JIPipe (jipipe 5.1.3-SNAPSHOT API)

java.lang.Object
- org.scijava.AbstractContextual
- - org.scijava.plugin.AbstractRichPlugin
  - - org.scijava.service.AbstractService
    - - org.hkijena.jipipe.JIPipe

All Implemented Interfaces:

Comparable<org.scijava.Prioritized>, JIPipeValidatable, JIPipeService, org.scijava.Contextual, org.scijava.Disposable, org.scijava.Identifiable, org.scijava.Initializable, org.scijava.Locatable, org.scijava.log.Logged, org.scijava.plugin.HasPluginInfo, org.scijava.plugin.RichPlugin, org.scijava.plugin.SciJavaPlugin, org.scijava.Prioritized, org.scijava.service.Service, org.scijava.Versioned
```
public class JIPipe
extends org.scijava.service.AbstractService
implements JIPipeService
```
A scijava service that discovers JIPipe plugins in the classpath

Nested Class Summary
- Nested classes/interfaces inherited from interface org.hkijena.jipipe.JIPipeService
  JIPipeService.DatatypeRegisteredEvent, JIPipeService.DatatypeRegisteredEventEmitter, JIPipeService.DatatypeRegisteredEventListener, JIPipeService.ExtensionContentAddedEvent, JIPipeService.ExtensionContentAddedEventEmitter, JIPipeService.ExtensionContentRemovedEvent, JIPipeService.ExtensionContentRemovedEventEmitter, JIPipeService.ExtensionDiscoveredEvent, JIPipeService.ExtensionDiscoveredEventEmitter, JIPipeService.ExtensionRegisteredEvent, JIPipeService.ExtensionRegisteredEventEmitter, JIPipeService.NodeInfoRegisteredEvent, JIPipeService.NodeInfoRegisteredEventEmitter, JIPipeService.NodeInfoRegisteredEventListener, JIPipeService.PluginContentAddedEventListener, JIPipeService.PluginContentRemovedEventListener, JIPipeService.PluginDiscoveredEventListener, JIPipeService.PluginRegisteredEventListener

Field Summary

Fields
Modifier and Type	Field and Description
`static boolean`	`NO_IMAGEJ` To be used with an alternative start mode not involving ImageJ
`static boolean`	`NO_SETTINGS_AUTOSAVE` Prevent saving settings
`static Path`	`OVERRIDE_USER_DIR_BASE` Allows to override the directory where profiles are located (needs to be done before init!)
`static JIPipeResourceManager`	`RESOURCES` Resource manager for core JIPipe

Constructor Summary

Constructors
Constructor and Description

JIPipe()

Constructors
Constructor and Description
`JIPipe()`

Method Summary

All Methods Static Methods Instance Methods Concrete Methods
Modifier and Type	Method and Description
`void`	`checkUpdateSites(JIPipeRegistryIssues issues, List<JIPipeDependency> extensions, net.imagej.updater.util.Progress progressAdapter, JIPipeProgressInfo progressInfo)` Checks the update sites of all extensions and stores the results in the issues
`static int`	`comparePlugins(org.scijava.plugin.PluginInfo<?> p0, org.scijava.plugin.PluginInfo<?> p1)` Compares two plugins and sorts them by priority
`static <T extends JIPipeData> T`	`createData(Class<T> klass, Object... constructorParameters)` Instantiates a data class with the provided parameters This method is helpful if output data is constructed based on slot types
`static JIPipe`	`createInstance(org.scijava.Context context)` Helper to create JIPipe from a context.
`static JIPipe`	`createLibNoImageJInstance(List<Class<? extends JIPipeJavaPlugin>> plugins)` Create a new JIPipe using initializeLibNoImageJ, which is suitable for using limited functions from within non-ImageJ applications.
`static <T extends JIPipeGraphNode> T`	`createNode(Class<T> klass)` Creates a new node instance from its class.
`static <T extends JIPipeGraphNode> T`	`createNode(String id)` Creates a new node instance from its id
`static <T extends JIPipeGraphNode> T`	`duplicateNode(T node)` Duplicates a `JIPipeGraphNode`
`static <T> T`	`duplicateParameter(T value)` Duplicates a value that is registered as parameter
`static JIPipeGraphRun`	`enqueueProject(JIPipeProject project, JIPipeGraphRunConfiguration settings)` Runs a project in the current thread.
`static JIPipeGraphRun`	`enqueueProject(JIPipeProject project, Path outputFolder, int threads)` Runs a project in a different thread.
`static JIPipe`	`ensureInstance()` Ensures that JIPipe is initialized and available.
`static JIPipe`	`ensureInstance(org.scijava.Context context)` Ensures that JIPipe is initialized and available.
`static void`	`exitLater(int exitCode)` Exits the Java application in 500ms Prevents the lockup of Java under certain circumstances
`JIPipeDependency`	`findExtensionById(String dependencyId)`
`JIPipeApplicationSettingsRegistry`	`getApplicationSettingsRegistry()`
`static JIPipeArtifactsRegistry`	`getArtifacts()`
`JIPipeArtifactsRegistry`	`getArtifactsRegistry()`
`JIPipeCustomMenuRegistry`	`getCustomMenuRegistry()`
`static JIPipeCustomMenuRegistry`	`getCustomMenus()`
`JIPipeService.DatatypeRegisteredEventEmitter`	`getDatatypeRegisteredEventEmitter()`
`JIPipeDatatypeRegistry`	`getDatatypeRegistry()`
`static JIPipeDatatypeRegistry`	`getDataTypes()`
`JIPipeExpressionRegistry`	`getExpressionRegistry()`
`JIPipeService.ExtensionContentAddedEventEmitter`	`getExtensionContentAddedEventEmitter()`
`JIPipeService.ExtensionContentRemovedEventEmitter`	`getExtensionContentRemovedEventEmitter()`
`JIPipeService.ExtensionDiscoveredEventEmitter`	`getExtensionDiscoveredEventEmitter()`
`JIPipeService.ExtensionRegisteredEventEmitter`	`getExtensionRegisteredEventEmitter()`
`JIPipeExternalEnvironmentRegistry`	`getExternalEnvironmentRegistry()`
`List<JIPipeDependency>`	`getFailedExtensions()`
`JIPipeGraphEditorToolRegistry`	`getGraphEditorToolRegistry()`
`static JIPipeImageJAdapterRegistry`	`getImageJAdapters()`
`JIPipeImageJAdapterRegistry`	`getImageJDataAdapterRegistry()`
`net.imagej.updater.FilesCollection`	`getImageJPlugins()`
`static JIPipe`	`getInstance()`
`static Path`	`getJIPipeUserDir()` Gets the JIPipe user-writable directory.
`static String`	`getJIPipeVersion()` The current version of JIPipe according to the Maven-proved information
`org.scijava.log.LogService`	`getLogService()`
`JIPipeMetadataRegistry`	`getMetadataRegistry()`
`JIPipeService.NodeInfoRegisteredEventEmitter`	`getNodeInfoRegisteredEventEmitter()`
`JIPipeNodeRegistry`	`getNodeRegistry()`
`static JIPipeNodeRegistry`	`getNodes()`
`JIPipeNodeTemplateRegistry`	`getNodeTemplateRegistry()`
`static JIPipeNodeTemplateRegistry`	`getNodeTemplates()`
`JIPipeParameterTypeRegistry`	`getParameterTypeRegistry()`
`static JIPipeParameterTypeRegistry`	`getParameterTypes()`
`JIPipePluginRegistry`	`getPluginRegistry()`
`org.scijava.plugin.PluginService`	`getPluginService()`
`JIPipeProgressInfo`	`getProgressInfo()`
`JIPipeProjectSettingsRegistry`	`getProjectSettingsRegistry()`
`JIPipeProjectTemplateRegistry`	`getProjectTemplateRegistry()`
`JIPipeRecentProjectsRegistry`	`getRecentProjectsRegistry()`
`Set<String>`	`getRegisteredExtensionIds()`
`List<JIPipeDependency>`	`getRegisteredExtensions()`
`static JIPipeApplicationSettingsRegistry`	`getSettings()`
`JIPipeExpressionRegistry`	`getTableOperationRegistry()`
`static JIPipeExpressionRegistry`	`getTableOperations()`
`JIPipeUtilityRegistry`	`getUtilityRegistry()`
`static <T extends JIPipeData> T`	`importData(JIPipeReadDataStorage storage, Class<T> klass, JIPipeProgressInfo progressInfo)` Imports data of given data type from its output folder.
`void`	`initialize()` Initializes JIPipe.
`void`	`initialize(JIPipeExtensionApplicationSettings extensionSettings, JIPipeRegistryIssues issues, boolean verbose)` Initializes JIPipe
`void`	`initializeLibNoImageJ(List<Class<? extends JIPipeJavaPlugin>> plugins)` Initializes JIPipe as part of a library with a custom initialization step No settings are loaded and SciJava services are not used.
`boolean`	`isInitializing()`
`static boolean`	`isInstantiated()`
`static boolean`	`isRestarting()` Returns true if a JIPipe restart is in progress.
`static boolean`	`isValidExtensionId(String id)` Returns if the ID is a valid extension ID Must have following structure: [group]:[artifact] [group] should be lower-case and be a valid Maven group ID [artifact] should be lower-case and a valid Maven artifact ID
`static JIPipeProject`	`loadProject(Path fileName)` Loads a project
`static JIPipeProject`	`loadProject(Path fileName, JIPipeNotificationInbox notifications)` Loads a project
`static JIPipeProject`	`loadProject(Path fileName, JIPipeValidationReport report)` Loads a project
`static JIPipeProject`	`loadProject(Path fileName, JIPipeValidationReport report, JIPipeNotificationInbox notifications)` Loads a project
`void`	`register(JIPipeJsonPlugin extension, JIPipeProgressInfo progressInfo)` Registers a JSON extension
`void`	`reportValidity(JIPipeValidationReportContext reportContext, JIPipeValidationReport report)` Generates a validity report
`static void`	`restartGUI()`
`static JIPipeGraphRun`	`runProject(JIPipeProject project, JIPipeGraphRunConfiguration settings)` Runs a project in the current thread.
`static JIPipeGraphRun`	`runProject(JIPipeProject project, Path outputFolder, int threads)` Runs a project in the current thread.

Methods inherited from class org.scijava.service.AbstractService
getContext, setContext, toString

Methods inherited from class org.scijava.plugin.AbstractRichPlugin
getInfo, getPriority, setInfo, setPriority

Methods inherited from class org.scijava.AbstractContextual
context

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Methods inherited from interface org.scijava.service.Service
registerEventHandlers

Methods inherited from interface org.scijava.plugin.RichPlugin
getIdentifier, log

Methods inherited from interface org.scijava.Contextual
context, getContext, setContext

Methods inherited from interface org.scijava.Prioritized
compareTo, getPriority, setPriority

Methods inherited from interface org.scijava.plugin.HasPluginInfo
getInfo, setInfo

Methods inherited from interface org.scijava.Locatable
getLocation

Methods inherited from interface org.scijava.Versioned
getVersion

Methods inherited from interface org.scijava.Disposable
dispose

Methods inherited from interface org.hkijena.jipipe.api.validation.JIPipeValidatable
generateValidityReport

- Field Detail
  - RESOURCES
```
public static final JIPipeResourceManager RESOURCES
```
    Resource manager for core JIPipe
  - NO_IMAGEJ
```
public static boolean NO_IMAGEJ
```
    To be used with an alternative start mode not involving ImageJ
  - NO_SETTINGS_AUTOSAVE
```
public static boolean NO_SETTINGS_AUTOSAVE
```
    Prevent saving settings
  - OVERRIDE_USER_DIR_BASE
```
public static Path OVERRIDE_USER_DIR_BASE
```
    Allows to override the directory where profiles are located (needs to be done before init!) Overridden by the JIPIPE_OVERRIDE_USER_DIR_BASE environment variable
- Constructor Detail
  - JIPipe
```
public JIPipe()
```
- Method Detail
  - importData
```
public static <T extends JIPipeData> T importData(JIPipeReadDataStorage storage,
                                                  Class<T> klass,
                                                  JIPipeProgressInfo progressInfo)
```
    Imports data of given data type from its output folder. Generally, the output folder should conform to the data type's saveTo() function without 'forceName' enabled
    
    Type Parameters:
    
    T - the data type
    
    Parameters:
    
    storage - the storage that contains the serialized data
    
    klass - the data type
    
    progressInfo - the progress info
    
    Returns:
    
    imported data
  - isRestarting
```
public static boolean isRestarting()
```
    Returns true if a JIPipe restart is in progress. Can be utilized by methods to prevent the closing of the Java app
    
    Returns:
    
    if JIPipe is restarting
  - getParameterTypes
```
public static JIPipeParameterTypeRegistry getParameterTypes()
```
  - getTableOperations
```
public static JIPipeExpressionRegistry getTableOperations()
```
  - getCustomMenus
```
public static JIPipeCustomMenuRegistry getCustomMenus()
```
  - getImageJAdapters
```
public static JIPipeImageJAdapterRegistry getImageJAdapters()
```
  - getSettings
```
public static JIPipeApplicationSettingsRegistry getSettings()
```
  - getNodes
```
public static JIPipeNodeRegistry getNodes()
```
  - getDataTypes
```
public static JIPipeDatatypeRegistry getDataTypes()
```
  - getArtifacts
```
public static JIPipeArtifactsRegistry getArtifacts()
```
  - getNodeTemplates
```
public static JIPipeNodeTemplateRegistry getNodeTemplates()
```
  - getInstance
```
public static JIPipe getInstance()
```
    Returns:
    
    Singleton instance
  - restartGUI
```
public static void restartGUI()
```
  - ensureInstance
```
public static JIPipe ensureInstance()
```
    Ensures that JIPipe is initialized and available. Creates a new ImageJ instance to obtain a Context if JIPipe is not initialized already.
    
    Returns:
    
    the current instance
  - ensureInstance
```
public static JIPipe ensureInstance(org.scijava.Context context)
```
    Ensures that JIPipe is initialized and available.
    
    Parameters:
    
    context - the context to initialize JIPipe
    
    Returns:
    
    the current instance
  - createInstance
```
public static JIPipe createInstance(org.scijava.Context context)
```
    Helper to create JIPipe from a context. Will create a new JIPipe instance, so be careful. We recommend using the ensureInstance() method.
    
    Parameters:
    
    context - the context
  - createLibNoImageJInstance
```
public static JIPipe createLibNoImageJInstance(List<Class<? extends JIPipeJavaPlugin>> plugins)
```
    Create a new JIPipe using initializeLibNoImageJ, which is suitable for using limited functions from within non-ImageJ applications. Avoids interacting with SciJava as much as possible.
    
    Parameters:
    
    plugins - list of plugins to load
    
    Returns:
    
    the JIPipe instance
  - isInstantiated
```
public static boolean isInstantiated()
```
  - comparePlugins
```
public static int comparePlugins(org.scijava.plugin.PluginInfo<?> p0,
                                 org.scijava.plugin.PluginInfo<?> p1)
```
    Compares two plugins and sorts them by priority
    
    Parameters:
    
    p0 - Plugin
    
    p1 - Plugin
    
    Returns:
    
    Comparator result
  - loadProject
```
public static JIPipeProject loadProject(Path fileName)
                                 throws IOException
```
    Loads a project
    
    Parameters:
    
    fileName - Project file
    
    Returns:
    
    the project
    
    Throws:
    
    IOException - thrown if the file could not be read or the file is corrupt
  - loadProject
```
public static JIPipeProject loadProject(Path fileName,
                                        JIPipeNotificationInbox notifications)
                                 throws IOException
```
    Loads a project
    
    Parameters:
    
    fileName - Project file
    
    notifications - notifications for the user
    
    Returns:
    
    the project
    
    Throws:
    
    IOException - thrown if the file could not be read or the file is corrupt
  - loadProject
```
public static JIPipeProject loadProject(Path fileName,
                                        JIPipeValidationReport report,
                                        JIPipeNotificationInbox notifications)
                                 throws IOException
```
    Loads a project
    
    Parameters:
    
    fileName - Project file
    
    report - Report whether the project is valid
    
    notifications - notifications for the user
    
    Returns:
    
    the project
    
    Throws:
    
    IOException - thrown if the file could not be read or the file is corrupt
  - loadProject
```
public static JIPipeProject loadProject(Path fileName,
                                        JIPipeValidationReport report)
                                 throws IOException
```
    Loads a project
    
    Parameters:
    
    fileName - Project file
    
    report - Report whether the project is valid
    
    Returns:
    
    the project
    
    Throws:
    
    IOException - thrown if the file could not be read or the file is corrupt
  - runProject
```
public static JIPipeGraphRun runProject(JIPipeProject project,
                                        Path outputFolder,
                                        int threads)
```
    Runs a project in the current thread. The progress will be put into the stdout This will block the current thread.
    
    Parameters:
    
    project - the project
    
    outputFolder - the output folder
    
    threads - the number of threads (set to zero for using the default value)
    
    Returns:
    
    the result
  - runProject
```
public static JIPipeGraphRun runProject(JIPipeProject project,
                                        JIPipeGraphRunConfiguration settings)
```
    Runs a project in the current thread. The progress will be put into the stdout This will block the current thread.
    
    Parameters:
    
    project - the project
    
    settings - settings for the run
    
    Returns:
    
    the result
  - enqueueProject
```
public static JIPipeGraphRun enqueueProject(JIPipeProject project,
                                            Path outputFolder,
                                            int threads)
```
    Runs a project in a different thread. The progress will be put into the stdout
    
    Parameters:
    
    project - the project
    
    outputFolder - the output folder
    
    threads - the number of threads (set to zero for using the default value)
    
    Returns:
    
    the future result. You have to check the JIPipeRunnableQueue to see if the run is finished.
  - enqueueProject
```
public static JIPipeGraphRun enqueueProject(JIPipeProject project,
                                            JIPipeGraphRunConfiguration settings)
```
    Runs a project in the current thread. The progress will be put into the stdout
    
    Parameters:
    
    project - the project
    
    settings - settings for the run
    
    Returns:
    
    the future result. You have to check the JIPipeRunnableQueue to see if the run is finished.
  - createNode
```
public static <T extends JIPipeGraphNode> T createNode(String id)
```
    Creates a new node instance from its id
    
    Type Parameters:
    
    T - Algorithm class
    
    Parameters:
    
    id - Algorithm ID
    
    Returns:
    
    Algorithm instance
  - createNode
```
public static <T extends JIPipeGraphNode> T createNode(Class<T> klass)
```
    Creates a new node instance from its class. Please note that this might not work for all node types, as there is no 1:1 relation between node classes and their Ids
    
    Type Parameters:
    
    T - node class
    
    Parameters:
    
    klass - node class
    
    Returns:
    
    the node
  - duplicateNode
```
public static <T extends JIPipeGraphNode> T duplicateNode(T node)
```
    Duplicates a JIPipeGraphNode
    
    Type Parameters:
    
    T - the node class
    
    Parameters:
    
    node - the node
    
    Returns:
    
    a deep copy
  - duplicateParameter
```
public static <T> T duplicateParameter(T value)
```
    Duplicates a value that is registered as parameter
    
    Type Parameters:
    
    T - the type of the value
    
    Parameters:
    
    value - the value. can be null
    
    Returns:
    
    duplicate of the value
  - createData
```
public static <T extends JIPipeData> T createData(Class<T> klass,
                                                  Object... constructorParameters)
```
    Instantiates a data class with the provided parameters This method is helpful if output data is constructed based on slot types
    
    Type Parameters:
    
    T - Data class
    
    Parameters:
    
    klass - The data class
    
    constructorParameters - Constructor parameters
    
    Returns:
    
    Data instance
  - getJIPipeVersion
```
public static String getJIPipeVersion()
```
    The current version of JIPipe according to the Maven-proved information
    
    Returns:
    
    the version string or 'Development' if none is available
  - isValidExtensionId
```
public static boolean isValidExtensionId(String id)
```
    Returns if the ID is a valid extension ID Must have following structure: [group]:[artifact] [group] should be lower-case and be a valid Maven group ID [artifact] should be lower-case and a valid Maven artifact ID
    
    Parameters:
    
    id - the ID
    
    Returns:
    
    if the id is a valid extension id
  - getJIPipeUserDir
```
public static Path getJIPipeUserDir()
```
    Gets the JIPipe user-writable directory. Can be overwritten by setting the JIPIPE_USER_DIR environment variable to deploy JIPipe into a read-only environment
    
    Returns:
    
    the JIPipe user directory
  - exitLater
```
public static void exitLater(int exitCode)
```
    Exits the Java application in 500ms Prevents the lockup of Java under certain circumstances
    
    Parameters:
    
    exitCode - the exit code
  - getDatatypeRegisteredEventEmitter
```
public JIPipeService.DatatypeRegisteredEventEmitter getDatatypeRegisteredEventEmitter()
```
    Specified by:
    
    getDatatypeRegisteredEventEmitter in interface JIPipeService
  - getExtensionContentAddedEventEmitter
```
public JIPipeService.ExtensionContentAddedEventEmitter getExtensionContentAddedEventEmitter()
```
    Specified by:
    
    getExtensionContentAddedEventEmitter in interface JIPipeService
  - getExtensionContentRemovedEventEmitter
```
public JIPipeService.ExtensionContentRemovedEventEmitter getExtensionContentRemovedEventEmitter()
```
    Specified by:
    
    getExtensionContentRemovedEventEmitter in interface JIPipeService
  - getExtensionDiscoveredEventEmitter
```
public JIPipeService.ExtensionDiscoveredEventEmitter getExtensionDiscoveredEventEmitter()
```
    Specified by:
    
    getExtensionDiscoveredEventEmitter in interface JIPipeService
  - getExtensionRegisteredEventEmitter
```
public JIPipeService.ExtensionRegisteredEventEmitter getExtensionRegisteredEventEmitter()
```
    Specified by:
    
    getExtensionRegisteredEventEmitter in interface JIPipeService
  - getNodeInfoRegisteredEventEmitter
```
public JIPipeService.NodeInfoRegisteredEventEmitter getNodeInfoRegisteredEventEmitter()
```
    Specified by:
    
    getNodeInfoRegisteredEventEmitter in interface JIPipeService
  - getTableOperationRegistry
```
public JIPipeExpressionRegistry getTableOperationRegistry()
```
    Specified by:
    
    getTableOperationRegistry in interface JIPipeService
  - getGraphEditorToolRegistry
```
public JIPipeGraphEditorToolRegistry getGraphEditorToolRegistry()
```
    Specified by:
    
    getGraphEditorToolRegistry in interface JIPipeService
  - getProjectTemplateRegistry
```
public JIPipeProjectTemplateRegistry getProjectTemplateRegistry()
```
    Specified by:
    
    getProjectTemplateRegistry in interface JIPipeService
  - getProgressInfo
```
public JIPipeProgressInfo getProgressInfo()
```
  - getFailedExtensions
```
public List<JIPipeDependency> getFailedExtensions()
```
  - initializeLibNoImageJ
```
public void initializeLibNoImageJ(List<Class<? extends JIPipeJavaPlugin>> plugins)
```
    Initializes JIPipe as part of a library with a custom initialization step No settings are loaded and SciJava services are not used. No dependency checking, init, and activation protection (plugins are initialized as-is in the given order) No validation is applied
    
    Parameters:
    
    plugins - the list of plugins to load
  - initialize
```
public void initialize()
```
    Initializes JIPipe. Uses the default extension settings and discards any detected issues.
    
    Specified by:
    
    initialize in interface org.scijava.Initializable
    
    Specified by:
    
    initialize in interface org.scijava.service.Service
  - initialize
```
public void initialize(JIPipeExtensionApplicationSettings extensionSettings,
                       JIPipeRegistryIssues issues,
                       boolean verbose)
```
    Initializes JIPipe
    
    Parameters:
    
    extensionSettings - extension settings
    
    issues - if no windows should be opened
    
    verbose - if all steps should be logged (otherwise the initialization will be silent)
  - isInitializing
```
public boolean isInitializing()
```
  - checkUpdateSites
```
public void checkUpdateSites(JIPipeRegistryIssues issues,
                             List<JIPipeDependency> extensions,
                             net.imagej.updater.util.Progress progressAdapter,
                             JIPipeProgressInfo progressInfo)
```
    Checks the update sites of all extensions and stores the results in the issues
    
    Parameters:
    
    issues - the results
    
    extensions - list of known extensions
    
    progressAdapter - the adapter that takes the progress
    
    progressInfo - the progress info
  - register
```
public void register(JIPipeJsonPlugin extension,
                     JIPipeProgressInfo progressInfo)
```
    Registers a JSON extension
    
    Parameters:
    
    extension - The extension
    
    progressInfo - the progress info
  - getPluginRegistry
```
public JIPipePluginRegistry getPluginRegistry()
```
    Specified by:
    
    getPluginRegistry in interface JIPipeService
  - getNodeRegistry
```
public JIPipeNodeRegistry getNodeRegistry()
```
    Specified by:
    
    getNodeRegistry in interface JIPipeService
  - getDatatypeRegistry
```
public JIPipeDatatypeRegistry getDatatypeRegistry()
```
    Specified by:
    
    getDatatypeRegistry in interface JIPipeService
  - getImageJDataAdapterRegistry
```
public JIPipeImageJAdapterRegistry getImageJDataAdapterRegistry()
```
    Specified by:
    
    getImageJDataAdapterRegistry in interface JIPipeService
  - getRegisteredExtensions
```
public List<JIPipeDependency> getRegisteredExtensions()
```
    Specified by:
    
    getRegisteredExtensions in interface JIPipeService
  - getCustomMenuRegistry
```
public JIPipeCustomMenuRegistry getCustomMenuRegistry()
```
    Specified by:
    
    getCustomMenuRegistry in interface JIPipeService
  - getNodeTemplateRegistry
```
public JIPipeNodeTemplateRegistry getNodeTemplateRegistry()
```
    Specified by:
    
    getNodeTemplateRegistry in interface JIPipeService
  - getRegisteredExtensionIds
```
public Set<String> getRegisteredExtensionIds()
```
    Specified by:
    
    getRegisteredExtensionIds in interface JIPipeService
  - reportValidity
```
public void reportValidity(JIPipeValidationReportContext reportContext,
                           JIPipeValidationReport report)
```
    Description copied from interface: JIPipeValidatable
    
    Generates a validity report
    
    Specified by:
    
    reportValidity in interface JIPipeValidatable
    
    Parameters:
    
    reportContext - the report context
    
    report - the report to be added to
  - findExtensionById
```
public JIPipeDependency findExtensionById(String dependencyId)
```
    Specified by:
    
    findExtensionById in interface JIPipeService
  - getPluginService
```
public org.scijava.plugin.PluginService getPluginService()
```
  - getParameterTypeRegistry
```
public JIPipeParameterTypeRegistry getParameterTypeRegistry()
```
    Specified by:
    
    getParameterTypeRegistry in interface JIPipeService
  - getApplicationSettingsRegistry
```
public JIPipeApplicationSettingsRegistry getApplicationSettingsRegistry()
```
    Specified by:
    
    getApplicationSettingsRegistry in interface JIPipeService
  - getProjectSettingsRegistry
```
public JIPipeProjectSettingsRegistry getProjectSettingsRegistry()
```
    Specified by:
    
    getProjectSettingsRegistry in interface JIPipeService
  - getMetadataRegistry
```
public JIPipeMetadataRegistry getMetadataRegistry()
```
    Specified by:
    
    getMetadataRegistry in interface JIPipeService
  - getExpressionRegistry
```
public JIPipeExpressionRegistry getExpressionRegistry()
```
    Specified by:
    
    getExpressionRegistry in interface JIPipeService
  - getImageJPlugins
```
public net.imagej.updater.FilesCollection getImageJPlugins()
```
  - getLogService
```
public org.scijava.log.LogService getLogService()
```
  - getExternalEnvironmentRegistry
```
public JIPipeExternalEnvironmentRegistry getExternalEnvironmentRegistry()
```
    Specified by:
    
    getExternalEnvironmentRegistry in interface JIPipeService
  - getUtilityRegistry
```
public JIPipeUtilityRegistry getUtilityRegistry()
```
    Specified by:
    
    getUtilityRegistry in interface JIPipeService
  - getArtifactsRegistry
```
public JIPipeArtifactsRegistry getArtifactsRegistry()
```
    Specified by:
    
    getArtifactsRegistry in interface JIPipeService
  - getRecentProjectsRegistry
```
public JIPipeRecentProjectsRegistry getRecentProjectsRegistry()
```
    Specified by:
    
    getRecentProjectsRegistry in interface JIPipeService

Class JIPipe

Nested Class Summary

Nested classes/interfaces inherited from interface org.hkijena.jipipe.JIPipeService

Field Summary

Constructor Summary

Method Summary

Methods inherited from class org.scijava.service.AbstractService

Methods inherited from class org.scijava.plugin.AbstractRichPlugin

Methods inherited from class org.scijava.AbstractContextual

Methods inherited from class java.lang.Object

Methods inherited from interface org.scijava.service.Service

Methods inherited from interface org.scijava.plugin.RichPlugin

Methods inherited from interface org.scijava.Contextual

Methods inherited from interface org.scijava.Prioritized

Methods inherited from interface org.scijava.plugin.HasPluginInfo

Methods inherited from interface org.scijava.Locatable

Methods inherited from interface org.scijava.Versioned

Methods inherited from interface org.scijava.Disposable

Methods inherited from interface org.hkijena.jipipe.api.validation.JIPipeValidatable

Field Detail

RESOURCES

NO_IMAGEJ

NO_SETTINGS_AUTOSAVE

OVERRIDE_USER_DIR_BASE

Constructor Detail

JIPipe

Method Detail

importData

isRestarting

getParameterTypes

getTableOperations

getCustomMenus

getImageJAdapters

getSettings

getNodes

getDataTypes

getArtifacts

getNodeTemplates

getInstance

restartGUI

ensureInstance

ensureInstance

createInstance

createLibNoImageJInstance

isInstantiated

comparePlugins

loadProject

loadProject

loadProject

loadProject

runProject

runProject

enqueueProject

enqueueProject

createNode

createNode

duplicateNode

duplicateParameter

createData

getJIPipeVersion

isValidExtensionId

getJIPipeUserDir

exitLater

getDatatypeRegisteredEventEmitter

getExtensionContentAddedEventEmitter

getExtensionContentRemovedEventEmitter

getExtensionDiscoveredEventEmitter

getExtensionRegisteredEventEmitter

getNodeInfoRegisteredEventEmitter

getTableOperationRegistry

getGraphEditorToolRegistry

getProjectTemplateRegistry

getProgressInfo

getFailedExtensions

initializeLibNoImageJ

initialize

initialize

isInitializing

checkUpdateSites

register