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A

AboutDialog - Class in edfgui
 
AboutDialog(Frame) - Constructor for class edfgui.AboutDialog
This is the default constructor
AbstractDialog - Class in edfgui
 
AbstractDialog() - Constructor for class edfgui.AbstractDialog
Constructor.
AbstractEdfAlgorithm - Class in edf
 
AbstractEdfAlgorithm() - Constructor for class edf.AbstractEdfAlgorithm
 
acknowledge() - Method in class edf.LogSingleton
 
actionPerformed(ActionEvent) - Method in class edfgui.AboutDialog
 
actionPerformed(ActionEvent) - Method in class edfgui.AdvancedDialog
 
actionPerformed(ActionEvent) - Method in class edfgui.BasicDialog
Implements the actionPerformed of the ActionEvent.
actionPerformed(ActionEvent) - Method in class edfgui.LogPane
Implements the actionPerformed for the ActionListener.
addComponent(JPanel, int, int, int, int, int, Component) - Method in class edfgui.AbstractDialog
Add a component in a panel in the northeast of the cell.
addComponent(JToolBar, int, int, int, int, int, Component) - Method in class edfgui.AbstractDialog
Add a component in a panel in the northeast of the cell.
AdvancedDialog - Class in edfgui
 
AdvancedDialog(int[], boolean) - Constructor for class edfgui.AdvancedDialog
This is the default constructor
append(String) - Method in class edf.LogSingleton
 

B

BasicDialog - Class in edfgui
 
BasicDialog(int[], boolean, boolean) - Constructor for class edfgui.BasicDialog
This is the default constructor.

C

C2BFixedWeights(ImageStack, boolean) - Static method in class edf.Color2BW
Color to Gray Scale Image Conversion by Fixed Weights provided in the Image Converter Class of ImageJ Weights: r*0.299 + g*0.587 + b*0.114
C2BFixedWeights(ImageStack, double[]) - Static method in class edf.Color2BW
 
C2BFixedWeights(ImageProcessor, boolean) - Static method in class edf.Color2BW
 
C2BFixedWeights(ImageProcessor, double[]) - Static method in class edf.Color2BW
 
C2BMean(ImageProcessor) - Static method in class edf.Color2BW
 
C2BMean(ImageStack) - Static method in class edf.Color2BW
 
C2BPrincipalComponents(ImageStack) - Static method in class edf.Color2BW
 
C2BPrincipalComponents(ImageProcessor) - Static method in class edf.Color2BW
 
cleanup() - Method in class edfgui.AbstractDialog
Cleanup properly and stop the threads.
clear() - Method in class edf.LogSingleton
 
clone() - Method in class edf.LogSingleton
 
color - Variable in class edfgui.Parameters
 
Color2BW - Class in edf
 
Color2BW() - Constructor for class edf.Color2BW
 
COLOR_RGB - Static variable in class edfgui.Parameters
 
colorConversionMethod - Variable in class edfgui.Parameters
 
compute(ImageWare) - Static method in class edf.Sobel
 
compute(ImageWare, int) - Static method in class edf.Variance
Compute the local variance for each pixel position in a square window of size windowSize.
computeScaleAndPowerTwoSize(int, int) - Static method in class edf.Tools
Determine the number of scale and the size of the image for the wavelet-based methods.
crop(ImageWare, int, int) - Static method in class edf.Tools
Crop to the original size.

D

daubechielength - Variable in class edfgui.Parameters
 
doClose(ImageWare) - Static method in class edf.MorphologicalOperators
Implements "Close" method for an ImageAccess object.
doDenoising - Variable in class edfgui.Parameters
 
doDilation(ImageWare) - Static method in class edf.MorphologicalOperators
Implements "dilation" method for 4-connected pixels of an ImageAccess object.
doErosion(ImageWare) - Static method in class edf.MorphologicalOperators
Implements "Erosion" method for 4-connected pixels of an ImageAccess object.
doGaussian - Variable in class edfgui.Parameters
 
doMedian(ImageWare, int) - Static method in class edf.MorphologicalOperators
 
doMedian - Variable in class edfgui.Parameters
 
doMorphoClose - Variable in class edfgui.Parameters
 
doMorphoOpen - Variable in class edfgui.Parameters
 
doOpen(ImageWare) - Static method in class edf.MorphologicalOperators
Implements "Open" method for an ImageAccess object.

E

edf - package edf
 
EdfComplexWavelets - Class in edf
 
EdfComplexWavelets(int, int, boolean, boolean) - Constructor for class edf.EdfComplexWavelets
 
edfgui - package edfgui
 
edfMethod - Variable in class edfgui.Parameters
 
EdfRealWavelets - Class in edf
 
EdfRealWavelets(int, int, boolean, boolean) - Constructor for class edf.EdfRealWavelets
 
EdfRealWavelets(int, int, boolean, boolean, double) - Constructor for class edf.EdfRealWavelets
 
EdfSobel - Class in edf
 
EdfSobel() - Constructor for class edf.EdfSobel
 
EdfVariance - Class in edf
 
EdfVariance(int) - Constructor for class edf.EdfVariance
 
EdfWaveletMaximumModulus - Class in edf
 
EdfWaveletMaximumModulus() - Constructor for class edf.EdfWaveletMaximumModulus
 
extend(ImageWare, int, int) - Static method in class edf.Tools
Extends the image to [mx, my]
ExtendedDepthOfField - Class in edfgui
 
ExtendedDepthOfField(ImagePlus, Parameters) - Constructor for class edfgui.ExtendedDepthOfField
Constructor.

G

gbConstraints - Variable in class edfgui.AbstractDialog
 
gbLayout - Variable in class edfgui.AbstractDialog
 
getColumnClass(int) - Method in class edfgui.SimpleTableModel
 
getColumnCount() - Method in class edfgui.SimpleTableModel
 
getColumnName(int) - Method in class edfgui.SimpleTableModel
 
getElapsedTime() - Method in class edf.LogSingleton
 
getImageProcessor(ImageWare) - Static method in class edf.Tools
 
getInsets() - Method in class edfgui.LogPane
 
getInstance() - Static method in class edf.LogSingleton
 
getJTextArea() - Method in class edf.LogSingleton
 
getMemString() - Method in class edf.LogSingleton
 
getProgessLength() - Method in class edf.LogSingleton
 
getRowCount() - Method in class edfgui.SimpleTableModel
 
getTableCellRendererComponent(JTable, Object, boolean, boolean, int, int) - Method in class edfgui.MyTableRenderer
 
getValueAt(int, int) - Method in class edfgui.SimpleTableModel
 
GRAYSCALE - Static variable in class edfgui.Parameters
 

I

initialize() - Method in class edfgui.BasicDialog
This method initializes this.
isCellEditable(int, int) - Method in class edfgui.SimpleTableModel
Don't need to implement this method unless your table's editable.
isPowerOf2(int) - Static method in class edf.Tools
 
itemStateChanged(ItemEvent) - Method in class edfgui.AdvancedDialog
 
itemStateChanged(ItemEvent) - Method in class edfgui.BasicDialog
Implements itemStateChanged method.

J

jLabelMemMessage - Variable in class edfgui.AbstractDialog
 
jProgressBar - Variable in class edfgui.AbstractDialog
 

L

LENGTH_TASK_1 - Static variable in class edf.LogSingleton
 
LENGTH_TASK_2 - Static variable in class edf.LogSingleton
 
LENGTH_TASK_3 - Static variable in class edf.LogSingleton
 
LENGTH_TASK_4 - Static variable in class edf.LogSingleton
 
log - Variable in class edfgui.AbstractDialog
 
log - Variable in class edfgui.Parameters
 
LogPane - Class in edfgui
 
LogPane() - Constructor for class edfgui.LogPane
Constructor.
LogSingleton - Class in edf
 

M

majCC - Variable in class edfgui.Parameters
 
majCCSubBand(ImageWare, int, int, int) - Method in class edf.EdfWaveletMaximumModulus
 
majorityConsistencyCheck(ImageWare, int, int) - Method in class edf.EdfWaveletMaximumModulus
 
maxScales - Variable in class edfgui.Parameters
 
medianWindowSize - Variable in class edfgui.Parameters
 
MorphologicalOperators - Class in edf
 
MorphologicalOperators() - Constructor for class edf.MorphologicalOperators
 
MySlider - Class in edfgui
 
MySlider() - Constructor for class edfgui.MySlider
 
MyTableRenderer - Class in edfgui
 
MyTableRenderer() - Constructor for class edfgui.MyTableRenderer
 

N

nScales - Variable in class edfgui.Parameters
 

O

ONE_SECOND - Static variable in class edfgui.AbstractDialog
 
outputColorMap - Variable in class edfgui.Parameters
 

P

parameters - Variable in class edfgui.AbstractDialog
 
Parameters - Class in edfgui
 
Parameters() - Constructor for class edfgui.Parameters
Constructor.
PostProcessing - Class in edf
 
PostProcessing() - Constructor for class edf.PostProcessing
 
process(ImageWare) - Method in class edf.AbstractEdfAlgorithm
 
process(ImageWare) - Method in class edf.EdfComplexWavelets
 
process(ImageWare) - Method in class edf.EdfRealWavelets
 
process(ImageWare) - Method in class edf.EdfSobel
 
process(ImageWare) - Method in class edf.EdfVariance
 
process(ImageWare) - Method in class edf.EdfWaveletMaximumModulus
 
process() - Method in class edf.ProcessTopology
 
process() - Method in class edfgui.BasicDialog
Start the processing in a thread.
process() - Method in class edfgui.ExtendedDepthOfField
Run the main processing.
ProcessTopology - Class in edf
 
ProcessTopology(ImagePlus, boolean, boolean, double) - Constructor for class edf.ProcessTopology
 
ProcessTopology(ImagePlus, boolean, boolean) - Constructor for class edf.ProcessTopology
 

Q

QUALITY_HIGH - Static variable in class edfgui.Parameters
 
QUALITY_LM - Static variable in class edfgui.Parameters
 
QUALITY_LOW - Static variable in class edfgui.Parameters
 
QUALITY_MEDIUM - Static variable in class edfgui.Parameters
 
QUALITY_MH - Static variable in class edfgui.Parameters
 

R

rateDenoising - Variable in class edfgui.Parameters
 
reassignment(ImageWare, ImageWare) - Static method in class edf.PostProcessing
 
reassignment - Variable in class edfgui.Parameters
 
reassignmentColor(ImageWare, ImageStack) - Static method in class edf.PostProcessing
 
reset() - Method in class edfgui.Parameters
Reset to default parameters.
run() - Method in class edfgui.ThreadEdf
 
run() - Method in class edfgui.ThreadTopoProc
 
run() - Method in class surfacemap.SurfaceMap3D
 

S

setEnabled(boolean) - Method in class edfgui.LogPane
 
setEnabled(boolean) - Method in class edfgui.MySlider
 
setJCheckBoxShow3D(boolean) - Method in class edfgui.BasicDialog
This method initializes jCheckBoxShow3D.
setJCheckBoxShowTopology(boolean) - Method in class edfgui.BasicDialog
This method initializes jCheckBoxShowTopology.
setJSliderQuality(int) - Method in class edfgui.BasicDialog
This method sets jSliderQuality.
setJSliderRegularization(int) - Method in class edfgui.BasicDialog
This method sets jSliderRegularization
setProgessLength(int) - Method in class edf.LogSingleton
 
setQualitySettings(int) - Method in class edfgui.Parameters
 
setStartTime(double) - Method in class edf.LogSingleton
 
setTopologySettings(int) - Method in class edfgui.Parameters
 
setValueAt(Object, int, int) - Method in class edfgui.SimpleTableModel
Don't need to implement this method unless your table's data can change.
show3dView - Variable in class edfgui.Parameters
 
showTopology - Variable in class edfgui.Parameters
 
sigma - Variable in class edfgui.Parameters
 
sigmaDenoising - Variable in class edfgui.Parameters
 
SimpleTableModel - Class in edfgui
 
SimpleTableModel(String[], Object[][]) - Constructor for class edfgui.SimpleTableModel
 
SMOOTH_TOPO_MEDIUM - Static variable in class edfgui.Parameters
 
SMOOTH_TOPO_MV - Static variable in class edfgui.Parameters
 
SMOOTH_TOPO_NM - Static variable in class edfgui.Parameters
 
SMOOTH_TOPO_NO - Static variable in class edfgui.Parameters
 
SMOOTH_TOPO_VERY - Static variable in class edfgui.Parameters
 
Sobel - Class in edf
 
Sobel() - Constructor for class edf.Sobel
 
splineOrder - Variable in class edfgui.Parameters
 
start(String) - Method in class edf.LogSingleton
 
STR_COPYRIGHT - Variable in class edfgui.AbstractDialog
 
subBandCC - Variable in class edfgui.Parameters
 
surfacemap - package surfacemap
 
SurfaceMap3D - Class in surfacemap
 
SurfaceMap3D(ImagePlus, ImagePlus) - Constructor for class surfacemap.SurfaceMap3D
 

T

threadEdf - Variable in class edfgui.AbstractDialog
 
ThreadEdf - Class in edfgui
 
ThreadEdf(Parameters) - Constructor for class edfgui.ThreadEdf
 
threadTopoProc - Variable in class edfgui.AbstractDialog
 
ThreadTopoProc - Class in edfgui
 
ThreadTopoProc(Parameters) - Constructor for class edfgui.ThreadTopoProc
 
timer - Variable in class edfgui.AbstractDialog
 
TINY - Static variable in class edf.Color2BW
 
Tools - Class in edf
 
Tools() - Constructor for class edf.Tools
 

V

valueChanged(ListSelectionEvent) - Method in class edfgui.AdvancedDialog
 
Variance - Class in edf
 
Variance() - Constructor for class edf.Variance
 
varWindowSize - Variable in class edfgui.Parameters
 

W

waveletDenoising(ImageWare, double) - Static method in class edf.Tools
 
WHITE - Static variable in class edf.Color2BW
 
windowActivated(WindowEvent) - Method in class edfgui.AdvancedDialog
 
windowActivated(WindowEvent) - Method in class edfgui.BasicDialog
 
windowClosed(WindowEvent) - Method in class edfgui.AdvancedDialog
 
windowClosed(WindowEvent) - Method in class edfgui.BasicDialog
 
windowClosing(WindowEvent) - Method in class edfgui.AdvancedDialog
Implements the methods for the WindowListener.
windowClosing(WindowEvent) - Method in class edfgui.BasicDialog
Implements the methods for the WindowListener.
windowDeactivated(WindowEvent) - Method in class edfgui.AdvancedDialog
 
windowDeactivated(WindowEvent) - Method in class edfgui.BasicDialog
 
windowDeiconified(WindowEvent) - Method in class edfgui.AdvancedDialog
 
windowDeiconified(WindowEvent) - Method in class edfgui.BasicDialog
 
windowIconified(WindowEvent) - Method in class edfgui.AdvancedDialog
 
windowIconified(WindowEvent) - Method in class edfgui.BasicDialog
 
windowOpened(WindowEvent) - Method in class edfgui.AdvancedDialog
 
windowOpened(WindowEvent) - Method in class edfgui.BasicDialog
 
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