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
 
AbstractBasicDetails - Class in org.scijava
Abstract superclass of BasicDetails implementations.
AbstractBasicDetails() - Constructor for class org.scijava.AbstractBasicDetails
 
AbstractConsoleArgument - Class in org.scijava.console
Abstract superclass of ConsoleArgument implementations.
AbstractConsoleArgument() - Constructor for class org.scijava.console.AbstractConsoleArgument
 
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
 
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
 
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
 
AbstractLogService - Class in org.scijava.log
Base implementation of an abstract LogService.
AbstractLogService() - 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.
AbstractPTService<PT extends SciJavaPlugin> - Class in org.scijava.plugin
Abstract base class for PTServices.
AbstractPTService() - Constructor for class org.scijava.plugin.AbstractPTService
 
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 ImageJ's scripting interface.
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
 
AbstractService - Class in org.scijava.service
Abstract superclass of Service implementations.
AbstractService() - Constructor for class org.scijava.service.AbstractService
 
AbstractSingletonService<PT extends SingletonPlugin> - Class in org.scijava.plugin
Abstract base class for SingletonServices.
AbstractSingletonService() - Constructor for class org.scijava.plugin.AbstractSingletonService
 
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 ImageJ tools.
AbstractTool() - Constructor for class org.scijava.tool.AbstractTool
 
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 class org.scijava.tool.AbstractTool
 
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
 
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) - 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(Class<?>) - Method in class org.scijava.script.DefaultScriptService
 
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
Adds delimiter character between arguments (typically a ',').
addArgDelimiter() - Method in class org.scijava.script.CodeGeneratorJava
 
addArgument(ParameterObject) - Method in interface org.scijava.script.CodeGenerator
 
addArgument(ParameterObject) - Method in class org.scijava.script.CodeGeneratorJava
 
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.
addInput(String, Class<T>) - Method in class org.scijava.module.DefaultMutableModule
 
addInput(ModuleItem<?>) - Method in class org.scijava.module.DefaultMutableModule
 
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.
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
 
addModuleCalled(String) - Method in class org.scijava.script.CodeGeneratorJava
 
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 class org.scijava.object.DefaultObjectService
 
addObject(Object) - Method in interface org.scijava.object.ObjectService
Registers an object with the object service.
addOutput(String, Class<T>) - Method in class org.scijava.module.DefaultMutableModule
 
addOutput(ModuleItem<?>) - Method in class org.scijava.module.DefaultMutableModule
 
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.
addParameter(String, Class<?>, Object) - Method in class org.scijava.script.InvocationObject
 
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.
ALICEBLUE - Static variable in class org.scijava.util.Colors
 
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 6 and above.
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
 
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(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
 
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
 
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
 
Arrangeable - Interface in org.scijava.ui
Arrangeable.
Arrangeable.Arrangement - Enum in org.scijava.ui
 
ArrayUtils - Class in org.scijava.util
Utility class for creating and manipulating PrimitiveArray instances.
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.
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
 
Attr - Annotation Type in org.scijava.plugin
A name/value attribute pair, used to extend the @Plugin annotation.
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.
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.
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.
BROWN - Static variable in class org.scijava.util.Colors
 
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<U> - 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.
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.

C

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.WidgetModel
Executes the callback associated with this widget's associated input.
canCancel() - Method in class org.scijava.command.CommandInfo
 
canCancel() - Method in class org.scijava.command.DynamicCommandInfo
 
canCancel() - Method in class org.scijava.module.AbstractModuleInfo
 
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 ConversionUtils.canCast(Class, Class)
canCast(Object, Class<?>) - Static method in class org.scijava.util.ClassUtils
Deprecated. use ConversionUtils.canCast(Object, Class)
canCast(Class<?>, Class<?>) - Static method in class org.scijava.util.ConversionUtils
Checks whether objects of the given class can be cast to the specified type.
canCast(Object, Class<?>) - Static method in class org.scijava.util.ConversionUtils
Checks whether the given object can be cast to the specified type.
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(String) - Method in class org.scijava.ui.AbstractInputHarvesterPlugin
 
Cancelable - Interface in org.scijava
An operation that can be canceled.
canConvert(ConversionRequest) - Method in class org.scijava.convert.AbstractConverter
 
canConvert(Object, Type) - Method in class org.scijava.convert.AbstractConverter
 
canConvert(Object, Class<?>) - Method in class org.scijava.convert.AbstractConverter
 
canConvert(Class<?>, Type) - Method in class org.scijava.convert.AbstractConverter
Deprecated. 
canConvert(ConversionRequest) - Method in interface org.scijava.convert.Converter
Checks whether a given 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
Deprecated. Use Converter.canConvert(Object, Type)
canConvert(Class<?>, Class<?>) - Method in interface org.scijava.convert.Converter
Deprecated. Use Converter.canConvert(Object, Class)
canConvert(Class<?>, Type) - Method in class org.scijava.convert.DefaultConverter
Deprecated. 
canConvert(Class<?>, Class<?>) - Method in class org.scijava.convert.DefaultConverter
Deprecated. 
canConvert(Object, Class<?>) - Method in class org.scijava.convert.NullConverter
 
canConvert(Class<?>, Class<?>) - Method in class org.scijava.convert.NullConverter
Deprecated. 
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(Object) - 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.DefaultScriptService
 
canHandleFile(String) - Method in class org.scijava.script.DefaultScriptService
 
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
canPreview() - Method in class org.scijava.command.CommandInfo
 
canPreview() - Method in class org.scijava.command.DynamicCommandInfo
 
canPreview() - Method in class org.scijava.module.AbstractModuleInfo
 
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 class org.scijava.module.AbstractModuleInfo
 
canRunHeadless() - Method in interface org.scijava.module.ModuleInfo
Gets whether the module condones headless execution.
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 class org.scijava.ui.viewer.text.AbstractTextDisplayViewer
 
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 ConversionUtils.cast(Object, Class)
cast(Object, Class<T>) - Static method in class org.scijava.util.ConversionUtils
Casts the given object to the specified type, or null if the types are incompatible.
cdata(String) - Method in class org.scijava.util.XML
Obtains the CDATA identified by the given XPath expression.
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.
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
 
CheckSezpoz - Class in org.scijava.util
Deprecated. 
CHOCOLATE - Static variable in class org.scijava.util.Colors
 
ChoiceWidget<U> - Interface in org.scijava.widget
Widget interface for multiple choice selectors.
chooseFile(File, String) - Method in class org.scijava.ui.DefaultUIService
 
chooseFile(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.
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.
ClassUtils - Class in org.scijava.util
Useful methods for working with Class objects and primitive types.
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.DefaultRecentFileService
 
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) - Method in class org.scijava.prefs.DefaultPrefService
 
clear(Class<?>, String) - Method in class org.scijava.prefs.DefaultPrefService
 
clear(String, String) - Method in class org.scijava.prefs.DefaultPrefService
 
clear(Class<?>) - Method in interface org.scijava.prefs.PrefService
 
clear(String) - Method in interface org.scijava.prefs.PrefService
Clears the node.
clear(Class<?>, String) - Method in interface org.scijava.prefs.PrefService
Clears the node indexed under the given class.
clear(String, String) - Method in interface org.scijava.prefs.PrefService
Clears the ndoe indexed under the given path.
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
Clears everything.
clearAll() - Static method in class org.scijava.util.Prefs
Deprecated. Clears everything.
clearParameters() - Method in class org.scijava.module.AbstractModuleInfo
Clears input and output parameters.
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.display.AbstractDisplay
 
close() - Method in interface org.scijava.display.Display
Closes the display and disposes its resources.
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
Code Generator Interface
CodeGeneratorJava - Class in org.scijava.script
CodeGenerator for Java.
CodeGeneratorJava() - Constructor for class org.scijava.script.CodeGeneratorJava
 
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<U> - 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.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
 
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.
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.
compareTo(Prioritized) - Method in class org.scijava.AbstractUIDetails
 
compareTo(ShadowMenu) - Method in class org.scijava.menu.ShadowMenu
 
compareTo(Prioritized) - Method in class org.scijava.plugin.AbstractRichPlugin
 
compareTo(POM) - Method in class org.scijava.util.POM
 
compareVersions(String, String) - Static method in class org.scijava.util.POM
Compares two version strings.
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 class org.scijava.tool.AbstractTool
 
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
 
ConsoleArgument - Interface in org.scijava.console
A plugin which extends an application's command line argument handling.
ConsoleService - Interface in org.scijava.console
Interface for service that manages interaction with the console.
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(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
 
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(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
An ImageJ command that knows its context.
ContextCommand() - Constructor for class org.scijava.command.ContextCommand
 
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.
ConversionRequest - Class in org.scijava.convert
Currency for use in Converter and ConvertService methods.
ConversionRequest(Object, Class<?>) - Constructor for class org.scijava.convert.ConversionRequest
 
ConversionRequest(Class<?>, Class<?>) - Constructor for class org.scijava.convert.ConversionRequest
 
ConversionRequest(Object, Type) - Constructor for class org.scijava.convert.ConversionRequest
 
ConversionRequest(Class<?>, Type) - Constructor for class org.scijava.convert.ConversionRequest
 
ConversionUtils - Class in org.scijava.util
Useful methods for converting and casting between classes and types.
convert() - Method in class org.scijava.AbstractGateway
 
convert(Object, Type) - Method in class org.scijava.convert.AbstractConverter
 
convert(ConversionRequest) - Method in class org.scijava.convert.AbstractConverter
 
convert(Object, Type) - Method in class org.scijava.convert.AbstractConvertService
 
convert(Object, Class<T>) - Method in class org.scijava.convert.AbstractConvertService
 
convert(ConversionRequest) - Method in class org.scijava.convert.AbstractConvertService
 
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(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.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.NullConverter
 
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 extensible plugin: Converter.
convertToEnum(String, Class<T>) - Static method in class org.scijava.util.ConversionUtils
Converts the given string value to an enumeration constant of the specified type.
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(D) - Method in class org.scijava.plugin.AbstractWrapperService
 
create(D) - Method in interface org.scijava.plugin.WrapperService
Creates a new plugin instance wrapping the given associated data object.
create(WidgetModel) - Method in class org.scijava.widget.DefaultWidgetService
 
create(WidgetModel) - Method in interface org.scijava.widget.WidgetService
Creates a widget that represents the given widget model.
createBindings() - Method in class org.scijava.script.AbstractScriptEngine
 
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.
createDisplay(String, Object) - Method in interface org.scijava.display.DisplayService
Creates a display for the given object.
createDisplayWindow(Display<?>) - Method in interface org.scijava.ui.UserInterface
Creates a new display window housing the given display.
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(MenuCreator<T>, T) - Method in class org.scijava.menu.DefaultMenuService
 
createMenus(String, MenuCreator<T>, T) - Method in class org.scijava.menu.DefaultMenuService
 
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.
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 class org.scijava.module.DefaultMutableModuleInfo
 
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 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.
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, 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
 
DataOpenedEvent - Class in org.scijava.io.event
An event indicating that data has been opened from a source.
DataOpenedEvent(String, Object) - Constructor for class org.scijava.io.event.DataOpenedEvent
 
DataSavedEvent - Class in org.scijava.io.event
An event indicating that data has been saved to a destination.
DataSavedEvent(String, Object) - Constructor for class org.scijava.io.event.DataSavedEvent
 
DateWidget<U> - Interface in org.scijava.widget
Widget interface for dates.
deactivate() - Method in class org.scijava.tool.AbstractTool
 
deactivate() - Method in interface org.scijava.tool.Tool
Informs the tool that it is no longer active.
debug(Object) - Method in class org.scijava.log.AbstractLogService
 
debug(Throwable) - Method in class org.scijava.log.AbstractLogService
 
debug(Object, Throwable) - Method in class org.scijava.log.AbstractLogService
 
DEBUG - Static variable in interface org.scijava.log.LogService
 
debug(Object) - Method in interface org.scijava.log.LogService
 
debug(Throwable) - Method in interface org.scijava.log.LogService
 
debug(Object, Throwable) - Method in interface org.scijava.log.LogService
 
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 class org.scijava.script.AbstractScriptLanguage
 
decode(Object) - Method in interface org.scijava.script.ScriptLanguage
Performs any necessary conversion of an encoded object retrieved from the language's script engine.
DEEPPINK - Static variable in class org.scijava.util.Colors
 
DEEPSKYBLUE - Static variable in class org.scijava.util.Colors
 
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
 
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
 
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
 
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 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
 
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.
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
 
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 Java 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
 
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
Constructs a new DefaultScriptInterpreter.
DefaultScriptService - Class in org.scijava.script
Default service for working with scripting languages.
DefaultScriptService() - Constructor for class org.scijava.script.DefaultScriptService
 
DefaultStatusService - Class in org.scijava.app
Default service for status notifications.
DefaultStatusService() - Constructor for class org.scijava.app.DefaultStatusService
 
DefaultTextDisplay - Class in org.scijava.display
Default display for text.
DefaultTextDisplay() - Constructor for class org.scijava.display.DefaultTextDisplay
 
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
 
DefaultUIService - Class in org.scijava.ui
Default service for handling ImageJ 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
 
DefaultWelcomeService - Class in org.scijava.welcome
Default service for displaying the welcome greeting.
DefaultWelcomeService() - Constructor for class org.scijava.welcome.DefaultWelcomeService
 
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
 
destType() - Method in class org.scijava.convert.ConversionRequest
 
DialogPrompt - Interface in org.scijava.ui
TODO
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
 
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 PluginFiner is null.
discoverAnnotations(File, String, ClassLoader) - Method in class org.scijava.annotations.DirectoryIndexer
 
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
 
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.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 class org.scijava.platform.AbstractPlatform
 
dispose() - Method in class org.scijava.platform.DefaultPlatformService
 
dispose() - Method in class org.scijava.service.AbstractService
 
dispose() - Method in class org.scijava.thread.DefaultThreadService
 
dispose() - Method in class org.scijava.ui.DefaultUIService
 
dispose() - Method in class org.scijava.ui.viewer.AbstractDisplayViewer
 
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.
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(DragAndDropData, Display<?>) - Method in class org.scijava.ui.dnd.DefaultDragAndDropService
 
drop(Object, Display<?>) - Method in class org.scijava.ui.dnd.DefaultDragAndDropService
 
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.
DummyTool - Class in org.scijava.tool
A tool that does nothing.
DummyTool() - Constructor for class org.scijava.tool.DummyTool
 
DynamicCommand - Class in org.scijava.command
An ImageJ 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
 
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
 
equal(Object, Object) - Static method in class org.scijava.util.MiscUtils
Compares two objects for equality, even if one or both of them are null.
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.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 class org.scijava.log.AbstractLogService
 
error(Throwable) - Method in class org.scijava.log.AbstractLogService
 
error(Object, Throwable) - Method in class org.scijava.log.AbstractLogService
 
ERROR - Static variable in interface org.scijava.log.LogService
 
error(Object) - Method in interface org.scijava.log.LogService
 
error(Throwable) - Method in interface org.scijava.log.LogService
 
error(Object, Throwable) - Method in interface org.scijava.log.LogService
 
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) - Method in class org.scijava.script.DefaultScriptInterpreter
 
eval(String) - Method in interface org.scijava.script.ScriptInterpreter
Evaluates a command.
event() - Method in class org.scijava.AbstractGateway
 
event() - Method in interface org.scijava.Gateway
 
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
 
EventHistoryListener - Interface in org.scijava.event
Listener for event history changes.
eventOccurred(EventDetails) - Method in interface org.scijava.event.EventHistoryListener
 
EventService - Interface in org.scijava.event
Interface for the event handling service.
eventService - Variable in class org.scijava.options.OptionsPlugin
 
EventSubscriber<E extends SciJavaEvent> - Interface in org.scijava.event
Interface for subscribers that wish to be notified of SciJava events.
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.
execute(Object, Object...) - Method in class org.scijava.module.MethodRef
 

F

FIELD_STYLE - Static variable in interface org.scijava.widget.TextWidget
Widget style for text fields.
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
 
FileDragAndDropHandler - Class in org.scijava.ui.dnd
Drag-and-drop handler for files.
FileDragAndDropHandler() - Constructor for class org.scijava.ui.dnd.FileDragAndDropHandler
 
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
 
FileUtils - Class in org.scijava.util
Useful methods for working with file paths.
FileWidget<U> - 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 class org.scijava.plugin.AbstractSingletonService
Allows subclasses to exclude instances.
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.
findScripts(List<ScriptInfo>) - Method in class org.scijava.script.ScriptFinder
Discovers the scripts.
FIREBRICK - Static variable in class org.scijava.util.Colors
 
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
Priority for items that must be sorted first.
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.
FLORALWHITE - Static variable in class org.scijava.util.Colors
 
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
 
foundAnnotations() - Method in class org.scijava.annotations.AbstractIndexWriter
 
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.
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
Useful methods for working with Type objects, particularly generic types.
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(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() - Method in interface org.scijava.plugin.WrapperPlugin
Gets the data object currently associated with this plugin.
get(String) - Method in class org.scijava.prefs.DefaultPrefService
 
get(String, String) - Method in class org.scijava.prefs.DefaultPrefService
 
get(Class<?>, String) - Method in class org.scijava.prefs.DefaultPrefService
 
get(Class<?>, String, String) - Method in class org.scijava.prefs.DefaultPrefService
 
get(String) - Method in interface org.scijava.prefs.PrefService
 
get(String, String) - Method in interface org.scijava.prefs.PrefService
 
get(Class<?>, String) - Method in interface org.scijava.prefs.PrefService
 
get(Class<?>, String, String) - Method in interface org.scijava.prefs.PrefService
 
get(String) - Method in class org.scijava.script.AbstractScriptEngine
 
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(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
 
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() - Method in class org.scijava.app.DefaultAppService
 
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
 
getApplicationFrame() - Method in class org.scijava.ui.AbstractUserInterface
 
getApplicationFrame() - Method in interface org.scijava.ui.UserInterface
Gets the main ImageJ 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
Gets the array class corresponding to the given element type.
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
 
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 class org.scijava.app.AbstractApp
 
getBaseDirectory() - Method in interface org.scijava.app.App
Gets the application's root directory.
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
 
getBlue(int, int) - Method in class org.scijava.ui.ARGBPlane
 
getBlue() - Method in class org.scijava.util.ColorRGB
 
getBoolean(String, boolean) - Method in class org.scijava.prefs.DefaultPrefService
 
getBoolean(Class<?>, String, boolean) - Method in class org.scijava.prefs.DefaultPrefService
 
getBoolean(String, boolean) - Method in interface org.scijava.prefs.PrefService
 
getBoolean(Class<?>, String, boolean) - Method in interface org.scijava.prefs.PrefService
 
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
 
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(Class<?>) - Static method in class org.scijava.test.TestUtils
Returns the class of the caller (excluding the specified class).
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.
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.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.WidgetModel
Gets the multiple choice list for the module input.
getClass(Type) - Static method in class org.scijava.util.ConversionUtils
Deprecated. use GenericUtils.getClass(Type)
getClass(Type) - Static method in class org.scijava.util.GenericUtils
Gets the sole raw class corresponding to the given type, or null if none.
getClasses(Type) - Static method in class org.scijava.util.GenericUtils
Gets all raw classes corresponding to the given type.
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
 
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 class org.scijava.platform.DefaultPlatformService
 
getCommandService() - Method in interface org.scijava.platform.PlatformService
 
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
 
getCompatibleInputs(Class<?>) - Method in interface org.scijava.convert.ConvertService
 
getCompatibleInputs(Class<?>) - Method in class org.scijava.convert.DefaultConvertService
 
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 GenericUtils.getComponentClass(Type)
getComponentClass(Type) - Static method in class org.scijava.util.GenericUtils
Gets the sole component class of the given array type, or null if none.
getComponentType(Type) - Static method in class org.scijava.util.GenericUtils
Gets the component type of the given array type, or null if not an array.
getComponentType() - Method in interface org.scijava.widget.UIComponent
Gets the type of the UI component housing the object.
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.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 class org.scijava.tool.AbstractTool
 
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(Class<T>) - Method in class org.scijava.ui.dnd.AbstractDragAndDropData
 
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.
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
 
getDefaultUI() - Method in class org.scijava.ui.DefaultUIService
 
getDefaultUI() - Method in interface org.scijava.ui.UIService
Gets the default user interface.
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 class org.scijava.module.DefaultMutableModuleInfo
 
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 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.
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 class org.scijava.tool.AbstractTool
 
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
Gets the data descriptor (source or destination).
getDesktop() - Method in class org.scijava.ui.AbstractUserInterface
 
getDesktop() - Method in interface org.scijava.ui.UserInterface
Gets the desktop, for use with multi-document interfaces (MDI).
getDestination() - Method in class org.scijava.io.event.DataSavedEvent
Gets the destination to which data was saved.
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(String, double) - Method in class org.scijava.prefs.DefaultPrefService
 
getDouble(Class<?>, String, double) - Method in class org.scijava.prefs.DefaultPrefService
 
getDouble(String, double) - Method in interface org.scijava.prefs.PrefService
 
getDouble(Class<?>, String, double) - Method in interface org.scijava.prefs.PrefService
 
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.  
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.AbstractScriptLanguage
 
getEngineVersion() - Method in class org.scijava.script.AdaptedScriptLanguage
 
getErrorWriter() - Method in class org.scijava.script.AbstractScriptContext
 
getEventClass() - Method in interface org.scijava.event.EventSubscriber
 
getEventService() - Method in interface org.scijava.command.CommandService
 
getEventService() - Method in class org.scijava.command.DefaultCommandService
 
getEventService() - Method in class org.scijava.display.DefaultDisplayService
 
getEventService() - Method in interface org.scijava.display.DisplayService
 
getEventService() - Method in class org.scijava.input.DefaultInputService
 
getEventService() - Method in interface org.scijava.input.InputService
 
getEventService() - Method in class org.scijava.object.DefaultObjectService
 
getEventService() - Method in interface org.scijava.object.ObjectService
 
getEventService() - Method in class org.scijava.platform.DefaultPlatformService
 
getEventService() - Method in interface org.scijava.platform.PlatformService
 
getEventString() - Method in class org.scijava.event.EventDetails
 
getEventType() - Method in class org.scijava.event.EventDetails
 
getExceptions() - Method in class org.scijava.plugin.PluginIndex
Gets the exceptions which occurred during the last invocation of PluginIndex.discover().
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.AbstractScriptLanguage
 
getExtensions() - Method in class org.scijava.script.AdaptedScriptLanguage
 
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
 
getField() - Method in class org.scijava.command.CommandModuleItem
 
getField(String, String) - Static method in class org.scijava.util.ClassUtils
Gets the specified field of the given class, or null if it does not exist.
getField(Class<?>, String) - Static method in class org.scijava.util.ClassUtils
Gets the specified field of the given class, or null if it does not exist.
getFieldClasses(Field, Class<?>) - Static method in class org.scijava.util.GenericUtils
Returns the "safe" class(es) of the given field, as viewed from the specified type.
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
Returns the "safe" generic type of the given field, as viewed from the given type.
getFileExtensions(ScriptLanguage) - Method in class org.scijava.script.ScriptLanguageIndex
 
getFiles() - Method in class org.scijava.platform.event.AppOpenFilesEvent
 
getFloat(String, float) - Method in class org.scijava.prefs.DefaultPrefService
 
getFloat(Class<?>, String, float) - Method in class org.scijava.prefs.DefaultPrefService
 
getFloat(String, float) - Method in interface org.scijava.prefs.PrefService
 
getFloat(Class<?>, String, float) - Method in interface org.scijava.prefs.PrefService
 
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 GenericUtils.getFieldType(Field, Class)
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, Class<?>) - Method in interface org.scijava.convert.ConvertService
 
getHandler(Object, Type) - Method in interface org.scijava.convert.ConvertService
 
getHandler(Class<?>, Class<?>) - Method in interface org.scijava.convert.ConvertService
Deprecated. Use ConvertService.getHandler(Object, Class)
getHandler(Class<?>, Type) - Method in interface org.scijava.convert.ConvertService
Deprecated. Use ConvertService.getHandler(Object, Type)
getHandler(Object, Class<?>) - Method in class org.scijava.convert.DefaultConvertService
 
getHandler(Class<?>, Class<?>) - Method in class org.scijava.convert.DefaultConvertService
 
getHandler(Object, Type) - Method in class org.scijava.convert.DefaultConvertService
 
getHandler(Class<?>, Type) - Method in class org.scijava.convert.DefaultConvertService
 
getHandler(DT) - Method in class org.scijava.plugin.AbstractHandlerService
 
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 class org.scijava.ui.dnd.DefaultDragAndDropService
 
getHandler(Object, Display<?>) - Method in class org.scijava.ui.dnd.DefaultDragAndDropService
 
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(ScriptLanguage) - Method in class org.scijava.script.DefaultScriptHeaderService
 
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 class org.scijava.module.AbstractModuleInfo
 
getIdentifier() - Method in class org.scijava.plugin.PluginInfo
 
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 class org.scijava.app.AbstractApp
 
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.DefaultMutableModule
 
getInfo() - Method in interface org.scijava.module.Module
Gets metadata about this module.
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.AbstractModuleInfo
 
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 interface org.scijava.convert.Converter
 
getInputType() - Method in class org.scijava.convert.DefaultConverter
 
getInputType() - Method in class org.scijava.convert.NullConverter
 
getInstance(Class<P>) - Method in class org.scijava.plugin.AbstractSingletonService
 
getInstance(Class<P>) - 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(String, int) - Method in class org.scijava.prefs.DefaultPrefService
 
getInt(Class<?>, String, int) - Method in class org.scijava.prefs.DefaultPrefService
 
getInt(String, int) - Method in interface org.scijava.prefs.PrefService
 
getInt(Class<?>, String, int) - Method in interface org.scijava.prefs.PrefService
 
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.  
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.
getItem() - Method in class 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(String) - Method in class org.scijava.prefs.DefaultPrefService
 
getIterable(Class<?>, String) - Method in class org.scijava.prefs.DefaultPrefService
 
getIterable(String) - Method in interface org.scijava.prefs.PrefService
Gets an iterable from the preferences.
getIterable(Class<?>, String) - Method in interface org.scijava.prefs.PrefService
Gets an iterable from the preferences.
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 interface org.scijava.script.ScriptInterpreter
Returns the associated ScriptLanguage.
getLanguage() - Method in class org.scijava.script.ScriptModule
Gets the scripting language of the script.
getLanguageByExtension(String) - Method in class org.scijava.script.DefaultScriptService
 
getLanguageByExtension(String) - Method in interface org.scijava.script.ScriptService
Gets the scripting language that handles the given file extension.
getLanguageByName(String) - Method in class org.scijava.script.DefaultScriptService
 
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 class org.scijava.script.DefaultScriptService
 
getLanguages() - Method in interface org.scijava.script.ScriptService
Gets the available scripting languages, including wrapped ScriptEngineFactory instances available from the Java scripting framework itself.
getLanguageVersion() - Method in class org.scijava.script.AbstractScriptLanguage
 
getLanguageVersion() - Method in class org.scijava.script.AdaptedScriptLanguage
 
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 interface org.scijava.log.LogService
 
getList(String) - Method in class org.scijava.prefs.DefaultPrefService
 
getList(Class<?>, String) - Method in class org.scijava.prefs.DefaultPrefService
 
getList(String, String) - Method in class org.scijava.prefs.DefaultPrefService
 
getList(Class<?>) - Method in class org.scijava.prefs.DefaultPrefService
 
getList(String) - Method in interface org.scijava.prefs.PrefService
Gets a List from the preferences.
getList(String, String) - Method in interface org.scijava.prefs.PrefService
Gets a List from the preferences, indexed under the specified path.
getList(Class<?>, String) - Method in interface org.scijava.prefs.PrefService
Gets a List from the preferences, indexed under the specified class.
getList(Class<?>) - Method in interface org.scijava.prefs.PrefService
Gets a List from the preferences.
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 interface org.scijava.Locatable
Gets the URL string defining the object's location.
getLocation() - Method in class org.scijava.module.AbstractModuleInfo
 
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
Gets the base location of the given class.
getLocation(String, ClassLoader) - Static method in class org.scijava.util.ClassUtils
Gets the base location of the given class.
getLocation(Class<?>) - Static method in class org.scijava.util.ClassUtils
Gets the base location of the given class.
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(String, long) - Method in class org.scijava.prefs.DefaultPrefService
 
getLong(Class<?>, String, long) - Method in class org.scijava.prefs.DefaultPrefService
 
getLong(String, long) - Method in interface org.scijava.prefs.PrefService
 
getLong(Class<?>, String, long) - Method in interface org.scijava.prefs.PrefService
 
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.
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.
getManifestVersion() - Method in class org.scijava.util.Manifest
 
getMap(String) - Method in class org.scijava.prefs.DefaultPrefService
 
getMap(Class<?>, String) - Method in class org.scijava.prefs.DefaultPrefService
 
getMap(String, String) - Method in class org.scijava.prefs.DefaultPrefService
 
getMap(Class<?>) - Method in class org.scijava.prefs.DefaultPrefService
 
getMap(String) - Method in interface org.scijava.prefs.PrefService
Gets a Map from the preferences.
getMap(Class<?>, String) - Method in interface org.scijava.prefs.PrefService
Gets a map from the preferences, indexed under the specified class.
getMap(Class<?>) - Method in interface org.scijava.prefs.PrefService
Gets a Map from the preferences.
getMap(String, String) - Method in interface org.scijava.prefs.PrefService
 
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.
getMax() - Method in class org.scijava.widget.WidgetModel
Gets the maximum value for the module input.
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() - Method in class org.scijava.menu.DefaultMenuService
 
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.AbstractScriptLanguage
 
getMethodCallSyntax(String, String, String...) - Method in class org.scijava.script.AdaptedScriptLanguage
 
getMethodReturnClasses(Method, Class<?>) - Static method in class org.scijava.util.GenericUtils
As GenericUtils.getFieldClasses(Field, Class), but with respect to the return type of the given Method rather than a Field.
getMethodReturnType(Method, Class<?>) - Static method in class org.scijava.util.GenericUtils
As GenericUtils.getFieldType(Field, Class), but with respect to the return type of the given Method rather than a Field.
getMillis() - Method in class org.scijava.util.TunePlayer
Gets the current note length in milliseconds, by the current tempo.
getMIMEType(Class<?>) - Method in class org.scijava.ui.dnd.AbstractDragAndDropData
 
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.AbstractScriptLanguage
 
getMimeTypes() - Method in class org.scijava.script.AdaptedScriptLanguage
 
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.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
 
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.WidgetModel
Gets the module's associated module instance.
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
 
getModuleService() - Method in class org.scijava.command.DefaultCommandService
 
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 interface org.scijava.BasicDetails
Gets the unique name of the object.
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 interface org.scijava.display.Display
Gets the name of the display.
getName() - Method in class org.scijava.menu.ShadowMenu
Gets the name of the menu.
getName() - Method in class org.scijava.MenuEntry
 
getName() - Method in class org.scijava.module.DefaultMutableModuleItem
 
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.AbstractScriptLanguage
 
getNames() - Method in class org.scijava.script.AdaptedScriptLanguage
 
getNonprimitiveType(Class<T>) - Static method in class org.scijava.util.ClassUtils
Deprecated. use ConversionUtils.getNonprimitiveType(Class)
getNonprimitiveType(Class<T>) - Static method in class org.scijava.util.ConversionUtils
Returns the non-primitive Class closest to the given type.
getNoteLength() - Method in class org.scijava.util.TunePlayer
 
getNullValue(Class<T>) - Static method in class org.scijava.util.ClassUtils
Deprecated. use ConversionUtils.getNullValue(Class)
getNullValue(Class<T>) - Static method in class org.scijava.util.ConversionUtils
Gets the "null" value for the given type.
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.WidgetModel
Gets the available objects for use with the widget.
getObjects(Class<T>) - Method in class org.scijava.object.DefaultObjectService
 
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 class org.scijava.display.DefaultDisplayService
 
getObjectService() - Method in interface org.scijava.display.DisplayService
 
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 source.
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.
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(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.AbstractScriptLanguage
 
getOutputStatement(String) - Method in class org.scijava.script.AdaptedScriptLanguage
 
getOutputType() - Method in interface org.scijava.convert.Converter
 
getOutputType() - Method in class org.scijava.convert.DefaultConverter
 
getOutputType() - Method in class org.scijava.convert.NullConverter
 
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.WidgetModel
Gets the input panel intended to house the widget.
getParameter() - Method in class org.scijava.command.CommandModuleItem
 
getParameter(String) - Method in class org.scijava.script.AbstractScriptLanguage
 
getParameter(String) - Method in class org.scijava.script.AdaptedScriptLanguage
 
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.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.
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<P>) - Method in class org.scijava.plugin.DefaultPluginService
 
getPlugin(Class<P>, Class<PT>) - Method in class org.scijava.plugin.DefaultPluginService
 
getPlugin(String) - Method in class org.scijava.plugin.DefaultPluginService
 
getPlugin(Class<P>) - Method in interface org.scijava.plugin.PluginService
Gets the first available plugin of the given class, or null if none.
getPlugin(Class<P>, 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.AbstractPTService
 
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 class org.scijava.command.DefaultCommandService
 
getPluginService() - Method in class org.scijava.display.DefaultDisplayService
 
getPluginService() - Method in interface org.scijava.display.DisplayService
 
getPluginService() - Method in class org.scijava.plugin.AbstractPTService
 
getPluginService() - Method in interface org.scijava.plugin.PTService
Gets the service responsible for discovering and managing this service's plugins.
getPluginsOfClass(Class<P>) - Method in class org.scijava.plugin.DefaultPluginService
 
getPluginsOfClass(Class<P>, 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<P>) - Method in interface org.scijava.plugin.PluginService
Gets the list of plugins of the given class.
getPluginsOfClass(Class<P>, 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 class org.scijava.app.DefaultAppService
 
getPluginType() - Method in class org.scijava.command.DefaultCommandService
 
getPluginType() - Method in class org.scijava.console.DefaultConsoleService
 
getPluginType() - Method in class org.scijava.convert.DefaultConvertService
 
getPluginType() - Method in class org.scijava.io.DefaultIOService
 
getPluginType() - Method in class org.scijava.options.DefaultOptionsService
 
getPluginType() - Method in class org.scijava.platform.DefaultPlatformService
 
getPluginType(Class<P>) - 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 class org.scijava.script.DefaultScriptHeaderService
 
getPluginType() - Method in class org.scijava.script.DefaultScriptService
 
getPluginType() - Method in class org.scijava.text.DefaultTextService
 
getPluginType() - Method in class org.scijava.tool.DefaultToolService
 
getPluginType() - Method in class org.scijava.ui.dnd.DefaultDragAndDropService
 
getPluginType() - Method in class org.scijava.widget.DefaultWidgetService
 
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<?>, 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
 
getPresets() - Method in class org.scijava.command.CommandInfo
Gets the table of items with fixed, preset values.
getPriority() - Method in class org.scijava.AbstractUIDetails
 
getPriority() - Method in class org.scijava.command.DynamicCommandInfo
 
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.AbstractModuleInfo
 
getProblems() - Method in class org.scijava.module.MethodRef
 
getProblems() - Method in interface org.scijava.Validated
Gets the list of problems encountered while initializing the object.
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.AbstractScriptLanguage
 
getProgram(String...) - Method in class org.scijava.script.AdaptedScriptLanguage
 
getProgressMaximum() - Method in class org.scijava.app.event.StatusEvent
Gets progress maximum.
getProgressValue() - Method in class org.scijava.app.event.StatusEvent
Gets progress value.
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.
getReader() - Method in class org.scijava.script.AbstractScriptContext
 
getReader() - Method in class org.scijava.script.ScriptInfo
Gets the reader which delivers the script's content.
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
 
getResult() - Method in interface org.scijava.script.CodeGenerator
 
getResult() - Method in class org.scijava.script.CodeGeneratorJava
 
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 destination.
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 ScriptInfo metadata for the script at the given file, or null if none.
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
 
getSingleInput(Module, Class<T>) - 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.
getSingleOutput(Module, Class<T>) - 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.
getSoftMax() - Method in class 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.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.io.event.DataOpenedEvent
Gets the source from which data was opened.
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() - 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.
getStatusBar() - Method in class org.scijava.ui.AbstractUserInterface
 
getStatusBar() - Method in interface org.scijava.ui.UserInterface
Gets the main ImageJ 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(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.WidgetModel
Gets the step size between values for the module input.
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).
getSystemClipboard() - Method in interface org.scijava.ui.UserInterface
Gets the system clipboard associated with this UI.
getSystemProperty() - Method in class org.scijava.app.AbstractApp
 
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.
getTempo() - Method in class org.scijava.util.TunePlayer
 
getText() - Method in class org.scijava.widget.WidgetModel
Gets the input's value rendered as a string.
getTimestamp() - Method in class org.scijava.event.EventDetails
 
getTitle() - Method in class org.scijava.AbstractGateway
 
getTitle() - Method in class org.scijava.AbstractUIDetails
 
getTitle() - Method in class org.scijava.app.AbstractApp
 
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 class org.scijava.module.AbstractModuleInfo
 
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(Class<T>) - 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 class org.scijava.ui.AbstractUserInterface
 
getToolBar() - Method in interface org.scijava.ui.UserInterface
Gets the main ImageJ 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 class org.scijava.console.AbstractConsoleArgument
 
getType() - Method in class org.scijava.console.DefaultConsoleService
 
getType() - Method in class org.scijava.convert.AbstractConverter
 
getType() - Method in class org.scijava.convert.DefaultConvertService
 
getType() - Method in class org.scijava.io.AbstractIOPlugin
 
getType() - Method in class org.scijava.io.DefaultIOService
 
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 class org.scijava.script.AbstractScriptHeader
 
getType() - Method in class org.scijava.script.DefaultScriptHeaderService
 
getType() - Method in class org.scijava.text.AbstractTextFormat
 
getType() - Method in class org.scijava.text.DefaultTextService
 
getType() - Method in interface org.scijava.Typed
Gets the type associated with the object.
getType() - Method in class org.scijava.ui.dnd.DefaultDragAndDropService
 
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 class org.scijava.widget.AbstractInputWidget
 
getType() - Method in class org.scijava.widget.DefaultWidgetService
 
getTypeParameter(Type, Class<?>, int) - Static method in class org.scijava.util.GenericUtils
Gets the given type's nth type parameter of the specified class.
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 GenericUtils.getFieldClasses(Field, Class)
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).
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(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 class 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 class org.scijava.app.AbstractApp
 
getVersion() - Method in interface org.scijava.app.App
Gets the version of the application.
getVersion() - Method in interface org.scijava.Gateway
 
getVersion() - Method in class org.scijava.module.AbstractModuleInfo
 
getVersion() - Method in class org.scijava.plugin.PluginInfo
 
getVersion() - Method in class org.scijava.script.ScriptInfo
 
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.
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
 
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.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
 
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.io.console.OpenArgument
 
handle(Exception) - Method in class org.scijava.log.DefaultUncaughtExceptionHandler
 
handle(LinkedList<String>) - Method in class org.scijava.ui.console.UIArgument
 
handledType() - Method in class org.scijava.script.AbstractScriptHeader
 
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.
harvest(Module) - Method in class org.scijava.widget.AbstractInputHarvester
 
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
Checks whether a class with the given name exists.
hasClass(String, ClassLoader) - Static method in class org.scijava.util.ClassUtils
Checks whether a class with the given name exists.
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.input.Accelerator
 
hashCode() - Method in class org.scijava.input.InputModifiers
 
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
 
hasMoreElements() - Method in class org.scijava.util.IteratorPlus
 
hasNext() - Method in class org.scijava.menu.ShadowMenuIterator
 
hasNext() - Method in class org.scijava.util.IteratorPlus
 
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.
height - Variable in class org.scijava.util.IntRect
 
height - Variable in class org.scijava.util.RealRect
 
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_PRIORITY - Static variable in class org.scijava.Priority
Priority for items that prefer to be sorted earlier.
hoard - Variable in class org.scijava.object.ObjectIndex
"Them as counts counts moren them as dont count."
—Russell Hoban, Riddley Walker
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
 
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.
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
 
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) - 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 class org.scijava.log.AbstractLogService
 
info(Throwable) - Method in class org.scijava.log.AbstractLogService
 
info(Object, Throwable) - Method in class org.scijava.log.AbstractLogService
 
INFO - Static variable in interface org.scijava.log.LogService
 
info(Object) - Method in interface org.scijava.log.LogService
 
info(Throwable) - Method in interface org.scijava.log.LogService
 
info(Object, Throwable) - Method in interface org.scijava.log.LogService
 
initialize() - Method in class org.scijava.command.CommandModule
 
initialize() - Method in class org.scijava.command.DefaultCommandService
 
initialize() - Method in class org.scijava.convert.AbstractConvertService
 
initialize() - Method in class org.scijava.event.DefaultEventService
 
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.AbstractSingletonService
 
initialize() - Method in class org.scijava.plugin.AbstractWrapperService
 
initialize() - Method in class org.scijava.plugin.DefaultPluginService
 
initialize() - Method in class org.scijava.prefs.AbstractPrefService
 
initialize() - Method in class org.scijava.script.DefaultScriptService
 
initialize() - Method in class org.scijava.service.AbstractService
 
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
 
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. Present the panel, if in a UI context. Harvest the final widget values from the panel, updating the Module's input values to match the harvested values. Perform any other needed processing of the results (marking inputs as resolved, storing persisted values to preferences, etc.).
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() - 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.
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
 
Interactive - Interface in org.scijava.command
An operation (usually a Command) which is intended to be run interactively.
InteractiveCommand - Class in org.scijava.command
An ImageJ command intended to be run interactively.
InteractiveCommand(String...) - Constructor for class org.scijava.command.InteractiveCommand
Creates a new interactive command.
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
Holds a module or plugin reference that was invoked in a macro recording, and the parameters that were passed to it.
InvocationObject(String) - Constructor for class org.scijava.script.InvocationObject
 
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
 
invokeStatementBegin() - Method in class org.scijava.script.CodeGeneratorJava
 
invokeStatementEnd() - Method in interface org.scijava.script.CodeGenerator
 
invokeStatementEnd() - Method in class org.scijava.script.CodeGeneratorJava
 
io() - Method in class org.scijava.AbstractGateway
 
io() - Method in interface org.scijava.Gateway
 
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
 
IOPlugin<D> - Interface in org.scijava.io
A plugin which extends an application's I/O capabilities.
IOService - Interface in org.scijava.io
Interface for data I/O operations: 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
 
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 class org.scijava.tool.AbstractTool
 
isActiveInAppFrame() - Method in interface org.scijava.tool.Tool
When true, tool receives events when the main ImageJ 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 class org.scijava.tool.AbstractTool
 
isAlwaysActive() - Method in interface org.scijava.tool.Tool
When true, tool has no button but rather is active all the time.
isAutoFill() - Method in class org.scijava.command.CommandModuleItem
 
isAutoFill() - Method in class org.scijava.module.AbstractModuleItem
 
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
 
isBoolean(Class<?>) - Static method in class org.scijava.util.ClassUtils
 
isBoolean() - Method in class 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
 
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.ui.AbstractInputHarvesterPlugin
 
isCharacter(Class<?>) - Static method in class org.scijava.util.ClassUtils
 
isCharacter() - Method in class 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 interface org.scijava.ui.viewer.DisplayViewer
Returns true if this display viewer can be used with the given UI.
isCompiledLanguage() - Method in class org.scijava.script.AbstractScriptLanguage
 
isCompiledLanguage() - Method in interface org.scijava.script.ScriptLanguage
True iff this language requires a compilation step.
isConsumed() - Method in class org.scijava.event.SciJavaEvent
 
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 class org.scijava.log.AbstractLogService
 
isDebug() - Method in interface org.scijava.log.LogService
 
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.
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(java.lang.Runnable) and ThreadService.queue(java.lang.Runnable).
isDisplaying(Object) - Method in class org.scijava.display.AbstractDisplay
 
isDisplaying(Object) - Method in interface org.scijava.display.Display
Tests whether the display is currently visualizing the given object.
isDouble(Class<?>) - Static method in class org.scijava.util.ClassUtils
 
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 class org.scijava.log.AbstractLogService
 
isError() - Method in interface org.scijava.log.LogService
 
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.
isFloat(Class<?>) - Static method in class org.scijava.util.ClassUtils
 
isForeground() - Method in class org.scijava.platform.event.AppFocusEvent
 
isHidden() - Method in class org.scijava.platform.event.AppVisibleEvent
 
isInfo() - Method in class org.scijava.log.AbstractLogService
 
isInfo() - Method in interface org.scijava.log.LogService
 
isInitialized() - Method in class org.scijava.widget.WidgetModel
Gets the widget's initialization state.
isInput() - Method in class org.scijava.module.AbstractModuleItem
 
isInput() - Method in interface org.scijava.module.ModuleItem
Gets whether the item is a module input.
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.
isInteger(Class<?>) - Static method in class org.scijava.util.ClassUtils
 
isInteractive() - Method in class org.scijava.command.CommandInfo
 
isInteractive() - Method in class org.scijava.command.DynamicCommandInfo
 
isInteractive() - Method in class org.scijava.module.AbstractModuleInfo
 
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 class org.scijava.widget.AbstractInputWidget
 
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
 
isLinux() - Static method in class org.scijava.util.PlatformUtils
Whether the operating system is Linux-based.
isLong(Class<?>) - Static method in class org.scijava.util.ClassUtils
 
isMac() - Static method in class org.scijava.util.PlatformUtils
Whether the operating system is Mac-based.
isMessage() - Method in class org.scijava.widget.AbstractInputWidget
 
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 class 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.WidgetModel
Gets whether the input provides a restricted set of choices.
isNumber(Class<?>) - Static method in class org.scijava.util.ClassUtils
 
isNumber() - Method in class 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.
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.
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 class org.scijava.module.AbstractModule
 
isResolved(String) - Method in interface org.scijava.module.Module
Gets the resolution status of the input with the given name.
isRightButtonDown() - Method in class org.scijava.input.InputModifiers
 
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 class org.scijava.tool.DefaultToolService
 
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
 
isSleeping() - Method in class org.scijava.platform.event.AppSleepEvent
 
isStyle(String) - Method in class org.scijava.widget.WidgetModel
Gets whether the widget is the given style.
isSuccessful() - Method in class org.scijava.ui.dnd.event.DropEvent
Gets whether the drop operation was successful.
isSupported(Class<?>) - Method in class org.scijava.ui.dnd.AbstractDragAndDropData
 
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 class org.scijava.platform.AbstractPlatform
 
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
 
isText() - Method in class 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 class org.scijava.log.AbstractLogService
 
isTrace() - Method in interface org.scijava.log.LogService
 
isType(Class<?>) - Method in class 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.AbstractModuleInfo
 
isValid() - Method in class org.scijava.module.MethodRef
 
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 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 class org.scijava.log.AbstractLogService
 
isWarn() - Method in interface org.scijava.log.LogService
 
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.
ItemIO - Enum in org.scijava
Defines the input/output type of a module.
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 class org.scijava.platform.AbstractPlatform
 
javaVendor() - Method in interface org.scijava.platform.Platform
Java Runtime Environment vendor to match.
javaVersion() - Method in class org.scijava.platform.AbstractPlatform
 
javaVersion() - Method in interface org.scijava.platform.Platform
Minimum required Java Runtime Environment version.

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

LAST_PRIORITY - Static variable in class org.scijava.Priority
Priority for items that must be sorted last.
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
 
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
 
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
 
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.
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
Loads the class with the given name, using the current thread's context class loader, or null if it cannot be loaded.
loadClass(String, ClassLoader) - Static method in class org.scijava.util.ClassUtils
Loads the class with the given name, using the specified ClassLoader, or null if it cannot be loaded.
loadDelegateClass() - Method in class org.scijava.command.CommandInfo
 
loadDelegateClass() - Method in class org.scijava.module.DefaultMutableModuleInfo
 
loadDelegateClass() - Method in interface org.scijava.module.ModuleInfo
Loads the class containing the module's actual implementation.
loadDelegateClass() - Method in class org.scijava.script.ScriptInfo
 
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.
log() - Method in class org.scijava.AbstractGateway
 
log() - Method in class org.scijava.command.InteractiveCommand
 
log() - Method in interface org.scijava.Gateway
 
log(String) - Method in class org.scijava.log.AbstractLogService
Displays a message.
log(Throwable) - Method in class org.scijava.log.AbstractLogService
Displays an exception.
log(int, Object, Throwable) - Method in class org.scijava.log.AbstractLogService
 
log(int, Object) - Method in class org.scijava.log.AbstractLogService
 
log(String) - Method in class org.scijava.log.StderrLogService
Prints a message to stderr.
log(Throwable) - Method in class org.scijava.log.StderrLogService
Prints an exception to stderr.
log() - Method in class org.scijava.script.AbstractScriptEngine
 
LOG_LEVEL_PROPERTY - Static variable in interface org.scijava.log.LogService
System property to set for overriding the default logging level.
LogService - Interface in org.scijava.log
Interface for the logging service.
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.
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
LOW_PRIORITY - Static variable in class org.scijava.Priority
Priority for items that prefer to be sorted later.

M

MAGENTA - Static variable in class org.scijava.util.Colors
 
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(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
 
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.
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
 
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
 
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 ImageJ 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.
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
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.
MessageWidget<U> - 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
 
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
 
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
 
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
 
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
 
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
 
ModuleCommand - Class in org.scijava.command
An ImageJ command which implements Module directly (rather than using the CommandModule adapter class).
ModuleCommand() - Constructor for class org.scijava.command.ModuleCommand
 
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 - 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
 
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
 
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
 
NAVAJOWHITE - Static variable in class org.scijava.util.Colors
 
NAVY - Static variable in class org.scijava.util.Colors
 
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
 
NONE - Static variable in interface org.scijava.log.LogService
 
NORMAL_PRIORITY - Static variable in class org.scijava.Priority
Default priority for items.
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
 
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
 
NumberUtils - Class in org.scijava.util
Useful methods for working with Number objects.
NumberWidget<U> - 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
 
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 - Interface in org.scijava.object
Interface for object management service.
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<U> - Interface in org.scijava.widget
Widget interface for object selectors.
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 class org.scijava.ui.viewer.AbstractDisplayViewer
 
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 class org.scijava.ui.viewer.AbstractDisplayViewer
 
onDisplayDeletedEvent(DisplayDeletedEvent) - Method in interface org.scijava.ui.viewer.DisplayViewer
Removes the user interface when the display is deleted.
onDisplayUpdatedEvent(DisplayUpdatedEvent) - Method in class org.scijava.ui.viewer.AbstractDisplayViewer
 
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(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(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.
onKeyDown(KyPressedEvent) - Method in class org.scijava.tool.AbstractTool
 
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 class org.scijava.tool.AbstractTool
 
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 class org.scijava.tool.AbstractTool
 
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 class org.scijava.tool.AbstractTool
 
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 class org.scijava.tool.AbstractTool
 
onMouseDrag(MsDraggedEvent) - Method in interface org.scijava.tool.Tool
Occurs when the mouse is dragged while the tool is active.
onMouseMove(MsMovedEvent) - Method in class org.scijava.tool.AbstractTool
 
onMouseMove(MsMovedEvent) - Method in interface org.scijava.tool.Tool
Occurs when the mouse is moved while the tool is active.
onMouseUp(MsReleasedEvent) - Method in class org.scijava.tool.AbstractTool
 
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 class org.scijava.tool.AbstractTool
 
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.DefaultIOService
 
open(String) - Method in interface org.scijava.io.IOPlugin
Opens data from the given source.
open(String) - Method in interface org.scijava.io.IOService
Loads data from the given source.
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(String) - Method in class org.scijava.script.io.ScriptIOPlugin
 
open(File) - Method in class org.scijava.text.DefaultTextService
 
open(String) - 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
 
OptionsEvent - Class in org.scijava.options.event
Fired when an modern ImageJ plugin 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.command - package org.scijava.command
 
org.scijava.command.console - package org.scijava.command.console
 
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.event - package org.scijava.event
 
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.log - package org.scijava.log
 
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.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.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.script - package org.scijava.script
 
org.scijava.script.io - package org.scijava.script.io
 
org.scijava.service - package org.scijava.service
 
org.scijava.service.event - package org.scijava.service.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.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 class org.scijava.platform.AbstractPlatform
 
osArch() - Method in interface org.scijava.platform.Platform
Operating system architecture to match.
osName() - Method in class org.scijava.platform.AbstractPlatform
 
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 class org.scijava.platform.AbstractPlatform
 
osVersion() - Method in interface org.scijava.platform.Platform
Minimum required operating system version.
out - Variable in class org.scijava.util.ReadInto
 
outputList() - Method in class org.scijava.module.AbstractModuleInfo
Gets AbstractModuleInfo.outputList, initializing if needed.
outputMap() - Method in class org.scijava.module.AbstractModuleInfo
Gets AbstractModuleInfo.inputList, initializing if needed.
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
 
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
 
Parameter - Annotation Type in org.scijava.plugin
An annotation for indicating a field is an input or output parameter.
ParameterObject - Class in org.scijava.script
Holds a parameter, its type and value, for a recorded macro.
ParameterObject(String, Class<?>, Object) - Constructor for class org.scijava.script.ParameterObject
 
parameterObjects - Variable in class org.scijava.script.InvocationObject
 
parseParameters() - Method in class org.scijava.module.AbstractModuleInfo
Parses input and output parameters.
parseParameters() - Method in class org.scijava.script.ScriptInfo
Parses the script's input and output parameters from the script header.
PASSWORD_STYLE - Static variable in interface org.scijava.widget.TextWidget
Widget style for password fields.
PATH_SEPARATOR - Static variable in class org.scijava.MenuPath
The separator between elements of a menu path string.
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
 
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
 
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 - Interface in org.scijava.plugin
Interface for service that keeps track of available 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
 
prefs() - Method in class org.scijava.AbstractGateway
 
prefs() - Method in class org.scijava.app.AbstractApp
 
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.
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 - 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.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 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(Module) - Method in class org.scijava.ui.AbstractInputHarvesterPlugin
 
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 to ImageJ coming 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 class org.scijava.widget.AbstractInputHarvester
 
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 interface org.scijava.ui.DialogPrompt
 
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.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(String, String) - Method in class org.scijava.prefs.DefaultPrefService
 
put(String, boolean) - Method in class org.scijava.prefs.DefaultPrefService
 
put(String, double) - Method in class org.scijava.prefs.DefaultPrefService
 
put(String, float) - Method in class org.scijava.prefs.DefaultPrefService
 
put(String, int) - Method in class org.scijava.prefs.DefaultPrefService
 
put(String, long) - Method in class org.scijava.prefs.DefaultPrefService
 
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(String, String) - Method in interface org.scijava.prefs.PrefService
 
put(String, boolean) - Method in interface org.scijava.prefs.PrefService
 
put(String, double) - Method in interface org.scijava.prefs.PrefService
 
put(String, float) - Method in interface org.scijava.prefs.PrefService
 
put(String, int) - Method in interface org.scijava.prefs.PrefService
 
put(String, long) - Method in interface org.scijava.prefs.PrefService
 
put(Class<?>, String, String) - Method in interface org.scijava.prefs.PrefService
 
put(Class<?>, String, boolean) - Method in interface org.scijava.prefs.PrefService
 
put(Class<?>, String, double) - Method in interface org.scijava.prefs.PrefService
 
put(Class<?>, String, float) - Method in interface org.scijava.prefs.PrefService
 
put(Class<?>, String, int) - Method in interface org.scijava.prefs.PrefService
 
put(Class<?>, String, long) - Method in interface org.scijava.prefs.PrefService
 
put(String, Object) - Method in class org.scijava.script.AbstractScriptEngine
 
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.  
putIterable(Iterable<String>, String) - Method in class org.scijava.prefs.DefaultPrefService
 
putIterable(Class<?>, Iterable<String>, String) - Method in class org.scijava.prefs.DefaultPrefService
 
putIterable(Iterable<String>, String) - Method in interface org.scijava.prefs.PrefService
Puts an iterable into the preferences.
putIterable(Class<?>, Iterable<String>, String) - Method in interface org.scijava.prefs.PrefService
Puts an iterable into the preferences.
putList(List<String>, String) - Method in class org.scijava.prefs.DefaultPrefService
 
putList(Class<?>, List<String>, String) - Method in class org.scijava.prefs.DefaultPrefService
 
putList(String, List<String>, String) - Method in class org.scijava.prefs.DefaultPrefService
 
putList(Class<?>, List<String>) - Method in class org.scijava.prefs.DefaultPrefService
 
putList(String, List<String>) - Method in class org.scijava.prefs.DefaultPrefService
 
putList(List<String>, String) - Method in interface org.scijava.prefs.PrefService
Puts a list into the preferences.
putList(Class<?>, List<String>, String) - Method in interface org.scijava.prefs.PrefService
Puts a list into the preferences, indexed under the specified class.
putList(String, List<String>, String) - Method in interface org.scijava.prefs.PrefService
Puts a list into the preferences, indexed under the specified path and relative key.
putList(Class<?>, List<String>) - Method in interface org.scijava.prefs.PrefService
Puts a list into the preferences.
putList(String, List<String>) - Method in interface org.scijava.prefs.PrefService
Puts a list into the preferences, indexed under the specified path.
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(Map<String, String>, String) - Method in class org.scijava.prefs.DefaultPrefService
 
putMap(Class<?>, Map<String, String>, String) - Method in class org.scijava.prefs.DefaultPrefService
 
putMap(String, Map<String, String>, String) - Method in class org.scijava.prefs.DefaultPrefService
 
putMap(Class<?>, Map<String, String>) - Method in class org.scijava.prefs.DefaultPrefService
 
putMap(String, Map<String, String>) - Method in class org.scijava.prefs.DefaultPrefService
 
putMap(Map<String, String>, String) - Method in interface org.scijava.prefs.PrefService
Puts a Map into the preferences.
putMap(Class<?>, Map<String, String>, String) - Method in interface org.scijava.prefs.PrefService
Puts a Map into the preferences, indexed under the specified class.
putMap(String, Map<String, String>) - Method in interface org.scijava.prefs.PrefService
Puts a Map into the preferences, indexed under the given path.
putMap(Class<?>, Map<String, String>) - Method in interface org.scijava.prefs.PrefService
Puts a Map into the preferences, indexed under the given class.
putMap(String, Map<String, String>, String) - Method in interface org.scijava.prefs.PrefService
Puts a Map into the preferences, indexed under the given path and relative key path.
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

queue(Runnable) - 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.
quit() - Method in class org.scijava.app.AbstractApp
 
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.
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.
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.
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.
readObject() - Method in class org.scijava.annotations.legacy.LegacyReader
 
readState(DataInputStream) - Method in class org.scijava.util.MersenneTwisterFast
Reads the entire state of the MersenneTwister RNG from the stream
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
 
RecentFileService - Interface in org.scijava.io
Interface for services that manage the Recently Used Files menu.
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.
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.AbstractPlatform
 
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 class org.scijava.service.AbstractService
 
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.
registerOutput(ModuleItem<?>) - Method in class org.scijava.module.AbstractModuleInfo
Adds an output.
reloadPlugins() - Method in class org.scijava.plugin.DefaultPluginService
 
reloadPlugins() - Method in interface org.scijava.plugin.PluginService
Rediscovers all plugins available on the classpath.
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
 
remove(Class<?>, String) - Method in interface org.scijava.prefs.PrefService
Removes the node.
remove(String, String) - Method in interface org.scijava.prefs.PrefService
 
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.DefaultMutableModule
 
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.
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 class org.scijava.object.DefaultObjectService
 
removeObject(Object) - Method in interface org.scijava.object.ObjectService
Deregisters an object with the object service.
removeOutput(ModuleItem<?>) - Method in class org.scijava.module.DefaultMutableModule
 
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.
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
 
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(RealCoords, RealCoords) - 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(RealCoords) - 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(RealCoords, RealCoords) - 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 interface org.scijava.ui.UserInterface
Returns true if this UI requires the EDT.
reset() - Method in class org.scijava.options.DefaultOptionsService
 
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.util.Timing
 
restoreLocation() - Method in class org.scijava.ui.AbstractUserInterface
 
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
 
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() - Method in class org.scijava.command.UnimplementedCommand
 
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.DefaultMutableModule
 
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 class org.scijava.options.OptionsPlugin
 
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(String, String, boolean, Object...) - Method in class org.scijava.script.DefaultScriptService
 
run(String, String, boolean, Map<String, Object>) - Method in class org.scijava.script.DefaultScriptService
 
run(String, Reader, boolean, Object...) - Method in class org.scijava.script.DefaultScriptService
 
run(String, Reader, 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() - 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(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
Handles the --run command line argument.
RunArgument() - Constructor for class org.scijava.command.console.RunArgument
 

S

SADDLEBROWN - Static variable in class org.scijava.util.Colors
 
SALMON - Static variable in class org.scijava.util.Colors
 
SANDYBROWN - Static variable in class org.scijava.util.Colors
 
save(D, String) - Method in class org.scijava.io.AbstractIOPlugin
 
save(Object, String) - 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(Object, String) - Method in interface org.scijava.io.IOService
Saves data to the given destination.
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.
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 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
 
scriptContext - Variable in class org.scijava.script.AbstractScriptEngine
 
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(ScriptService) - Constructor for class org.scijava.script.ScriptFinder
 
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, 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
 
SCRIPTS_PATH_PROPERTY - Static variable in interface org.scijava.script.ScriptService
System property for overriding the list of directories to scan for scripts.
ScriptService - Interface in org.scijava.script
Interface for service that works with scripting languages.
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
 
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(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
 
setBindings(Bindings, int) - Method in class org.scijava.script.AbstractScriptContext
 
setBindings(Bindings, int) - Method in class org.scijava.script.AbstractScriptEngine
 
setBlue(int, int, int) - Method in class org.scijava.ui.ARGBPlane
 
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.
setChoices(List<? extends T>) - Method in class org.scijava.module.DefaultMutableModuleItem
 
setChoices(List<? extends T>) - Method in interface org.scijava.module.MutableModuleItem
 
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.AbstractContextual
 
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(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
 
setDefaultUI(UserInterface) - Method in class org.scijava.ui.DefaultUIService
 
setDefaultUI(UserInterface) - Method in interface org.scijava.ui.UIService
Sets the default user interface.
setDelegateService(ConvertService, double) - Static method in class org.scijava.util.ConversionUtils
Sets the ConvertService to use for handling conversion requests.
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.
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.
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
 
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.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
 
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.ScriptModule
Overrides the script language to use when executing the script.
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
 
setLocation(int, int) - Method in interface org.scijava.ui.ApplicationFrame
Sets the coordinates of the application frame's top left corner.
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
 
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 interface org.scijava.BasicDetails
Sets the unique name of the object.
setName(String) - Method in class org.scijava.command.DynamicCommandInfo
 
setName(String) - Method in class org.scijava.display.AbstractDisplay
 
setName(String) - Method in interface org.scijava.display.Display
Sets the name of the display.
setName(String) - Method in class org.scijava.MenuEntry
 
setName(String) - Method in class org.scijava.module.DefaultMutableModuleItem
 
setNoteLength(int) - Method in class org.scijava.util.TunePlayer
 
setOctave(int) - Method in class org.scijava.util.TunePlayer
 
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.
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.
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
 
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 class org.scijava.module.AbstractModule
 
setResolved(String, boolean) - Method in interface org.scijava.module.Module
Sets the resolution status of the input with the given name.
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(String) - Method in interface org.scijava.ui.StatusBar
 
setStepSize(Number) - Method in class org.scijava.module.DefaultMutableModuleItem
 
setStepSize(Number) - Method in interface org.scijava.module.MutableModuleItem
 
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
 
setTitle(String) - Method in interface org.scijava.ui.viewer.DisplayWindow
 
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.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
 
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.
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.
show() - Method in class org.scijava.ui.AbstractUserInterface
 
show(Object) - 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(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(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 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.
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.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
 
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
 
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
 
sourceClass() - Method in class org.scijava.convert.ConversionRequest
 
sourceObject() - Method in class org.scijava.convert.ConversionRequest
 
SPINNER_STYLE - Static variable in interface org.scijava.widget.NumberWidget
Widget style for spinner only.
SPRINGGREEN - Static variable in class org.scijava.util.Colors
 
start(boolean) - Static method in class org.scijava.util.Timing
 
stateEquals(Object) - Method in class org.scijava.util.MersenneTwisterFast
 
statementTerminate() - Method in interface org.scijava.script.CodeGenerator
 
statementTerminate() - Method in class org.scijava.script.CodeGeneratorJava
 
status() - Method in class org.scijava.AbstractGateway
 
status() - Method in interface org.scijava.Gateway
 
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
 
STRICT_PROPERTY - Static variable in class org.scijava.Context
System property indicating whether the context should fail fast when is attempts 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.
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
 
stripFilenameVersion(String) - Static method in class org.scijava.util.FileUtils
 
subList(int, int) - Method in class org.scijava.display.AbstractDisplay
 
subscribe(Object) - 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.
supports(LinkedList<String>) - Method in class org.scijava.command.console.RunArgument
 
supports(ConversionRequest) - Method in class org.scijava.convert.AbstractConverter
 
supports(Object, Class<?>) - Method in interface org.scijava.convert.ConvertService
 
supports(Object, Type) - Method in interface org.scijava.convert.ConvertService
 
supports(Class<?>, Class<?>) - Method in interface org.scijava.convert.ConvertService
Deprecated. Use ConvertService.supports(Object, Class)
supports(Class<?>, Type) - Method in interface org.scijava.convert.ConvertService
Deprecated. Use ConvertService.supports(Object, Type)
supports(Object, Class<?>) - Method in class org.scijava.convert.DefaultConvertService
 
supports(Class<?>, Class<?>) - Method in class org.scijava.convert.DefaultConvertService
 
supports(Object, Type) - Method in class org.scijava.convert.DefaultConvertService
 
supports(Class<?>, Type) - Method in class org.scijava.convert.DefaultConvertService
 
supports(String) - Method in class org.scijava.io.AbstractIOPlugin
 
supports(LinkedList<String>) - Method in class org.scijava.io.console.OpenArgument
 
supports(DT) - Method in class org.scijava.plugin.AbstractHandlerService
 
supports(D) - Method in class org.scijava.plugin.AbstractTypedPlugin
 
supports(DT) - Method in class org.scijava.plugin.AbstractWrapperService
 
supports(DT) - Method in interface org.scijava.plugin.HandlerService
Gets whether the given data object is supported.
supports(ScriptLanguage) - Method in class org.scijava.script.AbstractScriptHeader
 
supports(File) - Method in class org.scijava.text.AbstractTextFormat
 
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.UIArgument
 
supports(D, Display<?>) - Method in class org.scijava.ui.dnd.AbstractDragAndDropHandler
 
supports(DragAndDropData, Display<?>) - Method in class org.scijava.ui.dnd.DefaultDragAndDropService
 
supports(Object, Display<?>) - Method in class org.scijava.ui.dnd.DefaultDragAndDropService
 
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(InputWidget<?, ?>) - Method in class org.scijava.widget.AbstractInputPanel
 
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(String) - Method in class org.scijava.script.io.ScriptIOPlugin
 
supportsOpen(String) - Method in class org.scijava.text.io.TextIOPlugin
 
supportsSave(String) - Method in class org.scijava.io.AbstractIOPlugin
 
supportsSave(Object, 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(Object, String) - Method in interface org.scijava.io.IOPlugin
Checks whether the I/O plugin can save the given data to the specified destination.
SystemClipboard - Interface in org.scijava.ui
UI agnostic representation of the system clipboard.

T

TAN - Static variable in class org.scijava.util.Colors
 
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
 
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
 
TextService - Interface in org.scijava.text
Interface for service that works with text formats.
TextWidget<U> - 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
 
THREAD_COUNT - Static variable in class org.scijava.util.MirrorWebsite
 
ThreadService - Interface in org.scijava.thread
Interface for the thread handling service.
tick(Timing) - Static method in class org.scijava.util.Timing
 
tick(Timing, Object) - Static method in class org.scijava.util.Timing
 
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
 
toCollection(Object) - Static method in class org.scijava.util.ArrayUtils
Converts the provided Object to a Collection implementation.
ToggleWidget<U> - 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.
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
 
Tool - Interface in org.scijava.tool
Interface for ImageJ 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.
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.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.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.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.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 class org.scijava.log.AbstractLogService
 
trace(Throwable) - Method in class org.scijava.log.AbstractLogService
 
trace(Object, Throwable) - Method in class org.scijava.log.AbstractLogService
 
TRACE - Static variable in interface org.scijava.log.LogService
 
trace(Object) - Method in interface org.scijava.log.LogService
 
trace(Throwable) - Method in interface org.scijava.log.LogService
 
trace(Object, Throwable) - Method in interface org.scijava.log.LogService
 
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
 
Typed<T> - Interface in org.scijava
An object with an associated type (i.e., Class), which can be queried at runtime.
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.

U

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
 
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.
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.
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 class org.scijava.module.AbstractModuleInfo
 
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
 
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 ImageJ application user interface.

V

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 - Variable in class org.scijava.script.ParameterObject
 
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.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.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.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.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.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.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.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.
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_PRIORITY - Static variable in class org.scijava.Priority
Priority for items that strongly prefer to be sorted early.
VERY_LOW_PRIORITY - Static variable in class org.scijava.Priority
Priority for items that strongly prefer to be sorted late.
view(DisplayWindow, Display<?>) - Method in class org.scijava.ui.viewer.AbstractDisplayViewer
 
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.
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 class org.scijava.log.AbstractLogService
 
warn(Throwable) - Method in class org.scijava.log.AbstractLogService
 
warn(Object, Throwable) - Method in class org.scijava.log.AbstractLogService
 
WARN - Static variable in interface org.scijava.log.LogService
 
warn(Object) - Method in interface org.scijava.log.LogService
 
warn(Throwable) - Method in interface org.scijava.log.LogService
 
warn(Object, Throwable) - Method in interface org.scijava.log.LogService
 
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
 
WidgetModel - Class in org.scijava.widget
The backing data model for a particular InputWidget.
WidgetModel(Context, InputPanel<?, ?>, Module, ModuleItem<?>, List<?>) - Constructor for class org.scijava.widget.WidgetModel
 
widgets - Variable in class org.scijava.widget.AbstractInputPanel
Table of widgets.
WidgetService - Interface in org.scijava.widget
Interface for services that manage available InputWidgets.
width - Variable in class org.scijava.util.IntRect
 
width - Variable in class org.scijava.util.RealRect
 
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.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.
writeFile(File, byte[]) - Static method in class org.scijava.util.FileUtils
Writes the given byte array to the specified file.
writeHistory() - Method in class org.scijava.script.DefaultScriptInterpreter
 
writeHistory() - Method in interface org.scijava.script.ScriptInterpreter
Persists the history of the current script interpreter.
writeMap(PrintStream, Object...) - Method in class org.scijava.annotations.AbstractIndexWriter
 
writer - Variable in class org.scijava.script.AbstractScriptContext
 
writeState(DataOutputStream) - Method in class org.scijava.util.MersenneTwisterFast
Writes the entire state of the MersenneTwister RNG to the stream
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
 

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