Serialized Form (bUnwarpJ 2.6.13 API)

Package bunwarpj
- Class bunwarpj.ClearAll extends Dialog implements Serializable
  
  serialVersionUID:
  
  2082815245983765787L
  - Serialized Fields
    - sourcePh
```
PointHandler sourcePh
```
      point handler for source image
    - targetPh
```
PointHandler targetPh
```
      point handler for target image
- Class bunwarpj.CumulativeQueue extends Vector<Double> implements Serializable
  
  serialVersionUID:
  
  -1862591645420274411L
  - Serialized Fields
    - ridx
```
int ridx
```
      front index of the queue
    - widx
```
int widx
```
      rear index of the queue
    - currentLength
```
int currentLength
```
      current length of the queue
    - sum
```
double sum
```
      queue sum
- Class bunwarpj.IODialog extends Dialog implements Serializable
  
  serialVersionUID:
  
  2016840469406208859L
  - Serialized Fields
    - sourceImp
```
ij.ImagePlus sourceImp
```
      Pointer to the source image representation
    - targetImp
```
ij.ImagePlus targetImp
```
      Pointer to the target image representation
    - sourcePh
```
PointHandler sourcePh
```
      Point handler for the source image
    - targetPh
```
PointHandler targetPh
```
      Point handler for the target image
    - dialog
```
MainDialog dialog
```
      Dialog for bUnwarpJ interface
- Class bunwarpj.MainDialog extends GenericDialog implements Serializable
  
  serialVersionUID:
  
  8828022405402308341L
  - Serialized Fields
    - imageList
```
ij.ImagePlus[] imageList
```
      List of available images in ImageJ
    - sourceIc
```
ImageCanvas sourceIc
```
      Canvas of the source image
    - targetIc
```
ImageCanvas targetIc
```
      Canvas of the target image
    - sourceImp
```
ij.ImagePlus sourceImp
```
      Image representation for source image
    - targetImp
```
ij.ImagePlus targetImp
```
      Image representation for target image
    - originalSourceIP
```
ij.process.ImageProcessor originalSourceIP
```
      initial source image processor
    - originalTargetIP
```
ij.process.ImageProcessor originalTargetIP
```
      initial target image processor
    - source
```
BSplineModel source
```
      Model for source image
    - target
```
BSplineModel target
```
      Model for target image
    - sourceMsk
```
Mask sourceMsk
```
      Mask for source image
    - targetMsk
```
Mask targetMsk
```
      Mask for target image
    - sourceAffineMatrix
```
double[][] sourceAffineMatrix
```
      Initial affine matrix for the source image
    - targetAffineMatrix
```
double[][] targetAffineMatrix
```
      Initial affine matrix for the target image
    - sourcePh
```
PointHandler sourcePh
```
      Point handlers for the landmarks in the source image
    - targetPh
```
PointHandler targetPh
```
      Point handlers for the landmarks in the target image
    - clearMask
```
boolean clearMask
```
      Boolean for clearing mask
    - tb
```
PointToolbar tb
```
      Toolbar handler
    - finalActionLaunched
```
boolean finalActionLaunched
```
      flag to see if the finalAction was launched
    - stopRegistration
```
boolean stopRegistration
```
      flag to stop the registration
    - sourceChoiceIndex
```
int sourceChoiceIndex
```
      index of the source choice
    - targetChoiceIndex
```
int targetChoiceIndex
```
      index of the target choice
    - min_scale_deformation
```
int min_scale_deformation
```
      minimum scale deformation
    - max_scale_deformation
```
int max_scale_deformation
```
      maximum scale deformation
    - mode
```
int mode
```
      mode ("Accurate" by default)
    - maxImageSubsamplingFactor
```
int maxImageSubsamplingFactor
```
      image subsampling factor at highest resolution level
    - divWeight
```
double divWeight
```
      divergence weight
    - curlWeight
```
double curlWeight
```
      curl weight
    - landmarkWeight
```
double landmarkWeight
```
      landmarks weight
    - imageWeight
```
double imageWeight
```
      image similarity weight
    - consistencyWeight
```
double consistencyWeight
```
      consistency weight
    - richOutput
```
boolean richOutput
```
      flag for rich output (verbose option)
    - saveTransformation
```
boolean saveTransformation
```
      flag for save transformation option
    - min_scale_image
```
int min_scale_image
```
      minimum image scale
    - imagePyramidDepth
```
int imagePyramidDepth
```
      maximum depth for the image pyramid
    - stopThreshold
```
double stopThreshold
```
      stopping threshold
    - bIsReverse
```
boolean bIsReverse
```
      consistency flag (if false, unidirectional registration is done)
    - bMacro
```
boolean bMacro
```
      macro flag
    - macroArgs
```
String macroArgs
```
      macro arguments
    - previousSourceRoi
```
Roi previousSourceRoi
```
      region of interest of the source image before calling the plugin
    - previousTargetRoi
```
Roi previousTargetRoi
```
      region of interest of the target image before calling the plugin
    - sourceChoice
```
Choice sourceChoice
```
      source image choice
    - targetChoice
```
Choice targetChoice
```
      target image choice
    - minScaleChoice
```
Choice minScaleChoice
```
      minimum scale choice
    - maxScaleChoice
```
Choice maxScaleChoice
```
      maximum scale choice
    - modeChoice
```
Choice modeChoice
```
      accurate mode choice
    - resamplingTextField
```
TextField resamplingTextField
```
      resampling text field
    - resamplingSlider
```
Scrollbar resamplingSlider
```
      resampling scroll bar
    - consistencyWeightTextField
```
TextField consistencyWeightTextField
```
      consistency weight text field
- Class bunwarpj.PointAction extends ImageCanvas implements Serializable
  
  serialVersionUID:
  
  -8141177836023328859L
  - Serialized Fields
    - mainImp
```
ij.ImagePlus mainImp
```
      main image plus (active image)
    - secondaryImp
```
ij.ImagePlus secondaryImp
```
      secondary image plus (the other image involved in the registration)
    - mainPh
```
PointHandler mainPh
```
      main point handler (set of points of the active image)
    - secondaryPh
```
PointHandler secondaryPh
```
      secondary point handler (set of point of the other image)
    - tb
```
PointToolbar tb
```
      pointer to the toolbar
    - dialog
```
MainDialog dialog
```
      pointer to the interface dialog
    - mouseDownTime
```
long mouseDownTime
```
      time the mouse is down
- Class bunwarpj.PointHandler extends Roi implements Serializable
  
  serialVersionUID:
  
  4829296689557078996L
  - Serialized Fields
    - listColors
```
Vector<E> listColors
```
    - listPoints
```
Vector<E> listPoints
```
      list of points
    - currentPoint
```
int currentPoint
```
      current point
    - numPoints
```
int numPoints
```
      number of points
    - started
```
boolean started
```
      start flag
    - listMaskPoints
```
Vector<E> listMaskPoints
```
      list of points in the mask
    - maskClosed
```
boolean maskClosed
```
      flat to check if the mask is closed or not
    - imp
```
ij.ImagePlus imp
```
      pointer to the image representation
    - pa
```
PointAction pa
```
      pointer to the point actions
    - tb
```
PointToolbar tb
```
      pointer to the point toolbar
    - mask
```
Mask mask
```
      pointer to the mask
    - dialog
```
MainDialog dialog
```
      pointer to the main bUnwarpJ dialog
    - hue
```
float hue
```
      hue for assigning new color ([0.0-1.0])
    - saturation
```
float saturation
```
      saturation for assigning new color ([0.5-1.0])
- Class bunwarpj.PointToolbar extends Canvas implements Serializable
  
  serialVersionUID:
  
  4280253125939921252L
  - Serialized Fields
    - down
```
boolean[] down
```
      flags for every tool
    - g
```
Graphics g
```
      graphic pointer
    - sourceImp
```
ij.ImagePlus sourceImp
```
      source image pointer
    - targetImp
```
ij.ImagePlus targetImp
```
      target image pointer
    - previousInstance
```
Toolbar previousInstance
```
      previous toolbar instance
    - sourcePh
```
PointHandler sourcePh
```
      source point handler
    - targetPh
```
PointHandler targetPh
```
      target point handler
    - instance
```
PointToolbar instance
```
      toolbar instance
    - mouseDownTime
```
long mouseDownTime
```
      mouse down time
    - currentTool
```
int currentTool
```
      current tool
    - x
```
int x
```
      x- coordinate
    - y
```
int y
```
      y- coordinate
    - xOffset
```
int xOffset
```
      x- offset
    - yOffset
```
int yOffset
```
      y- offset
    - dialog
```
MainDialog dialog
```
      pointer to the bUnwarpJ dialog

Serialized Form

Package bunwarpj

Class bunwarpj.ClearAll extends Dialog implements Serializable

Serialized Fields

sourcePh

targetPh

Class bunwarpj.CumulativeQueue extends Vector<Double> implements Serializable

Serialized Fields

ridx

widx

currentLength

sum

Class bunwarpj.IODialog extends Dialog implements Serializable

Serialized Fields

sourceImp

targetImp

sourcePh

targetPh

dialog

Class bunwarpj.MainDialog extends GenericDialog implements Serializable

Serialized Fields

imageList

sourceIc

targetIc

sourceImp

targetImp

originalSourceIP

originalTargetIP

source

target

sourceMsk

targetMsk

sourceAffineMatrix

targetAffineMatrix

sourcePh

targetPh

clearMask

tb

finalActionLaunched

stopRegistration

sourceChoiceIndex

targetChoiceIndex

min_scale_deformation

max_scale_deformation

mode

maxImageSubsamplingFactor

divWeight

curlWeight

landmarkWeight

imageWeight

consistencyWeight

richOutput

saveTransformation

min_scale_image

imagePyramidDepth

stopThreshold

bIsReverse

bMacro

macroArgs

previousSourceRoi

previousTargetRoi

sourceChoice

targetChoice

minScaleChoice

maxScaleChoice

modeChoice

resamplingTextField

resamplingSlider

consistencyWeightTextField

Class bunwarpj.PointAction extends ImageCanvas implements Serializable

Serialized Fields

mainImp

secondaryImp

mainPh

secondaryPh

tb

dialog

mouseDownTime

Class bunwarpj.PointHandler extends Roi implements Serializable

Serialized Fields