de.mpg.biochem.mars.image.commands

Class GradientCommand

java.lang.Object

org.scijava.module.AbstractModule

org.scijava.module.DefaultMutableModule

org.scijava.command.DynamicCommand

de.mpg.biochem.mars.image.commands.GradientCommand

All Implemented Interfaces:

java.lang.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 GradientCommand
extends org.scijava.command.DynamicCommand
implements org.scijava.command.Command

This is a convenience command that calculates the gradient of an image. Assumes Z = 0. Processes all TIME and CHANNEL positions.

Field Summary

Fields inherited from class org.scijava.command.DynamicCommand

moduleService, pluginService

Constructor Summary

Constructors

Constructor and Description
GradientCommand()

Method Summary

Modifier and Type	Method and Description
net.imagej.Dataset	getDataset()
java.lang.String	getDirection()
double	getGaussianSigma()
static net.imglib2.RandomAccessibleInterval<net.imglib2.type.numeric.real.DoubleType>	getOutput2DSlice(net.imglib2.img.Img<net.imglib2.type.numeric.real.DoubleType> img, int[] ct)
int	getThreads()
void	run()
void	setDataset(net.imagej.Dataset dataset)
void	setDirection(java.lang.String gradientDirection)
void	setGaussianSigma(double gaussSigma)
void	setThreads(int nThreads)

Methods inherited from class org.scijava.command.DynamicCommand

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

Methods inherited from class org.scijava.module.AbstractModule

cancel, 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.MutableModule

addInput, addInput, addOutput, addOutput, removeInput, removeOutput

Methods inherited from interface org.scijava.module.Module

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

Constructor Detail

GradientCommand

public GradientCommand()

Method Detail

run

public void run()

Specified by:

run in interface java.lang.Runnable

Specified by:

run in interface org.scijava.module.MutableModule

getOutput2DSlice

public static net.imglib2.RandomAccessibleInterval<net.imglib2.type.numeric.real.DoubleType> getOutput2DSlice(net.imglib2.img.Img<net.imglib2.type.numeric.real.DoubleType> img,
                                                                                                              int[] ct)

setDataset

public void setDataset(net.imagej.Dataset dataset)

getDataset

public net.imagej.Dataset getDataset()

setGaussianSigma

public void setGaussianSigma(double gaussSigma)

getGaussianSigma

public double getGaussianSigma()

setDirection

public void setDirection(java.lang.String gradientDirection)

getDirection

public java.lang.String getDirection()

setThreads

public void setThreads(int nThreads)

getThreads

public int getThreads()