java.lang.Object
- java.lang.Thread
- - gov.nih.mipav.model.algorithms.AlgorithmBase
  - - gov.nih.mipav.model.algorithms.OpenCLAlgorithmBase
    - - gov.nih.mipav.model.algorithms.filters.OpenCL.filters.OpenCLAlgorithmGaussianBlur

All Implemented Interfaces:

java.awt.event.ActionListener, java.awt.event.WindowListener, java.lang.Runnable, java.util.EventListener
```
public class OpenCLAlgorithmGaussianBlur
extends OpenCLAlgorithmBase
```
OpenCL Algorithm computes the GaussianBlur of a 2D, 3D or 4D image.

Nested Class Summary
- Nested classes/interfaces inherited from class java.lang.Thread
  java.lang.Thread.State, java.lang.Thread.UncaughtExceptionHandler

Field Summary

Fields
Modifier and Type	Field	Description
`private int[]`	`colorMask`	Color flags.
`private float[]`	`GaussData_2D`	Storage location of the 2D Gaussian kernel.
`private float[]`	`GaussData_3D`
`private int[]`	`kExtents_2D`	Extents of the 2D kernel.
`private int[]`	`kExtents_3D`	Extents of the 3D kernel.
`private int[]`	`kOrigins_2D`	Origins of the 2D kernel.
`private int[]`	`kOrigins_3D`	Origins of the 3D kernel.
`private float[]`	`sigmas`	Standard deviations of the Gaussian used to calculate the kernels.

Fields inherited from class gov.nih.mipav.model.algorithms.OpenCLAlgorithmBase
cl, color, contextLibrary, depth, device, entireImage, height, m_iDeviceType, m_kGL, openCLTypeLibrary, time, width

Fields inherited from class gov.nih.mipav.model.algorithms.AlgorithmBase
destFlag, destImage, image25D, mask, maxProgressValue, minProgressValue, multiThreadingEnabled, nthreads, progress, progressModulus, progressStep, runningInSeparateThread, separable, srcImage, threadStopped

Fields inherited from class java.lang.Thread
MAX_PRIORITY, MIN_PRIORITY, NORM_PRIORITY

Constructor Summary

Constructors
Constructor	Description
`OpenCLAlgorithmGaussianBlur(ModelImage srcImg, float[] sigmas, boolean maskFlag, boolean separable, boolean img25D)`	Creates a new AlgorithmGaussianBlur object.
`OpenCLAlgorithmGaussianBlur(ModelImage destImg, ModelImage srcImg, float[] sigmas, boolean maskFlag, boolean separable, boolean img25D)`	Constructor which sets the source and destination images, the minimum and maximum progress value.
`OpenCLAlgorithmGaussianBlur(ModelImage destImg, ModelImage srcImg, float[] sigmas, boolean maskFlag, boolean separable, boolean img25D, long deviceType)`	Constructor which sets the source and destination images, the minimum and maximum progress value.

Method Summary

All Methods Static Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`void`	`finalize()`	Prepares this class for destruction.
`private void`	`gaussianBlur25D()`	2D Implementation: Create the OpenCL Buffers, Kernel, and CommandQueue.
`private void`	`gaussianBlur3D(int time)`	3D Implementation: Create the OpenCL Buffers, Kernel, and CommandQueue.
`private void`	`gaussianBlur4D()`	Calls gaussianBlur3D for each volume in the time series image.
`private void`	`gaussianBlurSep25D()`
`private void`	`gaussianBlurSep25DSlices()`
`private void`	`gaussianBlurSep3D(int time)`
`static org.jocl.cl_mem`	`gaussianBlurSep3D(org.jocl.cl_context cl, org.jocl.cl_device_id device, org.jocl.cl_mem inputBuffer, int time, int elementCount, float[] sigmas, int width, int height, int depth, int color, int[] colorMask)`
`private void`	`makeKernels2D()`	Creates 2D Gaussian kernels for the blurring process.
`private void`	`makeKernels3D()`	Creates 3D Gaussian kernels for the blurring process.
`void`	`runAlgorithm()`	Starts the program.

Methods inherited from class gov.nih.mipav.model.algorithms.OpenCLAlgorithmBase
checkError, getInt, getInts, getLong, getLongs, getMaxMemoryUsed, getString, getString, initCL, isOCLAvailable, readKernelFile, roundUp, saveImage, saveImage, setBlue, setGreen, setRed, setTime

Methods inherited from class gov.nih.mipav.model.algorithms.AlgorithmBase
actionPerformed, addListener, addProgressChangeListener, calculateImageSize, calculatePrincipleAxis, computeElapsedTime, computeElapsedTime, convertIntoFloat, delinkProgressToAlgorithm, delinkProgressToAlgorithmMulti, displayError, errorCleanUp, fireProgressStateChanged, fireProgressStateChanged, fireProgressStateChanged, fireProgressStateChanged, fireProgressStateChanged, generateProgressValues, getDestImage, getElapsedTime, getMask, getMaxProgressValue, getMinProgressValue, getNumberOfThreads, getProgress, getProgressChangeListener, getProgressChangeListeners, getProgressModulus, getProgressStep, getProgressValues, getSrcImage, isCompleted, isImage25D, isMultiThreadingEnabled, isRunningInSeparateThread, isThreadStopped, linkProgressToAlgorithm, linkProgressToAlgorithm, makeProgress, notifyListeners, removeListener, removeProgressChangeListener, run, setCompleted, setImage25D, setMask, setMaxProgressValue, setMinProgressValue, setMultiThreadingEnabled, setNumberOfThreads, setProgress, setProgressModulus, setProgressStep, setProgressValues, setProgressValues, setRunningInSeparateThread, setSrcImage, setStartTime, setThreadStopped, startMethod, windowActivated, windowClosed, windowClosing, windowDeactivated, windowDeiconified, windowIconified, windowOpened

Methods inherited from class java.lang.Thread
activeCount, checkAccess, clone, countStackFrames, currentThread, dumpStack, enumerate, getAllStackTraces, getContextClassLoader, getDefaultUncaughtExceptionHandler, getId, getName, getPriority, getStackTrace, getState, getThreadGroup, getUncaughtExceptionHandler, holdsLock, interrupt, interrupted, isAlive, isDaemon, isInterrupted, join, join, join, onSpinWait, resume, setContextClassLoader, setDaemon, setDefaultUncaughtExceptionHandler, setName, setPriority, setUncaughtExceptionHandler, sleep, sleep, start, stop, suspend, toString, yield

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

Field Detail
- GaussData_2D
```
private float[] GaussData_2D
```
  Storage location of the 2D Gaussian kernel.
- GaussData_3D
```
private float[] GaussData_3D
```
- kExtents_2D
```
private int[] kExtents_2D
```
  Extents of the 2D kernel.
- kOrigins_2D
```
private int[] kOrigins_2D
```
  Origins of the 2D kernel.
- kExtents_3D
```
private int[] kExtents_3D
```
  Extents of the 3D kernel.
- kOrigins_3D
```
private int[] kOrigins_3D
```
  Origins of the 3D kernel.
- colorMask
```
private int[] colorMask
```
  Color flags.
- sigmas
```
private float[] sigmas
```
  Standard deviations of the Gaussian used to calculate the kernels.

Constructor Detail

OpenCLAlgorithmGaussianBlur

public OpenCLAlgorithmGaussianBlur(ModelImage srcImg,
                                   float[] sigmas,
                                   boolean maskFlag,
                                   boolean separable,
                                   boolean img25D)

Creates a new AlgorithmGaussianBlur object.

Parameters:: srcImg - the source image; sigmas - the standard deviations of the Gaussian; maskFlag - VOI Masking; img25D - calculate per slice or for 3D volume

OpenCLAlgorithmGaussianBlur

public OpenCLAlgorithmGaussianBlur(ModelImage destImg,
                                   ModelImage srcImg,
                                   float[] sigmas,
                                   boolean maskFlag,
                                   boolean separable,
                                   boolean img25D)

Constructor which sets the source and destination images, the minimum and maximum progress value.

Parameters:: destImg - the destination image; srcImg - the source image; sigmas - the sigmas; maskFlag - the mask flag; img25D - the 2.5D indicator

OpenCLAlgorithmGaussianBlur

public OpenCLAlgorithmGaussianBlur(ModelImage destImg,
                                   ModelImage srcImg,
                                   float[] sigmas,
                                   boolean maskFlag,
                                   boolean separable,
                                   boolean img25D,
                                   long deviceType)

Constructor which sets the source and destination images, the minimum and maximum progress value.

Parameters:: destImg - the destination image; srcImg - the source image; sigmas - the sigmas; maskFlag - the mask flag; img25D - the 2.5D indicator

Method Detail

finalize
```
public void finalize()
```
Prepares this class for destruction.

Overrides:

finalize in class OpenCLAlgorithmBase

runAlgorithm
```
public void runAlgorithm()
```
Starts the program.

Specified by:

runAlgorithm in class AlgorithmBase

makeKernels2D
```
private void makeKernels2D()
```
Creates 2D Gaussian kernels for the blurring process. The kernel size is always odd and proportional (8X) to the standard deviation of the Gaussian.

makeKernels3D
```
private void makeKernels3D()
```
Creates 3D Gaussian kernels for the blurring process. The kernel size is always odd and proportional (8X) to the standard deviation of the Gaussian.

gaussianBlur25D
```
private void gaussianBlur25D()
```
2D Implementation: Create the OpenCL Buffers, Kernel, and CommandQueue. Run the Kernel and save the results into a new image.

gaussianBlurSep25D
```
private void gaussianBlurSep25D()
```

gaussianBlurSep25DSlices

private void gaussianBlurSep25DSlices()

gaussianBlur3D
```
private void gaussianBlur3D(int time)
```
3D Implementation: Create the OpenCL Buffers, Kernel, and CommandQueue. Run the Kernel and save the results into a new image.

gaussianBlurSep3D

private void gaussianBlurSep3D(int time)

gaussianBlurSep3D

public static org.jocl.cl_mem gaussianBlurSep3D(org.jocl.cl_context cl,
                                                org.jocl.cl_device_id device,
                                                org.jocl.cl_mem inputBuffer,
                                                int time,
                                                int elementCount,
                                                float[] sigmas,
                                                int width,
                                                int height,
                                                int depth,
                                                int color,
                                                int[] colorMask)

gaussianBlur4D
```
private void gaussianBlur4D()
```
Calls gaussianBlur3D for each volume in the time series image.

Class OpenCLAlgorithmGaussianBlur

Nested Class Summary

Nested classes/interfaces inherited from class java.lang.Thread

Field Summary

Fields inherited from class gov.nih.mipav.model.algorithms.OpenCLAlgorithmBase

Fields inherited from class gov.nih.mipav.model.algorithms.AlgorithmBase

Fields inherited from class java.lang.Thread

Constructor Summary

Method Summary

Methods inherited from class gov.nih.mipav.model.algorithms.OpenCLAlgorithmBase

Methods inherited from class gov.nih.mipav.model.algorithms.AlgorithmBase

Methods inherited from class java.lang.Thread

Methods inherited from class java.lang.Object

Field Detail

GaussData_2D

GaussData_3D

kExtents_2D

kOrigins_2D

kExtents_3D

kOrigins_3D

colorMask

sigmas

Constructor Detail

OpenCLAlgorithmGaussianBlur

OpenCLAlgorithmGaussianBlur

OpenCLAlgorithmGaussianBlur

Method Detail

finalize

runAlgorithm

makeKernels2D

makeKernels3D

gaussianBlur25D

gaussianBlurSep25D

gaussianBlurSep25DSlices

gaussianBlur3D

gaussianBlurSep3D

gaussianBlurSep3D

gaussianBlur4D