Serialized Form


Package Seg2Dgel

Class Seg2Dgel.Sg2drawHistogram extends javax.swing.JPanel implements Serializable

serialVersionUID: 0L

Serialized Fields

ssi

Sg2showImage ssi

sg2

Seg2Dgel sg2
link to global instance


preferredWidth

int preferredWidth
preferred size of canvas


preferredHeight

int preferredHeight
preferred size of canvas


mediumFont

java.awt.Font mediumFont
medium font used for labeling


largeFont

java.awt.Font largeFont
medium font used for labeling


optBkgrdColor

java.awt.Color optBkgrdColor

histColor

java.awt.Color histColor

histTopColor

java.awt.Color histTopColor

activeBinColor

java.awt.Color activeBinColor
Active bin peak on histogram color


meanValueBinColor

java.awt.Color meanValueBinColor
Mean value bin peak on histogram color


modeValueBinColor

java.awt.Color modeValueBinColor
Mode value bin peak on histogram color


medianValueBinColor

java.awt.Color medianValueBinColor
Median value bin peak on histogram color


labelColor

java.awt.Color labelColor

frameSize

java.awt.Dimension frameSize
size of frame


cWidth

int cWidth
working canvas width


cHeight

int cHeight
working canvas height


dataName

java.lang.String dataName
name of the data used in histogram


dataUnits

java.lang.String dataUnits
data units abbreviation


sHist

int[] sHist
local SCALED histogram [0:nShist-1]data


nShist

int nShist
size of input unscaled histogram[] data


sHistDisp

int[] sHistDisp
local SCALED histogram [0:nShist-1] scaled to max data value of nShist


xPainted

int[] xPainted
local SCALED histogram X position


activeBin

int activeBin
active bin idx of SCALED sHist[0:nHist-1] else -1


activeBinValue

float activeBinValue
active bin data value corresponding to activeBinidx of SCALED sHist[0:nHist-1]. Only valid if activeBin is NEQ -1


xULHC

int xULHC
upper X left hand corner of hist. graph


yULHC

int yULHC
upper Y left hand corner of hist. graph


xLRHC

int xLRHC
lower Y right hand corner of hist. graph


yLRHC

int yLRHC
lower Y right hand corner of hist. graph


minShistIdx

int minShistIdx
min non-zero bin of sHist to be displayed


maxShistIdx

int maxShistIdx
max non-zero bin of sHist to be displayed


meanShistIdx

int meanShistIdx
mean non-zero bin of sHist to be displayed


medianShistIdx

int medianShistIdx
median non-zero bin of sHist to be displayed


modeShistIdx

int modeShistIdx
mode non-zero bin of sHist to be displayed


minShistFreq

int minShistFreq
min sHist Frequency in sHist value to be displayed


maxShistFreq

int maxShistFreq
max sHist Frequency in sHist value to be displayed


minHistFreqValue

int minHistFreqValue
The minimum frequency value in hist[]


maxHistFreqValue

int maxHistFreqValue
The maximum frequency in hist[]


meanDataValue

float meanDataValue
mean non-zero data value of sHist to be displayed


medianDataValue

float medianDataValue
median non-zero data value of sHist to be displayed


modeDataValue

float modeDataValue
mode non-zero data value of sHist to be displayed


meanDataGrayValue

int meanDataGrayValue
mean non-zero data gray value of sHist to display for Image density


medianDataGrayValue

int medianDataGrayValue
median non-zero data gray value of sHist to display for Image density


modeDataGrayValue

int modeDataGrayValue
mode non-zero data gray value of sHist to display for Image density


minDataValue

float minDataValue
The minimum data value at hist[0]


maxDataValue

float maxDataValue
The maximum data value at hist[max index]


binScale

float binScale
sHist[] Bin width sampling or averaging distance computed as floating (nHist/nShist) to map hist[] to a sHist[] bin.


scaleFreq

float scaleFreq
sHist[] frequency scale factor computed as floating (maxHistFreq/nShist)


changeGuiFlag

boolean changeGuiFlag
flag to indicating that the GUI may have changed and that it should be rebuilt.


hasHistGUIflag

boolean hasHistGUIflag
flag to indicate that the GUI contains the Histogram sub-GUI


useHistGUIflag

boolean useHistGUIflag
flag to use simple ImageViewer w/o histogram or full GUI with the histogram


roiX1

int roiX1
ROI ULHC X


roiY1

int roiY1
ROI ULHC Y


roiX2

int roiX2
ROI LRHC X


roiY2

int roiY2
ROI LRHC Y


dispName

java.lang.String dispName
Name of image to display after a segmentation


dispPixI

int[] dispPixI
Picture buffer int[] of image to display after a segmentation. Note this is read either from the pix? variable or from the file if the pix? variable is null.


dispPixC

char[] dispPixC
Picture buffer char[] of image to display after a segmentation. Note this is read either from the pix? variable or from the file if the pix? variable is null.


dispPixFile

java.lang.String dispPixFile
File of image to display after a segmentation. Used if dispPixI/C is null.


histType

int histType
type of data to use with the histogram


useFilterByBinFlag

boolean useFilterByBinFlag
menu CB item to filter spots by testing if the histogram active bin is selected and histogram spot feature meets the active bin test


nbrPassedFilter

int nbrPassedFilter
# of spots passing filter


hasHistFlag

boolean hasHistFlag
Histogram exists and should be drawn. This is cleared if we decide to blank out the histogram.

Class Seg2Dgel.Sg2showImage extends javax.swing.JFrame implements Serializable

serialVersionUID: 0L

Serialized Fields

sg2

Seg2Dgel sg2
instance of the main class


useHistGUIflag

boolean useHistGUIflag
flag to use simple ImageViewer w/o histogram or full GUI with the histogram


baseImageFile

java.lang.String baseImageFile
base name of the image for use in the title


changeGuiFlag

boolean changeGuiFlag
flag to indicating that the GUI may have changed and that it should be rebuilt.


hasHistGUIflag

boolean hasHistGUIflag
flag to indicate that the GUI contains the Histogram sub-GUI


VIEW_WIDTH_NO_HIST

int VIEW_WIDTH_NO_HIST
Width of the frame without histogram


VIEW_WIDTH_WITH_HIST

int VIEW_WIDTH_WITH_HIST
Width of the frame with histogram


VIEW_HEIGHT

int VIEW_HEIGHT
Height of the frame with and without histogram


ROI_NONE

int ROI_NONE
No ROI code


ROI_CW

int ROI_CW
Computing Window ROI code


ROI_ND

int ROI_ND
Step Wedge ROI code


ROI_DBUG

int ROI_DBUG
Debugging region ROI code


ROI_PIXDUMP

int ROI_PIXDUMP
Picture dump region ROI code


ROI_WORKING

int ROI_WORKING
Working ROI code. This ROI may then be copied to the CW, DBUG or PIXDUMP ROIs


mbar

java.awt.MenuBar mbar
menu bar for the frame


fileMenu

java.awt.Menu fileMenu
"File" pull down Menu list


roiMenu

java.awt.Menu roiMenu
"RegionOfInterest" pull down Menu list


viewMenu

java.awt.Menu viewMenu
"View" pull down Menu list


histMenu

java.awt.Menu histMenu
"Histogram" pull down Menu list


histChoice

java.awt.Choice histChoice
"Histogram" Choice list


zoomChoice

java.awt.Choice zoomChoice
"Zoom" Choice list


controlPanel

javax.swing.JPanel controlPanel
Control panel for the main frame


ms

MenuSupport ms
Menu support functions using Hashtables to tack what is active


sg2Vi

Sg2viewImage sg2Vi
Sg2ViewImage to hold the image


msgTextArea

java.awt.TextArea msgTextArea
Text area GUI for message rporting


textAreaFontSize

int textAreaFontSize
font size


textFontFamily

java.lang.String textFontFamily
font family for message window


fontFamily

java.lang.String fontFamily

smallFont

java.awt.Font smallFont

mediumFont

java.awt.Font mediumFont

largeFont

java.awt.Font largeFont

dispPixChoice

java.awt.Choice dispPixChoice
Selector for image to display after a segmentation


pixHeight

int pixHeight
The height of the image


pixWidth

int pixWidth
The width of the image


radixChoice

java.awt.Choice radixChoice
Selector for windmp radix


radixName

java.lang.String radixName
Name winDump radix


radix

int radix
Code for winDump radix


windmpSizeChoice

java.awt.Choice windmpSizeChoice
Selector for winDump size


windmpSizeName

java.lang.String windmpSizeName
Name windump size


windmpSize

int windmpSize
Code for winDump size


roiChoice

java.awt.Choice roiChoice
Selector for show ROI CW overlay


roiName

java.lang.String roiName
name for show ROI CW overlay


roiCode

int roiCode
code for show ROI CW overlay


roiWORKING

Roi roiWORKING
Internal "WORKING",ROI_WORKING instance that can be used to set the CW, DBUG or PIXDUMP (not the ND) Rois


roiCW

Roi roiCW

roiND

Roi roiND
""ND",ROI_ND instance


roiDBUG

Roi roiDBUG
"DBUG",ROI_DBUG instance


roiPIXDUMP

Roi roiPIXDUMP
"PIXDUMP",ROI_PIXDUMP instance


allSpotsCB

java.awt.Checkbox allSpotsCB
the "All spots" Checkbox


allSpotsFlag

boolean allSpotsFlag
set from "All spots" checkbox


showSpotNbrsFlag

boolean showSpotNbrsFlag
set from "View spot numbers" checkbox


isVisibleFlag

boolean isVisibleFlag
Set true if window is visible


drawHorizSliceFlag

boolean drawHorizSliceFlag
menu CB item to display horizontal slice


drawVertSliceFlag

boolean drawVertSliceFlag
menu CB item to display vertical slice


filterGEQactiveBinFlag

boolean filterGEQactiveBinFlag
menu CB item to test spots for GEQ activeBin value, else LEQ activeBin value fromt the selected histogram bin for the histogram histType spot data.


useFilterByBinFlag

boolean useFilterByBinFlag
menu CB item to filter spots by testing if the histogram active bin is selected and histogram spot feature meets the active bin test


nbrPassedFilter

int nbrPassedFilter
# of spots passing filter


useDragCB

java.awt.Checkbox useDragCB
the "Use drag" checkbox


useDragFlag

boolean useDragFlag
set from "Use drag" checkbox


logReportCB

java.awt.Checkbox logReportCB
the "Log report" checkbox


logReportFlag

boolean logReportFlag
set from "Log report" checkbox


viewWidth

int viewWidth

viewHeight

int viewHeight

zoomVal

int zoomVal

showCWflag

boolean showCWflag

showNDCWflag

boolean showNDCWflag

showDbugCWflag

boolean showDbugCWflag

showPixdumpCWflag

boolean showPixdumpCWflag

hCanvas

Sg2drawHistogram hCanvas
Histogram Canvas to hold the image


hist

int[] hist
full input unscaled histogram data [0:nHist-1]


nHist

int nHist
size of input unscaled histogram[] data


histType

int histType
type of data to use with the histogram


dataUnits

java.lang.String dataUnits
Data type as fct of histogram data type


minDataValue

float minDataValue
Minimum value expected for current hist[] data


maxDataValue

float maxDataValue
Maximum value expected for current hist[] data


maxGrayPixel

int maxGrayPixel
Maximum gray value for pixel


dispPixC

char[] dispPixC
Picture buffer char[] of image to display after a segmentation. Note this is read either from the pix? variable or from the file if the pix? variable is null.


dispName

java.lang.String dispName
Name of image to display after a segmentation


nPixels

int nPixels
The pixWidth*pixHeight


dispPixFile

java.lang.String dispPixFile
File of image to display after a segmentation. Used if dispPixC is null.


dispPixWorking

char[] dispPixWorking
Picture buffer char[] of image to display after a segmentation. Note this is read either from the pix? variable or from the file if the pix? variable is null.


selImgIdx

int selImgIdx
image index


nPixList

int nPixList

pixNameList

java.lang.String[] pixNameList
list of display picture names for choices


pixMenuList

java.lang.String[] pixMenuList
list of display picture menu commands for choices


pixFileList

java.lang.String[] pixFileList

pixClist

char[][] pixClist
List of display pix associate char[] images


pixGrayBits

int[] pixGrayBits
list of max gray pixel sizes of pixClist pixels


pImg

java.awt.Image pImg
Image to display


preferedCanvasSize

java.awt.Dimension preferedCanvasSize

splitPanelFlag

boolean splitPanelFlag
to use spiltPane or not

Class Seg2Dgel.Sg2viewImage extends javax.swing.JPanel implements Serializable

serialVersionUID: 0L

Serialized Fields

ROI_NONE

int ROI_NONE

ROI_CW

int ROI_CW

ROI_ND

int ROI_ND

ROI_DBUG

int ROI_DBUG

ROI_PIXDUMP

int ROI_PIXDUMP

MAX_ROI

int MAX_ROI
max roi


VIEW_HEIGHT

int VIEW_HEIGHT
Height of the frame with and without histogram


cwRoi

Roi cwRoi
ROI for computing window


roiND

Roi roiND
""ND",ROI_ND instance


dbRoi

Roi dbRoi
Debugging window for -debug: window


dpRoi

Roi dpRoi
Debugging window for -pixdump: window


roiName

java.lang.String roiName
name for show ROI CW overlay


roiCode

int roiCode
code for specific ROI overlays


sg2

Seg2Dgel sg2
instance of main class


sig

Sg2showImage sig
popup Image viewer GUI


cal

CalibrateOD cal
instance of calibrate


dbSample

DbSample dbSample
instance of current sample


si

ScrollableImage si
scroller for image display


dol

DrawOverlays dol
instance of DrawOverlays


viewWidth

int viewWidth

viewHeight

int viewHeight

nPixels

int nPixels
The pixWidth*pixHeight


cWidth

int cWidth
canvas width


cHeight

int cHeight
canvas height


paintCtr

int paintCtr
for debugging


pixHeight

int pixHeight
pixel height


pixWidth

int pixWidth
pixel width


xImg

int xImg
image address (x,y)+(xBase,yBase)


yImg

int yImg
image address (x,y)+(xBase,yBase)


roiList

RoiList roiList
list of ROIs for drawing


maxRoi

int maxRoi