Package sc.fiji.snt.plugin

Class GWDTMultiSomaCmd

java.lang.Object

org.scijava.module.AbstractModule

org.scijava.module.DefaultMutableModule

org.scijava.command.DynamicCommand

sc.fiji.snt.gui.cmds.CommonDynamicCmd

sc.fiji.snt.plugin.GWDTTracerCommonCmd

sc.fiji.snt.plugin.GWDTMultiSomaCommonCmd

sc.fiji.snt.plugin.GWDTMultiSomaCmd

All Implemented Interfaces:

Runnable, org.scijava.Cancelable, org.scijava.command.Command, org.scijava.command.Interactive, org.scijava.Contextual, org.scijava.module.Module, org.scijava.module.MutableModule, org.scijava.plugin.SciJavaPlugin

public class GWDTMultiSomaCmd
extends GWDTMultiSomaCommonCmd
implements org.scijava.command.Interactive

Interactive command for multi-soma GWDT autotracing. Detects all cell bodies in the image and traces each independently, using exclusion masks to prevent territory overlap between cells.

Author:

Tiago Ferreira

See Also:

• GWDTMultiSomaCommonCmd
• GWDTMultiSomaFileCmd

Field Summary

Fields inherited from class sc.fiji.snt.plugin.GWDTTracerCommonCmd

abortRun, backgroundThreshold, branchTuneMaxAngle, chosenImp, debugMode, imgChoice, imgFileChoice, lengthThreshold, scoreMapFilter

Fields inherited from class sc.fiji.snt.gui.cmds.CommonDynamicCmd

EMPTY_LABEL, HEADER_HTML, snt, sntService, statusService, ui, uiService

Fields inherited from class org.scijava.command.DynamicCommand

moduleService, pluginService

Constructor Summary

Constructors

Constructor	Description
GWDTMultiSomaCmd()

Method Summary

Modifier and Type	Method	Description
protected boolean	isFileMode()
static boolean	isOpen()	Returns whether an instance of this dialog is currently visible.
void	run()

Methods inherited from class sc.fiji.snt.plugin.GWDTMultiSomaCommonCmd

initMultiSoma, runMultiSoma

Methods inherited from class sc.fiji.snt.plugin.GWDTTracerCommonCmd

cancel, configureSecondaryScoreMap, createAndConfigureTracer, error, getImgFromImgChoice, handleTracedTrees, initForFile, initForImage, noValidImgError, runCommand, scoreMapFilterCallback

Methods inherited from class sc.fiji.snt.gui.cmds.CommonDynamicCmd

cancel, getPromptWithCloseHandler, getPromptWithCloseHandler, init, isCanceled, msg, notifyExternalDataLoaded, notifyLoadingEnd, notifyLoadingStart, resetUI, resetUI, resetUI, status

Methods inherited from class org.scijava.command.DynamicCommand

context, getCancelReason, getContext, getInfo, getInput, getOutput, saveInputs, setContext, setInput, setOutput, uncancel

Methods inherited from class org.scijava.module.AbstractModule

getDelegateObject, getInputs, getOutputs, initialize, isInputResolved, isOutputResolved, preview, resolveInput, resolveOutput, setInputs, setOutputs, unresolveInput, unresolveOutput

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Methods inherited from interface org.scijava.module.Module

getDelegateObject, getInputs, getOutputs, initialize, isInputResolved, isOutputResolved, isResolved, preview, resolveInput, resolveOutput, setInputs, setOutputs, setResolved, unresolveInput, unresolveOutput

Methods inherited from interface org.scijava.module.MutableModule

addInput, addInput, addOutput, addOutput, removeInput, removeOutput

Constructor Details

GWDTMultiSomaCmd

public GWDTMultiSomaCmd()

Method Details

isOpen

public static boolean isOpen()

Returns whether an instance of this dialog is currently visible.

Returns:

true if a dialog with this command's title is showing

isFileMode

protected boolean isFileMode()

Specified by:

isFileMode in class GWDTTracerCommonCmd

run

public void run()

Specified by:

run in interface org.scijava.module.MutableModule

Specified by:

run in interface Runnable

Overrides:

run in class CommonDynamicCmd