sets the PluginInfo metadata associated with the object.
setInitialized(boolean) - Method in class org.scijava.widget.DefaultWidgetModel
setInitialized(boolean) - Method in interface org.scijava.widget.WidgetModel: Toggles the widget's initialization state.
setInitializer(String) - Method in class org.scijava.module.DefaultMutableModuleItem
setInitializer(String) - Method in interface org.scijava.module.MutableModuleItem
setInput(String, Object) - Method in class org.scijava.command.CommandModule
setInput(String, Object) - Method in class org.scijava.command.DynamicCommand
setInput(String, Object) - Method in class org.scijava.module.AbstractModule
setInput(String, Object) - Method in interface org.scijava.module.Module: Sets the value of the input with the given name.
setInputs(Map<String, Object>) - Method in class org.scijava.module.AbstractModule
setInputs(Map<String, Object>) - Method in interface org.scijava.module.Module: Sets input values according to the given table.
setIOType(ItemIO) - Method in class org.scijava.module.DefaultMutableModuleItem
setIOType(ItemIO) - Method in interface org.scijava.module.MutableModuleItem
setJumpCutoff(long) - Method in class org.scijava.io.handle.AbstractSeekableStreamHandle: Sets the maximum of bytes which are read from the stream when seeking forward.
setLabel(String) - Method in class org.scijava.AbstractBasicDetails
setLabel(String) - Method in interface org.scijava.BasicDetails: Sets the name to appear in a UI, if applicable.
setLabel(String) - Method in class org.scijava.command.DynamicCommandInfo
setLabel(String) - Method in class org.scijava.module.DefaultMutableModuleItem
setLabel(String) - Method in interface org.scijava.ui.viewer.DisplayPanel: Sets the label at the top of the display panel.
setLanguage(ScriptLanguage) - Method in class org.scijava.script.ScriptInfo: Overrides the script language to use when executing the script.
setLanguage(ScriptLanguage) - Method in class org.scijava.script.ScriptModule: Deprecated.
Use ScriptInfo.setLanguage(ScriptLanguage) instead.
setLength(long) - Method in class org.scijava.download.MultiWriteHandle
setLength(long) - Method in class org.scijava.io.handle.BytesHandle
setLength(long) - Method in interface org.scijava.io.handle.DataHandle: Sets the new length of the handle.
setLength(long) - Method in class org.scijava.io.handle.DummyHandle
setLength(long) - Method in class org.scijava.io.handle.FileHandle
setLength(long) - Method in class org.scijava.io.handle.ReadBufferDataHandle
setLength(long) - Method in class org.scijava.io.handle.WriteBufferDataHandle
setLevel(int) - Method in class org.scijava.log.AbstractLogService
setLevel(String, int) - Method in class org.scijava.log.AbstractLogService
setLevel(int) - Method in interface org.scijava.log.LogService: Changes the log level of the root logger.
setLevel(String, int) - Method in interface org.scijava.log.LogService: For messages that are logged directly to the LogService.
setLevelForLogger(String, int) - Method in class org.scijava.log.AbstractLogService
setLevelForLogger(String, int) - Method in interface org.scijava.log.LogService: Setting the log level for loggers depending on their LogSource.
setLittleEndian(boolean) - Method in interface org.scijava.io.handle.DataHandle: Sets the endianness of the stream.
setLocation(int, int) - Method in interface org.scijava.ui.ApplicationFrame: Sets the coordinates of the application frame's top left corner.
setLogLevel(int) - Method in class org.scijava.log.LogSource
setLogService(LogService) - Method in class org.scijava.script.AbstractScriptEngine
setMaximumGrowth(int) - Method in class org.scijava.util.AbstractPrimitiveArray
setMaximumGrowth(int) - Method in interface org.scijava.util.PrimitiveArray: Sets the maximal step size by which to grow the fixed-size array when running out of space.
setMaximumValue(T) - Method in class org.scijava.module.DefaultMutableModuleItem
setMaximumValue(T) - Method in interface org.scijava.module.MutableModuleItem
setMenuPath(MenuPath) - Method in class org.scijava.AbstractUIDetails
setMenuPath(MenuPath) - Method in class org.scijava.command.DynamicCommandInfo
setMenuPath(MenuPath) - Method in interface org.scijava.UIDetails: Sets the path to the object's suggested position in the menu structure.
setMenuRoot(String) - Method in class org.scijava.AbstractUIDetails
setMenuRoot(String) - Method in class org.scijava.command.DynamicCommandInfo
setMenuRoot(String) - Method in interface org.scijava.UIDetails: Sets the name of the menu structure to which the object belongs.
setMinimumValue(T) - Method in class org.scijava.module.DefaultMutableModuleItem
setMinimumValue(T) - Method in interface org.scijava.module.MutableModuleItem
setMnemonic(char) - Method in class org.scijava.MenuEntry
setMode(String) - Method in class org.scijava.io.handle.FileHandle
setModuleClass(Class<? extends Module>) - Method in class org.scijava.module.DefaultMutableModuleInfo
setModuleClass(Class<? extends Module>) - Method in interface org.scijava.module.MutableModuleInfo: Sets the module class described by this ModuleInfo.
setName(String) - Method in class org.scijava.AbstractBasicDetails
setName(String) - Method in class org.scijava.command.DynamicCommandInfo
setName(String) - Method in class org.scijava.display.AbstractDisplay
setName(String) - Method in class org.scijava.menu.ShadowMenu
setName(String) - Method in class org.scijava.MenuEntry
setName(String) - Method in class org.scijava.module.DefaultMutableModuleItem
setName(String) - Method in interface org.scijava.Named: Sets the name of the object.
setName(String) - Method in class org.scijava.task.DefaultTask
setNoteLength(int) - Method in class org.scijava.util.TunePlayer
setOctave(int) - Method in class org.scijava.util.TunePlayer
setOffset(long) - Method in class org.scijava.io.handle.AbstractStreamHandle
setOffset(long) - Method in interface org.scijava.io.handle.StreamHandle: Sets the offset of the handle to the given position.
setOrder(DataHandle.ByteOrder) - Method in class org.scijava.io.handle.AbstractDataHandle
setOrder(DataHandle.ByteOrder) - Method in interface org.scijava.io.handle.DataHandle: Sets the byte order of the stream.
setOutput(String, Object) - Method in class org.scijava.command.CommandModule
setOutput(String, Object) - Method in class org.scijava.command.DynamicCommand
setOutput(String, Object) - Method in class org.scijava.module.AbstractModule
setOutput(String, Object) - Method in interface org.scijava.module.Module: Sets the value of the output with the given name.
setOutputs(Map<String, Object>) - Method in class org.scijava.module.AbstractModule
setOutputs(Map<String, Object>) - Method in interface org.scijava.module.Module: Sets output values according to the given table.
setOutputWriter(Writer) - Method in class org.scijava.script.ScriptModule: Sets the writer used to record the standard output stream.
setPanel(DisplayPanel) - Method in class org.scijava.ui.viewer.AbstractDisplayViewer
setPanel(DisplayPanel) - Method in interface org.scijava.ui.viewer.DisplayViewer: Installs the display panel.
setParent(TreeNode<?>) - Method in class org.scijava.util.DefaultTreeNode
setParent(TreeNode<?>) - Method in interface org.scijava.util.TreeNode
setPersisted(boolean) - Method in class org.scijava.module.DefaultMutableModuleItem
setPersisted(boolean) - Method in interface org.scijava.module.MutableModuleItem
setPersistKey(String) - Method in class org.scijava.module.DefaultMutableModuleItem
setPersistKey(String) - Method in interface org.scijava.module.MutableModuleItem
setPluginClass(Class<? extends Command>) - Method in class org.scijava.command.CommandInfo
setPluginClass(Class<? extends PT>) - Method in class org.scijava.plugin.PluginInfo: Explicitly sets the Class of the item objects.
setPluginType(Class<PT>) - Method in class org.scijava.plugin.PluginInfo: Sets the type of plugin described by the metadata.
setPresets(Map<String, Object>) - Method in class org.scijava.command.CommandInfo: Sets the table of items with fixed, preset values.
setPrintStreams(Function<Integer, PrintStream>) - Method in class org.scijava.log.StderrLogService
setPriority(double) - Method in class org.scijava.AbstractUIDetails
setPriority(double) - Method in class org.scijava.command.DynamicCommandInfo
setPriority(double) - Method in class org.scijava.plugin.AbstractRichPlugin
setPriority(double) - Method in interface org.scijava.Prioritized: Sets the sort priority of the object.
setProgress(int, int) - Method in interface org.scijava.ui.StatusBar
setProgressMaximum(long) - Method in class org.scijava.task.DefaultTask
setProgressMaximum(long) - Method in interface org.scijava.task.Task: Sets the total number of steps.
setProgressValue(long) - Method in class org.scijava.task.DefaultTask
setProgressValue(long) - Method in interface org.scijava.task.Task: Sets the current step.
setReader(Reader) - Method in class org.scijava.script.AbstractScriptContext
setRed(int, int, int) - Method in class org.scijava.ui.ARGBPlane
setRequired(boolean) - Method in class org.scijava.module.DefaultMutableModuleItem
setRequired(boolean) - Method in interface org.scijava.module.MutableModuleItem
setResolved(String, boolean) - Method in interface org.scijava.module.Module: Deprecated.
Use Module.resolveInput(String) and Module.unresolveInput(String) instead.
setReturnValueAppended(boolean) - Method in class org.scijava.script.ScriptInfo: Gets whether the return value is appended as an additional output.
setSeed(long) - Method in class org.scijava.util.MersenneTwisterFast: Initalize the pseudo random number generator.
setSeed(int[]) - Method in class org.scijava.util.MersenneTwisterFast: Sets the seed of the MersenneTwister using an array of integers.
setSelectable(boolean) - Method in class org.scijava.AbstractUIDetails
setSelectable(boolean) - Method in class org.scijava.command.DynamicCommandInfo
setSelectable(boolean) - Method in interface org.scijava.UIDetails: Sets whether the object can be selected (e.g., checking and unchecking its menu item) in the user interface.
setSelected(boolean) - Method in class org.scijava.AbstractUIDetails
setSelected(boolean) - Method in class org.scijava.command.DynamicCommandInfo
setSelected(boolean) - Method in interface org.scijava.UIDetails: Sets whether the object is selected (e.g., its menu item is checked) in the user interface.
setSelectionGroup(String) - Method in class org.scijava.AbstractUIDetails
setSelectionGroup(String) - Method in class org.scijava.command.DynamicCommandInfo
setSelectionGroup(String) - Method in interface org.scijava.UIDetails: Sets the name of the selection group to which the object belongs.
setSize(int) - Method in class org.scijava.util.AbstractPrimitiveArray
setSize(int) - Method in interface org.scijava.util.Sizable
setSize(int) - Method in class org.scijava.util.SizableArrayList
setSoftMaximum(T) - Method in class org.scijava.module.DefaultMutableModuleItem
setSoftMaximum(T) - Method in interface org.scijava.module.MutableModuleItem
setSoftMinimum(T) - Method in class org.scijava.module.DefaultMutableModuleItem
setSoftMinimum(T) - Method in interface org.scijava.module.MutableModuleItem
setSourceObject(Object) - Method in class org.scijava.convert.ConversionRequest: Sets the source object for this ConversionRequest.
setStatus(PublicationStatus, Object, String, Object) - Method in class org.scijava.event.bushe.ThreadSafeEventService: Called during publication to set the status on an event.
setStatus(String) - Method in interface org.scijava.ui.StatusBar
setStatusMessage(String) - Method in class org.scijava.task.DefaultTask
setStatusMessage(String) - Method in interface org.scijava.task.Task: Sets the status message.
setStepSize(Number) - Method in class org.scijava.module.DefaultMutableModuleItem
setStepSize(Number) - Method in interface org.scijava.module.MutableModuleItem
setStrict(boolean) - Method in class org.scijava.Context
setSuccessful(boolean) - Method in class org.scijava.ui.dnd.event.DropEvent: Sets whether the drop operation was successful.
setTempo(int) - Method in class org.scijava.util.TunePlayer
setTimeout(long) - Method in class org.scijava.io.location.AbstractRemoteLocation
setTimeout(long) - Method in interface org.scijava.io.location.RemoteLocation: Sets the connection timeout for this location.
setTitle(String) - Method in interface org.scijava.ui.viewer.DisplayWindow
setValidater(String) - Method in class org.scijava.module.DefaultMutableModuleItem
setValidater(String) - Method in interface org.scijava.module.MutableModuleItem
setValue(Module, T) - Method in class org.scijava.module.AbstractModuleItem
setValue(Module, T) - Method in interface org.scijava.module.ModuleItem: Sets the item's current value with respect to the given module.
setValue(int, boolean) - Method in class org.scijava.util.BoolArray
setValue(int, byte) - Method in class org.scijava.util.ByteArray
setValue(int, char) - Method in class org.scijava.util.CharArray
setValue(Field, Object, Object) - Static method in class org.scijava.util.ClassUtils: Sets the given field's value of the specified object instance.
setValue(int, double) - Method in class org.scijava.util.DoubleArray
setValue(int, float) - Method in class org.scijava.util.FloatArray
setValue(int, int) - Method in class org.scijava.util.IntArray
setValue(int, long) - Method in class org.scijava.util.LongArray
setValue(int, E) - Method in class org.scijava.util.ObjectArray
setValue(int, short) - Method in class org.scijava.util.ShortArray
setValue(Object) - Method in class org.scijava.widget.DefaultWidgetModel
setValue(Object) - Method in interface org.scijava.widget.WidgetModel: Sets the current value of the module input.
setVar(String, Object) - Method in class org.scijava.util.ReflectedUniverse: Registers a variable in the universe.
setVar(String, boolean) - Method in class org.scijava.util.ReflectedUniverse: Registers a variable of primitive type boolean in the universe.
setVar(String, byte) - Method in class org.scijava.util.ReflectedUniverse: Registers a variable of primitive type byte in the universe.
setVar(String, char) - Method in class org.scijava.util.ReflectedUniverse: Registers a variable of primitive type char in the universe.
setVar(String, double) - Method in class org.scijava.util.ReflectedUniverse: Registers a variable of primitive type double in the universe.
setVar(String, float) - Method in class org.scijava.util.ReflectedUniverse: Registers a variable of primitive type float in the universe.
setVar(String, int) - Method in class org.scijava.util.ReflectedUniverse: Registers a variable of primitive type int in the universe.
setVar(String, long) - Method in class org.scijava.util.ReflectedUniverse: Registers a variable of primitive type long in the universe.
setVar(String, short) - Method in class org.scijava.util.ReflectedUniverse: Registers a variable of primitive type short in the universe.
setVisibility(ItemVisibility) - Method in class org.scijava.module.DefaultMutableModuleItem
setVisibility(ItemVisibility) - Method in interface org.scijava.module.MutableModuleItem
setVisible(boolean) - Method in class org.scijava.AbstractUIDetails
setVisible(boolean) - Method in interface org.scijava.ui.ApplicationFrame: Show or hide the application frame
setVisible(boolean) - Method in interface org.scijava.UIDetails: Sets whether the object should be visible in the user interface.
setWeight(double) - Method in class org.scijava.MenuEntry
setWidgetStyle(String) - Method in class org.scijava.module.DefaultMutableModuleItem
setWidgetStyle(String) - Method in interface org.scijava.module.MutableModuleItem
setWriter(Writer) - Method in class org.scijava.script.AbstractScriptContext
sha1(byte[]) - Static method in class org.scijava.util.DigestUtils: Gets the given byte array's SHA-1 checksum, or null if unavailable.
ShadowMenu - Class in org.scijava.menu: A tree representing a menu structure independent of any particular user interface.
ShadowMenu(Context, Collection<? extends ModuleInfo>) - Constructor for class org.scijava.menu.ShadowMenu: Constructs a root menu node populated with the given modules.
ShadowMenuIterator - Class in org.scijava.menu: Recursive iterator for ShadowMenu hierarchies.
ShadowMenuIterator(ShadowMenu) - Constructor for class org.scijava.menu.ShadowMenuIterator
ShebangScriptProcessor - Class in org.scijava.script.process: A ScriptProcessor which looks for a #!
ShebangScriptProcessor() - Constructor for class org.scijava.script.process.ShebangScriptProcessor
ShortArray - Class in org.scijava.util: An extensible array of short elements.
ShortArray() - Constructor for class org.scijava.util.ShortArray: Constructs an extensible array of shorts, backed by a fixed-size array.
ShortArray(int) - Constructor for class org.scijava.util.ShortArray: Constructs an extensible array of shorts, backed by a fixed-size array.
ShortArray(short[]) - Constructor for class org.scijava.util.ShortArray: Constructs an extensible array of shorts, backed by the given fixed-size array.
ShortArrayUnwrapper() - Constructor for class org.scijava.convert.ArrayConverters.ShortArrayUnwrapper
ShortArrayWrapper() - Constructor for class org.scijava.convert.ArrayConverters.ShortArrayWrapper
SHORTENER_BACKSLASH - Static variable in class org.scijava.util.FileUtils
SHORTENER_BACKSLASH_REGEX - Static variable in class org.scijava.util.FileUtils
SHORTENER_ELLIPSE - Static variable in class org.scijava.util.FileUtils
SHORTENER_SLASH - Static variable in class org.scijava.util.FileUtils
SHORTENER_SLASH_REGEX - Static variable in class org.scijava.util.FileUtils
shortenPath(String) - Static method in class org.scijava.util.FileUtils: Shortens the path to a maximum of 4 path elements.
shortenPath(String, int) - Static method in class org.scijava.util.FileUtils: Shortens the path based on the given maximum number of path elements.
ShortToBigDecimalConverter() - Constructor for class org.scijava.convert.NumberConverters.ShortToBigDecimalConverter
ShortToBigIntegerConverter() - Constructor for class org.scijava.convert.NumberConverters.ShortToBigIntegerConverter
ShortToDoubleConverter() - Constructor for class org.scijava.convert.NumberConverters.ShortToDoubleConverter
ShortToFloatConverter() - Constructor for class org.scijava.convert.NumberConverters.ShortToFloatConverter
ShortToIntegerConverter() - Constructor for class org.scijava.convert.NumberConverters.ShortToIntegerConverter
ShortToLongConverter() - Constructor for class org.scijava.convert.NumberConverters.ShortToLongConverter
show() - Method in class org.scijava.ui.AbstractUserInterface
show(String, Object) - Method in class org.scijava.ui.AbstractUserInterface
show(Display<?>) - Method in class org.scijava.ui.AbstractUserInterface
show() - Method in interface org.scijava.ui.console.ConsolePane: Makes the console visible.
show(Object) - Method in class org.scijava.ui.DefaultUIService
show(String, Object) - Method in class org.scijava.ui.DefaultUIService
show(Display<?>) - Method in class org.scijava.ui.DefaultUIService
show() - Method in class org.scijava.ui.headless.HeadlessUI
show(String, Object) - Method in class org.scijava.ui.headless.HeadlessUI
show(Display<?>) - Method in class org.scijava.ui.headless.HeadlessUI
show(Object) - Method in interface org.scijava.ui.UIService: Creates a Display for the given object, and shows it using an appropriate UI widget of the default user interface.
show(String, Object) - Method in interface org.scijava.ui.UIService: Creates a Display for the given object, and shows it using an appropriate UI widget of the default user interface.
show(Display<?>) - Method in interface org.scijava.ui.UIService: Creates and shows the given Display using an appropriate UI widget of the default user interface.
show() - Method in interface org.scijava.ui.UserInterface: Shows the UI.
show(Object) - Method in interface org.scijava.ui.UserInterface: Shows the object onscreen using an appropriate UI widget.
show(String, Object) - Method in interface org.scijava.ui.UserInterface: Shows the object onscreen using an appropriate UI widget.
show(Display<?>) - Method in interface org.scijava.ui.UserInterface: Shows the display onscreen using an appropriate UI widget.
showContextMenu(String, Display<?>, int, int) - Method in class org.scijava.ui.DefaultUIService
showContextMenu(String, Display<?>, int, int) - Method in class org.scijava.ui.headless.HeadlessUI
showContextMenu(String, Display<?>, int, int) - Method in interface org.scijava.ui.UIService: Displays a popup context menu for the given display at the specified position.
showContextMenu(String, Display<?>, int, int) - Method in interface org.scijava.ui.UserInterface: Displays a popup context menu for the given display at the specified position.
showDialog(String) - Method in class org.scijava.ui.DefaultUIService
showDialog(String, DialogPrompt.MessageType) - Method in class org.scijava.ui.DefaultUIService
showDialog(String, DialogPrompt.MessageType, DialogPrompt.OptionType) - Method in class org.scijava.ui.DefaultUIService
showDialog(String, String) - Method in class org.scijava.ui.DefaultUIService
showDialog(String, String, DialogPrompt.MessageType) - Method in class org.scijava.ui.DefaultUIService
showDialog(String, String, DialogPrompt.MessageType, DialogPrompt.OptionType) - Method in class org.scijava.ui.DefaultUIService
showDialog(String) - Method in interface org.scijava.ui.UIService: Displays a dialog prompt.
showDialog(String, DialogPrompt.MessageType) - Method in interface org.scijava.ui.UIService: Displays a dialog prompt.
showDialog(String, DialogPrompt.MessageType, DialogPrompt.OptionType) - Method in interface org.scijava.ui.UIService: Displays a dialog prompt.
showDialog(String, String) - Method in interface org.scijava.ui.UIService: Displays a dialog prompt.
showDialog(String, String, DialogPrompt.MessageType) - Method in interface org.scijava.ui.UIService: Displays a dialog prompt.
showDialog(String, String, DialogPrompt.MessageType, DialogPrompt.OptionType) - Method in interface org.scijava.ui.UIService: Displays a dialog prompt.
showDisplay(boolean) - Method in interface org.scijava.ui.viewer.DisplayWindow: Places this component into the desktop environment.
showProgress(int, int) - Method in class org.scijava.app.DefaultStatusService
showProgress(int, int) - Method in interface org.scijava.app.StatusService: Updates the progress bar.
showStatus(String) - Method in class org.scijava.app.DefaultStatusService
showStatus(int, int, String) - Method in class org.scijava.app.DefaultStatusService
showStatus(int, int, String, boolean) - Method in class org.scijava.app.DefaultStatusService
showStatus(String) - Method in interface org.scijava.app.StatusService: Updates the status message.
showStatus(int, int, String) - Method in interface org.scijava.app.StatusService: Updates the status message and progress bar.
showStatus(int, int, String, boolean) - Method in interface org.scijava.app.StatusService: Updates the status message and progress bar, optionally flagging the status notification as a warning.
showUI() - Method in class org.scijava.ui.DefaultUIService
showUI(String) - Method in class org.scijava.ui.DefaultUIService
showUI(UserInterface) - Method in class org.scijava.ui.DefaultUIService
showUI() - Method in interface org.scijava.ui.UIService: Displays the UI for the default user interface.
showUI(String) - Method in interface org.scijava.ui.UIService: Displays the UI with the given name (or class name).
showUI(UserInterface) - Method in interface org.scijava.ui.UIService: Displays the given UI.
ShowUIArgument - Class in org.scijava.ui.console: Handles the --showUI argument, which signals that the UI should be opened immediately.
ShowUIArgument() - Constructor for class org.scijava.ui.console.ShowUIArgument
sibling(String) - Method in interface org.scijava.io.location.BrowsableLocation: Obtains a location relative to this one, which will be configured like the current location, but point to a the file specified by the path parameter.
sibling(String) - Method in class org.scijava.io.location.FileLocation
SIENNA - Static variable in class org.scijava.util.Colors
SILVER - Static variable in class org.scijava.util.Colors
SingletonPlugin - Interface in org.scijava.plugin: Interface for plugins intended to be instantiated as singletons.
SingletonService<PT extends SingletonPlugin> - Interface in org.scijava.plugin: A service for managing SingletonPlugins of a particular type.
Sizable - Interface in org.scijava.util: An entity with a size.
SizableArrayList<E> - Class in org.scijava.util: An ArrayList whose size can be adjusted more efficiently.
SizableArrayList(int) - Constructor for class org.scijava.util.SizableArrayList
SizableArrayList() - Constructor for class org.scijava.util.SizableArrayList
SizableArrayList(Collection<? extends E>) - Constructor for class org.scijava.util.SizableArrayList
size() - Method in class org.scijava.display.AbstractDisplay
size() - Method in class org.scijava.io.ByteArrayByteBank
size() - Method in interface org.scijava.io.ByteBank
size() - Method in class org.scijava.io.nio.ByteBufferByteBank
size() - Method in class org.scijava.menu.ShadowMenu
size() - Method in class org.scijava.object.ObjectIndex
size() - Method in class org.scijava.util.AbstractPrimitiveArray
size() - Method in class org.scijava.util.LastRecentlyUsed
size() - Method in interface org.scijava.util.Sizable
skip(long) - Method in interface org.scijava.io.handle.DataHandle: Skips over and discards n bytes of data from the stream.
skip(long) - Method in class org.scijava.io.handle.DataHandleInputStream
skip(long) - Method in class org.scijava.io.handle.WriteBufferDataHandle
skipBytes(int) - Method in interface org.scijava.io.handle.DataHandle
skipBytes(int) - Method in class org.scijava.io.handle.FileHandle
SKYBLUE - Static variable in class org.scijava.util.Colors
SLATEBLUE - Static variable in class org.scijava.util.Colors
SLATEGRAY - Static variable in class org.scijava.util.Colors
SLATEGREY - Static variable in class org.scijava.util.Colors
SLIDER_STYLE - Static variable in interface org.scijava.widget.NumberWidget: Widget style for slider with spinner.
SNOW - Static variable in class org.scijava.util.Colors
sort(List<PT>, Class<PT>) - Method in interface org.scijava.plugin.PluginService: Sorts the given list of plugin instances by priority.
SortablePlugin - Class in org.scijava.plugin: Deprecated.
Use AbstractRichPlugin instead.
SortablePlugin() - Constructor for class org.scijava.plugin.SortablePlugin: Deprecated.
SortedObjectIndex<E extends Comparable<? super E>> - Class in org.scijava.object: Data structure for managing sorted lists of registered objects.
SortedObjectIndex(Class<E>) - Constructor for class org.scijava.object.SortedObjectIndex
source() - Method in interface org.scijava.download.Download
source() - Method in class org.scijava.log.LogMessage: Represents the source of the message.
sourceClass() - Method in class org.scijava.convert.ConversionRequest
sourceObject() - Method in class org.scijava.convert.ConversionRequest
sourceType() - Method in class org.scijava.convert.ConversionRequest
SPINNER_STYLE - Static variable in interface org.scijava.widget.NumberWidget: Widget style for spinner only.
splitUnquoted(String, String) - Static method in class org.scijava.util.StringUtils: Splits a string only at separators outside of quotation marks (").
SPRINGGREEN - Static variable in class org.scijava.util.Colors
start() - Method in class org.scijava.task.DefaultTask
start() - Method in interface org.scijava.task.Task: reports that the task is started - synchronous job
start(boolean) - Static method in class org.scijava.util.Timing
startup() - Method in class org.scijava.AbstractGateway
startup() - Method in interface org.scijava.Gateway: Gets this application context's StartupService.
StartupService - Interface in org.scijava.startup: Interface for service managing startup operations.
stateEquals(Object) - Method in class org.scijava.util.MersenneTwisterFast
statementTerminate() - Method in interface org.scijava.script.CodeGenerator: Deprecated.
statementTerminate() - Method in class org.scijava.script.CodeGeneratorJava: Deprecated.
status() - Method in class org.scijava.AbstractGateway
status() - Method in interface org.scijava.Gateway: Gets this application context's StatusService.
StatusBar - Interface in org.scijava.ui: Common interface for status bars, which have a text area and progress bar, similar to ImageJ 1.x.
StatusEvent - Class in org.scijava.app.event: An event indicating a status update.
StatusEvent(String) - Constructor for class org.scijava.app.event.StatusEvent
StatusEvent(String, boolean) - Constructor for class org.scijava.app.event.StatusEvent
StatusEvent(int, int) - Constructor for class org.scijava.app.event.StatusEvent
StatusEvent(int, int, String) - Constructor for class org.scijava.app.event.StatusEvent
StatusEvent(int, int, String, boolean) - Constructor for class org.scijava.app.event.StatusEvent
StatusService - Interface in org.scijava.app: Interface for the status notification service.
StderrLogService - Class in org.scijava.log: Implementation of LogService using the standard error stream.
StderrLogService() - Constructor for class org.scijava.log.StderrLogService
STEELBLUE - Static variable in class org.scijava.util.Colors
stop(Timing) - Static method in class org.scijava.util.Timing
StreamHandle<L extends Location> - Interface in org.scijava.io.handle: A DataHandle backed by an InputStream and/or OutputStream.
STRICT_PROPERTY - Static variable in class org.scijava.Context: System property indicating whether the context should fail fast when attempting to instantiate a required service which is invalid or missing.
string(byte[]) - Static method in class org.scijava.util.DigestUtils: Converts the given byte array to a string.
string(List<?>) - Static method in class org.scijava.util.ListUtils: Converts the given list to a string.
string(List<?>, boolean) - Static method in class org.scijava.util.ListUtils: Converts the given list to a string.
string(List<?>, String, String, String, boolean) - Static method in class org.scijava.util.ListUtils: Converts the given list to a string.
StringMaker - Class in org.scijava.util: Helper class for building up Strings of key/value pairs.
StringMaker() - Constructor for class org.scijava.util.StringMaker
StringMaker(String) - Constructor for class org.scijava.util.StringMaker
StringToArrayConverter - Class in org.scijava.convert: A Converter that specializes in converting Strings to n-dimensional arrays.
StringToArrayConverter() - Constructor for class org.scijava.convert.StringToArrayConverter
StringToFileArrayConverter() - Constructor for class org.scijava.convert.FileListConverters.StringToFileArrayConverter
StringToFileConverter() - Constructor for class org.scijava.convert.FileListConverters.StringToFileConverter
StringToNumberConverter - Class in org.scijava.convert: Converts a String to a Number.
StringToNumberConverter() - Constructor for class org.scijava.convert.StringToNumberConverter
StringUtils - Class in org.scijava.util: Useful methods for working with Strings.
stripFilenameVersion(String) - Static method in class org.scijava.util.FileUtils
stripNulls(String) - Static method in class org.scijava.util.StringUtils: Removes null bytes from a string.
subList(int, int) - Method in class org.scijava.display.AbstractDisplay
subLogger(String, int) - Method in class org.scijava.log.AbstractLogService
subLogger(String, int) - Method in class org.scijava.log.DefaultLogger
subLogger(String) - Method in interface org.scijava.log.Logger: Creates a sub logger, that forwards the message it gets to this logger.
subLogger(String, int) - Method in interface org.scijava.log.Logger: Creates a sub logger, that forwards the message it gets to this logger.
subscribe(Class, EventSubscriber) - Method in class org.scijava.event.bushe.ThreadSafeEventService
subscribe(Type, EventSubscriber) - Method in class org.scijava.event.bushe.ThreadSafeEventService
subscribe(String, EventTopicSubscriber) - Method in class org.scijava.event.bushe.ThreadSafeEventService
subscribe(Pattern, EventTopicSubscriber) - Method in class org.scijava.event.bushe.ThreadSafeEventService
subscribe(Object, Map<Object, Object>, Object) - Method in class org.scijava.event.bushe.ThreadSafeEventService: All subscribe methods call this method, including veto subscriptions.
subscribe(Object) - Method in class org.scijava.event.DefaultEventService
subscribe(EventSubscriber<?>) - Method in class org.scijava.event.DefaultEventService
subscribe(Object) - Method in interface org.scijava.event.EventService: Subscribes all of the given object's @EventHandler annotated methods.
subscribe(EventSubscriber<?>) - Method in interface org.scijava.event.EventService: Subscribes the given EventSubscriber to its associated event class.
subscribeExactly(Class, EventSubscriber) - Method in class org.scijava.event.bushe.ThreadSafeEventService
subscribeExactlyStrongly(Class, EventSubscriber) - Method in class org.scijava.event.bushe.ThreadSafeEventService
subscribeStrongly(Class, EventSubscriber) - Method in class org.scijava.event.bushe.ThreadSafeEventService
subscribeStrongly(String, EventTopicSubscriber) - Method in class org.scijava.event.bushe.ThreadSafeEventService
subscribeStrongly(Pattern, EventTopicSubscriber) - Method in class org.scijava.event.bushe.ThreadSafeEventService
subscribeVetoException(Object, String, Object, Throwable, StackTraceElement[], VetoEventListener) - Method in class org.scijava.event.bushe.ThreadSafeEventService: Called during veto exceptions, calls handleException
subscribeVetoListener(Class, VetoEventListener) - Method in class org.scijava.event.bushe.ThreadSafeEventService
subscribeVetoListener(String, VetoTopicEventListener) - Method in class org.scijava.event.bushe.ThreadSafeEventService
subscribeVetoListener(Pattern, VetoTopicEventListener) - Method in class org.scijava.event.bushe.ThreadSafeEventService
subscribeVetoListener(Object, Map, Object) - Method in class org.scijava.event.bushe.ThreadSafeEventService: All veto subscriptions methods call this method.
subscribeVetoListenerExactly(Class, VetoEventListener) - Method in class org.scijava.event.bushe.ThreadSafeEventService
subscribeVetoListenerExactlyStrongly(Class, VetoEventListener) - Method in class org.scijava.event.bushe.ThreadSafeEventService
subscribeVetoListenerStrongly(Class, VetoEventListener) - Method in class org.scijava.event.bushe.ThreadSafeEventService
subscribeVetoListenerStrongly(String, VetoTopicEventListener) - Method in class org.scijava.event.bushe.ThreadSafeEventService
subscribeVetoListenerStrongly(Pattern, VetoTopicEventListener) - Method in class org.scijava.event.bushe.ThreadSafeEventService
subSource(String) - Method in class org.scijava.log.LogSource: Returns a log source with the given path.
supports(LinkedList<String>) - Method in class org.scijava.command.console.RunArgument: Deprecated.
supports(Object) - Method in class org.scijava.command.run.CommandCodeRunner
supports(LinkedList<String>) - Method in class org.scijava.console.AbstractConsoleArgument
supports(LinkedList<String>) - Method in class org.scijava.console.SystemPropertyArgument
supports(ConversionRequest) - Method in class org.scijava.convert.AbstractConverter
supports(ConversionRequest) - Method in interface org.scijava.convert.Converter
supports(Object, Type) - Method in interface org.scijava.convert.ConvertService
supports(Object, Class<?>) - Method in interface org.scijava.convert.ConvertService
supports(Class<?>, Type) - Method in interface org.scijava.convert.ConvertService
supports(Class<?>, Class<?>) - Method in interface org.scijava.convert.ConvertService
supports(LinkedList<String>) - Method in class org.scijava.io.console.OpenArgument
supports(String) - Method in interface org.scijava.io.IOPlugin
supports(URI) - Method in class org.scijava.io.location.AbstractLocationResolver
supports(LinkedList<String>) - Method in class org.scijava.main.console.MainArgument
supports(Object) - Method in class org.scijava.main.run.MainCodeRunner
supports(Object) - Method in class org.scijava.module.run.ModuleCodeRunner
supports(D) - Method in class org.scijava.plugin.AbstractTypedPlugin
supports(DT) - Method in interface org.scijava.plugin.HandlerService: Gets whether the given data object is supported.
supports(DT) - Method in interface org.scijava.plugin.WrapperService
supports(LinkedList<String>) - Method in class org.scijava.run.console.RunArgument
supports(ScriptLanguage) - Method in class org.scijava.script.AbstractScriptHeader
supports(LinkedList<String>) - Method in class org.scijava.script.console.RunScriptArgument: Deprecated.
supports(Object) - Method in class org.scijava.script.run.ScriptCodeRunner
supports(File) - Method in class org.scijava.text.AbstractTextFormat
supports(File) - Method in interface org.scijava.text.TextFormat
supports(File) - Method in interface org.scijava.text.TextService: Gets whether the given file contains text data in a supported format.
supports(T) - Method in interface org.scijava.Typed: Gets whether this object is compatible with the given data object.
supports(LinkedList<String>) - Method in class org.scijava.ui.console.HeadlessArgument
supports(LinkedList<String>) - Method in class org.scijava.ui.console.ShowUIArgument
supports(D, Display<?>) - Method in class org.scijava.ui.dnd.AbstractDragAndDropHandler
supports(D, Display<?>) - Method in interface org.scijava.ui.dnd.DragAndDropHandler: Gets whether this handler supports dropping the given data object onto the specified display.
supports(D) - Method in interface org.scijava.ui.dnd.DragAndDropHandler: Gets whether this handler supports dropping the given data object onto a compatible display.
supports(DragAndDropData, Display<?>) - Method in interface org.scijava.ui.dnd.DragAndDropService: Checks whether the given DragAndDropData can be dropped onto the specified display.
supports(Object, Display<?>) - Method in interface org.scijava.ui.dnd.DragAndDropService: Checks whether the given object can be dropped onto the specified display.
supports(File) - Method in class org.scijava.ui.dnd.FileDragAndDropHandler
supports(List<?>, Display<?>) - Method in class org.scijava.ui.dnd.ListDragAndDropHandler
supports(File) - Method in class org.scijava.ui.dnd.ScriptFileDragAndDropHandler
supports(WidgetModel) - Method in class org.scijava.widget.AbstractInputWidget
supports(InputWidget<?, ?>) - Method in interface org.scijava.widget.InputPanel: Gets whether the given widget would be appropriate for the given panel.
supports(WidgetModel) - Method in interface org.scijava.widget.InputWidget: Gets whether this widget would be appropriate for the given model.
supportsData(DragAndDropData) - Method in class org.scijava.ui.dnd.AbstractDragAndDropHandler
supportsData(DragAndDropData, Display<?>) - Method in class org.scijava.ui.dnd.AbstractDragAndDropHandler
supportsData(DragAndDropData) - Method in interface org.scijava.ui.dnd.DragAndDropHandler: Gets whether this handler supports dropping the given DragAndDropData onto a compatible display.
supportsData(DragAndDropData, Display<?>) - Method in interface org.scijava.ui.dnd.DragAndDropHandler: Gets whether this handler supports dropping the given DragAndDropData onto the specified display.
supportsDisplay(Display<?>) - Method in class org.scijava.ui.dnd.AbstractDragAndDropHandler
supportsDisplay(Display<?>) - Method in interface org.scijava.ui.dnd.DragAndDropHandler: Gets whether this handler supports dropping an assumed-to-be-compatible data object onto the given Display.
supportsObject(Object) - Method in class org.scijava.ui.dnd.AbstractDragAndDropHandler
supportsObject(Object, Display<?>) - Method in class org.scijava.ui.dnd.AbstractDragAndDropHandler
supportsObject(Object) - Method in interface org.scijava.ui.dnd.DragAndDropHandler: Gets whether this handler supports dropping the given object onto a compatible display.
supportsObject(Object, Display<?>) - Method in interface org.scijava.ui.dnd.DragAndDropHandler: Gets whether this handler supports dropping the given object onto the specified display.
supportsOpen(String) - Method in class org.scijava.io.AbstractIOPlugin
supportsOpen(String) - Method in interface org.scijava.io.IOPlugin: Checks whether the I/O plugin can open data from the given source.
supportsOpen(Location) - Method in interface org.scijava.io.IOPlugin: Checks whether the I/O plugin can open data from the given location.
supportsOpen(Location) - Method in class org.scijava.script.io.ScriptIOPlugin
supportsOpen(Location) - Method in class org.scijava.text.io.TextIOPlugin
supportsSave(String) - Method in class org.scijava.io.AbstractIOPlugin
supportsSave(String) - Method in interface org.scijava.io.IOPlugin: Checks whether the I/O plugin can save data to the given destination.
supportsSave(Location) - Method in interface org.scijava.io.IOPlugin: Checks whether the I/O plugin can save data to the given location.
supportsSave(Object, String) - Method in interface org.scijava.io.IOPlugin: Checks whether the I/O plugin can save the given data to the specified location.
supportsSave(Object, Location) - Method in interface org.scijava.io.IOPlugin
swap(short) - Static method in class org.scijava.util.Bytes
swap(char) - Static method in class org.scijava.util.Bytes
swap(int) - Static method in class org.scijava.util.Bytes
swap(long) - Static method in class org.scijava.util.Bytes
swap(float) - Static method in class org.scijava.util.Bytes
swap(double) - Static method in class org.scijava.util.Bytes
SystemClipboard - Interface in org.scijava.ui: UI agnostic representation of the system clipboard.
SystemPropertyArgument - Class in org.scijava.console: Handles the -D command line argument, in an analogous way to tools such as Java and Maven.
SystemPropertyArgument() - Constructor for class org.scijava.console.SystemPropertyArgument

T

TAN - Static variable in class org.scijava.util.Colors
task() - Method in interface org.scijava.download.Download
Task - Interface in org.scijava.task: A self-aware job which reports its status and progress as it runs.
TaskEvent - Class in org.scijava.task.event: An event indicating a Task has been updated.
TaskEvent(Task) - Constructor for class org.scijava.task.event.TaskEvent
TaskService - Interface in org.scijava.task: Service for working with Tasks.
TEAL - Static variable in class org.scijava.util.Colors
TestUtils - Class in org.scijava.test: A bunch of helpful functions for unit tests.
TestUtils() - Constructor for class org.scijava.test.TestUtils
text() - Method in class org.scijava.AbstractGateway
text() - Method in interface org.scijava.Gateway: Gets this application context's TextService.
text() - Method in class org.scijava.log.LogMessage: The content of this log message.
TextDisplay - Interface in org.scijava.display: Interface for text Displays.
TextDisplayPanel - Interface in org.scijava.ui.viewer.text: This is a panel that can go inside a display window.
TextDisplayViewer - Interface in org.scijava.ui.viewer.text: A display viewer for Strings.
TextFormat - Interface in org.scijava.text: TextFormat is a plugin that provides handling for a text markup language.
TextIOPlugin - Class in org.scijava.text.io: IOPlugin for text conversion to HTML.
TextIOPlugin() - Constructor for class org.scijava.text.io.TextIOPlugin
TextIOService - Interface in org.scijava.text.io: TypedIOService for opening and saving text data
TextService - Interface in org.scijava.text: Interface for service that works with text formats.
TextWidget - Interface in org.scijava.widget: Widget interface for text fields and areas.
THISTLE - Static variable in class org.scijava.util.Colors
thread() - Method in class org.scijava.AbstractGateway
thread() - Method in interface org.scijava.Gateway: Gets this application context's ThreadService.
THREAD_COUNT - Static variable in class org.scijava.util.MirrorWebsite
ThreadSafeEventService - Class in org.scijava.event.bushe: A thread-safe EventService implementation.
ThreadSafeEventService() - Constructor for class org.scijava.event.bushe.ThreadSafeEventService: Creates a ThreadSafeEventService that does not monitor timing of handlers.
ThreadSafeEventService(Long) - Constructor for class org.scijava.event.bushe.ThreadSafeEventService: Creates a ThreadSafeEventService while providing time monitoring options.
ThreadSafeEventService(Integer, Integer, Long) - Constructor for class org.scijava.event.bushe.ThreadSafeEventService: Creates a ThreadSafeEventService while providing proxy cleanup customization.
ThreadSafeEventService(Long, Integer, Integer, Long) - Constructor for class org.scijava.event.bushe.ThreadSafeEventService: Creates a ThreadSafeEventService while providing time monitoring options.
ThreadService - Interface in org.scijava.thread: Interface for the thread handling service.
ThreadService.ThreadContext - Enum in org.scijava.thread
throwable() - Method in class org.scijava.log.LogMessage: Exception associated with the log message.
tick(Timing) - Static method in class org.scijava.util.Timing
tick(Timing, Object) - Static method in class org.scijava.util.Timing
time() - Method in class org.scijava.log.LogMessage: Time of the creation of the log message.
Timing - Class in org.scijava.util: A helper class to help with optimizing the performance of a list of operations.
Timing() - Constructor for class org.scijava.util.Timing
toArray() - Method in class org.scijava.display.AbstractDisplay
toArray(U[]) - Method in class org.scijava.display.AbstractDisplay
toArray() - Method in class org.scijava.menu.ShadowMenu
toArray(T[]) - Method in class org.scijava.menu.ShadowMenu
toArray() - Method in class org.scijava.object.ObjectIndex
toArray(T[]) - Method in class org.scijava.object.ObjectIndex
toArray() - Method in class org.scijava.util.LastRecentlyUsed
toArray(S[]) - Method in class org.scijava.util.LastRecentlyUsed
toByteArray(long, int) - Method in interface org.scijava.io.ByteBank: Copies part of this buffer into a newly allocated byte array.
toByteArray() - Method in interface org.scijava.io.ByteBank: Copies this entire buffer into a newly allocated byte array.
toCollection(Object) - Static method in class org.scijava.util.ArrayUtils: Converts the provided Object to a Collection implementation.
toDouble(byte[], int, int, boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first len bytes of a byte array beyond the given offset to a double.
toDouble(byte[], int, boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first 8 bytes of a byte array beyond the given offset to a double.
toDouble(byte[], boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first 8 bytes of a byte array to a double.
toDouble(short[], int, int, boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first len bytes of a byte array beyond the given offset to a double.
toDouble(short[], int, boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first 8 bytes of a byte array beyond the given offset to a double.
toDouble(short[], boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first 8 bytes of a byte array to a double.
toFloat(byte[], int, int, boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first len bytes of a byte array beyond the given offset to a float.
toFloat(byte[], int, boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first 4 bytes of a byte array beyond a given offset to a float.
toFloat(byte[], boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first 4 bytes of a byte array to a float.
toFloat(short[], int, int, boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first len bytes of a byte array beyond a given offset to a float.
toFloat(short[], int, boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first 4 bytes of a byte array beyond a given offset to a float.
toFloat(short[], boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first 4 bytes of a byte array to a float.
ToggleWidget - Interface in org.scijava.widget: Widget interface for boolean toggles.
toHTML(Set<Class<? extends SciJavaEvent>>, Set<Class<? extends SciJavaEvent>>) - Method in class org.scijava.event.DefaultEventHistory
toHTML(boolean) - Method in class org.scijava.event.EventDetails
toHTML(Set<Class<? extends SciJavaEvent>>, Set<Class<? extends SciJavaEvent>>) - Method in interface org.scijava.event.EventHistory: Gets the recorded event history as an HTML string.
toHTMLColor() - Method in class org.scijava.util.ColorRGB: Convert this ColorRGB to a string in the format specified by CSS Color Module Level 3 - W3C Recommendation 07 June 2011.
toInt(byte[], int, int, boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first len bytes of a byte array beyond the given offset to an int.
toInt(byte[], int, boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first 4 bytes of a byte array beyond the given offset to an int.
toInt(byte[], boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first 4 bytes of a byte array to an int.
toInt(short[], int, int, boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first len bytes of a byte array beyond the given offset to an int.
toInt(short[], int, boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first 4 bytes of a byte array beyond the given offset to an int.
toInt(short[], boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first 4 bytes of a byte array to an int.
toLong(byte[], int, int, boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first len bytes of a byte array beyond the given offset to a long.
toLong(byte[], int, boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first 8 bytes of a byte array beyond the given offset to a long.
toLong(byte[], boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first 8 bytes of a byte array to a long.
toLong(short[], int, int, boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first len bytes of a byte array beyond the given offset to a long.
toLong(short[], int, boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first 8 bytes of a byte array beyond the given offset to a long.
toLong(short[], boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first 8 bytes of a byte array to a long.
TOMATO - Static variable in class org.scijava.util.Colors
toMillis(int) - Method in class org.scijava.util.TunePlayer: Converts the given note length to milliseconds, by the current tempo.
toNumber(Object, Class<?>) - Static method in class org.scijava.util.NumberUtils: Converts the given object to a Number of the specified type, or null if the types are incompatible.
tool() - Method in class org.scijava.AbstractGateway
tool() - Method in interface org.scijava.Gateway: Gets this application context's ToolService.
Tool - Interface in org.scijava.tool: Interface for tools.
ToolActivatedEvent - Class in org.scijava.tool.event: An event indicating a tool has been activated.
ToolActivatedEvent(Tool) - Constructor for class org.scijava.tool.event.ToolActivatedEvent
ToolBar - Interface in org.scijava.ui: Common interface for tool bars, which are button bars with selectable tools, similar to ImageJ 1.x.
ToolDeactivatedEvent - Class in org.scijava.tool.event: An event indicating a tool has been deactivated.
ToolDeactivatedEvent(Tool) - Constructor for class org.scijava.tool.event.ToolDeactivatedEvent
ToolEvent - Class in org.scijava.tool.event: An event indicating something has happened to a tool.
ToolEvent(Tool) - Constructor for class org.scijava.tool.event.ToolEvent
ToolService - Interface in org.scijava.tool: Interface for service that tracks available tools.
toShort(byte[], int, int, boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first len bytes of a byte array beyond the given offset to a short.
toShort(byte[], int, boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first 2 bytes of a byte array beyond the given offset to a short.
toShort(byte[], boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first 2 bytes of a byte array to a short.
toShort(short[], int, int, boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first len bytes of a byte array beyond the given offset to a short.
toShort(short[], int, boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first 2 bytes of a byte array beyond the given offset to a short.
toShort(short[], boolean) - Static method in class org.scijava.util.Bytes: Translates up to the first 2 bytes of a byte array to a short.
toSimpleName(Class<?>) - Static method in class org.scijava.annotations.legacy.LegacyReader
toString() - Method in class org.scijava.AbstractBasicDetails
toString() - Method in class org.scijava.AbstractUIDetails
toString() - Method in class org.scijava.app.event.StatusEvent
toString() - Method in class org.scijava.command.CommandInfo
toString() - Method in class org.scijava.command.CommandModule
toString() - Method in class org.scijava.console.OutputEvent
toString() - Method in class org.scijava.display.AbstractDisplay
toString() - Method in class org.scijava.display.event.DisplayEvent
toString() - Method in class org.scijava.display.event.input.InputEvent
toString() - Method in class org.scijava.display.event.input.KyEvent
toString() - Method in class org.scijava.display.event.input.MsButtonEvent
toString() - Method in class org.scijava.display.event.window.WinEvent
toString() - Method in class org.scijava.event.bushe.AbstractProxySubscriber
toString() - Method in class org.scijava.event.SciJavaEvent
toString() - Method in class org.scijava.input.Accelerator
toString() - Method in class org.scijava.input.InputModifiers
toString() - Method in class org.scijava.io.event.IOEvent
toString() - Method in class org.scijava.io.location.AbstractLocation
toString() - Method in class org.scijava.log.LogMessage
toString() - Method in class org.scijava.log.LogSource
toString() - Method in class org.scijava.menu.ShadowMenu
toString() - Method in class org.scijava.MenuEntry
toString() - Method in class org.scijava.module.AbstractModuleItem
toString() - Method in class org.scijava.module.event.ModuleEvent
toString() - Method in class org.scijava.module.event.ModuleProcessEvent
toString() - Method in class org.scijava.object.event.ListEvent
toString() - Method in class org.scijava.object.event.ObjectEvent
toString() - Method in class org.scijava.object.ObjectIndex
toString() - Method in class org.scijava.options.event.OptionsEvent
toString() - Method in class org.scijava.platform.event.AppFocusEvent
toString() - Method in class org.scijava.platform.event.AppMenusCreatedEvent
toString() - Method in class org.scijava.platform.event.AppSleepEvent
toString() - Method in class org.scijava.platform.event.AppUserSessionEvent
toString() - Method in class org.scijava.platform.event.AppVisibleEvent
toString() - Method in class org.scijava.plugin.AbstractRichPlugin
toString() - Method in class org.scijava.plugin.PluginInfo
toString() - Method in class org.scijava.script.AbstractScriptLanguage
toString() - Method in class org.scijava.service.AbstractService
toString() - Method in class org.scijava.task.event.TaskEvent
toString() - Method in class org.scijava.tool.event.ToolEvent
toString() - Method in class org.scijava.ui.dnd.event.DragAndDropEvent
toString() - Method in class org.scijava.ui.dnd.event.DragEnterEvent
toString() - Method in class org.scijava.ui.dnd.event.DropEvent
toString() - Method in class org.scijava.ui.dnd.MIMEType
toString() - Method in class org.scijava.ui.event.UIEvent
toString() - Method in class org.scijava.util.ColorRGB
toString() - Method in class org.scijava.util.IntCoords
toString() - Method in class org.scijava.util.IntRect
toString() - Method in class org.scijava.util.ReadInto: Return the output as a String unless a PrintStream was specified in the constructor.
toString() - Method in class org.scijava.util.RealCoords
toString() - Method in class org.scijava.util.RealRect
toString() - Method in class org.scijava.util.StringMaker
toString() - Method in class org.scijava.util.XML
trace(Object) - Method in interface org.scijava.log.Logger
trace(Throwable) - Method in interface org.scijava.log.Logger
trace(Object, Throwable) - Method in interface org.scijava.log.Logger
TRACE - Static variable in class org.scijava.log.LogLevel
TRACE - Static variable in interface org.scijava.log.LogService: Deprecated.
Use LogLevel.TRACE.
TreeNode<T> - Interface in org.scijava.util: A wrapper around a data object, for storing it in a tree structure.
TunePlayer - Class in org.scijava.util: Any QBasic fans out there?
TunePlayer() - Constructor for class org.scijava.util.TunePlayer
TunePlayer(int) - Constructor for class org.scijava.util.TunePlayer
TURQUOISE - Static variable in class org.scijava.util.Colors
type - Variable in class org.scijava.script.ParameterObject: Deprecated.
Typed<T> - Interface in org.scijava: An object with an associated type (i.e., Class), which can be queried at runtime.
TypedIOService<D> - Interface in org.scijava.io: Interface for high-level data I/O: opening and saving data of a specific type.
TypedPlugin<D> - Interface in org.scijava.plugin: Interface for plugins with an associated type (i.e., Class).
TypedService<DT,PT extends TypedPlugin<DT>> - Interface in org.scijava.plugin: A service for managing a particular sort of TypedPlugin.
Types - Class in org.scijava.util: Utility class for working with generic types, fields and methods.

U

ui() - Method in class org.scijava.AbstractGateway
ui() - Method in interface org.scijava.Gateway: Gets this application context's UIService.
ui() - Method in class org.scijava.ui.AbstractUIInputWidget
ui(String) - Method in class org.scijava.ui.AbstractUIInputWidget
UI_PROPERTY - Static variable in interface org.scijava.ui.UIService: System property to set for overriding the default UI.
UIArgument - Class in org.scijava.ui.console: Handles the --ui command line argument.
UIArgument() - Constructor for class org.scijava.ui.console.UIArgument
UIComponent<C> - Interface in org.scijava.widget: An interface identifying an object housed within a UI component.
UIDetails - Interface in org.scijava: An interface defining details useful for generating relevant user interface elements.
UIEvent - Class in org.scijava.ui.event: An event indicating activity relating to a UserInterface.
UIEvent(UserInterface) - Constructor for class org.scijava.ui.event.UIEvent
UIPreprocessor - Class in org.scijava.ui: The UI preprocessor automatically populates module UserInterface inputs with the UIService's default UI instance, if compatible.
UIPreprocessor() - Constructor for class org.scijava.ui.UIPreprocessor
UIService - Interface in org.scijava.ui: Interface for service that handles user interfaces.
UIShownEvent - Class in org.scijava.ui.event: An event indicating a user interface was shown.
UIShownEvent(UserInterface) - Constructor for class org.scijava.ui.event.UIShownEvent
unbox(Class<T>) - Static method in class org.scijava.util.Types: Returns the primitive Class closest to the given type.
uncancel() - Method in class org.scijava.command.DynamicCommand
uncaughtException(Thread, Throwable) - Method in class org.scijava.log.DefaultUncaughtExceptionHandler
UnimplementedCommand - Class in org.scijava.command: A command that is not yet implemented.
UnimplementedCommand() - Constructor for class org.scijava.command.UnimplementedCommand
UnitUtils - Class in org.scijava.util: Utility methods for working with units.
unpack(long, byte[], int, int, boolean) - Static method in class org.scijava.util.Bytes: Translates nBytes of the given long and places the result in the given byte array.
unresolveInput(String) - Method in class org.scijava.module.AbstractModule
unresolveInput(String) - Method in interface org.scijava.module.Module: Marks the input with the given name as unresolved.
unresolveOutput(String) - Method in class org.scijava.module.AbstractModule
unresolveOutput(String) - Method in interface org.scijava.module.Module: Marks the output with the given name as unresolved.
unsubscribe(Class, EventSubscriber) - Method in class org.scijava.event.bushe.ThreadSafeEventService
unsubscribe(String, EventTopicSubscriber) - Method in class org.scijava.event.bushe.ThreadSafeEventService
unsubscribe(Pattern, EventTopicSubscriber) - Method in class org.scijava.event.bushe.ThreadSafeEventService
unsubscribe(Class, Object) - Method in class org.scijava.event.bushe.ThreadSafeEventService
unsubscribe(String, Object) - Method in class org.scijava.event.bushe.ThreadSafeEventService
unsubscribe(Pattern, Object) - Method in class org.scijava.event.bushe.ThreadSafeEventService
unsubscribe(Object, Map, Object) - Method in class org.scijava.event.bushe.ThreadSafeEventService: All event subscriber unsubscriptions call this method.
unsubscribe(Collection<EventSubscriber<?>>) - Method in class org.scijava.event.DefaultEventService
unsubscribe(Collection<EventSubscriber<?>>) - Method in interface org.scijava.event.EventService: Removes all the given subscribers; they will no longer be notified when events are published.
unsubscribeExactly(Class, EventSubscriber) - Method in class org.scijava.event.bushe.ThreadSafeEventService
unsubscribeExactly(Class, Object) - Method in class org.scijava.event.bushe.ThreadSafeEventService
unsubscribeVeto(Class, Object) - Method in class org.scijava.event.bushe.ThreadSafeEventService
unsubscribeVeto(String, Object) - Method in class org.scijava.event.bushe.ThreadSafeEventService
unsubscribeVeto(Pattern, Object) - Method in class org.scijava.event.bushe.ThreadSafeEventService
unsubscribeVetoExactly(Class, Object) - Method in class org.scijava.event.bushe.ThreadSafeEventService
unsubscribeVetoListener(Class, VetoEventListener) - Method in class org.scijava.event.bushe.ThreadSafeEventService
unsubscribeVetoListener(String, VetoTopicEventListener) - Method in class org.scijava.event.bushe.ThreadSafeEventService
unsubscribeVetoListener(Pattern, VetoTopicEventListener) - Method in class org.scijava.event.bushe.ThreadSafeEventService
unsubscribeVetoListener(Object, Map, Object) - Method in class org.scijava.event.bushe.ThreadSafeEventService: All veto unsubscriptions methods call this method.
unsubscribeVetoListenerExactly(Class, VetoEventListener) - Method in class org.scijava.event.bushe.ThreadSafeEventService
update(EventService) - Method in class org.scijava.command.CommandInfo
update(ModuleItem<T>, T) - Method in class org.scijava.command.InteractiveCommand
update() - Method in class org.scijava.display.AbstractDisplay
update() - Method in interface org.scijava.display.Display: Updates and redraws the display onscreen.
update(ModuleInfo) - Method in class org.scijava.menu.ShadowMenu: Updates the menu structure to reflect changes in the given module.
update(EventService) - Method in interface org.scijava.module.ModuleInfo: Notifies interested parties that the module info has been modified.
updateAll(Collection<? extends ModuleInfo>) - Method in class org.scijava.menu.ShadowMenu: Updates the menu structure to reflect changes in the given modules.
updateAnnotationIndex(ClassLoader) - Static method in class org.scijava.annotations.EclipseHelper: Updates the annotation index in the current Eclipse project.
updateInput(ModuleItem<?>) - Method in class org.scijava.command.InteractiveCommand
updateModel() - Method in class org.scijava.widget.AbstractInputWidget
updateModel() - Method in interface org.scijava.widget.InputWidget: Updates the model to reflect the latest widget state.
updateTitle() - Method in class org.scijava.ui.viewer.AbstractDisplayViewer
upOctave() - Method in class org.scijava.util.TunePlayer
URILocation - Class in org.scijava.io.location: Location backed by a URI string.
URILocation(URI) - Constructor for class org.scijava.io.location.URILocation
URILocation(String) - Constructor for class org.scijava.io.location.URILocation
URLLocation - Class in org.scijava.io.location: Location backed by a URL.
URLLocation(URL) - Constructor for class org.scijava.io.location.URLLocation
urlToFile(URL) - Static method in class org.scijava.util.FileUtils: Converts the given URL to its corresponding File.
urlToFile(String) - Static method in class org.scijava.util.FileUtils: Converts the given URL string to its corresponding File.
UserInterface - Interface in org.scijava.ui: An end-user SciJava application user interface.

V

validate(Module) - Method in class org.scijava.module.AbstractModuleItem
validate(Module) - Method in interface org.scijava.module.ModuleItem: Invokes this item's validation function, if any, on the given module.
Validated - Interface in org.scijava: An object whose validity can be confirmed after initialization.
ValidityPreprocessor - Class in org.scijava.module.process: A preprocessor plugin that verifies module validity.
ValidityPreprocessor() - Constructor for class org.scijava.module.process.ValidityPreprocessor
ValidityProblem - Exception in org.scijava: An exception used to record a validity problem with a Validated object.
ValidityProblem() - Constructor for exception org.scijava.ValidityProblem
ValidityProblem(String) - Constructor for exception org.scijava.ValidityProblem
ValidityProblem(String, Throwable) - Constructor for exception org.scijava.ValidityProblem
ValidityProblem(Throwable) - Constructor for exception org.scijava.ValidityProblem
value(String) - Static method in class org.scijava.log.LogLevel: Extracts the log level value from a string.
value() - Method in interface org.scijava.parse.Item: Gets the value of the item.
value - Variable in class org.scijava.script.ParameterObject: Deprecated.
valueOf(String) - Static method in enum org.scijava.console.OutputEvent.Source: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.scijava.display.event.DisplayUpdatedEvent.DisplayUpdateLevel: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.scijava.event.bushe.ReferenceStrength: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.scijava.input.KeyCode: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.scijava.input.MouseCursor: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.scijava.io.handle.DataHandle.ByteOrder: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.scijava.ItemIO: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.scijava.ItemVisibility: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.scijava.thread.ThreadService.ThreadContext: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.scijava.ui.Arrangeable.Arrangement: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.scijava.ui.DialogPrompt.MessageType: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.scijava.ui.DialogPrompt.OptionType: Returns the enum constant of this type with the specified name.
valueOf(String) - Static method in enum org.scijava.ui.DialogPrompt.Result: Returns the enum constant of this type with the specified name.
values() - Static method in enum org.scijava.console.OutputEvent.Source: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.scijava.display.event.DisplayUpdatedEvent.DisplayUpdateLevel: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.scijava.event.bushe.ReferenceStrength: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.scijava.input.KeyCode: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.scijava.input.MouseCursor: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.scijava.io.handle.DataHandle.ByteOrder: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.scijava.ItemIO: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.scijava.ItemVisibility: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.scijava.thread.ThreadService.ThreadContext: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.scijava.ui.Arrangeable.Arrangement: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.scijava.ui.DialogPrompt.MessageType: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.scijava.ui.DialogPrompt.OptionType: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in enum org.scijava.ui.DialogPrompt.Result: Returns an array containing the constants of this enum type, in the order they are declared.
values() - Static method in class org.scijava.util.Colors: Gets the list of all preset colors.
vars() - Method in class org.scijava.script.ScriptREPL: Lists variables in the script context.
verbose - Static variable in class org.scijava.util.CheckSezpoz: Deprecated.
Versioned - Interface in org.scijava: An object that knows its version.
VersionUtils - Class in org.scijava.util: Useful methods for retrieving versions from JARs and POMs associated with Class objects.
VersionUtils() - Constructor for class org.scijava.util.VersionUtils
VERY_HIGH - Static variable in class org.scijava.Priority: Priority for items that strongly prefer to be sorted early.
VERY_HIGH_PRIORITY - Static variable in class org.scijava.Priority: Deprecated.
Use Priority.VERY_HIGH instead.
VERY_LOW - Static variable in class org.scijava.Priority: Priority for items that strongly prefer to be sorted late.
VERY_LOW_PRIORITY - Static variable in class org.scijava.Priority: Deprecated.
Use Priority.VERY_LOW instead.
veto - Variable in class org.scijava.event.bushe.AbstractProxySubscriber
view(DisplayWindow, Display<?>) - Method in class org.scijava.ui.headless.HeadlessDisplayViewer
view(DisplayWindow, Display<?>) - Method in class org.scijava.ui.viewer.AbstractDisplayViewer
view(UserInterface, Display<?>) - Method in interface org.scijava.ui.viewer.DisplayViewer: Begins viewing the given display.
view(DisplayWindow, Display<?>) - Method in interface org.scijava.ui.viewer.DisplayViewer: Begins viewing the given display.
VIOLET - Static variable in class org.scijava.util.Colors

W

waitFor(Future<M>) - Method in class org.scijava.module.DefaultModuleService
waitFor(Future<M>) - Method in interface org.scijava.module.ModuleService: Blocks until the given module is finished executing.
waitFor(Future<T>) - Method in class org.scijava.run.AbstractCodeRunner
waitFor() - Method in class org.scijava.task.DefaultTask
waitFor() - Method in interface org.scijava.task.Task: Waits for the task to complete - asynchronous job
walkHistory(String, boolean) - Method in class org.scijava.script.DefaultScriptInterpreter
walkHistory(String, boolean) - Method in interface org.scijava.script.ScriptInterpreter: Obtains the next/previous command in the command history.
warn(String) - Method in class org.scijava.app.DefaultStatusService
warn(String) - Method in interface org.scijava.app.StatusService: Issues a warning message.
warn(Object) - Method in interface org.scijava.log.Logger
warn(Throwable) - Method in interface org.scijava.log.Logger
warn(Object, Throwable) - Method in interface org.scijava.log.Logger
WARN - Static variable in class org.scijava.log.LogLevel
WARN - Static variable in interface org.scijava.log.LogService: Deprecated.
Use LogLevel.WARN.
WelcomeEvent - Class in org.scijava.welcome.event: Marker SciJavaEvent indicating the first time an application is run.
WelcomeEvent() - Constructor for class org.scijava.welcome.event.WelcomeEvent
WelcomeService - Interface in org.scijava.welcome: Interface for services to display the welcome greeting when the UI is shown for the first time.
WHEAT - Static variable in class org.scijava.util.Colors
WHITE - Static variable in class org.scijava.util.Colors
WHITESMOKE - Static variable in class org.scijava.util.Colors
widget() - Method in class org.scijava.AbstractGateway
widget() - Method in interface org.scijava.Gateway: Gets this application context's WidgetService.
WidgetModel - Interface in org.scijava.widget: The backing data model for a particular InputWidget.
widgets - Variable in class org.scijava.widget.AbstractInputPanel: Table of widgets.
WidgetService - Interface in org.scijava.widget: Interface for services that manage available InputWidgets.
WidgetStyle - Class in org.scijava.widget
width - Variable in class org.scijava.util.IntRect
width - Variable in class org.scijava.util.RealRect
wildcard() - Static method in class org.scijava.util.Types: Creates a new WildcardType with no upper or lower bounds (i.e., ?).
wildcard(Type, Type) - Static method in class org.scijava.util.Types: Creates a new WildcardType with the given upper and/or lower bound.
wildcard(Type[], Type[]) - Static method in class org.scijava.util.Types: Creates a new WildcardType with the given upper and/or lower bounds.
WinActivatedEvent - Class in org.scijava.display.event.window: An event indicating a display window has been activated.
WinActivatedEvent(Display<?>, Object) - Constructor for class org.scijava.display.event.window.WinActivatedEvent
WinClosedEvent - Class in org.scijava.display.event.window: An event indicating a display window has been closed.
WinClosedEvent(Display<?>, Object) - Constructor for class org.scijava.display.event.window.WinClosedEvent
WinClosingEvent - Class in org.scijava.display.event.window: An event indicating a display window is in the process of closing.
WinClosingEvent(Display<?>, Object) - Constructor for class org.scijava.display.event.window.WinClosingEvent
WinDeactivatedEvent - Class in org.scijava.display.event.window: An event indicating a display window has been deactivated.
WinDeactivatedEvent(Display<?>, Object) - Constructor for class org.scijava.display.event.window.WinDeactivatedEvent
WinDeiconifiedEvent - Class in org.scijava.display.event.window: An event indicating a display window was deiconified.
WinDeiconifiedEvent(Display<?>, Object) - Constructor for class org.scijava.display.event.window.WinDeiconifiedEvent
WINDOW_LABEL - Static variable in class org.scijava.menu.MenuConstants
WINDOW_MNEMONIC - Static variable in class org.scijava.menu.MenuConstants
WINDOW_WEIGHT - Static variable in class org.scijava.menu.MenuConstants
WinEvent - Class in org.scijava.display.event.window: An event indicating something has happened to a display window.
WinEvent(Display<?>, Object) - Constructor for class org.scijava.display.event.window.WinEvent
WinIconifiedEvent - Class in org.scijava.display.event.window: An event indicating a display window was iconified.
WinIconifiedEvent(Display<?>, Object) - Constructor for class org.scijava.display.event.window.WinIconifiedEvent
WinOpenedEvent - Class in org.scijava.display.event.window: An event indicating a display window has been opened.
WinOpenedEvent(Display<?>, Object) - Constructor for class org.scijava.display.event.window.WinOpenedEvent
WrapperPlugin<D> - Interface in org.scijava.plugin: A plugin with a special "has-a" relationship (i.e., composition rather than inheritance) with a single data object of a particular type.
WrapperService<DT,PT extends WrapperPlugin<DT>> - Interface in org.scijava.plugin: A service for managing WrapperPlugins of a particular type.
write(AbstractIndexWriter.StreamFactory) - Method in class org.scijava.annotations.AbstractIndexWriter
write(File) - Method in class org.scijava.annotations.DirectoryIndexer
write(int) - Method in class org.scijava.console.MultiOutputStream
write(byte[], int, int) - Method in class org.scijava.console.MultiOutputStream
write(int) - Method in class org.scijava.download.MultiWriteHandle
write(byte[], int, int) - Method in class org.scijava.download.MultiWriteHandle
write(byte[], int, int) - Method in class org.scijava.io.handle.BytesHandle
write(int) - Method in class org.scijava.io.handle.BytesHandle
write(byte[]) - Method in interface org.scijava.io.handle.DataHandle
write(int) - Method in class org.scijava.io.handle.DataHandleOutputStream
write(byte[]) - Method in class org.scijava.io.handle.DataHandleOutputStream
write(byte[], int, int) - Method in class org.scijava.io.handle.DataHandleOutputStream
write(int) - Method in class org.scijava.io.handle.DummyHandle
write(byte[], int, int) - Method in class org.scijava.io.handle.DummyHandle
write(byte[]) - Method in class org.scijava.io.handle.FileHandle
write(byte[], int, int) - Method in class org.scijava.io.handle.FileHandle
write(int) - Method in class org.scijava.io.handle.FileHandle
write(int) - Method in class org.scijava.io.handle.ReadBufferDataHandle
write(byte[], int, int) - Method in class org.scijava.io.handle.ReadBufferDataHandle
write(int) - Method in interface org.scijava.io.handle.StreamHandle
write(byte[], int, int) - Method in interface org.scijava.io.handle.StreamHandle
write(int) - Method in class org.scijava.io.handle.WriteBufferDataHandle
write(byte[], int, int) - Method in class org.scijava.io.handle.WriteBufferDataHandle
write(int) - Method in class org.scijava.util.LineOutputStream: Adds a single byte to the current line buffer, or LineOutputStream.flush() the current line if it is a new-line character.
write(byte[]) - Method in class org.scijava.util.LineOutputStream: Adds bytes to the current line buffer.
write(byte[], int, int) - Method in class org.scijava.util.LineOutputStream: Adds bytes to the current line buffer.
writeBoolean(boolean) - Method in interface org.scijava.io.handle.DataHandle
writeBoolean(boolean) - Method in class org.scijava.io.handle.FileHandle
writeBuffer(DataHandle<Location>) - Method in interface org.scijava.io.handle.DataHandleService: Wraps the provided DataHandle in a write-only buffer for accelerated writing.
WriteBufferDataHandle - Class in org.scijava.io.handle: Wraps a DataHandle and acts as a write buffer.
WriteBufferDataHandle(DataHandle<Location>) - Constructor for class org.scijava.io.handle.WriteBufferDataHandle: Creates a WriteBufferDataHandle that wraps the given DataHandle, the default size for the buffer is used ( bytes).
WriteBufferDataHandle(DataHandle<Location>, int) - Constructor for class org.scijava.io.handle.WriteBufferDataHandle: Creates a WriteBufferDataHandle that wraps the given DataHandle
writeByte(int) - Method in interface org.scijava.io.handle.DataHandle
writeByte(int) - Method in class org.scijava.io.handle.FileHandle
writeByte(int) - Method in interface org.scijava.io.handle.StreamHandle
writeBytes(String) - Method in interface org.scijava.io.handle.DataHandle
writeBytes(String) - Method in class org.scijava.io.handle.FileHandle
writeChar(int) - Method in interface org.scijava.io.handle.DataHandle
writeChars(String) - Method in interface org.scijava.io.handle.DataHandle
writeChars(String) - Method in class org.scijava.io.handle.FileHandle
writeDouble(double) - Method in interface org.scijava.io.handle.DataHandle
writeFile(File, byte[]) - Static method in class org.scijava.util.FileUtils: Writes the given byte array to the specified file.
writeFloat(float) - Method in interface org.scijava.io.handle.DataHandle
writeHistory() - Method in class org.scijava.script.DefaultScriptInterpreter
writeHistory() - Method in interface org.scijava.script.ScriptInterpreter: Persists the history of the current script interpreter.
writeInt(int) - Method in interface org.scijava.io.handle.DataHandle
writeLine(String) - Method in interface org.scijava.io.handle.DataHandle: Writes the provided string, followed by a newline character.
writeLong(long) - Method in interface org.scijava.io.handle.DataHandle
writeMap(PrintStream, Object...) - Method in class org.scijava.annotations.AbstractIndexWriter
writeOnlyException() - Static method in class org.scijava.io.handle.DataHandles
writer - Variable in class org.scijava.script.AbstractScriptContext
writeShort(int) - Method in interface org.scijava.io.handle.DataHandle
writeState(DataOutputStream) - Method in class org.scijava.util.MersenneTwisterFast: Writes the entire state of the MersenneTwister RNG to the stream
writeUTF(String) - Method in interface org.scijava.io.handle.DataHandle
writeUTF(String, DataOutput) - Static method in class org.scijava.io.handle.DataHandles: Writes a string to the specified DataOutput using modified UTF-8 encoding in a machine-independent manner.
writeUTF(String) - Method in class org.scijava.io.handle.FileHandle
writeXMLFile(Document, File) - Static method in class org.scijava.util.CheckSezpoz: Deprecated.

X

x - Variable in class org.scijava.util.IntCoords
x - Variable in class org.scijava.util.IntRect
x - Variable in class org.scijava.util.RealCoords
x - Variable in class org.scijava.util.RealRect
XML - Class in org.scijava.util: Helper class for working with XML documents.
XML(File) - Constructor for class org.scijava.util.XML: Parses XML from the given file.
XML(URL) - Constructor for class org.scijava.util.XML: Parses XML from the given URL.
XML(InputStream) - Constructor for class org.scijava.util.XML: Parses XML from the given input stream.
XML(String) - Constructor for class org.scijava.util.XML: Parses XML from the given string.
XML(Document) - Constructor for class org.scijava.util.XML: Creates an XML object for an existing document.
XML(String, Document) - Constructor for class org.scijava.util.XML: Creates an XML object for an existing document.
xpath(String) - Method in class org.scijava.util.XML: Obtains the nodes identified by the given XPath expression.

Y

y - Variable in class org.scijava.util.IntCoords
y - Variable in class org.scijava.util.IntRect
y - Variable in class org.scijava.util.RealCoords
y - Variable in class org.scijava.util.RealRect
YELLOW - Static variable in class org.scijava.util.Colors
YELLOWGREEN - Static variable in class org.scijava.util.Colors

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