java.lang.Object
- java.lang.Thread
- - gov.nih.mipav.model.algorithms.AlgorithmBase
  - - gov.nih.mipav.model.algorithms.registration.AlgorithmRegBSpline
    - - gov.nih.mipav.model.algorithms.registration.AlgorithmRegBSpline2D

All Implemented Interfaces:

java.awt.event.ActionListener, java.awt.event.WindowListener, java.lang.Runnable, java.util.EventListener
```
public class AlgorithmRegBSpline2D
extends AlgorithmRegBSpline
```
BSpline based registration of 2D images.

Nested Class Summary
- Nested classes/interfaces inherited from class gov.nih.mipav.model.algorithms.registration.AlgorithmRegBSpline
  AlgorithmRegBSpline.Options
- Nested classes/interfaces inherited from class java.lang.Thread
  java.lang.Thread.State, java.lang.Thread.UncaughtExceptionHandler

Field Summary
- Fields inherited from class gov.nih.mipav.model.algorithms.registration.AlgorithmRegBSpline
  m_kImageDeformation, m_kImageResult, m_kImageSource, m_kImageTarget, m_kOptionsPass1, m_kOptionsPass2, m_kRegMeasure
- 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
`AlgorithmRegBSpline2D(ModelImage kImageResult, ModelImage kImageSource, ModelImage kImageTarget, ModelImage kImageDeformation, RegistrationMeasure kRegMeasure, AlgorithmRegBSpline.Options kOptionsPass1, AlgorithmRegBSpline.Options kOptionsPass2)`	Constructor.

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`void`	`disposeLocal()`	Prepares this class for destruction.
`void`	`finalize()`	DOCUMENT ME!
`void`	`runAlgorithm()`	AlgorithmBase abstract method implementation which performs the registration.
`protected BSplineRegistration2Df`	`runPass(ModelSimpleImage kSource, ModelSimpleImage kTarget, AlgorithmRegBSpline.Options kOptions, BSplineRegistration2Df kRegPrev, java.lang.String kProgressPrefixString)`	Perform a "pass" of BSpline based registration.
`private void`	`transform2DVOI(ModelImage image, ModelImage destImage, float[] imgBuffer, float[] kImageMapX, float[] kImageMapY)`	Transforms and resamples a 2D VOI using nearest neighbor interpolation.
`private void`	`writeResults(BSplineRegistration2Df kReg)`	Save the registration information to a file.

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

- Constructor Detail
  - AlgorithmRegBSpline2D
```
public AlgorithmRegBSpline2D(ModelImage kImageResult,
                             ModelImage kImageSource,
                             ModelImage kImageTarget,
                             ModelImage kImageDeformation,
                             RegistrationMeasure kRegMeasure,
                             AlgorithmRegBSpline.Options kOptionsPass1,
                             AlgorithmRegBSpline.Options kOptionsPass2)
```
    Constructor.
    
    Parameters:
    
    kImageResult - ModelImage Reference to an image to store the registered source image. This image must have the same dimensions as the registration target image.
    
    kImageSource - ModelImage Reference to the original input image to use as the registration source. This image does not have to have the same dimensions as the image to be used as the registration target.
    
    kImageTarget - ModelImage Reference to the original input image to use as the registration target.
    
    kImageDeformation - ModelImage Reference to an image to store the computed deformation. This may be a null reference to indicate that the deformation is not to be computed. If this reference is not null, then the image must have the same dimensions as the target image.
    
    kRegMeasure - RegistrationMeasure Reference to the particular cost measure to use for this registration. The cost measure is the same for all passes.
    
    kOptionsPass1 - Options Options to use for a first pass of registration. This may *not* be a null reference.
    
    kOptionsPass2 - Options Options to use for a second pass of registration. This may be null to indicate that only a single pass of registration is to be performed.
- Method Detail
  - disposeLocal
```
public void disposeLocal()
```
    Prepares this class for destruction.
    
    Overrides:
    
    disposeLocal in class AlgorithmRegBSpline
  - finalize
```
public void finalize()
```
    DOCUMENT ME!
    
    Overrides:
    
    finalize in class AlgorithmRegBSpline
  - runAlgorithm
```
public void runAlgorithm()
```
    AlgorithmBase abstract method implementation which performs the registration.
    
    Specified by:
    
    runAlgorithm in class AlgorithmBase
    
    Throws:
    
    java.lang.RuntimeException - DOCUMENT ME!
  - transform2DVOI
```
private void transform2DVOI(ModelImage image,
                            ModelImage destImage,
                            float[] imgBuffer,
                            float[] kImageMapX,
                            float[] kImageMapY)
```
    Transforms and resamples a 2D VOI using nearest neighbor interpolation.
    For each VOI in VOIVector:
    Export VOIs as a mask image
    
    Transform mask
    
    Extract VOI contours from mask image and put in new image.
    Parameters:
    
    image - Image where VOIs are stored
    
    imgBuffer - Image array
    
    xfrm - Transformation matrix to be applied
  - runPass
```
protected BSplineRegistration2Df runPass(ModelSimpleImage kSource,
                                         ModelSimpleImage kTarget,
                                         AlgorithmRegBSpline.Options kOptions,
                                         BSplineRegistration2Df kRegPrev,
                                         java.lang.String kProgressPrefixString)
```
    Perform a "pass" of BSpline based registration. A "pass" is defined to be one or more iterations using the BSpline basis parameters, gradient descent parameters, and convergence parameters.
    
    Parameters:
    
    kSource - ModelSimpleImage Reference to the original input image to use as the registration source. This image does not have to have the same dimensions as the image to be used as the registration target.
    
    kTarget - ModelSimpleImage Reference to the original input image to use as the registration target.
    
    kOptions - Options Options to use for a this registration pass. This may *not* be a null reference.
    
    kRegPrev - BSplineRegistration2Df Reference to a previous registration which can be used to initialize this registration. This may be a null reference meaning that the this registration uses the default "identity" initialization. If this it not a null reference, then this registration is initialized to provide the a close approximation to the same BSpline mapping as determined by the input registration. The main property of a registration is the position of its control points.
    
    kProgressPrefixString - String Text to add to the beginning of the progress bar message.
    
    Returns:
    
    BSplineRegistration2Df Registration instance resulting from this pass. This may be needed to provide for the initialization of subsequent passes or to compute the deformation image.
  - writeResults
```
private void writeResults(BSplineRegistration2Df kReg)
```
    Save the registration information to a file. This information includes the BSpline parameters; in particular, the coordinates for the lattice of control points.
    
    Parameters:
    
    kReg - BSplineRegistration2Df Contains the parameters which define the BSpline for registering the source image to the targe image.

Class AlgorithmRegBSpline2D

Nested Class Summary

Nested classes/interfaces inherited from class gov.nih.mipav.model.algorithms.registration.AlgorithmRegBSpline

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

Field Summary

Fields inherited from class gov.nih.mipav.model.algorithms.registration.AlgorithmRegBSpline

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.AlgorithmBase

Methods inherited from class java.lang.Thread

Methods inherited from class java.lang.Object

Constructor Detail

AlgorithmRegBSpline2D

Method Detail

disposeLocal

finalize

runAlgorithm

transform2DVOI

runPass

writeResults