Package sc.fiji.snt.gui.cmds

Class LoadSeedsFromLabelsImageCmd

java.lang.Object

org.scijava.module.AbstractModule

org.scijava.module.DefaultMutableModule

org.scijava.command.DynamicCommand

sc.fiji.snt.gui.cmds.CommonDynamicCmd

sc.fiji.snt.gui.cmds.ChooseDatasetCmd

sc.fiji.snt.gui.cmds.LoadSeedsFromLabelsImageCmd

All Implemented Interfaces:

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

public class LoadSeedsFromLabelsImageCmd
extends ChooseDatasetCmd

Generates SeedPoints from an open labels image (e.g. cellpose, Labkit, StarDist masks). One seed is produced per non-zero label: centroid in physical coordinates, sphere-equivalent radius, and a confidence that scales linearly with the label's volume (smallest -> minConfidence, largest -> 1.0). Seeds are added to SNT's SeedOverlay..

Author:

Tiago Ferreira

See Also:

• LabelsToSeeds

Field Summary

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
LoadSeedsFromLabelsImageCmd()

Method Summary

Modifier and Type	Method	Description
protected void	init()
void	run()

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

convertInPlaceToCompositeAsNeeded, getCurrentImage, getImpInstances, isCalibrationCompatible, main, populateImpChoices

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

cancel, cancel, error, 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

LoadSeedsFromLabelsImageCmd

public LoadSeedsFromLabelsImageCmd()

Method Details

init

protected void init()

Overrides:

init in class ChooseDatasetCmd

run

public void run()

Specified by:

run in interface org.scijava.module.MutableModule

Specified by:

run in interface Runnable

Overrides:

run in class ChooseDatasetCmd