Serialized Form

Package gov.nih.mipav.model.algorithms

Class gov.nih.mipav.model.algorithms.AlgorithmNetworkSnake.SnakeInitialiser extends java.lang.Object implements Serializable

Serialized Fields

externalNodes

java.util.ArrayList<AlgorithmNetworkSnake.SnakeInitialiser.Node> externalNodes

internalNodes

java.util.ArrayList<AlgorithmNetworkSnake.SnakeInitialiser.Node> internalNodes

linkingNodes

java.util.ArrayList<AlgorithmNetworkSnake.SnakeInitialiser.Node> linkingNodes

mergeThreshold

double mergeThreshold

nodeList

java.util.TreeMap<AlgorithmNetworkSnake.tuple2i,AlgorithmNetworkSnake.SnakeInitialiser.Node> nodeList

recordRate

int recordRate

wallPositions

java.util.ArrayList<java.util.ArrayList<java.awt.Point>> wallPositions

Class gov.nih.mipav.model.algorithms.AlgorithmNetworkSnake.SnakeInitialiser.Node extends java.lang.Object implements Serializable

Serialized Fields

anchor

AlgorithmNetworkSnake.AnchorPosition anchor

junctionNeighbours

java.util.ArrayList<AlgorithmNetworkSnake.SnakeInitialiser.Node> junctionNeighbours

neighbours

java.util.ArrayList<AlgorithmNetworkSnake.SnakeInitialiser.Node> neighbours

x

int x

y

int y

Class gov.nih.mipav.model.algorithms.ContourPlot.BlankCanvasFallback extends javax.swing.JComponent implements Serializable

serialVersionUID:

1L

Serialized Fields

displayBuffer

ContourPlot.Img displayBuffer

isRenderPDFAsImage

boolean isRenderPDFAsImage

isRenderSvgAsImage

boolean isRenderSvgAsImage

mainRenderBuffer

ContourPlot.Img mainRenderBuffer

obs_allbits

java.awt.image.ImageObserver obs_allbits

pickingRenderBuffer

ContourPlot.Img pickingRenderBuffer

renderer

ContourPlot.Renderer renderer

repaintIsSheduled

java.util.concurrent.atomic.AtomicBoolean repaintIsSheduled

Class gov.nih.mipav.model.algorithms.ContourPlot.ImageSaver.ImageSaverException extends java.lang.RuntimeException implements Serializable

serialVersionUID:

-2590926614530103717L

Class gov.nih.mipav.model.algorithms.ContourPlot.ParallelForEachExecutor extends java.util.concurrent.CountedCompleter<java.lang.Void> implements Serializable

serialVersionUID:

1L

Serialized Fields

action

java.util.function.Consumer<? super T> action

spliterator

java.util.Spliterator<T> spliterator

Class gov.nih.mipav.model.algorithms.LIBSVM.svm_model extends java.lang.Object implements Serializable

Serialized Fields

l

int l

label

int[] label

nr_class

int nr_class

nSV

int[] nSV

param

LIBSVM.svm_parameter param

prob_density_marks

double[] prob_density_marks

probA

double[] probA

probB

double[] probB

rho

double[] rho

SV

LIBSVM.svm_node[][] SV

sv_coef

double[][] sv_coef

sv_indices

int[] sv_indices

Class gov.nih.mipav.model.algorithms.LIBSVM.svm_node extends java.lang.Object implements Serializable

Serialized Fields

index

int index

value

double value

Class gov.nih.mipav.model.algorithms.LIBSVM.svm_parameter extends java.lang.Object implements Serializable

Serialized Fields

C

double C

cache_size

double cache_size

coef0

double coef0

degree

int degree

eps

double eps

gamma

double gamma

kernel_type

int kernel_type

nr_weight

int nr_weight

nu

double nu

p

double p

probability

int probability

shrinking

int shrinking

svm_type

int svm_type

weight

double[] weight

weight_label

int[] weight_label

Class gov.nih.mipav.model.algorithms.LIBSVM.svm_problem extends java.lang.Object implements Serializable

Serialized Fields

l

int l

x

LIBSVM.svm_node[][] x

y

double[] y

Class gov.nih.mipav.model.algorithms.RandomNumberGen extends java.util.Random implements Serializable

serialVersionUID:

-4394735859119506749L

Package gov.nih.mipav.model.algorithms.filters.OpenCL.filters

Class gov.nih.mipav.model.algorithms.filters.OpenCL.filters.CLFFTPlan.InvalidContextException extends java.lang.Exception implements Serializable

Package gov.nih.mipav.model.dicomcomm

Class gov.nih.mipav.model.dicomcomm.DICOM_Exception extends java.lang.Exception implements Serializable

serialVersionUID:

4502658752483534014L

Class gov.nih.mipav.model.dicomcomm.DICOM_ObjectList extends java.util.Vector implements Serializable

serialVersionUID:

5505943813889560828L

Package gov.nih.mipav.model.file

Class gov.nih.mipav.model.file.DTIParameters extends java.lang.Object implements Serializable

Serialized Fields

bMatrixVals

double[][] bMatrixVals

bValues

double[] bValues

gradients

double[][] gradients

numVolumes

int numVolumes

Class gov.nih.mipav.model.file.FileDicomKey extends ModelSerialCloneable implements Serializable

serialVersionUID:

-8327760986088567748L

Serialized Fields

key

java.lang.String key

The dicom tag identifier in the format 'group,element'. 'x' is allowed in the group number for wildcards in the dicom dictionary. E.g., '0002,0010' or '50xx,00E1'.

Class gov.nih.mipav.model.file.FileDicomSQ extends ModelSerialCloneable implements Serializable

serialVersionUID:

-6705966363824982534L

Serialized Fields

sequence

java.util.Vector<FileDicomSQItem> sequence

Sequences are composed of items (DICOM items) and store in a vector object.

writeAsUnknownLength

boolean writeAsUnknownLength

Whether the sequence should be written using an unknown length

Class gov.nih.mipav.model.file.FileDicomSQItem extends FileDicomTagTable implements Serializable

Serialized Fields

writeAsUnknownLength

boolean writeAsUnknownLength

Whether the sequence should be written using an unknown length

Class gov.nih.mipav.model.file.FileDicomTag extends ModelSerialCloneable implements Serializable

serialVersionUID:

-5648244595999602634L

Serialized Fields

element

int element

Integer element word (in hexadecimal).

group

int group

Integer group word (in hexadecimal).

length

int length

Length of the tag as defined in the input image.

tagInfo

FileDicomTagInfo tagInfo

Pointer to more information about this tag, read in and contained within the dicom dictionary.

value

java.lang.Object value

Actual value of the tag (may be an array of elements).

valueRepresentation

FileDicomTagInfo.VR valueRepresentation

Value representation for this tag, if the tags in this dicom file have explicit VRs. If the dicom tags have implicit VRs, then the DicomDictionary VR is used.

Class gov.nih.mipav.model.file.FileDicomTagInfo extends ModelSerialCloneable implements Serializable

serialVersionUID:

3009696612758502873L

Serialized Fields

key

FileDicomKey key

The DICOM tag 'group,element' key indicating what tag this information pertains to.

keyword

java.lang.String keyword

The tag keyword (no spaces).

name

java.lang.String name

The real world DICOM tag name.

valueMultiplicity

int valueMultiplicity

Allowed value multiplicity (vm) for this tag.

valueRepresentation

FileDicomTagInfo.VR valueRepresentation

DICOM value representation (vr) for this tag.

version

java.lang.String version

Version of the tag. Usually '2' or '3', although some tags get strings like 'GEM' or 'TSH' when the tag is from a private manufacturer.

Class gov.nih.mipav.model.file.FileDicomTagTable extends java.lang.Object implements Serializable

serialVersionUID:

-7828203960779215940L

Serialized Fields

childTagTables

FileDicomTagTable[] childTagTables

A list of tag tables which point to this as their reference tag table.

isReferenceTagTable

boolean isReferenceTagTable

Whether this tag table is a reference table (meaning it contains all of the tags for a given fileInfo and does not need to refer anywhere else when retrieving values).

parentFileInfo

FileInfoDicom parentFileInfo

The dicom file info that this tag table belongs to. Used to update file info fields based on tag table changes.

referenceTagTable

FileDicomTagTable referenceTagTable

The reference table to check when a tag is not found in this table. If this table is a reference table, then the value should be this and no checking of the referenceTagTable should take place.

tagTable

java.util.Hashtable<FileDicomKey,FileDicomTag> tagTable

Tags unique to this slice, or all of the tags for this slice if this is a reference tag table.

vr_type

FileInfoDicom.VRtype vr_type

VR_type to indicate explicit/implicit nature of tags contained in tag table

Class gov.nih.mipav.model.file.FileImageXML.Thumbnail extends javax.swing.JComponent implements Serializable

serialVersionUID:

6645327578121170860L

Serialized Fields

brightness

int brightness

DOCUMENT ME!

contrast

float contrast

DOCUMENT ME!

data

int[] data

img

java.awt.Image img

DOCUMENT ME!

imgHeight

int imgHeight

DOCUMENT ME!

imgWidth

int imgWidth

DOCUMENT ME!

memImage

java.awt.image.MemoryImageSource memImage

DOCUMENT ME!

Class gov.nih.mipav.model.file.FileInfoAfni extends FileInfoBase implements Serializable

serialVersionUID:

5706392093050163138L

Serialized Fields

acquisitionDuration

float acquisitionDuration

DOCUMENT ME!

AFNIOrigExtents

int[] AFNIOrigExtents

DOCUMENT ME!

AFNIOrigResolutions

float[] AFNIOrigResolutions

DOCUMENT ME!

AFNITypeString

int AFNITypeString

DOCUMENT ME!

AFNIViewType

int AFNIViewType

DOCUMENT ME!

alpha

WildMagic.LibFoundation.Mathematics.Vector3f alpha

DOCUMENT ME!

alphaArray

WildMagic.LibFoundation.Mathematics.Vector3f[] alphaArray

arrays of 12 values used for Talairach conversions.

anotherPt

WildMagic.LibFoundation.Mathematics.Vector3f anotherPt

DOCUMENT ME!

anteriorPt

WildMagic.LibFoundation.Mathematics.Vector3f anteriorPt

markers used for +ACPC to +tlrc transformation.

beta

WildMagic.LibFoundation.Mathematics.Vector3f beta

DOCUMENT ME!

betaArray

WildMagic.LibFoundation.Mathematics.Vector3f[] betaArray

DOCUMENT ME!

botX

int[] botX

DOCUMENT ME!

botY

int[] botY

DOCUMENT ME!

botZ

int[] botZ

DOCUMENT ME!

brickLabsString

java.lang.String[] brickLabsString

Name for each sub-brick

brickStatAux

float[] brickStatAux

DOCUMENT ME!

datasetName

java.lang.String datasetName

DOCUMENT ME!

firstPt

WildMagic.LibFoundation.Mathematics.Vector3f firstPt

DOCUMENT ME!

funcType

int funcType

DOCUMENT ME!

gamma

WildMagic.LibFoundation.Mathematics.Vector3f gamma

DOCUMENT ME!

gammaArray

WildMagic.LibFoundation.Mathematics.Vector3f[] gammaArray

DOCUMENT ME!

gapArray

int[] gapArray

If planeGap is not -1, then gapArray contains the values at which zero filling gaps are present.

highXmm

float highXmm

DOCUMENT ME!

highYmm

float highYmm

DOCUMENT ME!

highZmm

float highZmm

DOCUMENT ME!

idcodeDate

java.lang.String idcodeDate

DOCUMENT ME!

idcodeString

java.lang.String idcodeString

DOCUMENT ME!

inferiorEdge

WildMagic.LibFoundation.Mathematics.Vector3f inferiorEdge

DOCUMENT ME!

inferiorPt

WildMagic.LibFoundation.Mathematics.Vector3f inferiorPt

DOCUMENT ME!

isDicom

boolean isDicom

DOCUMENT ME!

label1

java.lang.String label1

DOCUMENT ME!

label2

java.lang.String label2

DOCUMENT ME!

leftPt

WildMagic.LibFoundation.Mathematics.Vector3f leftPt

DOCUMENT ME!

lowXmm

float lowXmm

DOCUMENT ME!

lowYmm

float lowYmm

DOCUMENT ME!

lowZmm

float lowZmm

DOCUMENT ME!

marksFlag

int marksFlag

DOCUMENT ME!

marksFlags

int marksFlags

DOCUMENT ME!

noteDate001

java.lang.String noteDate001

DOCUMENT ME!

noteDate002

java.lang.String noteDate002

DOCUMENT ME!

noteDate003

java.lang.String noteDate003

DOCUMENT ME!

noteDate004

java.lang.String noteDate004

DOCUMENT ME!

noteDate005

java.lang.String noteDate005

DOCUMENT ME!

noteNumber001

java.lang.String noteNumber001

DOCUMENT ME!

noteNumber002

java.lang.String noteNumber002

DOCUMENT ME!

noteNumber003

java.lang.String noteNumber003

DOCUMENT ME!

noteNumber004

java.lang.String noteNumber004

DOCUMENT ME!

noteNumber005

java.lang.String noteNumber005

DOCUMENT ME!

origDicom

boolean origDicom

DOCUMENT ME!

OriginalPosteriorMargin

WildMagic.LibFoundation.Mathematics.Vector3f OriginalPosteriorMargin

DOCUMENT ME!

OriginalSuperiorEdge

WildMagic.LibFoundation.Mathematics.Vector3f OriginalSuperiorEdge

DOCUMENT ME!

pcie

WildMagic.LibFoundation.Mathematics.Vector3f pcie

The posterior commisure inferior edge. pcie is the coordinated transformed inferiorEdge

planeGap

int planeGap

Used to show a zero filling gap in functional AFNI images -1 if no gap is present, 0 = x gap, 1 = y gap, 2 = z gap Interpolation is not performed across zero filling gaps.

posteriorMargin

WildMagic.LibFoundation.Mathematics.Vector3f posteriorMargin

DOCUMENT ME!

posteriorPt

WildMagic.LibFoundation.Mathematics.Vector3f posteriorPt

DOCUMENT ME!

rightPt

WildMagic.LibFoundation.Mathematics.Vector3f rightPt

DOCUMENT ME!

rr

WildMagic.LibFoundation.Mathematics.Vector3f rr

rr is the dicom ordered original image Talairach center location.

rrArray

WildMagic.LibFoundation.Mathematics.Vector3f[] rrArray

DOCUMENT ME!

slicesWithTimeOffsets

int slicesWithTimeOffsets

DOCUMENT ME!

statAux

float[] statAux

DOCUMENT ME!

subBrickNumber

int subBrickNumber

Specifies sub-brick that this file-info belongs to

superiorEdge

WildMagic.LibFoundation.Mathematics.Vector3f superiorEdge

markers used for +orig to +ACPC transformation.

superiorPt

WildMagic.LibFoundation.Mathematics.Vector3f superiorPt

DOCUMENT ME!

TalairachCenter

WildMagic.LibFoundation.Mathematics.Vector3f TalairachCenter

DOCUMENT ME!

tAxisOffsets

float[] tAxisOffsets

If TAXIS_NUMS[1] > 0, then this array gives the time offsets of the

timeOrigin

float timeOrigin

DOCUMENT ME!

timeStep

float timeStep

DOCUMENT ME!

topX

int[] topX

DOCUMENT ME!

topY

int[] topY

DOCUMENT ME!

topZ

int[] topZ

DOCUMENT ME!

translation

WildMagic.LibFoundation.Mathematics.Vector3f translation

DOCUMENT ME!

zAxisOffset

float zAxisOffset

DOCUMENT ME!

zAxisStep

float zAxisStep

DOCUMENT ME!

Class gov.nih.mipav.model.file.FileInfoAnalyze extends FileInfoBase implements Serializable

serialVersionUID:

7319414471012796383L

Serialized Fields

aux_file

java.lang.String aux_file

DOCUMENT ME!

bitpix

short bitpix

Bits per pixel. Valid values include: 1, 8, 16, 32, 64, 24(rgb).

cal_max

float cal_max

Range of calibration values.

cal_min

float cal_min

Values of 0.0 for both fields imply that no calibration min and max values are used !

cal_units

java.lang.String cal_units

Specifies the name of the calibration unit.

compressed

float compressed

Indicates if compression is used. Default is -1 indicating no compression

data_type

java.lang.String data_type

Unknown use 10 chars.

datatype

short datatype

Stores the image data type DT_NONE = 0; DT_UNKNOWN = 0; DT_BINARY = 1; DT_UNSIGNED_CHAR = 2; DT_SIGNED_SHORT = 4; DT_UNSIGNED_SHORT = 4; DT_SIGNED_INT = 8; DT_FLOAT = 16; DT_COMPLEX = 32; DT_DOUBLE = 64; DT_RGB = 128; DT_ALL = 255;

db_name

java.lang.String db_name

Name of file with a length of 18 chars.

descrip

java.lang.String descrip

String with a max character length of 80 used to describe image.

dim_un0

short dim_un0

Unused.

exp_date

java.lang.String exp_date

String with a max character length of 10 used to indicate the experiment date.

exp_time

java.lang.String exp_time

String with a max character length of 10 used to indicate the experiment time.

extents

int extents

Should be 16384.

field_skip

int field_skip

Unknown length.

funused1

float funused1

MIPAV uses this variable to define the X-axis origin.

funused2

float funused2

MIPAV uses this variable to define the Y-axis origin.

funused3

float funused3

MIPAV uses this variable to define the Z-axis origin.

generated

java.lang.String generated

Unknown use. Length of 10.

glmax

int glmax

Maximum pixel values for the entire dataset.

glmin

int glmin

Minimum pixel values for the entire database.

hist_un0

java.lang.String hist_un0

Unknown use. Length of 3.

hkey_un0

char hkey_un0

Unknown use. Length of 1.

omax

int omax

Unknown use.

omin

int omin

Unknown use.

orient

byte orient

DOCUMENT ME!

originator

java.lang.String originator

Unknown use. Length of 10.

patient_id

java.lang.String patient_id

Patient's ID. Length of 10.

regular

char regular

I think it means data has uniform spacing (resolutions).

scannum

java.lang.String scannum

Scan ID Length of 10.

session_error

short session_error

Unknown use.

sizeof_hdr

int sizeof_hdr

Always of length 348.

smax

int smax

Unknown use.

smin

int smin

Unknown use.

start_field

int start_field

Unknown use.

unused1

short unused1

MIPAV uses this variable to define the X-axis orientation.

unused2

short unused2

MIPAV uses this variable to define the Y-axis orientation.

unused3

short unused3

MIPAV uses this variable to define the Z-axis orientation.

verified

float verified

Unknown use.

views

int views

Unknown use.

vols_added

int vols_added

Unknown use.

vox_units

java.lang.String vox_units

specifies the spatial units of measure for a voxel.

Class gov.nih.mipav.model.file.FileInfoAvi extends FileInfoBase implements Serializable

serialVersionUID:

-5524135420342875298L

Serialized Fields

numFrames

int numFrames

DOCUMENT ME!

totalFrames

int totalFrames

DOCUMENT ME!

Class gov.nih.mipav.model.file.FileInfoBase extends ModelSerialCloneable implements Serializable

serialVersionUID:

6605143084958470864L

Serialized Fields

axisOrientation

int[] axisOrientation

axis orientation used to support image ordering and display for medical images. We support the right hand rule where the origin is the upper left hand of the image with the positive axis.

x - left to right y - top to botton z - into the screen

cameraMake

java.lang.String cameraMake

cameraModel

java.lang.String cameraModel

compressionType

int compressionType

Used to indicate if the raw data was also compression (0 = no, 1 = zip).

dataType

int dataType

The data type of the data (i.e. byte, short, float ...

dimResolutions

float[] dimResolutions

Pixel or voxel resolutions for each dimension - default = 1.0. The z-dim resolution should be the spacing between the centers of adjacent slices; sometimes this will match the slice thickness, but not always.

endianess

boolean endianess

The Endianess of the data. Intel, DEC Alpha ***** LSB first byte LITTLE_ENDIAN (false) Motorola (MAC), SPARC (SUN), SGI IRIX MSB first byte BIG_ENDIAN (true)

exposureTime

double exposureTime

extents

int[] extents

Image extents as decribed by the image file format.

fileFormat

int fileFormat

File format as defined in the Filebase.

fileName

java.lang.String fileName

The file name which includes the path information.

fileSuffix

java.lang.String fileSuffix

File suffix (ex. "jpg")

FNumber

double FNumber

focalLength

double focalLength

focalLength35

double focalLength35

imageOrientation

int imageOrientation

Indicates the image orientation (i.e. Axial, Coronal, ...)

ISOSpeedRating

double ISOSpeedRating

lut

ModelLUT lut

ModelLUT associated with fileinfo

max

double max

Image maximum intensity for single channel image.

maxB

double maxB

Image maximum intensity for the blue channel of an RGB image.

maxG

double maxG

Image maximum intensity for the green channel of an RGB image.

maxR

double maxR

Image maximum intensity for the red channel of an RGB image.

min

double min

Image minimum intensity for single channel image.

minB

double minB

Image minimum intensity for the blue channel of an RGB image.

minG

double minG

Image minimum intensity for the green channel of an RGB image.

minR

double minR

Image minimum intensity for the red channel of an RGB image.

modality

int modality

Indicates the modality (medical image type) of the dataset.

multiFile

boolean multiFile

Flag that indicates whether or not the image is in multiple files (tiff).

offset

int offset

Number of bytes to the start the image data - ie. the header length

origin

float[] origin

The origin to support image locations (ie. DICOM, MINC ...) it is relative to the image origin. the positive axis are right hand rule.

x - left to right y - top to botton z - into the screen

originalEndianess

boolean originalEndianess

Used for checking for endianess changes in the ModelImage.reallocate(final int type) function.

photometric

short photometric

Image minimum intensity for single channel image.

pixelPadValue

java.lang.Short pixelPadValue

Some file formats have a pad value for pixels outside the acquisition domain.

rescaleIntercept

double rescaleIntercept

DICOM images have a rescale y-intercept value that we have also kept in the base.

rescaleSlope

double rescaleSlope

DICOM images have a rescale slope value that we have also kept in the base.

sliceThickness

float sliceThickness

The thickness of individual slices in the image volume. Stored in dicom tag 0018,0050 and various other places in other file formats.

tagDescription

java.util.Vector<java.lang.String> tagDescription

tagName

java.util.Vector<java.lang.String> tagName

unitsOfMeasure

FileInfoBase.Unit[] unitsOfMeasure

Describes the units of measure for the dataset.

Class gov.nih.mipav.model.file.FileInfoBase.Unit.UnsupportedUnitConversion extends java.lang.Exception implements Serializable

Class gov.nih.mipav.model.file.FileInfoBFLOAT extends FileInfoBase implements Serializable

Class gov.nih.mipav.model.file.FileInfoBioRad extends FileInfoBase implements Serializable

serialVersionUID:

4850818161207332016L

Serialized Fields

imageDescription

java.lang.String imageDescription

DOCUMENT ME!

Class gov.nih.mipav.model.file.FileInfoBMP extends FileInfoBase implements Serializable

Class gov.nih.mipav.model.file.FileInfoBRUKER extends FileInfoBase implements Serializable

serialVersionUID:

292865443840539139L

Serialized Fields

acqGradMat

double[][][] acqGradMat

activeReceivers

java.lang.String[] activeReceivers

BValuesPerDirection

int[] BValuesPerDirection

delayBetweenVolumes

double delayBetweenVolumes

deriveGains

java.lang.String deriveGains

diffusionExperimentsPerDirection

int diffusionExperimentsPerDirection

diffusionGradientAmplitude

double[] diffusionGradientAmplitude

diffusionGradientDuration

double[] diffusionGradientDuration

diffusionGradientSeparation

double[] diffusionGradientSeparation

diffusionGradientSwitchingScheme

java.lang.String diffusionGradientSwitchingScheme

diffusionMeasurementMode

java.lang.String diffusionMeasurementMode

diffusionModuleDuration

double diffusionModuleDuration

diffusionModuleEchoDelay

double diffusionModuleEchoDelay

diffusionPreparation

java.lang.String diffusionPreparation

directScaledSwitching

java.lang.String directScaledSwitching

echoTime

double echoTime

effectiveSpectralBandwidth

double effectiveSpectralBandwidth

haveZResol

boolean haveZResol

Whether the z resolution is set in the acqp or reco files

inversionTime

double inversionTime

The inversion time of an MR scan.

maximumPossibleBValue

double maximumPossibleBValue

method

java.lang.String method

numberOfA0Images

int numberOfA0Images

numberOfAverages

int numberOfAverages

numberOfDiffusionDirections

int numberOfDiffusionDirections

numberOfObjects

int numberOfObjects

numberOfRepetitions

int numberOfRepetitions

numberOfSegments

int numberOfSegments

patientPosition

java.lang.String patientPosition

PPIAcceleration

int PPIAcceleration

recoInpSize

int recoInpSize

recoSize

int recoSize

The size of the reconstruction

refocusingPulseType

java.lang.String refocusingPulseType

repetitionTime

double repetitionTime

scanTime

java.lang.String scanTime

showAllParameters

java.lang.String showAllParameters

sliceGradient

double sliceGradient

sliceGradientDuration

double sliceGradientDuration

sliceGradientLimit

double sliceGradientLimit

sliceSeparationMode

java.lang.String sliceSeparationMode

The slice inversion time of the scan

TESliceSpoilerGradientsAmplitude

double TESliceSpoilerGradientsAmplitude

TEsliceSpoilerGradientsDuration

double TEsliceSpoilerGradientsDuration

TESliceSpoilerGradientsLimit

double TESliceSpoilerGradientsLimit

totalNumberOfDiffusionExperiments

int totalNumberOfDiffusionExperiments

usedSliceThickness

double usedSliceThickness

useMultipleReceivers

java.lang.String useMultipleReceivers

zeroFillFactorRead

double zeroFillFactorRead

Class gov.nih.mipav.model.file.FileInfoCheshire extends FileInfoBase implements Serializable

serialVersionUID:

4776092584175024015L

Class gov.nih.mipav.model.file.FileInfoCOR extends FileInfoBase implements Serializable

serialVersionUID:

8537756143101265528L

Serialized Fields

fov

float fov

DOCUMENT ME!

te

float te

DOCUMENT ME!

ti

float ti

DOCUMENT ME!

tr

float tr

DOCUMENT ME!

Class gov.nih.mipav.model.file.FileInfoCZI extends FileInfoBase implements Serializable

Serialized Fields

acquisitionMode

java.lang.String[] acquisitionMode

acquisitionTime

java.lang.String acquisitionTime

address

java.lang.String address

author

java.lang.String author

channelDescription

java.lang.String[] channelDescription

channelID

java.lang.String[] channelID

channelName

java.lang.String[] channelName

channelsFound

int channelsFound

channelWeight

java.lang.String[] channelWeight

city

java.lang.String city

color

java.lang.String[] color

comment

java.lang.String comment

condenserContrast

java.lang.String[] condenserContrast

contrastMethod

java.lang.String[] contrastMethod

country

java.lang.String country

creationDate

java.lang.String creationDate

description

java.lang.String description

detectionWavelength

java.lang.String[] detectionWavelength

detectorBinning

java.lang.String[] detectorBinning

detectorDigitalGain

java.lang.String[] detectorDigitalGain

detectorEMGain

java.lang.String[] detectorEMGain

detectorGain

java.lang.String[] detectorGain

detectorOffset

java.lang.String[] detectorOffset

detectorReadOutRate

java.lang.String[] detectorReadOutRate

detectorUseBrightnessContrastCorrection

java.lang.String[] detectorUseBrightnessContrastCorrection

detectorVoltage

java.lang.String[] detectorVoltage

dimB

int dimB

dimH

int dimH

dimI

int dimI

dimM

int dimM

dimR

int dimR

dimS

int dimS

dimV

int dimV

displayName

java.lang.String displayName

dyeDatabaseID

java.lang.String[] dyeDatabaseID

dyeID

java.lang.String[] dyeID

email

java.lang.String email

emissionWavelength

java.lang.String[] emissionWavelength

excitationWavelength

java.lang.String[] excitationWavelength

experimenterName

java.lang.String experimenterName

exposureTime

java.lang.String[] exposureTime

fax

java.lang.String fax

firstName

java.lang.String firstName

fluor

java.lang.String[] fluor

focusPosition

java.lang.String focusPosition

gamma

java.lang.String[] gamma

high

java.lang.String[] high

ID

java.lang.String ID

illuminationType

java.lang.String[] illuminationType

illuminationWavelength

java.lang.String[] illuminationWavelength

imageName

java.lang.String imageName

institution

java.lang.String institution

keywords

java.lang.String keywords

lastName

java.lang.String lastName

lightSourceAttenuation

java.lang.String[] lightSourceAttenuation

lightSourceIntensity

java.lang.String[] lightSourceIntensity

lightSourceWavelength

java.lang.String[] lightSourceWavelength

low

java.lang.String[] low

microscopeSystem

java.lang.String microscopeSystem

microscopeType

java.lang.String microscopeType

middleName

java.lang.String middleName

mode

java.lang.String[] mode

NACondenser

java.lang.String[] NACondenser

NDFilter

java.lang.String[] NDFilter

originalScanData

java.lang.String originalScanData

phone

java.lang.String phone

pinholeGeometry

java.lang.String[] pinholeGeometry

pinholeSize

java.lang.String[] pinholeSize

pinholeSizeAiry

java.lang.String[] pinholeSizeAiry

pockelCellSetting

java.lang.String[] pockelCellSetting

points

java.lang.String[] points

rating

java.lang.String rating

ratio

java.lang.String[] ratio

reflector

java.lang.String[] reflector

sectionThickness

java.lang.String[] sectionThickness

stageXPosition

java.lang.String stageXPosition

stageYPosition

java.lang.String stageYPosition

state

java.lang.String state

subType

java.lang.String subType

thumbnail

java.lang.String thumbnail

timeStamps

double[] timeStamps

title

java.lang.String title

userName

java.lang.String userName

validBitsPerPixel

java.lang.String validBitsPerPixel

Class gov.nih.mipav.model.file.FileInfoDicom extends FileInfoBase implements Serializable

serialVersionUID:

-3072660161266896186L

Serialized Fields

bitsAllocated

short bitsAllocated

Bits allocated per pixel.

bitsStored

short bitsStored

Bits stored per pixel>

bytesPerPixel

short bytesPerPixel

Number of bytes per pixel.

containsDICM

boolean containsDICM

True if the DICOM file has the ID DICM at beginning at file pointer 128.

displayType

int displayType

Data type.

highBit

short highBit

instanceNumber

int instanceNumber

DICOM instance number.

isCurrentTagSQ

boolean isCurrentTagSQ

Whether the tag currently being processed and read in is a sequence tag.

isEnhancedDicom

boolean isEnhancedDicom

whether it is enhanced dicom or not

lut

ModelLUT lut

LUT for pre-processing of dicom file

multiFrame

boolean multiFrame

True indicates image has multiple image planes in a single file.

olderVersion

boolean olderVersion

True is image format < DICOM 3.0.

orientation

java.lang.String orientation

Orientation - SAGITTAL, CORONAL, AXIAL.

originalDataType

int originalDataType

photometricInterp

java.lang.String photometricInterp

Type of image - color, monochrome etc.

pixelPaddingValue

java.lang.Short pixelPaddingValue

Pixel Padding Value (0028, 0120). Value of pixels added to non-rectangular image to pad to rectangular format.

pixelRepresentation

short pixelRepresentation

DICOM tag (0028, 0103) -1 = undefined 0 = unsigned 1 = signed

planarConfig

short planarConfig

0 = RGB, RGB, 1 = R R R, G G G, B B B.

RLETAMARencapsulatedOffset

int RLETAMARencapsulatedOffset

sliceLocation

float sliceLocation

DICOM slice location.

tagTable

FileDicomTagTable tagTable

Stores all the information about the DICOM tags.

vr_type

FileInfoDicom.VRtype vr_type

VR type can be IMPLICIT or EXPLICIT.

xLocation

float xLocation

DICOM x coordianate of the slice location.

yLocation

float yLocation

DICOM y coordianate of the slice location.

zLocation

float zLocation

DICOM z coordianate of the slice location.

Class gov.nih.mipav.model.file.FileInfoDM3 extends FileInfoBase implements Serializable

serialVersionUID:

6502186871127970871L

Class gov.nih.mipav.model.file.FileInfoFits extends FileInfoBase implements Serializable

serialVersionUID:

8285638648507573285L

Serialized Fields

author

java.lang.String author

BUNIT

java.lang.String BUNIT

CTYPE1

java.lang.String CTYPE1

CTYPE2

java.lang.String CTYPE2

CTYPE3

java.lang.String CTYPE3

CTYPE4

java.lang.String CTYPE4

CTYPE5

java.lang.String CTYPE5

CUNIT1

java.lang.String CUNIT1

CUNIT2

java.lang.String CUNIT2

CUNIT3

java.lang.String CUNIT3

CUNIT4

java.lang.String CUNIT4

CUNIT5

java.lang.String CUNIT5

dateAcquired

java.lang.String dateAcquired

dateProcessed

java.lang.String dateProcessed

dateWritten

java.lang.String dateWritten

focalRatio

float focalRatio

instrument

java.lang.String instrument

jobName

java.lang.String jobName

object

java.lang.String object

observer

java.lang.String observer

origin

java.lang.String origin

timeAcquired

java.lang.String timeAcquired

timeProcessed

java.lang.String timeProcessed

timeWritten

java.lang.String timeWritten

Class gov.nih.mipav.model.file.FileInfoGESigna4X extends FileInfoBase implements Serializable

serialVersionUID:

-6230885244735581982L

Serialized Fields

aCenter

float aCenter

DOCUMENT ME!

actualReceiveFrequency

int actualReceiveFrequency

DOCUMENT ME!

actualTransmitFrequency

int actualTransmitFrequency

DOCUMENT ME!

aNormal

float aNormal

DOCUMENT ME!

apCenter

float apCenter

DOCUMENT ME!

arrythmiaRejectionRatio

short arrythmiaRejectionRatio

DOCUMENT ME!

autoCenterFrequency

java.lang.String autoCenterFrequency

DOCUMENT ME!

autoManualPrescan

java.lang.String autoManualPrescan

DOCUMENT ME!

averageSAR

float averageSAR

DOCUMENT ME!

averagesNumber

short averagesNumber

DOCUMENT ME!

bitsPerPixel

short bitsPerPixel

DOCUMENT ME!

cardiacHeartRate

short cardiacHeartRate

DOCUMENT ME!

cardiacPhaseNumber

short cardiacPhaseNumber

DOCUMENT ME!

cardiacRepTime

java.lang.String cardiacRepTime

DOCUMENT ME!

changedValues

java.lang.String changedValues

DOCUMENT ME!

coilName

java.lang.String coilName

DOCUMENT ME!

coilType

java.lang.String coilType

DOCUMENT ME!

collapseImage

java.lang.String collapseImage

DOCUMENT ME!

concatenatedSATSelection

java.lang.String concatenatedSATSelection

DOCUMENT ME!

contiguousSlices

java.lang.String contiguousSlices

DOCUMENT ME!

contrastAgent

java.lang.String contrastAgent

DOCUMENT ME!

contrastAmount

float contrastAmount

DOCUMENT ME!

contrastDescription

java.lang.String contrastDescription

DOCUMENT ME!

contrastUsed

java.lang.String contrastUsed

DOCUMENT ME!

cPhase

short cPhase

DOCUMENT ME!

defaultLevel

short defaultLevel

DOCUMENT ME!

defaultWindow

short defaultWindow

DOCUMENT ME!

diognostician

java.lang.String diognostician

DOCUMENT ME!

echoNumber

short echoNumber

DOCUMENT ME!

echoTrainLength

int echoTrainLength

DOCUMENT ME!

endX

float endX

DOCUMENT ME!

endY

float endY

DOCUMENT ME!

endZ

float endZ

DOCUMENT ME!

excitationsNumber

float excitationsNumber

DOCUMENT ME!

extremityCoil

java.lang.String extremityCoil

DOCUMENT ME!

fieldOfView

float fieldOfView

DOCUMENT ME!

fieldStrength

short fieldStrength

DOCUMENT ME!

fileBlocks

short fileBlocks

DOCUMENT ME!

fileFormat

java.lang.String fileFormat

DOCUMENT ME!

flipAngle

short flipAngle

DOCUMENT ME!

fractionalEffectiveEcho

java.lang.String fractionalEffectiveEcho

DOCUMENT ME!

gatingType

java.lang.String gatingType

DOCUMENT ME!

gatingType2

java.lang.String gatingType2

DOCUMENT ME!

graphicallyPrescribed

java.lang.String graphicallyPrescribed

DOCUMENT ME!

histogramPresent

java.lang.String histogramPresent

DOCUMENT ME!

history

java.lang.String history

DOCUMENT ME!

horizontalLandmark

float horizontalLandmark

DOCUMENT ME!

hospitalName

java.lang.String hospitalName

DOCUMENT ME!

imageCreationDate

java.lang.String imageCreationDate

DOCUMENT ME!

imageCreationTime

java.lang.String imageCreationTime

DOCUMENT ME!

imageFieldStrength

int imageFieldStrength

DOCUMENT ME!

imageHeaderBlocks

short imageHeaderBlocks

DOCUMENT ME!

imageHeaderCreatorProcess

java.lang.String imageHeaderCreatorProcess

DOCUMENT ME!

imageHeaderCreatorTask

short imageHeaderCreatorTask

DOCUMENT ME!

imageHeaderDisclaimer

short imageHeaderDisclaimer

DOCUMENT ME!

imageHeaderID

java.lang.String imageHeaderID

DOCUMENT ME!

imageHeaderRevisionNumber

java.lang.String imageHeaderRevisionNumber

DOCUMENT ME!

imageLocation

float imageLocation

DOCUMENT ME!

imageMatrix

short imageMatrix

DOCUMENT ME!

imageMode

java.lang.String imageMode

DOCUMENT ME!

imageNumber

java.lang.String imageNumber

DOCUMENT ME!

imageOffset

short imageOffset

DOCUMENT ME!

imageRawDataSystemID

java.lang.String imageRawDataSystemID

DOCUMENT ME!

imagesAllocated

short imagesAllocated

DOCUMENT ME!

imageShape

java.lang.String imageShape

DOCUMENT ME!

imageSpacing

float imageSpacing

DOCUMENT ME!

imagesPerCardiacCycle

short imagesPerCardiacCycle

DOCUMENT ME!

imageSystemGenerationID

java.lang.String imageSystemGenerationID

DOCUMENT ME!

imageType

java.lang.String imageType

DOCUMENT ME!

imgBLHC_A

float imgBLHC_A

DOCUMENT ME!

imgBLHC_R

float imgBLHC_R

DOCUMENT ME!

imgBLHC_S

float imgBLHC_S

DOCUMENT ME!

imgTLHC_A

float imgTLHC_A

DOCUMENT ME!

imgTLHC_R

float imgTLHC_R

DOCUMENT ME!

imgTLHC_S

float imgTLHC_S

DOCUMENT ME!

imgTRHC_A

float imgTRHC_A

DOCUMENT ME!

imgTRHC_R

float imgTRHC_R

DOCUMENT ME!

imgTRHC_S

float imgTRHC_S

DOCUMENT ME!

interImageDelay

float interImageDelay

DOCUMENT ME!

landmarkCounter

int landmarkCounter

DOCUMENT ME!

longitudinalAnatomicalReference

java.lang.String longitudinalAnatomicalReference

DOCUMENT ME!

minimumDelay

short minimumDelay

DOCUMENT ME!

MRIProcessName

java.lang.String MRIProcessName

DOCUMENT ME!

numberOfEchos

short numberOfEchos

DOCUMENT ME!

obliquePlane

java.lang.String obliquePlane

DOCUMENT ME!

operator

java.lang.String operator

DOCUMENT ME!

orientation

java.lang.String orientation

DOCUMENT ME!

originalSeriesNumber

java.lang.String originalSeriesNumber

DOCUMENT ME!

patientAge

java.lang.String patientAge

DOCUMENT ME!

patientID

java.lang.String patientID

DOCUMENT ME!

patientName

java.lang.String patientName

DOCUMENT ME!

patientSex

java.lang.String patientSex

DOCUMENT ME!

patientStatus

java.lang.String patientStatus

DOCUMENT ME!

patientWeight

int patientWeight

DOCUMENT ME!

pauseInterval

short pauseInterval

DOCUMENT ME!

pauseTime

float pauseTime

DOCUMENT ME!

PCVelocityEncoding

short PCVelocityEncoding

DOCUMENT ME!

peakSAR

float peakSAR

DOCUMENT ME!

pfSwapped

java.lang.String pfSwapped

DOCUMENT ME!

phaseContrastFlowAxis

java.lang.String phaseContrastFlowAxis

DOCUMENT ME!

pImage2

java.lang.String pImage2

DOCUMENT ME!

pixelSize

float pixelSize

DOCUMENT ME!

planeName

java.lang.String planeName

DOCUMENT ME!

planeType

java.lang.String planeType

DOCUMENT ME!

position

java.lang.String position

DOCUMENT ME!

prescanReceiveAttenuation1

short prescanReceiveAttenuation1

DOCUMENT ME!

prescanReceiveAttenuation2

short prescanReceiveAttenuation2

DOCUMENT ME!

prescribedImageNumbers

java.lang.String prescribedImageNumbers

DOCUMENT ME!

prescribedSeriesNumbers

java.lang.String prescribedSeriesNumbers

DOCUMENT ME!

projectionAngle

float projectionAngle

DOCUMENT ME!

psdDay

short psdDay

DOCUMENT ME!

psdFileName

java.lang.String psdFileName

DOCUMENT ME!

psdHour

short psdHour

DOCUMENT ME!

psdMinute

short psdMinute

DOCUMENT ME!

psdMonth

short psdMonth

DOCUMENT ME!

psdName

java.lang.String psdName

DOCUMENT ME!

psdSeconds

short psdSeconds

DOCUMENT ME!

psdYear

short psdYear

DOCUMENT ME!

pSeries2

java.lang.String pSeries2

DOCUMENT ME!

pulseSequence

java.lang.String pulseSequence

DOCUMENT ME!

pulseSequenceMode

java.lang.String pulseSequenceMode

DOCUMENT ME!

pulseSequenceSubtype

java.lang.String pulseSequenceSubtype

DOCUMENT ME!

R1

short R1

DOCUMENT ME!

R2

short R2

DOCUMENT ME!

rawDataStudyNumber

java.lang.String rawDataStudyNumber

DOCUMENT ME!

rawDataSystemID

java.lang.String rawDataSystemID

DOCUMENT ME!

rCenter

float rCenter

DOCUMENT ME!

receiveAttenuatorSetting

short receiveAttenuatorSetting

DOCUMENT ME!

recommendedReceiveAttenuation

int recommendedReceiveAttenuation

DOCUMENT ME!

recommendedReceiveFrequency

int recommendedReceiveFrequency

DOCUMENT ME!

recommendedTransmitAttenuation

int recommendedTransmitAttenuation

DOCUMENT ME!

recommendedTransmitFrequency

int recommendedTransmitFrequency

DOCUMENT ME!

referringPhysician

java.lang.String referringPhysician

DOCUMENT ME!

requestedNumber

java.lang.String requestedNumber

DOCUMENT ME!

researchMode

java.lang.String researchMode

DOCUMENT ME!

rlCenter

float rlCenter

DOCUMENT ME!

rNormal

float rNormal

DOCUMENT ME!

round

java.lang.String round

DOCUMENT ME!

SARMonitored

java.lang.String SARMonitored

DOCUMENT ME!

satSelections

java.lang.String satSelections

DOCUMENT ME!

satXLoc1

short satXLoc1

DOCUMENT ME!

satXLoc2

short satXLoc2

DOCUMENT ME!

satXThick

short satXThick

DOCUMENT ME!

satYLoc1

short satYLoc1

DOCUMENT ME!

satYLoc2

short satYLoc2

DOCUMENT ME!

satYThick

short satYThick

DOCUMENT ME!

satZLoc1

short satZLoc1

DOCUMENT ME!

satZLoc2

short satZLoc2

DOCUMENT ME!

satZThick

short satZThick

DOCUMENT ME!

scanAcquisitionNumber

short scanAcquisitionNumber

DOCUMENT ME!

scanARRs

int scanARRs

DOCUMENT ME!

scanMatrixX

short scanMatrixX

DOCUMENT ME!

scanMatrixY

short scanMatrixY

DOCUMENT ME!

scanProtocolName

java.lang.String scanProtocolName

DOCUMENT ME!

sCenter

float sCenter

DOCUMENT ME!

scIma

java.lang.String scIma

DOCUMENT ME!

scSer

java.lang.String scSer

DOCUMENT ME!

series

java.lang.String series

DOCUMENT ME!

seriesDate

java.lang.String seriesDate

DOCUMENT ME!

seriesDescription

java.lang.String seriesDescription

DOCUMENT ME!

seriesHeaderBlocks

short seriesHeaderBlocks

DOCUMENT ME!

seriesHeaderID

java.lang.String seriesHeaderID

DOCUMENT ME!

seriesHeaderRevisionNumber

java.lang.String seriesHeaderRevisionNumber

DOCUMENT ME!

seriesNumber

java.lang.String seriesNumber

DOCUMENT ME!

seriesProcessName

java.lang.String seriesProcessName

DOCUMENT ME!

seriesPSDName

java.lang.String seriesPSDName

DOCUMENT ME!

seriesRawDataSystemID

java.lang.String seriesRawDataSystemID

DOCUMENT ME!

seriesSystemGenerationID

java.lang.String seriesSystemGenerationID

DOCUMENT ME!

seriesTaskID

short seriesTaskID

DOCUMENT ME!

seriesTime

java.lang.String seriesTime

DOCUMENT ME!

seriesType

java.lang.String seriesType

DOCUMENT ME!

siCenter

float siCenter

DOCUMENT ME!

sliceMultiplier

short sliceMultiplier

DOCUMENT ME!

sliceQuantity

short sliceQuantity

DOCUMENT ME!

sliceThicknessDisclaimer

java.lang.String sliceThicknessDisclaimer

DOCUMENT ME!

sNormal

float sNormal

DOCUMENT ME!

startX

float startX

DOCUMENT ME!

startY

float startY

DOCUMENT ME!

startZ

float startZ

DOCUMENT ME!

studyDate

java.lang.String studyDate

DOCUMENT ME!

studyDescription

java.lang.String studyDescription

DOCUMENT ME!

studyHeaderBlocks

short studyHeaderBlocks

DOCUMENT ME!

studyHeaderID

java.lang.String studyHeaderID

DOCUMENT ME!

studyHeaderRevisionNumber

java.lang.String studyHeaderRevisionNumber

DOCUMENT ME!

studyNumber

java.lang.String studyNumber

DOCUMENT ME!

studyTaskID

short studyTaskID

DOCUMENT ME!

studyTime

java.lang.String studyTime

DOCUMENT ME!

suppressionTechnique

java.lang.String suppressionTechnique

DOCUMENT ME!

surfaceCoilIntensityCorrection

java.lang.String surfaceCoilIntensityCorrection

DOCUMENT ME!

surfaceCoilsCorrectionType

java.lang.String surfaceCoilsCorrectionType

DOCUMENT ME!

surfaceCoilType

java.lang.String surfaceCoilType

DOCUMENT ME!

swapPF

java.lang.String swapPF

DOCUMENT ME!

systemConfigHospitalName

java.lang.String systemConfigHospitalName

DOCUMENT ME!

systemGenerationID

java.lang.String systemGenerationID

DOCUMENT ME!

systemID

java.lang.String systemID

Use serialVersionUID for interoperability.

tableLocation

float tableLocation

DOCUMENT ME!

tablePosition

float tablePosition

DOCUMENT ME!

te

float te

DOCUMENT ME!

TE2

float TE2

DOCUMENT ME!

thickness

float thickness

DOCUMENT ME!

ti

float ti

DOCUMENT ME!

totalPostTriggerDelayTime

float totalPostTriggerDelayTime

DOCUMENT ME!

tr

float tr

DOCUMENT ME!

transmitAttenuatorSetting

short transmitAttenuatorSetting

DOCUMENT ME!

ts

float ts

DOCUMENT ME!

user0

float user0

DOCUMENT ME!

user1

float user1

DOCUMENT ME!

user2

float user2

DOCUMENT ME!

user3

float user3

DOCUMENT ME!

user4

float user4

DOCUMENT ME!

user5

float user5

DOCUMENT ME!

user6

float user6

DOCUMENT ME!

user7

float user7

DOCUMENT ME!

user8

float user8

DOCUMENT ME!

user9

float user9

DOCUMENT ME!

variableBandwidth

java.lang.String variableBandwidth

DOCUMENT ME!

vascularImagingFlags

java.lang.String vascularImagingFlags

DOCUMENT ME!

vasMode

java.lang.String vasMode

DOCUMENT ME!

vencScalingFactor

float vencScalingFactor

DOCUMENT ME!

verticalAnatomicalReference

java.lang.String verticalAnatomicalReference

DOCUMENT ME!

verticalLandmark

float verticalLandmark

DOCUMENT ME!

year

int year

DOCUMENT ME!

Class gov.nih.mipav.model.file.FileInfoGESigna5X extends FileInfoBase implements Serializable

serialVersionUID:

-4456298776612648834L

Serialized Fields

actualDateTime

int actualDateTime

18.

addValue

int addValue

112 - value to add to pixels.

anatomicalRef

java.lang.String anatomicalRef

84 - 3 bytes - Anatomical Reference.

autoXmtFreq

int autoXmtFreq

282 Auto Center Frequency (0.1 Hz).

autoXmtGain

short autoXmtGain

286 Auto Transmit Gain (0.1 dB).

calFldStr

int calFldStr

388 Calibrated Field Strength (x10 uGauss).

cellSpace

float cellSpace

54 Cell spacing.

cenFreq

short cenFreq

296 Center frequency method.

checkSum

int checkSum

54 - 16 bit end around carry sum of pixels **** (read as unsigned short).

coilName

java.lang.String coilName

362 17 characters.

coilType

short coilType

360.

compress

short compress

120 image compression type for allocation.

compression

int compression

20 0 as is 1 retangular 2 packed 3 compressed 4 compressed and packed.

contig

short contig

222 Continuous slices flag.

contrastMode

short contrastMode

106.

cPhase

short cPhase

260 Total cardiac phase prescribed.

cPhaseNum

short cPhaseNum

646 Cardiac phase number.

currentSeconds

long currentSeconds

DOCUMENT ME!

dasType

short dasType

68 DAS type.

dateTime

int dateTime

14 allocation date time.

day

int day

DOCUMENT ME!

dbdt

float dbdt

838 peak rate of change in gradient field, tesla/sec.

dbdtPer

float dbdtPer

842 limit in units of percent of theoretical curve.

dcnDensity

short dcnDensity

74 Decon kernel density.

dcnLen

short dcnLen

72 Number of elements in Decon kernel.

dcnShiftCnt

short dcnShiftCnt

78 Decon kernel shift count.

dcnStepSize

short dcnStepSize

76 Decon kernel stepsize.

depth

int depth

16 - number of bits.

detect

short detect

44 detector type.

diagRad

java.lang.String diagRad

245 - 33 bytes Diagnostician/Radiologist.

diskid

byte diskid

6 - (internal use) Disk ID.

echo1Alpha

float echo1Alpha

240.

echo1Beta

float echo1Beta

244.

echo1Level

short echo1Level

250.

echo1Window

short echo1Window

248.

echo2Alpha

float echo2Alpha

252.

echo2Beta

float echo2Beta

256.

echo2Level

short echo2Level

262.

echo2Window

short echo2Window

260.

echo3Alpha

float echo3Alpha

264.

echo3Beta

float echo3Beta

268.

echo3Level

short echo3Level

274.

echo3Window

short echo3Window

272.

echo4Alpha

float echo4Alpha

276.

echo4Beta

float echo4Beta

280.

echo4Level

short echo4Level

286.

echo4Window

short echo4Window

284.

echo5Alpha

float echo5Alpha

288.

echo5Beta

float echo5Beta

292.

echo5Level

short echo5Level

298.

echo5Window

short echo5Window

296.

echo6Alpha

float echo6Alpha

300.

echo6Beta

float echo6Beta

304.

echo6Level

short echo6Level

310.

echo6Window

short echo6Window

308.

echo7Alpha

float echo7Alpha

312.

echo7Beta

float echo7Beta

316.

echo7Level

short echo7Level

322.

echo7Window

short echo7Window

320.

echo8Alpha

float echo8Alpha

324.

echo8Beta

float echo8Beta

328.

echo8Level

short echo8Level

334.

echo8Window

short echo8Window

332.

echoNum

short echoNum

212 echo number.

echoTime

int echoTime

202 pulse echo time (usec).

effEchoSpace

short effEchoSpace

828 effective echo spacing for EPI.

endLoc

float endLoc

128 - Last scan location (L/S).

endRAS

java.lang.String endRAS

126 - 1 byte - RAS letter for last scan location (L/S).

entry

int entry

80 - Patient Entry.

equipmentUID

java.lang.String equipmentUID

400 - 32 bytes.

estdbdtPer

float estdbdtPer

846 PSD estimated limit in units of percent.

estdbdtts

float estdbdtts

850 PSD estimated limit in Tesla/sec.

ETL

short ETL

640 Echo train length.

exAllocKey

java.lang.String exAllocKey

334 - 13 bytes Process that allocated this record.

examNum

int examNum

8 - Read as unsigned short.

examType

java.lang.String examType

305 - 3 bytes i.e. "MR" or "CT"

exChecksum

int exChecksum

356 (internal use) Exam Record Checksum.

exComplete

int exComplete

360 (internal use) Exam complete flag.

exDateTime

int exDateTime

208 - Exam date/time stamp.

exDeltaCount

int exDeltaCount

348 (internal use) Number of updates to header.

exDesc

java.lang.String exDesc

282 - 23 bytes Exam Description.

exDiskID

java.lang.String exDiskID

6 - 1 byte (internal use) Disk ID for this exam.

exFormat

short exFormat

308 Exam format.

exLastMod

int exLastMod

328 Date/Time of Last Change.

exModelCnt

int exModelCnt

424 (internal use) Number of 3D Models.

exModelNum

int exModelNum

420 (internal use) Last Model Number Used.

exModelsData

int exModelsData

432.

exModelsLen

int exModelsLen

428.

exNumArch

int exNumArch

368 (internal use) Number of Series Archived.

exNumSeries

int exNumSeries

372 (internal use) Number of Series Existing.

exNumUnSer

int exNumUnSer

384 (internal use) Number of Unstored series.

exPadding

java.lang.String exPadding

508 - 516 bytes.

exProspCnt

int exProspCnt

408 (internal use) number of Prosp/Scout Series.

exProspData

int exProspData

416.

exProspLen

int exProspLen

412 (internal use) Prosp/Scout Sers Keys in Exam.

exSeriesCt

int exSeriesCt

364 (innternl use) Last Series Number Used.

exSeriesData

int exSeriesData

380.

exSeriesLen

int exSeriesLen

376 (internal use) Series keys for this exam.

exStat

short exStat

436 Patient status.

exSysID

java.lang.String exSysID

318 - 9 bytes Creator suite and host.

exToArchCnt

int exToArchCnt

396 (internal use) number of Unarchived Series.

exToArchiveData

int exToArchiveData

404.

exToArchiveLen

int exToArchiveLen

400 (internal use) Unarchived series Keys in Exam.

exUniq

short exUniq

4 (internal use) The Make_Unique Flag.

exUnSeriesData

int exUnSeriesData

392.

exUnSeriesLen

int exUnSeriesLen

388 (internal use) Unstored Sers Keys in Exam.

exVersCre

java.lang.String exVersCre

352 - 2 bytes Genesis Version - Created.

exVersCur

java.lang.String exVersCur

354 - 2 bytes Genesis Version - Now.

firstAxTime

long firstAxTime

310 Start time(secs) of first axial in exam.

flax

short flax

574 Phase contrast flow axis.

forImgRev

java.lang.String forImgRev

190 foreign image revision.

FOVX

float FOVX

34.

FOVY

float FOVY

38.

fracEcho

short fracEcho

642 Fractional echo-effective TE flag.

freqDir

short freqDir

742 Frequency Direction.

gOffsetX

short gOffsetX

818 gradient offset in x-direction.

gOffsetY

short gOffsetY

820 gradient offset in y-direction.

gOffsetZ

short gOffsetZ

822 gradient offset in z-direction.

gpre

short gpre

400 Graphically prescribed.

heartRate

short heartRate

224 cardiac heart rate (beats per minute).

height

int height

12 - height of image.

hist

java.lang.String hist

134 - 61 bytes Patient history.

hospName

java.lang.String hospName

10 - 33 characters hospital name.

hour

int hour

DOCUMENT ME!

im_alloc_key

java.lang.String im_alloc_key

506 13 characters Process that allocated this record.

im_archived

int im_archived

544 (internal use) Image Archive Flag.

im_checksum

int im_checksum

540 (internal use) AcqRecon record checksum.

im_complete

int im_complete

548 (Internal use) Image Complete Flag.

im_lastmod

int im_lastmod

520.

im_pds_a

int im_pds_a

528 PixelData size - as stored.

im_pds_c

int im_pds_c

532 PixelData size - compressed.

im_pds_u

int im_pds_u

536 PixelData size - Uncompressed.

im_verscre

java.lang.String im_verscre

524 2 characters Genesis Version - Created.

im_verscur

java.lang.String im_verscur

526 2 characters Genesis Version - Now.

image_type

short image_type

584 Magnitude, Phase, Imaginary, or Real.

image_uid

java.lang.String image_uid

746 32 characters Image Unique ID.

imageDimX

float imageDimX

42.

imageDimY

float imageDimY

46.

imageNum

short imageNum

12.

imagesData

int imagesData

212.

imagesLen

int imagesLen

208 - (internal use) Image keys for this Series.

imgBRHC_A

float imgBRHC_A

182 Bottom Right Hand Corner Anterior.

imgBRHC_R

float imgBRHC_R

178 Bottom Right Hand Corner Right.

imgBRHC_S

float imgBRHC_S

186 Bottom Right Hand Corner Superior.

imgCtrA

float imgCtrA

134 Anterior(i.e. X positive to anterior)

imgCtrR

float imgCtrR

130 Right (i.e. X positive to right)

imgCtrS

float imgCtrS

138 Superior(i.e. X positive to superior)

imgHdrExamNum

int imgHdrExamNum

8 - Read as unsigned short.

imgHdrSeriesNum

short imgHdrSeriesNum

10.

imgHdrSuiteID

java.lang.String imgHdrSuiteID

0 - 4 bytes - suite ID.

imgLevel

short imgLevel

654 Level value.

imgLoc

float imgLoc

126.

imgPCycle

short imgPCycle

246 Images per cardiac .1 cycle.

imgrx

short imgrx

110 - image from which prescribed.

imgTLHC_A

float imgTLHC_A

158 Top Left Hand Corner Anterior.

imgTLHC_R

float imgTLHC_R

154 Top Left Hand Corner Right.

imgTLHC_S

float imgTLHC_S

162 Top Left Hand Corner Superior.

imgTRHC_A

float imgTRHC_A

170 Top Right Hand Corner Anterior.

imgTRHC_R

float imgTRHC_R

166 Top Right Hand Corner Right.

imgTRHC_S

float imgTRHC_S

174 Top Right Hand Corner Superior.

imgWindow

short imgWindow

652 Window value.

iMode

short iMode

298 Imaging mode.

integrity

short integrity

736 GE Image Integrity.

intr_del

long intr_del

402 Interimage/interloc delay (uSec).

inverTime

int inverTime

198 pulse inversion time (usec).

iOptions

long iOptions

300 Imaging options.

IVCntrstAgent

java.lang.String IVCntrstAgent

72 - 17 bytes.

landmarkUID

java.lang.String landmarkUID

368 - 32 bytes.

lenCmprsnHdr

int lenCmprsnHdr

76 - length of.

lenDBHdr

int lenDBHdr

108 - length of.

lenExamHdr

int lenExamHdr

136 - length of.

lenGraphics

int lenGraphics

100 - length of.

lenHistoHdr

int lenHistoHdr

84 - length of.

lenImageHdr

int lenImageHdr

152 - length of.

lenSeriesHdr

int lenSeriesHdr

144 - length of.

lenSuiteHdr

int lenSuiteHdr

128 - length of.

lenTextPlane

int lenTextPlane

92 - length of.

lenUID

int lenUID

60 - length of UID.

lenUnpackHdr

int lenUnpackHdr

68 - length of.

lenUsrDefData

int lenUsrDefData

120 - length of.

lmHor

float lmHor

88 - Horizontal landmark.

loc_ras

java.lang.String loc_ras

124 1 byte RAS letter of image location.

magicNumber

int magicNumber

0x494d4746 or "IMGF" or 1229801286.

magStrength

int magStrength

80 Magnet strength (in gauss).

magWgtFlag

short magWgtFlag

730 Magnitude Weighting Flag.

matrixSizeX

short matrixSizeX

30.

matrixSizeY

short matrixSizeY

32.

minDAT

int minDAT

256 minimum delay after trigger (usec).

minute

int minute

DOCUMENT ME!

mobileLoc

java.lang.String mobileLoc

470 - 4 bytes.

monSar

short monSar

238 Monitor SAR Flag.

month

java.lang.String month

DOCUMENT ME!

monthIndex

int monthIndex

DOCUMENT ME!

mr_flip

short mr_flip

254 Flip angle for grass scans (degrees).

mr_padding

java.lang.String mr_padding

990 spare space.

nEchoes

short nEchoes

210 number of echoes.

negScanSpacing

float negScanSpacing

858 Negative scan spacing for overlap slices.

nEPI

short nEPI

826 number of EPI shots.

NEX

float NEX

218 Number of excitations.

norm_A

float norm_A

146 Normal A coordinate.

norm_R

float norm_R

142 Normal R coordinate.

norm_S

float norm_S

150 Normal S coordinate.

nPhase

int nPhase

738 Number of Phases.

numCells

long numCells

46 Number of cells in det.

numDcnK

short numDcnK

70 Number of Decon kernels.

numUnImg

int numUnImg

216 - (internal use) Number of Unstored Images.

obliquePlane

int obliquePlane

270.

offsetFreq

int offsetFreq

862 offset Frequency_Mag. Transfer

op

java.lang.String op

278 - 4 bytes operator.

OralCntrstAgent

java.lang.String OralCntrstAgent

89 - 17 bytes.

panSysID

java.lang.String panSysID

59 - 9 bytes - Archiver Suite and Host.

patian

short patian

124 Patient Age notation.

patientAge

short patientAge

122.

patientID

java.lang.String patientID

84 - 13 bytes.

patientName

java.lang.String patientName

97 - 25 bytes.

patientSex

short patientSex

126.

patWeight

int patWeight

128 Patient Weight.

pauseInterval

short pauseInterval

264 Pause interval (slices).

pauseTime

float pauseTime

266.

pixelID

java.lang.String pixelID

58 - 14 bytes.

pixelResX

float pixelResX

50.

pixelResY

float pixelResY

54.

planeType

short planeType

114.

position

int position

76 - Patient Poisition.

prepPulse

short prepPulse

644 Prepartory pulse option.

prescan_r1

short prescan_r1

288 PreScan R1-Analog.

prescan_r2

short prescan_r2

290 PreScan R2-DIgital.

preScanOpts

short preScanOpts

816 bitmap of prescan options.

proj_alg

short proj_alg

596 Projection Algorithm.

proj_name

java.lang.String proj_name

598 13 characters Projection Algorithm Name.

projectAngle

float projectAngle

498 Projection Angle.

protocolFlag

short protocolFlag

332 Non-zero indicates protocol exam.

prSysID

java.lang.String prSysID

50 - 9 bytes - Primary Receiver Suite and Host.

ps_flag

short ps_flag

580 Auto/Manual Prescan flag.

ps_status

short ps_status

582 Bitmap of changed values.

psd_dateTime

int psd_dateTime

342 PSD Creation Date and Time.

psd_iname

java.lang.String psd_iname

346 13 characters.

pSeq

short pSeq

304 Pulse sequence.

ptrCmprsnHdr

int ptrCmprsnHdr

72 - pointer to.

ptrDBHdr

int ptrDBHdr

104 - pointer to.

ptrExamHdr

int ptrExamHdr

132 - pointer to.

ptrGraphics

int ptrGraphics

96 - pointer to.

ptrHistoHdr

int ptrHistoHdr

80 - pointer to.

ptrImage

int ptrImage

4 - byte displacement to pixel data.

ptrImageHdr

int ptrImageHdr

148 - pointer to.

ptrSeriesHdr

int ptrSeriesHdr

140 - pointer to.

ptrSuiteHdr

int ptrSuiteHdr

124 - pointer to.

ptrTextPlane

int ptrTextPlane

88 - pointer to.

ptrUID

int ptrUID

56 - pointer to unique image identifier (UID).

ptrUnpackHdr

int ptrUnpackHdr

64 - pointer to.

ptrUsrDefData

int ptrUsrDefData

116 - pointer to.

pulseRepTime

int pulseRepTime

194 pulse repetition time (usec).

pulseSeqMode

short pulseSeqMode

306.

pulseSeqName

java.lang.String pulseSeqName

308 33 characters.

rawRunNum

int rawRunNum

384 RawData Run Number.

rbpm

short rbpm

832 respiratory rate, breaths per minute.

rcvGain1

short rcvGain1

250 Actual receive gain analog (.1db).

rcvGain2

short rcvGain2

252 Actual receive gain digital (.1db).

rcvType

short rcvType

836 type of receiver used.

refImg

java.lang.String refImg

650 Reference image field.

refPhy

java.lang.String refPhy

212 - 33 bytes Referring Physician.

repTime

float repTime

242 Cardiac repertition time.

reqnum

java.lang.String reqnum

195 - 13 bytes Requisition Number.

rtPoint

short rtPoint

834 repiratory trigger point as percent of max.

sarAvg

float sarAvg

230 Average SAR.

sarAvgHead

float sarAvgHead

854 Avg head SAR.

sarPeak

float sarPeak

234 Peak SAR.

satbits

short satbits

552 Bitmap of SAT selections.

satxloc1

short satxloc1

556 R-side pulse rel to lndmrk.

satxloc2

short satxloc2

558 L-side pulse rel to lndmrk.

satxthick

short satxthick

568 Thickness of X-axis SAT pulse.

satyloc1

short satyloc1

560 A-side SAT pulse rel to lndmrk.

satyloc2

short satyloc2

562 P-side SAT pulse rel to lndmrk.

satythick

short satythick

570 Thickness of Y-axis SAT pulse.

satzloc1

short satzloc1

564 S-side SAT pulse rel to lndmrk.

satzloc2

short satzloc2

566 I-side SAT pulse rel to lndmrk.

satzthick

short satzthick

572 Thickness of Z-axis SAT pulse.

scanAcqNum

short scanAcqNum

728 Scan Acquisition Number.

scanProtocolName

java.lang.String scanProtocolName

92 - 25 bytes - Scan Protocol Name.

scanSpacing

float scanSpacing

116 Spacing between scans (mm?).

scanType

short scanType

74 - Scout or Axial (for CT).

scic

short scic

554 Surface Coil Intensity Correction Flag.

scoutType

short scoutType

122 Scout Type (AP or lateral).

screenFormat

short screenFormat

112 - (8ቬ) bits.

scTime

float scTime

22 scan duration in seconds.

seActualDT

int seActualDT

16 - Actual Series Date/Time Stamp.

seAllocKey

java.lang.String seAllocKey

154 - 13 bytes - Process that allocated this record.

seChecksum

int seChecksum

188 - (internal use) Series Record checksum.

seComplete

int seComplete

192 - (internal use) Series Complete Flag.

seconds

int seconds

DOCUMENT ME!

seContrast

short seContrast

118 - greater than zero if image used contrast (L/S).

seDateTime

int seDateTime

12 - Allocation series Date/Time Stamp.

seDeltaCnt

int seDeltaCnt

168 - (internal use) number of updates to header.

seDesc

java.lang.String seDesc

20 - 30 bytes - Series Description.

seDiskID

byte seDiskID

6 - Disk ID for this series - GE internal.

seExamNo

short seExamNo

8 - Exam number.

seImageCt

int seImageCt

200 - (internal use) Last Image Number Used.

seLandmarkCnt

int seLandmarkCnt

136 - Landmark counter.

seLastMod

int seLastMod

150 - Date/Time of last change.

seNacq

short seNacq

140 - Number of acquisitions.

seNumArch

int seNumArch

196 - (internal use) Number of Images Archived.

seNumImages

int seNumImages

204 - (internal use) Number of Images Existing.

sePadding

java.lang.String sePadding

432 - 588 bytes.

sePdsA

float sePdsA

176 - Pixel data size - as stored.

sePdsC

float sePdsC

180 - Pixel data size - Compressed.

sePdsU

float sePdsU

184 - Pixel data size - Uncompressed.

sePlane

short sePlane

72 - Most-like Plane (for L/S).

sePseq

short sePseq

132 - Last Pulse Sequence Used (L/S).

seriesNum

short seriesNum

10 - series number.

seriesUID

java.lang.String seriesUID

336 - 32 bytes.

serrx

short serrx

108 - series from which prescribed.

serviceID

java.lang.String serviceID

454 - 16 bytes.

seSortOrder

short seSortOrder

134 - (internal use) Image Sort Order (L/S).

seSource

short seSource

70 - Series from which prescribed.

seSuid

java.lang.String seSuid

0 - 4 bytes - Suite ID for this Series.

seType

short seType

68 - Series Type.

seUniq

short seUniq

4 - The make-unique flag - GE internal.

seVersCre

java.lang.String seVersCre

172 - 2 bytes - Genesis Version - Created.

seVersCur

java.lang.String seVersCur

174 - 2 bytes - Genesis Version - Now.

sliceThickness

float sliceThickness

26 in mm.

slocfov

int slocfov

274 Slice offsets on frequency axis.

slop_float_1

float slop_float_1

676 Float Slop Field 1.

slop_float_2

float slop_float_2

680 Float Slop Field 2.

slop_float_3

float slop_float_3

684 Float Slop Field 3.

slop_float_4

float slop_float_4

688 Float Slop Field 4.

slop_float_5

float slop_float_5

692 Float Slop Field 5.

slop_int_1

int slop_int_1

656 Integer Slop Field 1.

slop_int_2

int slop_int_2

660 Integer Slop Field 2.

slop_int_3

int slop_int_3

664 Integer Slop Field 3.

slop_int_4

int slop_int_4

668 Integer Slop Field 4.

slop_int_5

int slop_int_5

672 Integer Slop Field 5.

slop_int_6

int slop_int_6

974 Integer Slop Field 6.

slop_int_7

int slop_int_7

978 Integer Slop Field 7.

slop_int_8

int slop_int_8

982 Integer Slop Field 8.

slop_int_9

int slop_int_9

986 Integer Slop Field 9.

slop_str_1

java.lang.String slop_str_1

696 16 characters String Slop Field 1.

slop_str_2

java.lang.String slop_str_2

712 16 characters String Slop Field 2.

slquant

short slquant

398 Number of slices in this scan group.

sop_uid

java.lang.String sop_uid

778 32 characters Service Obj Clas Unique ID.

srcToDet

float srcToDet

58 Distance from source to detector.

srcToIso

float srcToIso

62 Distance from source to iso.

startAdjust

int startAdjust

startLoc

float startLoc

122 - First scan location (L/S).

startRAS

java.lang.String startRAS

120 - 1 byte - RAS letter for first scan location (L/S).

studyStatus

short studyStatus

506 Indicates if study has complete info (DICOM/genesis).

studyUID

java.lang.String studyUID

474 - 32 bytes.

suiteID

java.lang.String suiteID

0 - 4 bytes.

sumImg

java.lang.String sumImg

651 Summary image field.

supp_tech

short supp_tech

392 SAT fat/water/none.

surfaceCoilType

short surfaceCoilType

380.

surfcext

short surfcext

382 Extremity Coil Flag.

swapPF

short swapPF

262 Swap phase-frequency axis.

tableDelta

float tableDelta

214.

tDel

int tDel

226 Delay time after trigger (msec).

te2

int te2

206 second echo echo (usec).

thk_disclmr

short thk_disclmr

578 Slice Thickness.

threshMax1

int threshMax1

628 Upper range of pixels 1.

threshMax2

int threshMax2

636 Upper range of pixels 2.

threshMin1

int threshMin1

624 Lower range of pixels 1.

threshMin2

int threshMin2

632 Lower range of pixels 2.

toArchiveCnt

int toArchiveCnt

228 - (internal use) number of Unarchived images.

toArchiveData

int toArchiveData

236.

toArchiveLen

int toArchiveLen

232 - (internal use) Unarchived images keys in Series.

trauma

short trauma

132 Trauma Flag.

trgWindow

short trgWindow

240 Trigger window (% of R-R interval).

tubeType

short tubeType

66.

unImagesData

int unImagesData

224.

unImagesLen

int unImagesLen

220 - (internal use) Unstored Image keys in Series.

uniq

short uniq

4 - (internal use) Make-Unique Flag.

uniqSysID

java.lang.String uniqSysID

438 - 16 bytes.

unOriginal

short unOriginal

824 identifies image as original or unoriginal.

user_bitmap

int user_bitmap

292 Bitmap defining user Cvs.

user0

float user0

406 User Variable 0.

user1

float user1

410 User Variable 1.

user10

float user10

446 User Variable 10.

user11

float user11

450 User Variable 11.

user12

float user12

454 User Variable 12.

user13

float user13

458 User Variable 13.

user14

float user14

462 User Variable 14.

user15

float user15

466 User Variable 15.

user16

float user16

470 User Variable 16.

user17

float user17

474 User Variable 17.

user18

float user18

478 User Variable 18.

user19

float user19

482 User Variable 19.

user2

float user2

414 User Variable 2.

user20

float user20

486 User Variable 20.

user21

float user21

490 User Variable 21.

user22

float user22

494 User Variable 22.

user23n

float user23n

588 User Variable 23.

user24

float user24

502 Concat Sat Type Flag.

user24n

float user24n

592 User Variable 24.

user25

float user25

878 User Variable 25.

user26

float user26

882 User Variable 26.

user27

float user27

886 User Variable 27.

user28

float user28

890 User Variable 28.

user29

float user29

894 User Variable 29.

user3

float user3

418 User Variable 3.

user30

float user30

898 User Variable 30.

user31

float user31

902 User Variable 31.

user32

float user32

906 User Variable 32.

user33

float user33

910 User Variable 33.

user34

float user34

914 User Variable 34.

user35

float user35

918 User Variable 35.

user36

float user36

922 User Variable 36.

user37

float user37

926 User Variable 37.

user38

float user38

930 User Variable 38.

user39

float user39

934 User Variable 39.

user4

float user4

422 User Variable 4.

user40

float user40

938 User Variable 40.

user41

float user41

942 User Variable 41.

user42

float user42

946 User Variable 42.

user43

float user43

950 User Variable 43.

user44

float user44

954 User Variable 44.

user45

float user45

958 User Variable 45.

user46

float user46

962 User Variable 46.

user47

float user47

966 User Variable 47.

user48

float user48

970 User variable 48.

user5

float user5

426 User Variable 5.

user6

float user6

430 User Variable 6.

user7

float user7

434 User Variable 7.

user8

float user8

438 User Variable 8.

user9

float user9

442 User Variable 9.

userFillMapLSW

int userFillMapLSW

874 Describes what process fills in the user CVs, ifcc or TIR.

userFillMapMSW

int userFillMapMSW

870 Describes what process fills in the user CVs, ifcc or TIR.

userUsageTag

int userUsageTag

866 Defines how following user CVs are to be filled in.

valueBg

int valueBg

32 - background value of non image locations.

varEcho

short varEcho

648 Variable echo flag.

vas_collapse

short vas_collapse

586 Collapse image.

vasMode

short vasMode

744 Vascular Mode.

vbw

float vbw

394 Variable Bandwidth (Hz).

venc

short venc

576 Phase contrast velocity encoding (mm/sec).

vencScale

float vencScale

732 Scale Weighting Venc (Velocity Encoding/PI).

viewsPerSeg

short viewsPerSeg

830 views per segment.

width

int width

8 - width of image.

xAxisRot

float xAxisRot

612 X axis rotation.

xBaseEnd

short xBaseEnd

144 - Ending number for baselines.

xBaseSt

short xBaseSt

142 - Starting number for baselines.

xenhEnd

short xenhEnd

148 - Ending number for enhanced scans.

xenhSt

short xenhSt

146 - Starting number for enhanced scans.

xmtFreq

int xmtFreq

278 Center Frequency (0.1 Hz).

xmtGain

short xmtGain

248 Actual transmit gain (.1 db).

yAxisRot

float yAxisRot

616 Yaxis rotation.

year

int year

DOCUMENT ME!

zAxisRot

float zAxisRot

620 Z axis rotation.

zeroCell

float zeroCell

50 Cell number at theta.

Class gov.nih.mipav.model.file.FileInfoICS extends FileInfoBase implements Serializable

serialVersionUID:

-4859517795116658689L

Serialized Fields

captureVersion

java.lang.String captureVersion

DOCUMENT ME!

channels

java.lang.String[] channels

DOCUMENT ME!

dataSetFileName

java.lang.String dataSetFileName

DOCUMENT ME!

exPhotonCnt

java.lang.String[] exPhotonCnt

DOCUMENT ME!

filterExposureTimeX

java.lang.String filterExposureTimeX

DOCUMENT ME!

filterFluorophoreX

java.lang.String[] filterFluorophoreX

DOCUMENT ME!

history

java.lang.String[] history

DOCUMENT ME!

labels

java.lang.String[] labels

DOCUMENT ME!

lambdaEm

java.lang.String[] lambdaEm

DOCUMENT ME!

lambdaEx

java.lang.String[] lambdaEx

DOCUMENT ME!

mapchannel

java.lang.String[] mapchannel

DOCUMENT ME!

numAperture

java.lang.String[] numAperture

DOCUMENT ME!

pinholeRadius

java.lang.String[] pinholeRadius

DOCUMENT ME!

plateChamberID

java.lang.String plateChamberID

DOCUMENT ME!

plateVesselID

java.lang.String plateVesselID

DOCUMENT ME!

probe

java.lang.String[] probe

DOCUMENT ME!

refrInxLensMedium

java.lang.String[] refrInxLensMedium

DOCUMENT ME!

refrInxMedium

java.lang.String[] refrInxMedium

DOCUMENT ME!

scilType

java.lang.String scilType

DOCUMENT ME!

sensorModel

java.lang.String sensorModel

DOCUMENT ME!

sensorType

java.lang.String sensorType

DOCUMENT ME!

specimen

java.lang.String[] specimen

DOCUMENT ME!

specimenSpecies

java.lang.String[] specimenSpecies

DOCUMENT ME!

version

java.lang.String version

DOCUMENT ME!

Class gov.nih.mipav.model.file.FileInfoImageXML extends FileInfoXML implements Serializable

serialVersionUID:

-6296437302928259711L

Serialized Fields

bodyPart

java.lang.String bodyPart

DOCUMENT ME!

currentPSetDesc

java.lang.String currentPSetDesc

String for the current PSet description (for key).

currentSurfacePath

java.lang.String currentSurfacePath

Used to keep track of the current surface.

currentVOIPath

java.lang.String currentVOIPath

Used to keep track of the current VOI.

diagnosis

java.lang.String diagnosis

DOCUMENT ME!

DOB

java.lang.String DOB

DOCUMENT ME!

equipmentName

java.lang.String equipmentName

Scan attributes. Optional XML tag.

height

int height

DOCUMENT ME!

history

java.lang.String history

The image history. Used by the NDAR meta-information generation dialog to write out the name of the zip file where the original data files are stored.

invest

boolean[] invest

DOCUMENT ME!

investigators

FileInfoImageXML.Investigator[] investigators

Investigators (up to 3). Optional XML tag.

linkedImagePath

java.lang.String linkedImagePath

linked image path (optional).

matrix

TransMatrix matrix

Transformation matrix.

protocol

java.lang.String protocol

DOCUMENT ME!

race

java.lang.String race

DOCUMENT ME!

scanDate

java.lang.String scanDate

DOCUMENT ME!

scanID

java.lang.String scanID

DOCUMENT ME!

scanTime

java.lang.String scanTime

DOCUMENT ME!

setTable

java.util.Hashtable<java.lang.String,XMLPSet> setTable

Hashtable for holding sets of parameters.

sex

java.lang.String sex

DOCUMENT ME!

subjectID

java.lang.String subjectID

DOCUMENT ME!

subjectName

java.lang.String subjectName

Subject's information.

surfaces

java.util.Hashtable<java.lang.String,FileInfoImageXML.SurfaceLink> surfaces

List of files which describe surfaces attached to this image.

VOIs

java.util.Hashtable<java.lang.String,FileInfoImageXML.VOILink> VOIs

List of files which describe VOIs attached to this image.

weight

int weight

DOCUMENT ME!

Class gov.nih.mipav.model.file.FileInfoImageXML.Investigator extends java.lang.Object implements Serializable

serialVersionUID:

-5267494343773142072L

Serialized Fields

affiliation

java.lang.String affiliation

Affiliation of investigator.

email

java.lang.String email

Investigator's email.

name

java.lang.String name

Name of investigator.

phone

java.lang.String phone

Investigator's phone number.

title

java.lang.String title

Title of investigator.

Class gov.nih.mipav.model.file.FileInfoImageXML.SurfaceLink extends java.lang.Object implements Serializable

serialVersionUID:

-3088783811309623463L

Serialized Fields

display

boolean display

Should the surface be displayed.

opacity

float opacity

Opacity of surface.

path

java.lang.String path

Path to surface.

Class gov.nih.mipav.model.file.FileInfoImageXML.VOILink extends java.lang.Object implements Serializable

serialVersionUID:

3856425069094626835L

Serialized Fields

display

boolean display

Display VOI with image.

path

java.lang.String path

Path to VOI.

Class gov.nih.mipav.model.file.FileInfoInterfile extends FileInfoBase implements Serializable

serialVersionUID:

1860672784494846816L

Serialized Fields

acquiredCardiacCycles

java.lang.String[] acquiredCardiacCycles

DOCUMENT ME!

acquiredCardiacCyclesIndex

int acquiredCardiacCyclesIndex

DOCUMENT ME!

acquiredStudyDuration

java.lang.String[] acquiredStudyDuration

DOCUMENT ME!

acquiredStudyDurationIndex

int acquiredStudyDurationIndex

DOCUMENT ME!

appliedCorrections

java.lang.String appliedCorrections

DOCUMENT ME!

attenuationCorrection

java.lang.String attenuationCorrection

DOCUMENT ME!

betaHalflife

java.lang.String[] betaHalflife

DOCUMENT ME!

branchingFactor

java.lang.String[] branchingFactor

DOCUMENT ME!

bytesPerPixel

java.lang.String[] bytesPerPixel

DOCUMENT ME!

bytesPerPixelIndex

int bytesPerPixelIndex

DOCUMENT ME!

centerCenter

java.lang.String centerCenter

DOCUMENT ME!

contactPerson

java.lang.String contactPerson

DOCUMENT ME!

conversionProgram

java.lang.String conversionProgram

DOCUMENT ME!

dataCompression

java.lang.String dataCompression

DOCUMENT ME!

dataDescription

java.lang.String dataDescription

DOCUMENT ME!

dataEncode

java.lang.String dataEncode

DOCUMENT ME!

decayCorrected

java.lang.String decayCorrected

DOCUMENT ME!

detectorHeadNumber

java.lang.String detectorHeadNumber

DOCUMENT ME!

dimensionNumber

java.lang.String dimensionNumber

DOCUMENT ME!

dynamicStudyGeneral

boolean dynamicStudyGeneral

DOCUMENT ME!

elapsedStudyDuration

java.lang.String elapsedStudyDuration

DOCUMENT ME!

energyNumber

int energyNumber

DOCUMENT ME!

energyWindowName

java.lang.String[] energyWindowName

DOCUMENT ME!

energyWindowsNumber

java.lang.String energyWindowsNumber

DOCUMENT ME!

examType

java.lang.String examType

DOCUMENT ME!

fGroupNumber

int fGroupNumber

DOCUMENT ME!

filterName

java.lang.String filterName

DOCUMENT ME!

floodCorrected

java.lang.String floodCorrected

DOCUMENT ME!

frameGroupImages

java.lang.String[] frameGroupImages

DOCUMENT ME!

frameGroupImagesIndex

int frameGroupImagesIndex

DOCUMENT ME!

frameGroupNumber

java.lang.String frameGroupNumber

DOCUMENT ME!

framingMethod

java.lang.String[] framingMethod

DOCUMENT ME!

framingMethodIndex

int framingMethodIndex

DOCUMENT ME!

gammaHalflife

java.lang.String[] gammaHalflife

DOCUMENT ME!

gatedFrameMode

java.lang.String[] gatedFrameMode

gatedFrameModeIndex

int gatedFrameModeIndex

gatedStudyGeneral

boolean gatedStudyGeneral

DOCUMENT ME!

generalData

boolean generalData

DOCUMENT ME!

generalImageData

boolean generalImageData

DOCUMENT ME!

haveGated

boolean haveGated

DOCUMENT ME!

haveReconstructed

boolean haveReconstructed

DOCUMENT ME!

haveStaticStudy

boolean haveStaticStudy

DOCUMENT ME!

haveTomographic

boolean haveTomographic

DOCUMENT ME!

i

int i

DOCUMENT ME!

imageDataDescription

boolean imageDataDescription

DOCUMENT ME!

imageDuration

java.lang.String[] imageDuration

DOCUMENT ME!

imageDurationIndex

int imageDurationIndex

DOCUMENT ME!

imageRelativeStartTime

java.lang.String[] imageRelativeStartTime

DOCUMENT ME!

imageRelativeStartTimeIndex

int imageRelativeStartTimeIndex

DOCUMENT ME!

imagesPerEWindow

java.lang.String imagesPerEWindow

DOCUMENT ME!

imageStartTime

java.lang.String[] imageStartTime

DOCUMENT ME!

imageStartTimeIndex

int imageStartTimeIndex

DOCUMENT ME!

imagingModality

java.lang.String imagingModality

DOCUMENT ME!

indexNestingLevel

java.lang.String indexNestingLevel

DOCUMENT ME!

interfileDataType

java.lang.String interfileDataType

DOCUMENT ME!

iNumber

int iNumber

DOCUMENT ME!

isoNumber

int isoNumber

DOCUMENT ME!

isotopeName

java.lang.String[] isotopeName

DOCUMENT ME!

isotopeNumber

java.lang.String isotopeNumber

DOCUMENT ME!

keysDate

java.lang.String keysDate

DOCUMENT ME!

keysVersion

java.lang.String keysVersion

DOCUMENT ME!

label

java.lang.String[] label

DOCUMENT ME!

labelIndex

int labelIndex

DOCUMENT ME!

lowerLevel

java.lang.String[] lowerLevel

DOCUMENT ME!

matrixSize1

java.lang.String[] matrixSize1

DOCUMENT ME!

matrixSize1Index

int matrixSize1Index

DOCUMENT ME!

matrixSize2

java.lang.String[] matrixSize2

DOCUMENT ME!

matrixSize2Index

int matrixSize2Index

DOCUMENT ME!

maximumPixelCount

java.lang.String[] maximumPixelCount

DOCUMENT ME!

maximumPixelCountIndex

int maximumPixelCountIndex

DOCUMENT ME!

maximumPixelCountInGroup

java.lang.String[] maximumPixelCountInGroup

DOCUMENT ME!

maximumPixelCountInGroupIndex

int maximumPixelCountInGroupIndex

DOCUMENT ME!

numberFormat

java.lang.String[] numberFormat

DOCUMENT ME!

numberFormatIndex

int numberFormatIndex

DOCUMENT ME!

numberImages

int numberImages

numberImagesPerEWindow

int numberImagesPerEWindow

DOCUMENT ME!

obliqueReconstruction

java.lang.String obliqueReconstruction

DOCUMENT ME!

observedCardiacCycles

java.lang.String observedCardiacCycles

DOCUMENT ME!

organ

java.lang.String organ

originalInstitution

java.lang.String originalInstitution

DOCUMENT ME!

originatingSystem

java.lang.String originatingSystem

DOCUMENT ME!

patientDOB

java.lang.String patientDOB

DOCUMENT ME!

patientID

java.lang.String patientID

DOCUMENT ME!

patientName

java.lang.String patientName

DOCUMENT ME!

patientOrientation

java.lang.String patientOrientation

DOCUMENT ME!

patientRotation

java.lang.String patientRotation

DOCUMENT ME!

patientSex

java.lang.String patientSex

DOCUMENT ME!

pauseBetweenFrameGroups

java.lang.String[] pauseBetweenFrameGroups

DOCUMENT ME!

pauseBetweenFrameGroupsIndex

int pauseBetweenFrameGroupsIndex

DOCUMENT ME!

pauseBetweenImages

java.lang.String[] pauseBetweenImages

DOCUMENT ME!

pauseBetweenImagesIndex

int pauseBetweenImagesIndex

DOCUMENT ME!

PETDataType

java.lang.String PETDataType

DOCUMENT ME!

PETStudyGeneral

boolean PETStudyGeneral

DOCUMENT ME!

PETStudyImageData

boolean PETStudyImageData

DOCUMENT ME!

processStatus

java.lang.String processStatus

DOCUMENT ME!

programAuthor

java.lang.String programAuthor

DOCUMENT ME!

programDate

java.lang.String programDate

DOCUMENT ME!

programVersion

java.lang.String programVersion

DOCUMENT ME!

projectionNumber

java.lang.String projectionNumber

DOCUMENT ME!

projectionTime

java.lang.String projectionTime

DOCUMENT ME!

quantificationUnits

java.lang.String quantificationUnits

DOCUMENT ME!

radiopharmaceutical

java.lang.String radiopharmaceutical

DOCUMENT ME!

reconstructionMethod

java.lang.String reconstructionMethod

DOCUMENT ME!

referenceFrameNumber

java.lang.String referenceFrameNumber

DOCUMENT ME!

rotationExtent

java.lang.String rotationExtent

DOCUMENT ME!

RRCycles

java.lang.String[] RRCycles

DOCUMENT ME!

RRCyclesIndex

int RRCyclesIndex

DOCUMENT ME!

RRHistogram

java.lang.String[] RRHistogram

DOCUMENT ME!

RRHistogramIndex

int RRHistogramIndex

DOCUMENT ME!

scalingFactor1

java.lang.String[] scalingFactor1

DOCUMENT ME!

scalingFactor1Index

int scalingFactor1Index

DOCUMENT ME!

scalingFactor2

java.lang.String[] scalingFactor2

DOCUMENT ME!

scalingFactor2Index

int scalingFactor2Index

DOCUMENT ME!

scannerQuantificationFactor

java.lang.String scannerQuantificationFactor

DOCUMENT ME!

scatterCorrected

java.lang.String scatterCorrected

DOCUMENT ME!

scatterCorrectionMethod

java.lang.String scatterCorrectionMethod

DOCUMENT ME!

sliceNumber

java.lang.String sliceNumber

DOCUMENT ME!

sliceOrientation

java.lang.String sliceOrientation

spectStudyGeneral

boolean spectStudyGeneral

DOCUMENT ME!

spectStudyReconstructedData

boolean spectStudyReconstructedData

DOCUMENT ME!

startHorizontalBedPosition

java.lang.String startHorizontalBedPosition

DOCUMENT ME!

staticStudyGeneral

boolean staticStudyGeneral

DOCUMENT ME!

studyDate

java.lang.String studyDate

DOCUMENT ME!

studyDuration

java.lang.String studyDuration

DOCUMENT ME!

studyID

java.lang.String studyID

DOCUMENT ME!

studyTime

java.lang.String studyTime

DOCUMENT ME!

tFrame

int tFrame

DOCUMENT ME!

timeFrameNumber

int timeFrameNumber

DOCUMENT ME!

timeFrames

java.lang.String timeFrames

DOCUMENT ME!

timeWindowImages

java.lang.String[] timeWindowImages

DOCUMENT ME!

timeWindowImagesIndex

int timeWindowImagesIndex

DOCUMENT ME!

timeWindowLowerLimit

java.lang.String[] timeWindowLowerLimit

DOCUMENT ME!

timeWindowLowerLimitIndex

int timeWindowLowerLimitIndex

DOCUMENT ME!

timeWindows

java.lang.String timeWindows

DOCUMENT ME!

timeWindowsNumber

int timeWindowsNumber

DOCUMENT ME!

timeWindowUpperLimit

java.lang.String[] timeWindowUpperLimit

DOCUMENT ME!

timeWindowUpperLimitIndex

int timeWindowUpperLimitIndex

DOCUMENT ME!

totalCounts

java.lang.String[] totalCounts

DOCUMENT ME!

totalCountsIndex

int totalCountsIndex

DOCUMENT ME!

totalImageNumber

java.lang.String totalImageNumber

DOCUMENT ME!

upperLevel

java.lang.String[] upperLevel

DOCUMENT ME!

windowA

java.lang.String windowA

windowB

java.lang.String windowB

windowC

java.lang.String windowC

wNumber

int wNumber

DOCUMENT ME!

zAxisFilter

java.lang.String zAxisFilter

DOCUMENT ME!

Class gov.nih.mipav.model.file.FileInfoJP2 extends FileInfoBase implements Serializable

Serialized Fields

imageDescription

java.lang.String imageDescription

DOCUMENT ME!

Class gov.nih.mipav.model.file.FileInfoJSON extends FileInfoBase implements Serializable

Serialized Fields

contributor

java.lang.String contributor

date_created

java.lang.String date_created

description

java.lang.String description

Use serialVersionUID for interoperability.

url

java.lang.String url

version

java.lang.String version

year

java.lang.String year

Class gov.nih.mipav.model.file.FileInfoLattice extends FileInfoBase implements Serializable

serialVersionUID:

6546787758481646181L

Class gov.nih.mipav.model.file.FileInfoLIFF extends FileInfoBase implements Serializable

Serialized Fields

autoContrast

double autoContrast

binning

double binning

bitDepth

short bitDepth

camera

java.lang.String camera

channelArray

java.lang.String[] channelArray

channelNumber

int channelNumber

colorization

double colorization

cooling

double cooling

CRIRGBFilter

double CRIRGBFilter

digitalGain

double digitalGain

emissionFilterChangerArray

double[] emissionFilterChangerArray

excitationArray

double[] excitationArray

exposureArray

double[] exposureArray

filterTurretArray

double[] filterTurretArray

focusPosition

double focusPosition

gain

double gain

layerString

java.lang.String[] layerString

Use serialVersionUID for interoperability.

leicaCondenserTurret

double leicaCondenserTurret

leicaFilterCubeArray

double[] leicaFilterCubeArray

leicaFIMArray

double[] leicaFIMArray

leicaICTurret

double leicaICTurret

leicaMagnificationChanger

double leicaMagnificationChanger

lightMode

double lightMode

ludlAuxWheel1

double ludlAuxWheel1

ludlMainWheel1Array

double[] ludlMainWheel1Array

microfocusPosition

double microfocusPosition

microscope

java.lang.String microscope

objectiveName

double objectiveName

objectivePosition

double objectivePosition

offset

double offset

sensitivityArray

double[] sensitivityArray

SutterDG4Filter

double SutterDG4Filter

SutterL10Filter1Array

double[] SutterL10Filter1Array

SutterL10Filter2Array

double[] SutterL10Filter2Array

wavelengthArray

double[] wavelengthArray

xPosition

double xPosition

yPosition

double yPosition

zPosition

double zPosition

Class gov.nih.mipav.model.file.FileInfoLSM extends FileInfoBase implements Serializable

serialVersionUID:

4011175280016387707L

Serialized Fields

bleachedROIShape

int bleachedROIShape

DOCUMENT ME!

blueArray

int[] blueArray

DOCUMENT ME!

channelDataTypes

int[] channelDataTypes

DOCUMENT ME!

channelNames

java.lang.String[] channelNames

DOCUMENT ME!

channels

int channels

DOCUMENT ME!

dimensionM

int dimensionM

dimensionP

int dimensionP

displayAspectTime

double displayAspectTime

DOCUMENT ME!

displayAspectX

double displayAspectX

DOCUMENT ME!

displayAspectY

double displayAspectY

DOCUMENT ME!

displayAspectZ

double displayAspectZ

DOCUMENT ME!

eventDescription

java.lang.String[] eventDescription

DOCUMENT ME!

eventTime

double[] eventTime

DOCUMENT ME!

eventType

int[] eventType

DOCUMENT ME!

firstSliceAfterBleach

int firstSliceAfterBleach

DOCUMENT ME!

greenArray

int[] greenArray

DOCUMENT ME!

imageDescription

java.lang.String imageDescription

knotX

double[] knotX

DOCUMENT ME!

knotY

double[] knotY

DOCUMENT ME!

lastSliceBeforeBleach

int lastSliceBeforeBleach

DOCUMENT ME!

LSMDataType

int LSMDataType

DOCUMENT ME!

LSMDataType2

int LSMDataType2

DOCUMENT ME!

mono

int mono

DOCUMENT ME!

objectiveSphereCorrection

double objectiveSphereCorrection

DOCUMENT ME!

originX

double originX

The x-offset of the center of the image in meter relative to the optical axis. For LSM images the x-direction is the direction of the x-scanner. In releases prior to 4.0 the entry was not used and the value 0 was written instead.

originY

double originY

The y-offset of the center of the image in meter relative to the optical axis. For LSM images the y-direction is the direction of the y-scanner. In releases prior to 4.0 the entry was not used and the value 0 was written instead.

redArray

int[] redArray

DOCUMENT ME!

scanType

int scanType

DOCUMENT ME!

spectralScan

int spectralScan

DOCUMENT ME!

timeDifferenceX

double timeDifferenceX

timeDifferenceY

double timeDifferenceY

timeDifferenceZ

double timeDifferenceZ

timeDim

int timeDim

DOCUMENT ME!

timeInterval

double timeInterval

DOCUMENT ME!

timeStamp

double[] timeStamp

DOCUMENT ME!

wavelengths

double[] wavelengths

DOCUMENT ME!

Class gov.nih.mipav.model.file.FileInfoMagnetomVision extends FileInfoBase implements Serializable

serialVersionUID:

-7248419259071769004L

Serialized Fields

AcquisitionDateDD

int AcquisitionDateDD

DOCUMENT ME!

AcquisitionDateMM

int AcquisitionDateMM

DOCUMENT ME!

AcquisitionDateYYYY

int AcquisitionDateYYYY

DOCUMENT ME!

AcquisitionTimeHH

int AcquisitionTimeHH

DOCUMENT ME!

AcquisitionTimeMM

int AcquisitionTimeMM

DOCUMENT ME!

AcquisitionTimeSS

int AcquisitionTimeSS

DOCUMENT ME!

Annotation

java.lang.String Annotation

DOCUMENT ME!

CalibrationDateDD

int CalibrationDateDD

DOCUMENT ME!

CalibrationDateMM

int CalibrationDateMM

DOCUMENT ME!

CalibrationDateYYYY

int CalibrationDateYYYY

DOCUMENT ME!

CalibrationTimeHH

int CalibrationTimeHH

DOCUMENT ME!

CalibrationTimeMM

int CalibrationTimeMM

DOCUMENT ME!

CalibrationTimeSS

int CalibrationTimeSS

DOCUMENT ME!

CenterPointX

double CenterPointX

DOCUMENT ME!

CenterPointY

double CenterPointY

DOCUMENT ME!

CenterPointZ

double CenterPointZ

DOCUMENT ME!

ColumnVectorX

double ColumnVectorX

DOCUMENT ME!

ColumnVectorY

double ColumnVectorY

DOCUMENT ME!

ColumnVectorZ

double ColumnVectorZ

DOCUMENT ME!

DisplayMatrixSize

int DisplayMatrixSize

DOCUMENT ME!

DistanceFromIsocenter

double DistanceFromIsocenter

DOCUMENT ME!

DOBDD

int DOBDD

DOCUMENT ME!

DOBMM

int DOBMM

DOCUMENT ME!

DOBYYYY

int DOBYYYY

DOCUMENT ME!

EchoTime

double EchoTime

DOCUMENT ME!

FlipAngle

double FlipAngle

DOCUMENT ME!

FOVColumn

double FOVColumn

DOCUMENT ME!

FOVRow

double FOVRow

DOCUMENT ME!

FrequencyMHz

double FrequencyMHz

DOCUMENT ME!

ImageDateDD

int ImageDateDD

DOCUMENT ME!

ImageDateMM

int ImageDateMM

DOCUMENT ME!

ImageDateYYYY

int ImageDateYYYY

DOCUMENT ME!

ImagedNucleus

java.lang.String ImagedNucleus

DOCUMENT ME!

ImageTimeHH

int ImageTimeHH

DOCUMENT ME!

ImageTimeMM

int ImageTimeMM

DOCUMENT ME!

ImageTimeSS

int ImageTimeSS

DOCUMENT ME!

InstitutionName

java.lang.String InstitutionName

DOCUMENT ME!

LastMoveDateDD

int LastMoveDateDD

DOCUMENT ME!

LastMoveDateMM

int LastMoveDateMM

DOCUMENT ME!

LastMoveDateYYYY

int LastMoveDateYYYY

DOCUMENT ME!

LastMoveTimeHH

int LastMoveTimeHH

DOCUMENT ME!

LastMoveTimeMM

int LastMoveTimeMM

DOCUMENT ME!

LastMoveTimeSS

int LastMoveTimeSS

DOCUMENT ME!

MagneticFieldStrength

double MagneticFieldStrength

DOCUMENT ME!

Manufacturer

java.lang.String Manufacturer

DOCUMENT ME!

ModelName

java.lang.String ModelName

DOCUMENT ME!

NormalVectorX

double NormalVectorX

DOCUMENT ME!

NormalVectorY

double NormalVectorY

DOCUMENT ME!

NormalVectorZ

double NormalVectorZ

DOCUMENT ME!

OrientationSet1Back

java.lang.String OrientationSet1Back

DOCUMENT ME!

OrientationSet1Left

java.lang.String OrientationSet1Left

DOCUMENT ME!

OrientationSet1Top

java.lang.String OrientationSet1Top

DOCUMENT ME!

OrientationSet2Down

java.lang.String OrientationSet2Down

DOCUMENT ME!

OrientationSet2Front

java.lang.String OrientationSet2Front

DOCUMENT ME!

OrientationSet2Right

java.lang.String OrientationSet2Right

DOCUMENT ME!

PatientAge

java.lang.String PatientAge

DOCUMENT ME!

PatientAgeUnits

java.lang.String PatientAgeUnits

DOCUMENT ME!

PatientID

java.lang.String PatientID

DOCUMENT ME!

PatientName

java.lang.String PatientName

DOCUMENT ME!

ReceivingCoil

java.lang.String ReceivingCoil

DOCUMENT ME!

RegistrationDateDD

int RegistrationDateDD

DOCUMENT ME!

RegistrationDateMM

int RegistrationDateMM

DOCUMENT ME!

RegistrationDateYYYY

int RegistrationDateYYYY

DOCUMENT ME!

RegistrationTimeHH

int RegistrationTimeHH

DOCUMENT ME!

RegistrationTimeMM

int RegistrationTimeMM

DOCUMENT ME!

RegistrationTimeSS

int RegistrationTimeSS

DOCUMENT ME!

RepetitionTime

double RepetitionTime

DOCUMENT ME!

RowVectorX

double RowVectorX

DOCUMENT ME!

RowVectorY

double RowVectorY

DOCUMENT ME!

RowVectorZ

double RowVectorZ

DOCUMENT ME!

SequenceAuthor

java.lang.String SequenceAuthor

DOCUMENT ME!

SequenceName

java.lang.String SequenceName

DOCUMENT ME!

SequencePrgName

java.lang.String SequencePrgName

DOCUMENT ME!

SequenceType

java.lang.String SequenceType

DOCUMENT ME!

SequenceWkcName

java.lang.String SequenceWkcName

DOCUMENT ME!

SiemensStudyDateDD

int SiemensStudyDateDD

DOCUMENT ME!

SiemensStudyDateMM

int SiemensStudyDateMM

DOCUMENT ME!

SiemensStudyDateYYYY

int SiemensStudyDateYYYY

DOCUMENT ME!

SiemensStudyTimeHH

int SiemensStudyTimeHH

DOCUMENT ME!

SiemensStudyTimeMM

int SiemensStudyTimeMM

DOCUMENT ME!

SiemensStudyTimeSS

int SiemensStudyTimeSS

DOCUMENT ME!

Station

java.lang.String Station

DOCUMENT ME!

TextAcquisitionMatrixFreq

java.lang.String TextAcquisitionMatrixFreq

DOCUMENT ME!

TextAcquisitionMatrixFreqO

java.lang.String TextAcquisitionMatrixFreqO

DOCUMENT ME!

TextAcquisitionMatrixFreqS

java.lang.String TextAcquisitionMatrixFreqS

DOCUMENT ME!

TextAcquisitionMatrixPhase

java.lang.String TextAcquisitionMatrixPhase

DOCUMENT ME!

TextAcquisitionMatrixPhaseAxis

java.lang.String TextAcquisitionMatrixPhaseAxis

DOCUMENT ME!

TextAcquisitionTimeMM

java.lang.String TextAcquisitionTimeMM

DOCUMENT ME!

TextAcquisitionTimeSS

java.lang.String TextAcquisitionTimeSS

DOCUMENT ME!

TextAngle

java.lang.String TextAngle

DOCUMENT ME!

TextAngleFlag1

java.lang.String TextAngleFlag1

DOCUMENT ME!

TextAngleFlag2

java.lang.String TextAngleFlag2

DOCUMENT ME!

TextAngleFlag3

java.lang.String TextAngleFlag3

DOCUMENT ME!

TextAnnotation

java.lang.String TextAnnotation

DOCUMENT ME!

TextDateDD

java.lang.String TextDateDD

DOCUMENT ME!

TextDateMM

java.lang.String TextDateMM

DOCUMENT ME!

TextDateYYYY

java.lang.String TextDateYYYY

DOCUMENT ME!

TextDOBDD

java.lang.String TextDOBDD

DOCUMENT ME!

TextDOBMM

java.lang.String TextDOBMM

DOCUMENT ME!

TextDOBYYYY

java.lang.String TextDOBYYYY

DOCUMENT ME!

TextEchoNumber

java.lang.String TextEchoNumber

DOCUMENT ME!

TextEchoTime

java.lang.String TextEchoTime

DOCUMENT ME!

TextFlipAngle

java.lang.String TextFlipAngle

DOCUMENT ME!

TextFOVH

java.lang.String TextFOVH

DOCUMENT ME!

TextFOVV

java.lang.String TextFOVV

DOCUMENT ME!

TextImageNumber

java.lang.String TextImageNumber

DOCUMENT ME!

TextImageNumber2

java.lang.String TextImageNumber2

DOCUMENT ME!

TextModelName

java.lang.String TextModelName

DOCUMENT ME!

TextOrganization

java.lang.String TextOrganization

DOCUMENT ME!

TextPatientAge

java.lang.String TextPatientAge

DOCUMENT ME!

TextPatientAgeUnits

java.lang.String TextPatientAgeUnits

DOCUMENT ME!

TextPatientID

java.lang.String TextPatientID

DOCUMENT ME!

TextPatientName

java.lang.String TextPatientName

DOCUMENT ME!

TextPatientPosition

java.lang.String TextPatientPosition

DOCUMENT ME!

TextPatientSex

java.lang.String TextPatientSex

DOCUMENT ME!

TextRepetitionTime

java.lang.String TextRepetitionTime

DOCUMENT ME!

TextScanNumberA

java.lang.String TextScanNumberA

DOCUMENT ME!

TextScanNumberB

java.lang.String TextScanNumberB

DOCUMENT ME!

TextScanStartTimeHH

java.lang.String TextScanStartTimeHH

DOCUMENT ME!

TextScanStartTimeMM

java.lang.String TextScanStartTimeMM

DOCUMENT ME!

TextScanStartTimeSS

java.lang.String TextScanStartTimeSS

DOCUMENT ME!

TextSequence

java.lang.String TextSequence

DOCUMENT ME!

TextSlicePosition

java.lang.String TextSlicePosition

DOCUMENT ME!

TextSliceThickness

java.lang.String TextSliceThickness

DOCUMENT ME!

TextStation

java.lang.String TextStation

DOCUMENT ME!

TextStudyImageNumber3

java.lang.String TextStudyImageNumber3

DOCUMENT ME!

TextStudyNumber

java.lang.String TextStudyNumber

DOCUMENT ME!

TextStudyNumber2

java.lang.String TextStudyNumber2

DOCUMENT ME!

TextTablePosition

java.lang.String TextTablePosition

DOCUMENT ME!

TextTimeHH

java.lang.String TextTimeHH

DOCUMENT ME!

TextTimeMM

java.lang.String TextTimeMM

DOCUMENT ME!

Class gov.nih.mipav.model.file.FileInfoMATLAB extends FileInfoBase implements Serializable

Serialized Fields

arrayName

java.lang.String arrayName

fieldNames

java.lang.String[] fieldNames

headerTextField

java.lang.String headerTextField

Use serialVersionUID for interoperability.

level5Format

boolean level5Format

sourceFile

java.lang.String sourceFile

subsystemSpecificDataOffset

long subsystemSpecificDataOffset

version

int version

Class gov.nih.mipav.model.file.FileInfoMedVision extends FileInfoBase implements Serializable

serialVersionUID:

-88313565378572414L

Serialized Fields

cineRate

double cineRate

DOCUMENT ME!

cols

short cols

DOCUMENT ME!

dataType

short dataType

DOCUMENT ME!

dateOfBirth

java.lang.String dateOfBirth

DOCUMENT ME!

eqManuf

java.lang.String eqManuf

DOCUMENT ME!

eqType

java.lang.String eqType

DOCUMENT ME!

fileType

java.lang.String fileType

File header data structure format.

frameRefNum

short frameRefNum

DOCUMENT ME!

imageOffset

int imageOffset

DOCUMENT ME!

imageScale

double imageScale

DOCUMENT ME!

institution

java.lang.String institution

DOCUMENT ME!

modality

java.lang.String modality

DOCUMENT ME!

patientName

java.lang.String patientName

Info data structure format.

pixelSizeH

double pixelSizeH

DOCUMENT ME!

pixelSizeV

double pixelSizeV

hDat dataStructure format public long version;.

referringPhys

java.lang.String referringPhys

DOCUMENT ME!

rows

short rows

Slice Header data structure format.

sex

java.lang.String sex

DOCUMENT ME!

sliceHdrSize

short sliceHdrSize

DOCUMENT ME!

slicePosition

double slicePosition

DOCUMENT ME!

sliceRefNum

short sliceRefNum

DOCUMENT ME!

sliceThickness

double sliceThickness

DOCUMENT ME!

sliceTime

double sliceTime

DOCUMENT ME!

standardCols

short standardCols

DOCUMENT ME!

standardRows

short standardRows

DOCUMENT ME!

studyDate

java.lang.String studyDate

DOCUMENT ME!

studyName

java.lang.String studyName

DOCUMENT ME!

studyTime

java.lang.String studyTime

DOCUMENT ME!

totalSlices

short totalSlices

DOCUMENT ME!

version

int version

DOCUMENT ME!

Class gov.nih.mipav.model.file.FileInfoMetaImage extends FileInfoBase implements Serializable

Serialized Fields

centerOfRotation

double[] centerOfRotation

Use serialVersionUID for interoperability.

Class gov.nih.mipav.model.file.FileInfoMGH extends FileInfoBase implements Serializable

Serialized Fields

cmdlines

java.lang.String[] cmdlines

dof

int dof

flipAngle

float flipAngle

fov

float fov

leftCenter

float leftCenter

matrix

TransMatrix matrix

posteriorCenter

float posteriorCenter

superiorCenter

float superiorCenter

te

float te

ti

float ti

tr

float tr

transformFileName

java.lang.String transformFileName

version

int version

Currently version number is 1

Class gov.nih.mipav.model.file.FileInfoMicroCat extends FileInfoBase implements Serializable

serialVersionUID:

-388246456500624487L

Serialized Fields

autoStartCBREngine

java.lang.String autoStartCBREngine

DOCUMENT ME!

baseNameforReconstructedSlices

java.lang.String baseNameforReconstructedSlices

DOCUMENT ME!

CATFileName

java.lang.String CATFileName

DOCUMENT ME!

CBRHostName

java.lang.String CBRHostName

DOCUMENT ME!

CBRImageDirectory

java.lang.String CBRImageDirectory

DOCUMENT ME!

CBRProjectionDirectory

java.lang.String CBRProjectionDirectory

DOCUMENT ME!

cylinderReconstruction

int cylinderReconstruction

DOCUMENT ME!

enableStepSize

int enableStepSize

DOCUMENT ME!

filterType

java.lang.String filterType

DOCUMENT ME!

imageDestinationDirectory

java.lang.String imageDestinationDirectory

DOCUMENT ME!

logScale

float logScale

DOCUMENT ME!

numberOfProjections

int numberOfProjections

DOCUMENT ME!

projectionDataAlreadyOnCBR

java.lang.String projectionDataAlreadyOnCBR

DOCUMENT ME!

projectionUSize

int projectionUSize

DOCUMENT ME!

projectionVSize

int projectionVSize

DOCUMENT ME!

rotationDirection

int rotationDirection

DOCUMENT ME!

RPCPortNum

java.lang.String RPCPortNum

DOCUMENT ME!

startAngle

float startAngle

DOCUMENT ME!

stepSizeFile

java.lang.String stepSizeFile

DOCUMENT ME!

timeoutBetweenProjectionTransfers

int timeoutBetweenProjectionTransfers

DOCUMENT ME!

UCenterOffset

int UCenterOffset

DOCUMENT ME!

VCenterOffset

int VCenterOffset

DOCUMENT ME!

volumeOriginX

float volumeOriginX

DOCUMENT ME!

volumeOriginY

float volumeOriginY

DOCUMENT ME!

volumeOriginZ

float volumeOriginZ

DOCUMENT ME!

volumeSizeX

int volumeSizeX

DOCUMENT ME!

volumeSizeY

int volumeSizeY

DOCUMENT ME!

volumeSizeZ

int volumeSizeZ

DOCUMENT ME!

voxelSizeX

float voxelSizeX

DOCUMENT ME!

voxelSizeY

float voxelSizeY

DOCUMENT ME!

voxelSizeZ

float voxelSizeZ

DOCUMENT ME!

Class gov.nih.mipav.model.file.FileInfoMinc extends FileInfoBase implements Serializable

serialVersionUID:

6804935230803731941L

Serialized Fields

dimArray

FileMincDimElem[] dimArray

DOCUMENT ME!

gattArray

FileMincAttElem[] gattArray

DOCUMENT ME!

numrecs

int numrecs

DOCUMENT ME!

varArray

FileMincVarElem[] varArray

DOCUMENT ME!

vmax

double vmax

Valid image maximum value. Default = -1.

vmin

double vmin

Valid image minimum value. Default = -1.

Class gov.nih.mipav.model.file.FileInfoMincHDF extends FileInfoBase implements Serializable

serialVersionUID:

1372818551072422068L

Serialized Fields

hasImageMinMaxDimOrder

boolean hasImageMinMaxDimOrder

validRange

double[] validRange

The valid range for image pixel values

Class gov.nih.mipav.model.file.FileInfoMRC extends FileInfoBase implements Serializable

serialVersionUID:

4677697781087324517L

Serialized Fields

alpha

float alpha

DOCUMENT ME!

beta

float beta

DOCUMENT ME!

creatorID

short creatorID

DOCUMENT ME!

gamma

float gamma

DOCUMENT ME!

idType

short idType

DOCUMENT ME!

impliedFlagBytes

int impliedFlagBytes

DOCUMENT ME!

ispg

short ispg

DOCUMENT ME!

label

java.lang.String[] label

DOCUMENT ME!

lens

short lens

DOCUMENT ME!

mapC

int mapC

DOCUMENT ME!

mapR

int mapR

DOCUMENT ME!

mapS

int mapS

DOCUMENT ME!

nd1

short nd1

DOCUMENT ME!

nd2

short nd2

DOCUMENT ME!

next

int next

DOCUMENT ME!

nint

short nint

DOCUMENT ME!

nreal

short nreal

DOCUMENT ME!

nSymbt

short nSymbt

DOCUMENT ME!

nwave

short nwave

DOCUMENT ME!

rms

float rms

DOCUMENT ME!

tiltAngles

float[] tiltAngles

DOCUMENT ME!

vd1

short vd1

DOCUMENT ME!

vd2

short vd2

DOCUMENT ME!

wave1

short wave1

DOCUMENT ME!

wave2

short wave2

DOCUMENT ME!

wave3

short wave3

DOCUMENT ME!

wave4

short wave4

DOCUMENT ME!

wave5

short wave5

DOCUMENT ME!

Class gov.nih.mipav.model.file.FileInfoNIFTI extends FileInfoBase implements Serializable

serialVersionUID:

-5506021019885109431L

Serialized Fields

accessionNumber

java.lang.String accessionNumber

acquisitionMatrix

int[] acquisitionMatrix

AcquisitionNumber

int[] AcquisitionNumber

AcquisitionTime

double[] AcquisitionTime

afniGroup

java.lang.String[] afniGroup

angioFlag

java.lang.String angioFlag

asciiText

java.lang.String[] asciiText

aux_file

java.lang.String aux_file

auxiliary file

azimuth

float[] azimuth

bitpix

short bitpix

Bits per pixel

bitsAllocated

int bitsAllocated

bitsStored

int bitsStored

bValue

float[] bValue

cal_max

double cal_max

The cal_min and cal_max fields (if nonzero) are used for mapping (possibly scaled) dataset values to display colors: - Minimum display intensity (black) corresponds to dataset value cal_min. - Maximum display intensity (white) corresponds to dataset value cal_max. - Dataset values below cal_min should display as black also, and values above cal_max as white. - Colors "black" and "white", of course, may refer to any scalar display scheme (e.g., a color lookup table specified via aux_file). - cal_min and cal_max only make sense when applied to scalar-valued datasets (i.e., dim[0] < 5 or dim[5] = 1).

cal_min

double cal_min

values of 0.0 for both fields imply that no calibration min and max values are used !

caret

java.lang.String[] caret

columns

int columns

ContentTime

double[] ContentTime

coord_code

int coord_code

If qform_code > 0, coord_code = qform_code. If qform_code <= 0 and sform_code > 0, coord_code = sform_code. coord_code has values for "Arbitrary X,Y,Z coordinate system", "Scanner based anatomical coordinates", "Coordinates aligned to another file's or to anatomical truth", "Talairach X,Y,Z coordinate system", and "MNI 152 normalized X,Y,Z coordinates".

coord_code2

int coord_code2

If qform_code > 0 and sform_code > 0, coord_code = qform_code and coord_code2 = sform_code. coord_code has values for "Arbitrary X,Y,Z coordinate system", "Scanner based anatomical coordinates", "Coordinates aligned to another file's or to anatomical truth", "Talairach X,Y,Z coordinate system", and "MNI 152 normalized X,Y,Z coordinates".

CsaImageAcquisitionMatrixText

java.lang.String CsaImageAcquisitionMatrixText

CsaImageBandwidthPerPixelPhaseEncode

double CsaImageBandwidthPerPixelPhaseEncode

CsaImageEchoColumnPosition

int CsaImageEchoColumnPosition

CsaImageEchoLinePosition

int CsaImageEchoLinePosition

CsaImageEchoPartitionPosition

int CsaImageEchoPartitionPosition

CsaImageGSWDDataType

java.lang.String CsaImageGSWDDataType

CsaImageICE_Dims

java.lang.String[] CsaImageICE_Dims

CsaImageImaAbsTablePosition

int[] CsaImageImaAbsTablePosition

CsaImageImaCoilString

java.lang.String CsaImageImaCoilString

CsaImageImaPATModeText

java.lang.String CsaImageImaPATModeText

CsaImageImaRelTablePosition

int[] CsaImageImaRelTablePosition

CsaImageMeasuredFourierLines

int CsaImageMeasuredFourierLines

CsaImageMosaicRefAcqTimes

double[][] CsaImageMosaicRefAcqTimes

CsaImageMultistepIndex

int CsaImageMultistepIndex

CsaImageNonPlanarImage

int CsaImageNonPlanarImage

CsaImageNumberOfImagesInMosaic

int CsaImageNumberOfImagesInMosaic

CsaImagePhaseEncodingDirectionPositive

int CsaImagePhaseEncodingDirectionPositive

CsaImageProtocolSliceNumber

int CsaImageProtocolSliceNumber

CsaImageRealDwellTime

int CsaImageRealDwellTime

CsaImageRFSWDDataType

java.lang.String CsaImageRFSWDDataType

CsaImageSequenceMask

int CsaImageSequenceMask

CsaImageSliceMeasurementDuration

double[] CsaImageSliceMeasurementDuration

CsaImageSliceNormalVector

double[] CsaImageSliceNormalVector

CsaImageSlicePosition_PCS

double[] CsaImageSlicePosition_PCS

CsaImageTimeAfterStart

double[] CsaImageTimeAfterStart

CsaImageUsedChannelMask

int CsaImageUsedChannelMask

CsaSeriesAbsTablePosition

int CsaSeriesAbsTablePosition

CsaSeriesB1rms

double[] CsaSeriesB1rms

CsaSeriesB1rmsSupervision

java.lang.String CsaSeriesB1rmsSupervision

CsaSeriesCoilForGradient

java.lang.String CsaSeriesCoilForGradient

CsaSeriesCoilForGradient2

java.lang.String CsaSeriesCoilForGradient2

CsaSeriesCoilId

int[] CsaSeriesCoilId

CsaSeriesCoilString

java.lang.String CsaSeriesCoilString

CsaSeriesdBdt_limit

double CsaSeriesdBdt_limit

CsaSeriesdBdt_max

double CsaSeriesdBdt_max

CsaSeriesdBdt_thresh

double CsaSeriesdBdt_thresh

CsaSeriesFlowCompensation

java.lang.String CsaSeriesFlowCompensation

CsaSeriesGradientDelayTime

double[] CsaSeriesGradientDelayTime

CsaSeriesGradientMode

java.lang.String CsaSeriesGradientMode

CsaSeriesIsocentered

int CsaSeriesIsocentered

CsaSeriesLongModelName

java.lang.String CsaSeriesLongModelName

CsaSeriesMiscSequenceParam

int[] CsaSeriesMiscSequenceParam

CsaSeriesMrPhoenixProtocolacFlowComp0

int CsaSeriesMrPhoenixProtocolacFlowComp0

CsaSeriesMrPhoenixProtocoladFlipAngleDegree0

double CsaSeriesMrPhoenixProtocoladFlipAngleDegree0

CsaSeriesMrPhoenixProtocolalTE0

int CsaSeriesMrPhoenixProtocolalTE0

CsaSeriesMrPhoenixProtocolalTR0

int CsaSeriesMrPhoenixProtocolalTR0

CsaSeriesMrPhoenixProtocolasCoilSelectMeas0aFFT_SCALEnbValid

int[] CsaSeriesMrPhoenixProtocolasCoilSelectMeas0aFFT_SCALEnbValid

CsaSeriesMrPhoenixProtocolasCoilSelectMeas0aFFT_SCALEnflFactor

double[] CsaSeriesMrPhoenixProtocolasCoilSelectMeas0aFFT_SCALEnflFactor

CsaSeriesMrPhoenixProtocolasCoilSelectMeas0aFFT_SCALEnlRxChannel

int[] CsaSeriesMrPhoenixProtocolasCoilSelectMeas0aFFT_SCALEnlRxChannel

CsaSeriesMrPhoenixProtocolasCoilSelectMeas0asListnlElementSelected

int[] CsaSeriesMrPhoenixProtocolasCoilSelectMeas0asListnlElementSelected

CsaSeriesMrPhoenixProtocolasCoilSelectMeas0asListnlRxChannelConnected

int[] CsaSeriesMrPhoenixProtocolasCoilSelectMeas0asListnlRxChannelConnected

CsaSeriesMrPhoenixProtocolasCoilSelectMeas0asListnsCoilElementIDlCoilCopy

int[] CsaSeriesMrPhoenixProtocolasCoilSelectMeas0asListnsCoilElementIDlCoilCopy

CsaSeriesMrPhoenixProtocolasCoilSelectMeas0asListnsCoilElementIDtCoilID

java.lang.String[] CsaSeriesMrPhoenixProtocolasCoilSelectMeas0asListnsCoilElementIDtCoilID

CsaSeriesMrPhoenixProtocolasCoilSelectMeas0asListnsCoilElementIDtElement

java.lang.String[] CsaSeriesMrPhoenixProtocolasCoilSelectMeas0asListnsCoilElementIDtElement

CsaSeriesMrPhoenixProtocolasCoilSelectMeas0iUsedRFactor

int CsaSeriesMrPhoenixProtocolasCoilSelectMeas0iUsedRFactor

CsaSeriesMrPhoenixProtocolasCoilSelectMeas0sCOILPLUGSauiNmbrOfNibbles

int[] CsaSeriesMrPhoenixProtocolasCoilSelectMeas0sCOILPLUGSauiNmbrOfNibbles

CsaSeriesMrPhoenixProtocolasCoilSelectMeas0sCOILPLUGSaulPlugId

int[] CsaSeriesMrPhoenixProtocolasCoilSelectMeas0sCOILPLUGSaulPlugId

CsaSeriesMrPhoenixProtocolasCoilSelectMeas0tNucleus

java.lang.String CsaSeriesMrPhoenixProtocolasCoilSelectMeas0tNucleus

CsaSeriesMrPhoenixProtocoldAveragesDouble

double CsaSeriesMrPhoenixProtocoldAveragesDouble

CsaSeriesMrPhoenixProtocoldRefSNR

double CsaSeriesMrPhoenixProtocoldRefSNR

CsaSeriesMrPhoenixProtocoldRefSNR_VOI

double CsaSeriesMrPhoenixProtocoldRefSNR_VOI

CsaSeriesMrPhoenixProtocollAverages

int CsaSeriesMrPhoenixProtocollAverages

CsaSeriesMrPhoenixProtocollCombinedEchoes

int CsaSeriesMrPhoenixProtocollCombinedEchoes

CsaSeriesMrPhoenixProtocollContrasts

int CsaSeriesMrPhoenixProtocollContrasts

CsaSeriesMrPhoenixProtocollParadigmPeriodicity

int CsaSeriesMrPhoenixProtocollParadigmPeriodicity

CsaSeriesMrPhoenixProtocollProtID

int CsaSeriesMrPhoenixProtocollProtID

CsaSeriesMrPhoenixProtocollRepetitions

int CsaSeriesMrPhoenixProtocollRepetitions

CsaSeriesMrPhoenixProtocollScanTimeSec

int CsaSeriesMrPhoenixProtocollScanTimeSec

CsaSeriesMrPhoenixProtocollTOM

int CsaSeriesMrPhoenixProtocollTOM

CsaSeriesMrPhoenixProtocollTotalScanTimeSec

int CsaSeriesMrPhoenixProtocollTotalScanTimeSec

CsaSeriesMrPhoenixProtocolsAdjDatasAdjVolumedInPlaneRot

double CsaSeriesMrPhoenixProtocolsAdjDatasAdjVolumedInPlaneRot

CsaSeriesMrPhoenixProtocolsAdjDatasAdjVolumedPhaseFOV

double CsaSeriesMrPhoenixProtocolsAdjDatasAdjVolumedPhaseFOV

CsaSeriesMrPhoenixProtocolsAdjDatasAdjVolumedReadoutFOV

double CsaSeriesMrPhoenixProtocolsAdjDatasAdjVolumedReadoutFOV

CsaSeriesMrPhoenixProtocolsAdjDatasAdjVolumedThickness

double CsaSeriesMrPhoenixProtocolsAdjDatasAdjVolumedThickness

CsaSeriesMrPhoenixProtocolsAdjDatasAdjVolumesNormaldCor

double CsaSeriesMrPhoenixProtocolsAdjDatasAdjVolumesNormaldCor

CsaSeriesMrPhoenixProtocolsAdjDatasAdjVolumesNormaldSag

double CsaSeriesMrPhoenixProtocolsAdjDatasAdjVolumesNormaldSag

CsaSeriesMrPhoenixProtocolsAdjDatasAdjVolumesNormaldTra

double CsaSeriesMrPhoenixProtocolsAdjDatasAdjVolumesNormaldTra

CsaSeriesMrPhoenixProtocolsAdjDatasAdjVolumesPositiondCor

double CsaSeriesMrPhoenixProtocolsAdjDatasAdjVolumesPositiondCor

CsaSeriesMrPhoenixProtocolsAdjDatasAdjVolumesPositiondSag

double CsaSeriesMrPhoenixProtocolsAdjDatasAdjVolumesPositiondSag

CsaSeriesMrPhoenixProtocolsAdjDatasAdjVolumesPositiondTra

double CsaSeriesMrPhoenixProtocolsAdjDatasAdjVolumesPositiondTra

CsaSeriesMrPhoenixProtocolsAdjDatauiAdjFreMode

int CsaSeriesMrPhoenixProtocolsAdjDatauiAdjFreMode

CsaSeriesMrPhoenixProtocolsAdjDatauiAdjFreProtRelated

int CsaSeriesMrPhoenixProtocolsAdjDatauiAdjFreProtRelated

CsaSeriesMrPhoenixProtocolsAdjDatauiAdjMDSMode

int CsaSeriesMrPhoenixProtocolsAdjDatauiAdjMDSMode

CsaSeriesMrPhoenixProtocolsAdjDatauiAdjProtID

int CsaSeriesMrPhoenixProtocolsAdjDatauiAdjProtID

CsaSeriesMrPhoenixProtocolsAdjDatauiAdjRFMapMode

int CsaSeriesMrPhoenixProtocolsAdjDatauiAdjRFMapMode

CsaSeriesMrPhoenixProtocolsAdjDatauiAdjShimMode

int CsaSeriesMrPhoenixProtocolsAdjDatauiAdjShimMode

CsaSeriesMrPhoenixProtocolsAdjDatauiAdjTableTolerance

int CsaSeriesMrPhoenixProtocolsAdjDatauiAdjTableTolerance

CsaSeriesMrPhoenixProtocolsAdjDatauiAdjVolumeValid

int CsaSeriesMrPhoenixProtocolsAdjDatauiAdjVolumeValid

CsaSeriesMrPhoenixProtocolsAdjDatauiAdjWatSupMode

int CsaSeriesMrPhoenixProtocolsAdjDatauiAdjWatSupMode

CsaSeriesMrPhoenixProtocolsAngiolDynamicReconMode

int CsaSeriesMrPhoenixProtocolsAngiolDynamicReconMode

CsaSeriesMrPhoenixProtocolsAngiolTemporalInterpolation

int CsaSeriesMrPhoenixProtocolsAngiolTemporalInterpolation

CsaSeriesMrPhoenixProtocolsAngioucPCFlowMode

int CsaSeriesMrPhoenixProtocolsAngioucPCFlowMode

CsaSeriesMrPhoenixProtocolsAngioucTOFInflow

int CsaSeriesMrPhoenixProtocolsAngioucTOFInflow

CsaSeriesMrPhoenixProtocolsAslulMode

int CsaSeriesMrPhoenixProtocolsAslulMode

CsaSeriesMrPhoenixProtocolsAutoAligndAAMatrix

double[] CsaSeriesMrPhoenixProtocolsAutoAligndAAMatrix

CsaSeriesMrPhoenixProtocolsBladeParadBladeCoverage

double CsaSeriesMrPhoenixProtocolsBladeParadBladeCoverage

CsaSeriesMrPhoenixProtocolsBladeParaucMotionCorr

int CsaSeriesMrPhoenixProtocolsBladeParaucMotionCorr

CsaSeriesMrPhoenixProtocolsDiffusionulMode

int CsaSeriesMrPhoenixProtocolsDiffusionulMode

CsaSeriesMrPhoenixProtocolsDistortionCorrFilterucMode

int CsaSeriesMrPhoenixProtocolsDistortionCorrFilterucMode

CsaSeriesMrPhoenixProtocolsEFISPECbEFIDataValid

int CsaSeriesMrPhoenixProtocolsEFISPECbEFIDataValid

CsaSeriesMrPhoenixProtocolsFastImaginglEchoTrainDuration

int CsaSeriesMrPhoenixProtocolsFastImaginglEchoTrainDuration

CsaSeriesMrPhoenixProtocolsFastImaginglEPIFactor

int CsaSeriesMrPhoenixProtocolsFastImaginglEPIFactor

CsaSeriesMrPhoenixProtocolsFastImaginglSegments

int CsaSeriesMrPhoenixProtocolsFastImaginglSegments

CsaSeriesMrPhoenixProtocolsFastImaginglShots

int CsaSeriesMrPhoenixProtocolsFastImaginglShots

CsaSeriesMrPhoenixProtocolsFastImaginglSliceTurboFactor

int CsaSeriesMrPhoenixProtocolsFastImaginglSliceTurboFactor

CsaSeriesMrPhoenixProtocolsFastImaginglTurboFactor

int CsaSeriesMrPhoenixProtocolsFastImaginglTurboFactor

CsaSeriesMrPhoenixProtocolsFastImagingucSegmentationMode

int CsaSeriesMrPhoenixProtocolsFastImagingucSegmentationMode

CsaSeriesMrPhoenixProtocolsGRADSPECalShimCurrent0

int CsaSeriesMrPhoenixProtocolsGRADSPECalShimCurrent0

CsaSeriesMrPhoenixProtocolsGRADSPECalShimCurrent1

int CsaSeriesMrPhoenixProtocolsGRADSPECalShimCurrent1

CsaSeriesMrPhoenixProtocolsGRADSPECalShimCurrent2

int CsaSeriesMrPhoenixProtocolsGRADSPECalShimCurrent2

CsaSeriesMrPhoenixProtocolsGRADSPECalShimCurrent3

int CsaSeriesMrPhoenixProtocolsGRADSPECalShimCurrent3

CsaSeriesMrPhoenixProtocolsGRADSPECalShimCurrent4

int CsaSeriesMrPhoenixProtocolsGRADSPECalShimCurrent4

CsaSeriesMrPhoenixProtocolsGRADSPECbB0CompensationValid

int CsaSeriesMrPhoenixProtocolsGRADSPECbB0CompensationValid

CsaSeriesMrPhoenixProtocolsGRADSPECbCrossTermCompensationValid

int CsaSeriesMrPhoenixProtocolsGRADSPECbCrossTermCompensationValid

CsaSeriesMrPhoenixProtocolsGRADSPECbDelayValid

int CsaSeriesMrPhoenixProtocolsGRADSPECbDelayValid

CsaSeriesMrPhoenixProtocolsGRADSPECbEddyCompensationValid

int CsaSeriesMrPhoenixProtocolsGRADSPECbEddyCompensationValid

CsaSeriesMrPhoenixProtocolsGRADSPECbOffsetValid

int CsaSeriesMrPhoenixProtocolsGRADSPECbOffsetValid

CsaSeriesMrPhoenixProtocolsGRADSPECbSensitivityValid

int CsaSeriesMrPhoenixProtocolsGRADSPECbSensitivityValid

CsaSeriesMrPhoenixProtocolsGRADSPECbShimCurrentValid

int CsaSeriesMrPhoenixProtocolsGRADSPECbShimCurrentValid

CsaSeriesMrPhoenixProtocolsGRADSPECflGSWDMinRiseTime

double CsaSeriesMrPhoenixProtocolsGRADSPECflGSWDMinRiseTime

CsaSeriesMrPhoenixProtocolsGRADSPECflSensitivityX

double CsaSeriesMrPhoenixProtocolsGRADSPECflSensitivityX

CsaSeriesMrPhoenixProtocolsGRADSPECflSensitivityY

double CsaSeriesMrPhoenixProtocolsGRADSPECflSensitivityY

CsaSeriesMrPhoenixProtocolsGRADSPECflSensitivityZ

double CsaSeriesMrPhoenixProtocolsGRADSPECflSensitivityZ

CsaSeriesMrPhoenixProtocolsGRADSPEClDelayX

int CsaSeriesMrPhoenixProtocolsGRADSPEClDelayX

CsaSeriesMrPhoenixProtocolsGRADSPEClDelayY

int CsaSeriesMrPhoenixProtocolsGRADSPEClDelayY

CsaSeriesMrPhoenixProtocolsGRADSPEClDelayZ

int CsaSeriesMrPhoenixProtocolsGRADSPEClDelayZ

CsaSeriesMrPhoenixProtocolsGRADSPEClOffsetX

int CsaSeriesMrPhoenixProtocolsGRADSPEClOffsetX

CsaSeriesMrPhoenixProtocolsGRADSPEClOffsetY

int CsaSeriesMrPhoenixProtocolsGRADSPEClOffsetY

CsaSeriesMrPhoenixProtocolsGRADSPEClOffsetZ

int CsaSeriesMrPhoenixProtocolsGRADSPEClOffsetZ

CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationXaflAmplitude0

double CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationXaflAmplitude0

CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationXaflAmplitude1

double CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationXaflAmplitude1

CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationXaflAmplitude2

double CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationXaflAmplitude2

CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationXaflTimeConstant0

double CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationXaflTimeConstant0

CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationXaflTimeConstant1

double CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationXaflTimeConstant1

CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationXaflTimeConstant2

double CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationXaflTimeConstant2

CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationYaflAmplitude0

double CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationYaflAmplitude0

CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationYaflAmplitude1

double CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationYaflAmplitude1

CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationYaflAmplitude2

double CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationYaflAmplitude2

CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationYaflTimeConstant0

double CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationYaflTimeConstant0

CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationYaflTimeConstant1

double CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationYaflTimeConstant1

CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationYaflTimeConstant2

double CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationYaflTimeConstant2

CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationZaflAmplitude0

double CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationZaflAmplitude0

CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationZaflAmplitude1

double CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationZaflAmplitude1

CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationZaflAmplitude2

double CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationZaflAmplitude2

CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationZaflTimeConstant0

double CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationZaflTimeConstant0

CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationZaflTimeConstant1

double CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationZaflTimeConstant1

CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationZaflTimeConstant2

double CsaSeriesMrPhoenixProtocolsGRADSPECsB0CompensationZaflTimeConstant2

CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationXYaflAmplitude0

double CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationXYaflAmplitude0

CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationXYaflTimeConstant0

double CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationXYaflTimeConstant0

CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationXZaflAmplitude0

double CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationXZaflAmplitude0

CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationXZaflTimeConstant0

double CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationXZaflTimeConstant0

CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationYXaflAmplitude0

double CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationYXaflAmplitude0

CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationYXaflTimeConstant0

double CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationYXaflTimeConstant0

CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationYZaflAmplitude0

double CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationYZaflAmplitude0

CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationYZaflTimeConstant0

double CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationYZaflTimeConstant0

CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationZXaflAmplitude0

double CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationZXaflAmplitude0

CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationZXaflTimeConstant0

double CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationZXaflTimeConstant0

CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationZYaflAmplitude0

double CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationZYaflAmplitude0

CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationZYaflTimeConstant0

double CsaSeriesMrPhoenixProtocolsGRADSPECsCrossTermCompensationZYaflTimeConstant0

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationXaflAmplitude0

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationXaflAmplitude0

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationXaflAmplitude1

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationXaflAmplitude1

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationXaflAmplitude2

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationXaflAmplitude2

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationXaflAmplitude3

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationXaflAmplitude3

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationXaflAmplitude4

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationXaflAmplitude4

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationXaflTimeConstant0

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationXaflTimeConstant0

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationXaflTimeConstant1

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationXaflTimeConstant1

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationXaflTimeConstant2

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationXaflTimeConstant2

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationXaflTimeConstant3

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationXaflTimeConstant3

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationXaflTimeConstant4

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationXaflTimeConstant4

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationYaflAmplitude0

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationYaflAmplitude0

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationYaflAmplitude1

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationYaflAmplitude1

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationYaflAmplitude2

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationYaflAmplitude2

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationYaflAmplitude3

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationYaflAmplitude3

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationYaflAmplitude4

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationYaflAmplitude4

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationYaflTimeConstant0

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationYaflTimeConstant0

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationYaflTimeConstant1

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationYaflTimeConstant1

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationYaflTimeConstant2

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationYaflTimeConstant2

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationYaflTimeConstant3

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationYaflTimeConstant3

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationYaflTimeConstant4

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationYaflTimeConstant4

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationZaflAmplitude0

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationZaflAmplitude0

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationZaflAmplitude1

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationZaflAmplitude1

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationZaflAmplitude2

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationZaflAmplitude2

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationZaflAmplitude3

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationZaflAmplitude3

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationZaflAmplitude4

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationZaflAmplitude4

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationZaflTimeConstant0

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationZaflTimeConstant0

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationZaflTimeConstant1

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationZaflTimeConstant1

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationZaflTimeConstant2

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationZaflTimeConstant2

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationZaflTimeConstant3

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationZaflTimeConstant3

CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationZaflTimeConstant4

double CsaSeriesMrPhoenixProtocolsGRADSPECsEddyCompensationZaflTimeConstant4

CsaSeriesMrPhoenixProtocolsGRADSPECucMode

int CsaSeriesMrPhoenixProtocolsGRADSPECucMode

CsaSeriesMrPhoenixProtocolsGroupArrayanMember

int[] CsaSeriesMrPhoenixProtocolsGroupArrayanMember

CsaSeriesMrPhoenixProtocolsGroupArrayasGroup0nSize

int CsaSeriesMrPhoenixProtocolsGroupArrayasGroup0nSize

CsaSeriesMrPhoenixProtocolsGroupArraylSize

int CsaSeriesMrPhoenixProtocolsGroupArraylSize

CsaSeriesMrPhoenixProtocolsGroupArraysPSatdGap

double CsaSeriesMrPhoenixProtocolsGroupArraysPSatdGap

CsaSeriesMrPhoenixProtocolsGroupArraysPSatdThickness

double CsaSeriesMrPhoenixProtocolsGroupArraysPSatdThickness

CsaSeriesMrPhoenixProtocolsKSpacedAngioDynCentralRegionA

double CsaSeriesMrPhoenixProtocolsKSpacedAngioDynCentralRegionA

CsaSeriesMrPhoenixProtocolsKSpacedAngioDynSamplingDensityB

double CsaSeriesMrPhoenixProtocolsKSpacedAngioDynSamplingDensityB

CsaSeriesMrPhoenixProtocolsKSpacedPhaseResolution

double CsaSeriesMrPhoenixProtocolsKSpacedPhaseResolution

CsaSeriesMrPhoenixProtocolsKSpacedSeqPhasePartialFourierForSNR

double CsaSeriesMrPhoenixProtocolsKSpacedSeqPhasePartialFourierForSNR

CsaSeriesMrPhoenixProtocolsKSpacedSliceResolution

double CsaSeriesMrPhoenixProtocolsKSpacedSliceResolution

CsaSeriesMrPhoenixProtocolsKSpacelBaseResolution

int CsaSeriesMrPhoenixProtocolsKSpacelBaseResolution

CsaSeriesMrPhoenixProtocolsKSpacelImagesPerSlab

int CsaSeriesMrPhoenixProtocolsKSpacelImagesPerSlab

CsaSeriesMrPhoenixProtocolsKSpacelLinesPerShot

int CsaSeriesMrPhoenixProtocolsKSpacelLinesPerShot

CsaSeriesMrPhoenixProtocolsKSpacelPartitions

int CsaSeriesMrPhoenixProtocolsKSpacelPartitions

CsaSeriesMrPhoenixProtocolsKSpacelPhaseEncodingLines

int CsaSeriesMrPhoenixProtocolsKSpacelPhaseEncodingLines

CsaSeriesMrPhoenixProtocolsKSpacelRadialInterleavesPerImage

int CsaSeriesMrPhoenixProtocolsKSpacelRadialInterleavesPerImage

CsaSeriesMrPhoenixProtocolsKSpacelRadialViews

int CsaSeriesMrPhoenixProtocolsKSpacelRadialViews

CsaSeriesMrPhoenixProtocolsKSpaceucAsymmetricEchoMode

int CsaSeriesMrPhoenixProtocolsKSpaceucAsymmetricEchoMode

CsaSeriesMrPhoenixProtocolsKSpaceucAveragingMode

int CsaSeriesMrPhoenixProtocolsKSpaceucAveragingMode

CsaSeriesMrPhoenixProtocolsKSpaceucDimension

int CsaSeriesMrPhoenixProtocolsKSpaceucDimension

CsaSeriesMrPhoenixProtocolsKSpaceucMultiSliceMode

int CsaSeriesMrPhoenixProtocolsKSpaceucMultiSliceMode

CsaSeriesMrPhoenixProtocolsKSpaceucPhasePartialFourier

int CsaSeriesMrPhoenixProtocolsKSpaceucPhasePartialFourier

CsaSeriesMrPhoenixProtocolsKSpaceucPOCS

int CsaSeriesMrPhoenixProtocolsKSpaceucPOCS

CsaSeriesMrPhoenixProtocolsKSpaceucSlicePartialFourier

int CsaSeriesMrPhoenixProtocolsKSpaceucSlicePartialFourier

CsaSeriesMrPhoenixProtocolsKSpaceucTrajectory

int CsaSeriesMrPhoenixProtocolsKSpaceucTrajectory

CsaSeriesMrPhoenixProtocolsKSpaceucViewSharing

int CsaSeriesMrPhoenixProtocolsKSpaceucViewSharing

CsaSeriesMrPhoenixProtocolsKSpaceunReordering

int CsaSeriesMrPhoenixProtocolsKSpaceunReordering

CsaSeriesMrPhoenixProtocolsMDSdMdsRangeExtension

double CsaSeriesMrPhoenixProtocolsMDSdMdsRangeExtension

CsaSeriesMrPhoenixProtocolsMDSlmdsLinesPerSegment

int CsaSeriesMrPhoenixProtocolsMDSlmdsLinesPerSegment

CsaSeriesMrPhoenixProtocolsMDSlTableSpeedNumerator

int CsaSeriesMrPhoenixProtocolsMDSlTableSpeedNumerator

CsaSeriesMrPhoenixProtocolsMDSsMdsEndPosSBCS_mmdTra

double CsaSeriesMrPhoenixProtocolsMDSsMdsEndPosSBCS_mmdTra

CsaSeriesMrPhoenixProtocolsMDSulMdsModeMask

int CsaSeriesMrPhoenixProtocolsMDSulMdsModeMask

CsaSeriesMrPhoenixProtocolsMDSulMdsReconMode

int CsaSeriesMrPhoenixProtocolsMDSulMdsReconMode

CsaSeriesMrPhoenixProtocolsMDSulMdsVariableResolution

int CsaSeriesMrPhoenixProtocolsMDSulMdsVariableResolution

CsaSeriesMrPhoenixProtocolsNavigatorParalBreathHoldMeas

int CsaSeriesMrPhoenixProtocolsNavigatorParalBreathHoldMeas

CsaSeriesMrPhoenixProtocolsNavigatorParalRespComp

int CsaSeriesMrPhoenixProtocolsNavigatorParalRespComp

CsaSeriesMrPhoenixProtocolsParametricMappingucParametricMap

int CsaSeriesMrPhoenixProtocolsParametricMappingucParametricMap

CsaSeriesMrPhoenixProtocolsPatlAccelFact3D

int CsaSeriesMrPhoenixProtocolsPatlAccelFact3D

CsaSeriesMrPhoenixProtocolsPatlAccelFactPE

int CsaSeriesMrPhoenixProtocolsPatlAccelFactPE

CsaSeriesMrPhoenixProtocolsPatlRefLinesPE

int CsaSeriesMrPhoenixProtocolsPatlRefLinesPE

CsaSeriesMrPhoenixProtocolsPatucPATMode

int CsaSeriesMrPhoenixProtocolsPatucPATMode

CsaSeriesMrPhoenixProtocolsPatucRefScanMode

int CsaSeriesMrPhoenixProtocolsPatucRefScanMode

CsaSeriesMrPhoenixProtocolsPatucTPatAverageAllFrames

int CsaSeriesMrPhoenixProtocolsPatucTPatAverageAllFrames

CsaSeriesMrPhoenixProtocolsPhysioImaginglMethod1

int CsaSeriesMrPhoenixProtocolsPhysioImaginglMethod1

CsaSeriesMrPhoenixProtocolsPhysioImaginglMethod2

int CsaSeriesMrPhoenixProtocolsPhysioImaginglMethod2

CsaSeriesMrPhoenixProtocolsPhysioImaginglPhases

int CsaSeriesMrPhoenixProtocolsPhysioImaginglPhases

CsaSeriesMrPhoenixProtocolsPhysioImaginglRetroGatedImages

int CsaSeriesMrPhoenixProtocolsPhysioImaginglRetroGatedImages

CsaSeriesMrPhoenixProtocolsPhysioImaginglSignal1

int CsaSeriesMrPhoenixProtocolsPhysioImaginglSignal1

CsaSeriesMrPhoenixProtocolsPhysioImaginglSignal2

int CsaSeriesMrPhoenixProtocolsPhysioImaginglSignal2

CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioECGlArrhythmiaDetection

int CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioECGlArrhythmiaDetection

CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioECGlCardiacGateOffThreshold

int CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioECGlCardiacGateOffThreshold

CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioECGlCardiacGateOnThreshold

int CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioECGlCardiacGateOnThreshold

CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioECGlTriggerIntervals

int CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioECGlTriggerIntervals

CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioECGlTriggerPulses

int CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioECGlTriggerPulses

CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioECGlTriggerWindow

int CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioECGlTriggerWindow

CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioExtlArrhythmiaDetection

int CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioExtlArrhythmiaDetection

CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioExtlCardiacGateOffThreshold

int CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioExtlCardiacGateOffThreshold

CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioExtlCardiacGateOnThreshold

int CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioExtlCardiacGateOnThreshold

CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioExtlTriggerIntervals

int CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioExtlTriggerIntervals

CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioExtlTriggerPulses

int CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioExtlTriggerPulses

CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioExtlTriggerWindow

int CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioExtlTriggerWindow

CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioNativeucFlowSenMode

int CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioNativeucFlowSenMode

CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioNativeucMode

int CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioNativeucMode

CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioPulselArrhythmiaDetection

int CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioPulselArrhythmiaDetection

CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioPulselCardiacGateOffThreshold

int CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioPulselCardiacGateOffThreshold

CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioPulselCardiacGateOnThreshold

int CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioPulselCardiacGateOnThreshold

CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioPulselTriggerIntervals

int CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioPulselTriggerIntervals

CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioPulselTriggerPulses

int CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioPulselTriggerPulses

CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioPulselTriggerWindow

int CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioPulselTriggerWindow

CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioRespdGatingRatio

double CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioRespdGatingRatio

CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioResplRespGatePhase

int CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioResplRespGatePhase

CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioResplRespGateThreshold

int CsaSeriesMrPhoenixProtocolsPhysioImagingsPhysioResplRespGateThreshold

CsaSeriesMrPhoenixProtocolsPrepPulsesdDarkBloodFlipAngle

double CsaSeriesMrPhoenixProtocolsPrepPulsesdDarkBloodFlipAngle

CsaSeriesMrPhoenixProtocolsPrepPulsesdDarkBloodThickness

double CsaSeriesMrPhoenixProtocolsPrepPulsesdDarkBloodThickness

CsaSeriesMrPhoenixProtocolsPrepPulsesdIRPulseThicknessFactor

double CsaSeriesMrPhoenixProtocolsPrepPulsesdIRPulseThicknessFactor

CsaSeriesMrPhoenixProtocolsPrepPulsesdT2PrepDuration

double CsaSeriesMrPhoenixProtocolsPrepPulsesdT2PrepDuration

CsaSeriesMrPhoenixProtocolsPrepPulsesucFatSat

int CsaSeriesMrPhoenixProtocolsPrepPulsesucFatSat

CsaSeriesMrPhoenixProtocolsPrepPulsesucFatSatMode

int CsaSeriesMrPhoenixProtocolsPrepPulsesucFatSatMode

CsaSeriesMrPhoenixProtocolsPrepPulsesucInversion

int CsaSeriesMrPhoenixProtocolsPrepPulsesucInversion

CsaSeriesMrPhoenixProtocolsPrepPulsesucSatRecovery

int CsaSeriesMrPhoenixProtocolsPrepPulsesucSatRecovery

CsaSeriesMrPhoenixProtocolsPrepPulsesucT2Prep

int CsaSeriesMrPhoenixProtocolsPrepPulsesucT2Prep

CsaSeriesMrPhoenixProtocolsPrepPulsesucTIScout

int CsaSeriesMrPhoenixProtocolsPrepPulsesucTIScout

CsaSeriesMrPhoenixProtocolsPrepPulsesucWaterSat

int CsaSeriesMrPhoenixProtocolsPrepPulsesucWaterSat

CsaSeriesMrPhoenixProtocolsProtConsistencyInfoflGMax

double CsaSeriesMrPhoenixProtocolsProtConsistencyInfoflGMax

CsaSeriesMrPhoenixProtocolsProtConsistencyInfoflNominalB0

double CsaSeriesMrPhoenixProtocolsProtConsistencyInfoflNominalB0

CsaSeriesMrPhoenixProtocolsProtConsistencyInfoflRiseTime

double CsaSeriesMrPhoenixProtocolsProtConsistencyInfoflRiseTime

CsaSeriesMrPhoenixProtocolsProtConsistencyInfolMaximumNofRxReceiverChannels

int CsaSeriesMrPhoenixProtocolsProtConsistencyInfolMaximumNofRxReceiverChannels

CsaSeriesMrPhoenixProtocolsProtConsistencyInfotBaselineString

java.lang.String CsaSeriesMrPhoenixProtocolsProtConsistencyInfotBaselineString

CsaSeriesMrPhoenixProtocolsProtConsistencyInfotSystemType

java.lang.String CsaSeriesMrPhoenixProtocolsProtConsistencyInfotSystemType

CsaSeriesMrPhoenixProtocolsRawFilterlSlope_256

int CsaSeriesMrPhoenixProtocolsRawFilterlSlope_256

CsaSeriesMrPhoenixProtocolsRawFilterucMode

int CsaSeriesMrPhoenixProtocolsRawFilterucMode

CsaSeriesMrPhoenixProtocolsRawFilterucOn

int CsaSeriesMrPhoenixProtocolsRawFilterucOn

CsaSeriesMrPhoenixProtocolsRSatArrayasElm0dThickness

double CsaSeriesMrPhoenixProtocolsRSatArrayasElm0dThickness

CsaSeriesMrPhoenixProtocolsRSatArrayasElm0sNormaldCor

double CsaSeriesMrPhoenixProtocolsRSatArrayasElm0sNormaldCor

CsaSeriesMrPhoenixProtocolsRSatArrayasElm0sNormaldSag

double CsaSeriesMrPhoenixProtocolsRSatArrayasElm0sNormaldSag

CsaSeriesMrPhoenixProtocolsRSatArrayasElm0sNormaldTra

double CsaSeriesMrPhoenixProtocolsRSatArrayasElm0sNormaldTra

CsaSeriesMrPhoenixProtocolsRSatArrayasElm0sPositiondCor

double CsaSeriesMrPhoenixProtocolsRSatArrayasElm0sPositiondCor

CsaSeriesMrPhoenixProtocolsRSatArrayasElm0sPositiondSag

double CsaSeriesMrPhoenixProtocolsRSatArrayasElm0sPositiondSag

CsaSeriesMrPhoenixProtocolsRSatArrayasElm0sPositiondTra

double CsaSeriesMrPhoenixProtocolsRSatArrayasElm0sPositiondTra

CsaSeriesMrPhoenixProtocolsRSatArraylSize

int CsaSeriesMrPhoenixProtocolsRSatArraylSize

CsaSeriesMrPhoenixProtocolsRXSPECalDwellTime0

int CsaSeriesMrPhoenixProtocolsRXSPECalDwellTime0

CsaSeriesMrPhoenixProtocolsRXSPECbGainValid

int CsaSeriesMrPhoenixProtocolsRXSPECbGainValid

CsaSeriesMrPhoenixProtocolsRXSPEClGain

int CsaSeriesMrPhoenixProtocolsRXSPEClGain

CsaSeriesMrPhoenixProtocolsSliceArrayanAsc

int[] CsaSeriesMrPhoenixProtocolsSliceArrayanAsc

CsaSeriesMrPhoenixProtocolsSliceArrayanPos

int[] CsaSeriesMrPhoenixProtocolsSliceArrayanPos

CsaSeriesMrPhoenixProtocolsSliceArrayasSlicezdInPlaneRot

double[] CsaSeriesMrPhoenixProtocolsSliceArrayasSlicezdInPlaneRot

CsaSeriesMrPhoenixProtocolsSliceArrayasSlicezdPhaseFOV

double[] CsaSeriesMrPhoenixProtocolsSliceArrayasSlicezdPhaseFOV

CsaSeriesMrPhoenixProtocolsSliceArrayasSlicezdReadoutFOV

double[] CsaSeriesMrPhoenixProtocolsSliceArrayasSlicezdReadoutFOV

CsaSeriesMrPhoenixProtocolsSliceArrayasSlicezdThickness

double[] CsaSeriesMrPhoenixProtocolsSliceArrayasSlicezdThickness

CsaSeriesMrPhoenixProtocolsSliceArrayasSlicezsNormaldCor

double[] CsaSeriesMrPhoenixProtocolsSliceArrayasSlicezsNormaldCor

CsaSeriesMrPhoenixProtocolsSliceArrayasSlicezsNormaldSag

double[] CsaSeriesMrPhoenixProtocolsSliceArrayasSlicezsNormaldSag

CsaSeriesMrPhoenixProtocolsSliceArrayasSlicezsNormaldTra

double[] CsaSeriesMrPhoenixProtocolsSliceArrayasSlicezsNormaldTra

CsaSeriesMrPhoenixProtocolsSliceArrayasSlicezsPositiondCor

double[] CsaSeriesMrPhoenixProtocolsSliceArrayasSlicezsPositiondCor

CsaSeriesMrPhoenixProtocolsSliceArrayasSlicezsPositiondSag

double[] CsaSeriesMrPhoenixProtocolsSliceArrayasSlicezsPositiondSag

CsaSeriesMrPhoenixProtocolsSliceArrayasSlicezsPositiondTra

double[] CsaSeriesMrPhoenixProtocolsSliceArrayasSlicezsPositiondTra

CsaSeriesMrPhoenixProtocolsSliceArraylConc

int CsaSeriesMrPhoenixProtocolsSliceArraylConc

CsaSeriesMrPhoenixProtocolsSliceArraylSize

int CsaSeriesMrPhoenixProtocolsSliceArraylSize

CsaSeriesMrPhoenixProtocolsSliceArraysTSatdThickness

double CsaSeriesMrPhoenixProtocolsSliceArraysTSatdThickness

CsaSeriesMrPhoenixProtocolsSliceArrayucMode

int CsaSeriesMrPhoenixProtocolsSliceArrayucMode

CsaSeriesMrPhoenixProtocolsSpecParalAutoRefScanNo

int CsaSeriesMrPhoenixProtocolsSpecParalAutoRefScanNo

CsaSeriesMrPhoenixProtocolsSpecParalDecouplingType

int CsaSeriesMrPhoenixProtocolsSpecParalDecouplingType

CsaSeriesMrPhoenixProtocolsSpecParalExcitationType

int CsaSeriesMrPhoenixProtocolsSpecParalExcitationType

CsaSeriesMrPhoenixProtocolsSpecParalNOEType

int CsaSeriesMrPhoenixProtocolsSpecParalNOEType

CsaSeriesMrPhoenixProtocolsSpecParalPhaseCyclingType

int CsaSeriesMrPhoenixProtocolsSpecParalPhaseCyclingType

CsaSeriesMrPhoenixProtocolsSpecParalPhaseEncodingType

int CsaSeriesMrPhoenixProtocolsSpecParalPhaseEncodingType

CsaSeriesMrPhoenixProtocolsSpecParalRFExcitationBandwidth

int CsaSeriesMrPhoenixProtocolsSpecParalRFExcitationBandwidth

CsaSeriesMrPhoenixProtocolsSpecParalSpecAppl

int CsaSeriesMrPhoenixProtocolsSpecParalSpecAppl

CsaSeriesMrPhoenixProtocolsSpecParalSpectralSuppression

int CsaSeriesMrPhoenixProtocolsSpecParalSpectralSuppression

CsaSeriesMrPhoenixProtocolsSpecParaucRemoveOversampling

int CsaSeriesMrPhoenixProtocolsSpecParaucRemoveOversampling

CsaSeriesMrPhoenixProtocolsTXSPECaRFPULSEnbAmplitudeValid

int[] CsaSeriesMrPhoenixProtocolsTXSPECaRFPULSEnbAmplitudeValid

CsaSeriesMrPhoenixProtocolsTXSPECaRFPULSEnflAmplitude

double[] CsaSeriesMrPhoenixProtocolsTXSPECaRFPULSEnflAmplitude

CsaSeriesMrPhoenixProtocolsTXSPECaRFPULSEntName

java.lang.String[] CsaSeriesMrPhoenixProtocolsTXSPECaRFPULSEntName

CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo0bAmplitudeCorrectionValid

int CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo0bAmplitudeCorrectionValid

CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo0bFrequencyValid

int CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo0bFrequencyValid

CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo0bReferenceAmplitudeValid

int CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo0bReferenceAmplitudeValid

CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo0bRFPAIndexValid

int CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo0bRFPAIndexValid

CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo0flAmplitudeCorrection

double CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo0flAmplitudeCorrection

CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo0flReferenceAmplitude

double CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo0flReferenceAmplitude

CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo0lFrequency

int CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo0lFrequency

CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo0tNucleus

java.lang.String CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo0tNucleus

CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo1bAmplitudeCorrectionValid

int CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo1bAmplitudeCorrectionValid

CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo1bFrequencyValid

int CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo1bFrequencyValid

CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo1bReferenceAmplitudeValid

int CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo1bReferenceAmplitudeValid

CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo1bRFPAIndexValid

int CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo1bRFPAIndexValid

CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo1flAmplitudeCorrection

double CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo1flAmplitudeCorrection

CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo1lRFPAIndex

int CsaSeriesMrPhoenixProtocolsTXSPECasNucleusInfo1lRFPAIndex

CsaSeriesMrPhoenixProtocolsTXSPECbKDynValid

int CsaSeriesMrPhoenixProtocolsTXSPECbKDynValid

CsaSeriesMrPhoenixProtocolsTXSPECflKDynMagnitudeClipHigh

double CsaSeriesMrPhoenixProtocolsTXSPECflKDynMagnitudeClipHigh

CsaSeriesMrPhoenixProtocolsTXSPECflKDynMagnitudeClipLow

double CsaSeriesMrPhoenixProtocolsTXSPECflKDynMagnitudeClipLow

CsaSeriesMrPhoenixProtocolsTXSPECflKDynMagnitudeMax

double CsaSeriesMrPhoenixProtocolsTXSPECflKDynMagnitudeMax

CsaSeriesMrPhoenixProtocolsTXSPECflKDynMagnitudeMin

double CsaSeriesMrPhoenixProtocolsTXSPECflKDynMagnitudeMin

CsaSeriesMrPhoenixProtocolsTXSPECflKDynPhaseClip

double CsaSeriesMrPhoenixProtocolsTXSPECflKDynPhaseClip

CsaSeriesMrPhoenixProtocolsTXSPECflKDynPhaseMax

double CsaSeriesMrPhoenixProtocolsTXSPECflKDynPhaseMax

CsaSeriesMrPhoenixProtocolsTXSPEClBCExcitationMode

int CsaSeriesMrPhoenixProtocolsTXSPEClBCExcitationMode

CsaSeriesMrPhoenixProtocolsTXSPEClBCSeqExcitationMode

int CsaSeriesMrPhoenixProtocolsTXSPEClBCSeqExcitationMode

CsaSeriesMrPhoenixProtocolsTXSPEClNoOfTraPulses

int CsaSeriesMrPhoenixProtocolsTXSPEClNoOfTraPulses

CsaSeriesMrPhoenixProtocolsTXSPECucBCExcitationModeValid

int CsaSeriesMrPhoenixProtocolsTXSPECucBCExcitationModeValid

CsaSeriesMrPhoenixProtocolsTXSPECucExcitMode

int CsaSeriesMrPhoenixProtocolsTXSPECucExcitMode

CsaSeriesMrPhoenixProtocolsTXSPECucRFPulseType

int CsaSeriesMrPhoenixProtocolsTXSPECucRFPulseType

CsaSeriesMrPhoenixProtocolsTXSPECucSimultaneousExcitation

int CsaSeriesMrPhoenixProtocolsTXSPECucSimultaneousExcitation

CsaSeriesMrPhoenixProtocolsWiPMemBlockadFree

double[] CsaSeriesMrPhoenixProtocolsWiPMemBlockadFree

CsaSeriesMrPhoenixProtocolsWiPMemBlockalFree

int[] CsaSeriesMrPhoenixProtocolsWiPMemBlockalFree

CsaSeriesMrPhoenixProtocolsWiPMemBlocktFree

java.lang.String CsaSeriesMrPhoenixProtocolsWiPMemBlocktFree

CsaSeriesMrPhoenixProtocoltdefaultEVAProt

java.lang.String CsaSeriesMrPhoenixProtocoltdefaultEVAProt

CsaSeriesMrPhoenixProtocoltProtocolName

java.lang.String CsaSeriesMrPhoenixProtocoltProtocolName

CsaSeriesMrPhoenixProtocoltReferenceImage0

java.lang.String CsaSeriesMrPhoenixProtocoltReferenceImage0

CsaSeriesMrPhoenixProtocoltReferenceImage1

java.lang.String CsaSeriesMrPhoenixProtocoltReferenceImage1

CsaSeriesMrPhoenixProtocoltReferenceImage2

java.lang.String CsaSeriesMrPhoenixProtocoltReferenceImage2

CsaSeriesMrPhoenixProtocoltSequenceFileName

java.lang.String CsaSeriesMrPhoenixProtocoltSequenceFileName

CsaSeriesMrPhoenixProtocolucAAMode

int CsaSeriesMrPhoenixProtocolucAAMode

CsaSeriesMrPhoenixProtocolucAARefMode

int CsaSeriesMrPhoenixProtocolucAARefMode

CsaSeriesMrPhoenixProtocolucAARegionMode

int CsaSeriesMrPhoenixProtocolucAARegionMode

CsaSeriesMrPhoenixProtocolucAutoAlignInit

int CsaSeriesMrPhoenixProtocolucAutoAlignInit

CsaSeriesMrPhoenixProtocolucBold3dPace

int CsaSeriesMrPhoenixProtocolucBold3dPace

CsaSeriesMrPhoenixProtocolucBOLDParadigmArray

int[] CsaSeriesMrPhoenixProtocolucBOLDParadigmArray

CsaSeriesMrPhoenixProtocolucCineMode

int CsaSeriesMrPhoenixProtocolucCineMode

CsaSeriesMrPhoenixProtocolucCoilCombineMode

int CsaSeriesMrPhoenixProtocolucCoilCombineMode

CsaSeriesMrPhoenixProtocolucDisableChangeStoreImages

int CsaSeriesMrPhoenixProtocolucDisableChangeStoreImages

CsaSeriesMrPhoenixProtocolucDixon

int CsaSeriesMrPhoenixProtocolucDixon

CsaSeriesMrPhoenixProtocolucDixonSaveOriginal

int CsaSeriesMrPhoenixProtocolucDixonSaveOriginal

CsaSeriesMrPhoenixProtocolucEnableIntro

int CsaSeriesMrPhoenixProtocolucEnableIntro

CsaSeriesMrPhoenixProtocolucEnableNoiseAdjust

int CsaSeriesMrPhoenixProtocolucEnableNoiseAdjust

CsaSeriesMrPhoenixProtocolucFlipAngleMode

int CsaSeriesMrPhoenixProtocolucFlipAngleMode

CsaSeriesMrPhoenixProtocolucForcePositioningOnNDIS

int CsaSeriesMrPhoenixProtocolucForcePositioningOnNDIS

CsaSeriesMrPhoenixProtocolucInteractiveRealtime

int CsaSeriesMrPhoenixProtocolucInteractiveRealtime

CsaSeriesMrPhoenixProtocolucInternalTablePosValid

int CsaSeriesMrPhoenixProtocolucInternalTablePosValid

CsaSeriesMrPhoenixProtocolucOneSeriesForAllMeas

int CsaSeriesMrPhoenixProtocolucOneSeriesForAllMeas

CsaSeriesMrPhoenixProtocolucPHAPSMode

int CsaSeriesMrPhoenixProtocolucPHAPSMode

CsaSeriesMrPhoenixProtocolucReadOutMode

int CsaSeriesMrPhoenixProtocolucReadOutMode

CsaSeriesMrPhoenixProtocolucReconstructionMode

int CsaSeriesMrPhoenixProtocolucReconstructionMode

CsaSeriesMrPhoenixProtocolucScanRegionPosValid

int CsaSeriesMrPhoenixProtocolucScanRegionPosValid

CsaSeriesMrPhoenixProtocolucSequenceType

int CsaSeriesMrPhoenixProtocolucSequenceType

CsaSeriesMrPhoenixProtocolucTablePositioningMode

int CsaSeriesMrPhoenixProtocolucTablePositioningMode

CsaSeriesMrPhoenixProtocolucWaitForPrepareCompletion

int CsaSeriesMrPhoenixProtocolucWaitForPrepareCompletion

CsaSeriesMrPhoenixProtocolulVersion

int CsaSeriesMrPhoenixProtocolulVersion

CsaSeriesMrPhoenixProtocolWaitForUserStart

int CsaSeriesMrPhoenixProtocolWaitForUserStart

CsaSeriesMrProtocolVersion

int CsaSeriesMrProtocolVersion

CsaSeriesNumberOfPrescans

int CsaSeriesNumberOfPrescans

CsaSeriesOperation_mode_flag

int CsaSeriesOperation_mode_flag

CsaSeriesPATModeText

java.lang.String CsaSeriesPATModeText

CsaSeriesPatReinPattern

java.lang.String CsaSeriesPatReinPattern

CsaSeriesPhaseGradientAmplitude

double CsaSeriesPhaseGradientAmplitude

CsaSeriesPositivePCSDirections

java.lang.String CsaSeriesPositivePCSDirections

CsaSeriesProtocolChangeHistory

int CsaSeriesProtocolChangeHistory

CsaSeriesReadoutGradientAmplitude

double CsaSeriesReadoutGradientAmplitude

CsaSeriesReadoutOS

double CsaSeriesReadoutOS

CsaSeriesRelTablePosition

int[] CsaSeriesRelTablePosition

CsaSeriesRFSWDMostCriticalAspect

java.lang.String CsaSeriesRFSWDMostCriticalAspect

CsaSeriesRFSWDOperationMode

int CsaSeriesRFSWDOperationMode

CsaSeriesRfWatchdogMask

int CsaSeriesRfWatchdogMask

CsaSeriesSARMostCriticalAspect

double[] CsaSeriesSARMostCriticalAspect

CsaSeriesSed

double[] CsaSeriesSed

CsaSeriesSelectionGradientAmplitude

double CsaSeriesSelectionGradientAmplitude

CsaSeriesSequenceFileOwner

java.lang.String CsaSeriesSequenceFileOwner

CsaSeriesSliceArrayConcatenations

int CsaSeriesSliceArrayConcatenations

CsaSeriesSliceResolution

double CsaSeriesSliceResolution

CsaSeriesStim_faktor

double CsaSeriesStim_faktor

CsaSeriesStim_lim

double[] CsaSeriesStim_lim

CsaSeriesStim_max_ges_norm_online

double CsaSeriesStim_max_ges_norm_online

CsaSeriesStim_max_online

double[] CsaSeriesStim_max_online

CsaSeriesStim_mon_mode

int CsaSeriesStim_mon_mode

CsaSeriesSW_korr_faktor

double CsaSeriesSW_korr_faktor

CsaSeriest_puls_max

double CsaSeriest_puls_max

CsaSeriesTablePositionOrigin

int[] CsaSeriesTablePositionOrigin

CsaSeriesTalesReferencePower

double CsaSeriesTalesReferencePower

CsaSeriesTransmitterCalibration

double CsaSeriesTransmitterCalibration

dBdt

double dBdt

dcmmeta_affine

double[][] dcmmeta_affine

dcmmeta_reorient_transform

double[][] dcmmeta_reorient_transform

dcmmeta_shape

int[] dcmmeta_shape

dcmmeta_slice_dim

int dcmmeta_slice_dim

dcmmeta_version

double dcmmeta_version

degree

int[] degree

descrip

java.lang.String descrip

Any text you like

dtComponent

int[][] dtComponent

echoNumbers

int echoNumbers

echoTime

double echoTime

echoTrainLength

int echoTrainLength

ecode

int[] ecode

esize

int[] esize

flipAngle

double flipAngle

freq_dim

int freq_dim

Bits 0 and 1 of the dim_info character contain the freq_dim information. 0 for "No frequency encoding direction is present", 1 for "Frequency encoding in the x direction", 2 for "Frequency encoding in the y direction", and 3 for "Frequency encoding in the z direction".

haveDcmMeta

boolean haveDcmMeta

highBit

int highBit

imagedNucleus

java.lang.String imagedNucleus

imageOrientationPatient

double[] imageOrientationPatient

imagePositionPatient

double[] imagePositionPatient

imageType

java.lang.String[] imageType

imagingFrequency

double imagingFrequency

inPlanePhaseEncodingDirection

java.lang.String inPlanePhaseEncodingDirection

InstanceCreationTime

double[] InstanceCreationTime

InstanceNumber

int[] InstanceNumber

intentCode

int intentCode

The intent_code field can be used to indicate that the voxel data has some particular meaning. In particular, a large number of codes is given to indicate that the the voxel data should be interpreted as being drawn from a given probability distribution.

intentName

java.lang.String intentName

The intent_name field provides space for a 15 character (plus 0 byte) name string for the type of data stored. Examples: - intent_code = NIFTI_INTENT_ESTIMATE; intent_name = "T1"; could be used to signify that the voxel values are estimates of the NMR parameter T1. - intent_code = NIFTI_INTENT_TTEST; intent_name = "House"; could be used to signify that the voxel values are t-statistics for the significance of activation response to a House stimulus. - intent_code = NIFTI_INTENT_DISPVECT; intent_name = "ToMNI152"; could be used to signify that the voxel values are a displacement vector that transforms each voxel (x,y,z) location to the corresponding location in the MNI152 standard brain. - intent_code = NIFTI_INTENT_SYMMATRIX; intent_name = "DTI"; could be used to signify that the voxel values comprise a diffusion tensor image.

intentP1

double intentP1

If present, first auxiliary parameter used with intentCode

intentP2

double intentP2

If present, second auxiliary parameter used with intentCode

intentP3

double intentP3

If present, third auxiliary parameter used with intentCode

largestImagePixelValue

int largestImagePixelValue

magneticFieldStrength

double magneticFieldStrength

manufacturer

java.lang.String manufacturer

manufacturerModelName

java.lang.String manufacturerModelName

matrixQ

TransMatrix matrixQ

matrixS

TransMatrix matrixS

mindIdent

java.lang.String[] mindIdent

modalityString

java.lang.String modalityString

MRAcquisitionType

java.lang.String MRAcquisitionType

numberOfAverages

double numberOfAverages

numberOfPhaseEncodingSteps

int numberOfPhaseEncodingSteps

order

int[] order

patientOrientationString

java.lang.String patientOrientationString

percentPhaseFieldOfView

double percentPhaseFieldOfView

percentSampling

double percentSampling

performedProcedureStepStartTime

java.lang.String performedProcedureStepStartTime

phase_dim

int phase_dim

Bits 2 and 3 of the dim_info character contain the phase_dim information. 0 for "No phase encoding direction is present", 1 for "Phase encoding in the x direction", 2 for "Phase encoding in the y direction", and 3 for "Phase encoding in the z direction".

photometricInterpretation

java.lang.String photometricInterpretation

pixelBandwidth

double pixelBandwidth

pixelRepresentation

int pixelRepresentation

pixelSpacing

double[] pixelSpacing

repetitionTime

double repetitionTime

rows

int rows

samplesPerPixel

int samplesPerPixel

SAR

double SAR

scanningSequence

java.lang.String scanningSequence

scanOptions

java.lang.String scanOptions

scl_inter

double scl_inter

scl_slope

double scl_slope

If the scl_slope field is nonzero, then each voxel value in the dataset should be scaled as y = scl_slope * x + scl_inter where x = voxel value stored y = "true" voxel value Normally, we would expect this scaling to be used to store "true" floating values in a smaller integer datatype, but that is not required. That is, it is legal to use scaling even if the datatype is a float type (crazy, perhaps, but legal). - However, the scaling is to be ignored if datatype is DT_RGB24. - If datatype is a complex type, then the scaling is to be applied to both the real and imaginary parts.

sequenceName

java.lang.String sequenceName

sequenceVariant

java.lang.String sequenceVariant

seriesNumber

int seriesNumber

seriesTime

java.lang.String seriesTime

sizeof_hdr

int sizeof_hdr

Should always be a length of 348.

slice_dim

int slice_dim

Bits 4 and 5 of the dim_info character contain the slice_dim information. 0 for "No slice acquisition direction is present", 1 for "Slice acquisition in the x direction", 2 for "Slice acquisition in the y direction", and 3 for "Slice acquisition in the z direction".

sliceCode

byte sliceCode

If this is nonzero, AND if slice_dim is nonzero, AND if slice_duration is positive, indicates the timing pattern of the slice acquisition. The following codes are defined: "Slice timing order is sequentially increasing", "Slice timing order is sequentially decreasing", "Slice timing order is alternately increasing", "Slice timing order is alternately decreasing", "Slice timing order is alternately increasing #2", "Slice timing order is alternately decreasing #2".

sliceDuration

double sliceDuration

Time used to acquire 1 slice.

sliceEnd

long sliceEnd

Slice timing pattern ends with slice = (sliceEnd + 1)

sliceLocation

double sliceLocation

sliceStart

long sliceStart

Slice timing pattern starts with slice = (sliceStart + 1)

smallestImagePixelValue

int smallestImagePixelValue

softwareVersions

java.lang.String softwareVersions

sourceBitPix

short sourceBitPix

Source bits per pixel : 1,8,16,32,64,128 24(rgb).

sourceType

short sourceType

Original unscaled source data type

spacingBetweenSlices

double spacingBetweenSlices

specificCharacterSet

java.lang.String specificCharacterSet

studyTime

java.lang.String studyTime

transmitCoilName

java.lang.String transmitCoilName

variableFlipAngleFlag

java.lang.String variableFlipAngleFlag

vox_offset

long vox_offset

If the magic field is "n+1", then the voxel data is stored in the same file as the header. In this case, the voxel data starts at offset (int)vox_offset into the header file. Thus, vox_offset=352.0 means that the data starts immediately after the NIFTI-1 header. If vox_offset is greater than 352, the NIFTI-1 format does not say much about the contents of the dataset file between the end of the header and the start of the data. If the magic field is "ni1", then the voxel data is stored in the associated ".img" file, starting at offset 0 (i.e., vox_offset is not used in this case, and should be set to 0.0). In a .nii file, the vox_offset field value is interpreted as the start location of the image data bytes in that file. In a .hdr/.img file pair, the vox_offset field value is the start location of the image data bytes in the .img file. If vox_offset is less than 352 in a .nii file, it is equivalent to 352 (i.e., image data never starts before byte #352 in a .nii file). The default value for vox_offset in a .nii file is 352. In a .hdr file, the default value for vox_offset is 0. * vox_offset should be an integer multiple of 16; otherwise, some programs may not work properly (e.g., SPM). This is to allow memory-mapped input to be properly byte-aligned.

WindowCenter

double[] WindowCenter

windowCenterWidthExplanation

java.lang.String windowCenterWidthExplanation

WindowWidth

double[] WindowWidth

zenith

float[] zenith

Class gov.nih.mipav.model.file.FileInfoNRRD extends FileInfoBase implements Serializable

Serialized Fields

contentString

java.lang.String contentString

Concise textual description of the information in the array

DWMRI_B_VALUE

java.lang.String DWMRI_B_VALUE

"DWMRI_b-value:=b " : This key/value pair gives the (scalar) diffusion-weighting value, in units of s/mm^2. Example: "DWMRI_b-value:=1000". The effective magnitude of diffusion-weighting for each DWI is determined with some simple calculations based on the individual per-DWI gradient directions or B-matrices.

dwmriGradient

java.lang.String[][] dwmriGradient

For every index position NNNN along the DWI axis (whichever is the non-spatial axis identified by the "list" or "vector" kind field), either "DWMRI_gradient_NNNN:=x y z " or "DWMRI_B-matrix_NNNN:=xx xy xz yy yz zz " must be given (except if "DWMRI_NEX_NNNN:= M " is used).

encodingString

java.lang.String encodingString

Data compression - raw, gzip

labelString

java.lang.String[] labelString

Axis names such as X, Y, or Z

modalityString

java.lang.String modalityString

Diffusion weighted MRI is currently the only value that has been seen for modality in our samples.

sliceThickness

float sliceThickness

spaceString

java.lang.String spaceString

Possible values are "right-anterior-superior", "left-anterior-superior", "left-posterior-superior", "right-anterior-superior-time", "left-anterior-superior-time", "left-posterior-superior-time", "scanner-xyz", "scanner-xyz-time", "3d-right-handed", "3d-left-handed", "3d-right-handed-time", "3d-left-handed-time"

versionNumber

float versionNumber

Version of the NRRD file format being used.

Class gov.nih.mipav.model.file.FileInfoOME extends FileInfoBase implements Serializable

serialVersionUID:

-4798053431303160065L

Serialized Fields

headerFileName

java.lang.String headerFileName

matrix

TransMatrix matrix

DOCUMENT ME!

ome

FileInfoOME.OME ome

DOCUMENT ME!

Class gov.nih.mipav.model.file.FileInfoPARREC extends FileInfoBase implements Serializable

Serialized Fields

cardiacFrequency

int[] cardiacFrequency

cardiacPhaseNumber

int[] cardiacPhaseNumber

contrastBolusAgent

java.lang.String[] contrastBolusAgent

contrastBolusIngredient

java.lang.String[] contrastBolusIngredient

contrastBolusIngredientConcentration

float[] contrastBolusIngredientConcentration

contrastBolusRoute

float[] contrastBolusRoute

contrastBolusStartTime

java.lang.String[] contrastBolusStartTime

contrastBolusTotalDose

float[] contrastBolusTotalDose

contrastBolusVolume

java.lang.String[] contrastBolusVolume

contrastType

java.lang.String[] contrastType

date

java.lang.String date

par/rec date

diffusion

float[][] diffusion

diffusionAnisotropyType

java.lang.String[] diffusionAnisotropyType

diffusionBFactor

float[] diffusionBFactor

diffusionBValueNumber

int[] diffusionBValueNumber

dynamicScanBeginTime

float[] dynamicScanBeginTime

dynamicScanNumber

int[] dynamicScanNumber

echoNumber

int[] echoNumber

echoTime

float[] echoTime

examName

java.lang.String examName

par/rec examName

firstOrientValue

int firstOrientValue

Slice Orientation Value (sag/cor/tra)

flipAngle

float[] flipAngle

fmriStatusIndication

int[] fmriStatusIndication

foldover

java.lang.String foldover

par/rec PreparationDirection

generalInfoList

java.util.ArrayList<java.lang.String> generalInfoList

gradientOrientationNumber

int[] gradientOrientationNumber

imageAngulation

float[][] imageAngulation

imageInfoList

java.util.ArrayList<java.lang.String> imageInfoList

imageOffcentre

float[][] imageOffcentre

imageTypeEDES

int[] imageTypeEDES

imageTypeMR

int[] imageTypeMR

inversionDelay

float[] inversionDelay

labelType

int[] labelType

maximumRRInterval

int[] maximumRRInterval

minimumRRInterval

int[] minimumRRInterval

numberOfAverages

int[] numberOfAverages

numSlices

int numSlices

numSlices

numVolumes

int numVolumes

numSlices

offCentre

double[] offCentre

Off-centre translation

originalDataType

int originalDataType

patientName

java.lang.String patientName

patientPosition

java.lang.String patientPosition

par/rec patientPosition

protocolName

java.lang.String protocolName

par/rec protocolName

repetitionTime

java.lang.String repetitionTime

scaleSlope

float scaleSlope

scanningSequence

int[] scanningSequence

scanPercentage

int[] scanPercentage

sliceAng

double[] sliceAng

par/rec slice Angulation

sliceInfo

java.lang.String sliceInfo

slice specific info

stringBvalueArray

java.lang.String[] stringBvalueArray

par/rec Bvalues

stringGradientArray

java.lang.String[] stringGradientArray

par/rec gradients

time

java.lang.String time

triggerTime

float[] triggerTime

turboFactor

int[] turboFactor

version

java.lang.String version

par/rec version

windowCenter

int[] windowCenter

windowWidth

int[] windowWidth

Class gov.nih.mipav.model.file.FileInfoPGM extends FileInfoBase implements Serializable

Class gov.nih.mipav.model.file.FileInfoPPM extends FileInfoBase implements Serializable

Class gov.nih.mipav.model.file.FileInfoRaw extends FileInfoBase implements Serializable

serialVersionUID:

-1470168847948086226L

Class gov.nih.mipav.model.file.FileInfoSiemensText extends FileInfoBase implements Serializable

serialVersionUID:

7319414471012796383L

Serialized Fields

aux_file

java.lang.String aux_file

DOCUMENT ME!

bitpix

short bitpix

Bits per pixel. Valid values include: 1, 8, 16, 32, 64, 24(rgb).

cal_max

float cal_max

Range of calibration values.

cal_min

float cal_min

Values of 0.0 for both fields imply that no calibration min and max values are used !

compressed

float compressed

Indicates if compression is used. Default is -1 indicating no compression

data_type

java.lang.String data_type

Unknown use 10 chars.

datatype

short datatype

Stores the image data type DT_NONE = 0; DT_UNKNOWN = 0; DT_BINARY = 1; DT_UNSIGNED_CHAR = 2; DT_SIGNED_SHORT = 4; DT_UNSIGNED_SHORT = 4; DT_SIGNED_INT = 8; DT_FLOAT = 16; DT_COMPLEX = 32; DT_DOUBLE = 64; DT_RGB = 128; DT_ALL = 255;

db_name

java.lang.String db_name

Name of file with a length of 18 chars.

descrip

java.lang.String descrip

String with a max character length of 80 used to describe image.

dim_un0

short dim_un0

Unused.

dir

java.lang.String dir

exp_date

java.lang.String exp_date

String with a max character length of 10 used to indicate the experiment date.

exp_time

java.lang.String exp_time

String with a max character length of 10 used to indicate the experiment time.

extents

int extents

Should be 16384.

field_skip

int field_skip

Unknown length.

funused1

float funused1

MIPAV uses this variable to define the X-axis origin.

funused2

float funused2

MIPAV uses this variable to define the Y-axis origin.

funused3

float funused3

MIPAV uses this variable to define the Z-axis origin.

generated

java.lang.String generated

Unknown use. Length of 10.

glmax

int glmax

Maximum pixel values for the entire dataset.

glmin

int glmin

Minimum pixel values for the entire database.

hist_un0

java.lang.String hist_un0

Unknown use. Length of 3.

hkey_un0

char hkey_un0

Unknown use. Length of 1.

name

java.lang.String name

omax

int omax

Unknown use.

omin

int omin

Unknown use.

orient

byte orient

DOCUMENT ME!

originator

java.lang.String originator

Unknown use. Length of 10.

patient_id

java.lang.String patient_id

Patient's ID. Length of 10.

regular

char regular

I think it means data has uniform spacing (resolutions).

scannum

java.lang.String scannum

Scan ID Length of 10.

session_error

short session_error

Unknown use.

sizeof_hdr

int sizeof_hdr

Always of length 348.

smax

int smax

Unknown use.

smin

int smin

Unknown use.

start_field

int start_field

Unknown use.

verified

float verified

Unknown use.

views

int views

Unknown use.

vols_added

int vols_added

Unknown use.

vox_units

java.lang.String vox_units

specifies the spatial units of measure for a voxel.

Class gov.nih.mipav.model.file.FileInfoSPAR extends FileInfoBase implements Serializable

Serialized Fields

maskExtents

int[] maskExtents

Mask extents

offCentre

double[] offCentre

Off-centre translations

PARRECMatrix

TransMatrix PARRECMatrix

sliceAng

double[] sliceAng

par/rec slice Angulation

Class gov.nih.mipav.model.file.FileInfoSPM extends FileInfoBase implements Serializable

serialVersionUID:

-3655260345861989046L

Serialized Fields

aux_file

java.lang.String aux_file

DOCUMENT ME!

bitpix

short bitpix

DOCUMENT ME!

cal_max

float cal_max

DOCUMENT ME!

cal_min

float cal_min

DOCUMENT ME!

cal_units

java.lang.String cal_units

DOCUMENT ME!

compressed

float compressed

DOCUMENT ME!

data_type

java.lang.String data_type

DOCUMENT ME!

datatype

short datatype

DOCUMENT ME!

db_name

java.lang.String db_name

DOCUMENT ME!

descrip

java.lang.String descrip

DOCUMENT ME!

dim_un0

short dim_un0

DOCUMENT ME!

exp_date

java.lang.String exp_date

DOCUMENT ME!

exp_time

java.lang.String exp_time

DOCUMENT ME!

extents

int extents

DOCUMENT ME!

field_skip

int field_skip

DOCUMENT ME!

generated

java.lang.String generated

DOCUMENT ME!

glmax

int glmax

DOCUMENT ME!

glmin

int glmin

DOCUMENT ME!

hist_un0

java.lang.String hist_un0

DOCUMENT ME!

hkey_un0

char hkey_un0

DOCUMENT ME!

omax

int omax

DOCUMENT ME!

omin

int omin

DOCUMENT ME!

orient

byte orient

DOCUMENT ME!

origin

short[] origin

DOCUMENT ME!

patient_id

java.lang.String patient_id

DOCUMENT ME!

regular

char regular

DOCUMENT ME!

scale

float scale

a floating point scale factor used during memory mapping.

scannum

java.lang.String scannum

DOCUMENT ME!

session_error

short session_error

DOCUMENT ME!

sizeof_hdr

int sizeof_hdr

DOCUMENT ME!

smax

int smax

DOCUMENT ME!

smin

int smin

DOCUMENT ME!

start_field

int start_field

DOCUMENT ME!

verified

float verified

DOCUMENT ME!

views

int views

DOCUMENT ME!

vols_added

int vols_added

DOCUMENT ME!

vox_offset

float vox_offset

public float pixdim = new float[8]; // image resolutions info mm or ms stored in FileInfoBase pixdim[0] = number of dimensions pixdim[1] = voxel width pixdim[2] = voxel height pixdim[3] = voxel thickness pixdim[4] = time.

vox_units

java.lang.String vox_units

public short dim[] = new short[8]; // image dimension data stored in FileInfoBase dim[0] = number of dimensions; usally 4 dim[1] = image width dim[2] = image height dim[3] = image depth (# of slices) dim[4] = volumes in image --- must be one for 3D image.

Class gov.nih.mipav.model.file.FileInfoSTK extends FileInfoBase implements Serializable

serialVersionUID:

4681901066117260212L

Serialized Fields

imageDescription

java.lang.String imageDescription

DOCUMENT ME!

sameZPosition

boolean sameZPosition

DOCUMENT ME!

Class gov.nih.mipav.model.file.FileInfoSurfaceRefXML extends FileInfoXML implements Serializable

serialVersionUID:

6815854469776062772L

Serialized Fields

filename

java.lang.String filename

.sur file name.

m_iUnique_ID

int m_iUnique_ID

Unique ID, for the surface:.

m_kLevelDetail

int m_kLevelDetail

surface level of detail:.

m_kOpacity

float m_kOpacity

surface opacity:.

m_kType

java.lang.String m_kType

Type keyword for the surface:.

Class gov.nih.mipav.model.file.FileInfoSurfaceXML extends FileInfoXML implements Serializable

serialVersionUID:

6815854469776062772L

Serialized Fields

m_iUnique_ID

int m_iUnique_ID

Unique ID, for the surface:.

m_kLevelDetail

int m_kLevelDetail

surface level of detail:.

m_kOpacity

float m_kOpacity

surface opacity:.

m_kType

java.lang.String m_kType

Type keyword for the surface:.

meshIndex

int meshIndex

mesh index.

Class gov.nih.mipav.model.file.FileInfoSVS extends FileInfoBase implements Serializable

Serialized Fields

imageDescription

java.lang.String imageDescription

DOCUMENT ME!

Class gov.nih.mipav.model.file.FileInfoTiff extends FileInfoBase implements Serializable

serialVersionUID:

7421068113479441629L

Serialized Fields

imageDescription

java.lang.String imageDescription

DOCUMENT ME!

Class gov.nih.mipav.model.file.FileInfoTMG extends FileInfoBase implements Serializable

serialVersionUID:

652378870162150500L

Serialized Fields

commentStr

java.lang.String commentStr

DOCUMENT ME!

nameStr

java.lang.String nameStr

DOCUMENT ME!

timeStr

java.lang.String timeStr

DOCUMENT ME!

titleStr

java.lang.String titleStr

DOCUMENT ME!

Class gov.nih.mipav.model.file.FileInfoTrackVis extends FileInfoBase implements Serializable

Serialized Fields

hdrSize

int hdrSize

Size of header, should be 1000

invertXStr

java.lang.String invertXStr

Internal trakcVis use

invertYStr

java.lang.String invertYStr

Internal trakcVis use

invertZStr

java.lang.String invertZStr

Internal trakcVis use

numProp

int numProp

Number of scalars per track point and number of properties per track

numScalar

int numScalar

Number of scalars per track point and number of properties per track

numTracks

int numTracks

Number of tracts

pad1

java.lang.String pad1

Paddings

pad2

java.lang.String pad2

Paddings

properties

float[][] properties

Properties per track

propNames

java.lang.String[] propNames

Scalar names and property names

reserved

java.lang.String reserved

Reserved for future TrackVis use

scalarNames

java.lang.String[] scalarNames

Scalar names and property names

swapXY

java.lang.String swapXY

Internal TrackVis use

swapXZ

java.lang.String swapXZ

Internal TrackVis use

swapYZ

java.lang.String swapYZ

Internal TrackVis use

version

int version

Version number, current is 2

voxelOrder

java.lang.String voxelOrder

Storing order of image data

Class gov.nih.mipav.model.file.FileInfoVista extends FileInfoBase implements Serializable

Serialized Fields

extents

int[] extents

historyInfo

java.util.ArrayList<java.lang.String> historyInfo

history info

imagesInfo

java.util.ArrayList<java.util.HashMap<java.lang.String,java.lang.String>> imagesInfo

image info

Class gov.nih.mipav.model.file.FileInfoXML extends FileInfoBase implements Serializable

serialVersionUID:

-7709467226605763815L

Serialized Fields

imageDataFileName

java.lang.String imageDataFileName

Name (not path) of the (usually raw) image data file. The name of the image xml header file is stored in FileInfoBase.getFileName().

See Also:

FileInfoBase.getFileName(), FileInfoBase.setFileName(String)

imageDescription

java.lang.String imageDescription

Brief description of the image - optional XML tag.

Class gov.nih.mipav.model.file.FileInfoZVI extends FileInfoBase implements Serializable

Serialized Fields

acquisitionBitDepth

int acquisitionBitDepth

amplificationIndex

int amplificationIndex

apotomeAutoShutterUsed

int apotomeAutoShutterUsed

apotomeAveragingCount

int apotomeAveragingCount

apotomeCamFilterHarmonics

int apotomeCamFilterHarmonics

apotomeCamGenericCameraName

java.lang.String apotomeCamGenericCameraName

apotomeCamNormalize

int apotomeCamNormalize

apotomeCamPhaseAngles

java.lang.String apotomeCamPhaseAngles

apotomeFilterName

java.lang.String apotomeFilterName

apotomeFilterStrength

double apotomeFilterStrength

apotomeFullPhaseShift

int apotomeFullPhaseShift

apotomeGratingPeriod

double apotomeGratingPeriod

apotomeGridName

java.lang.String apotomeGridName

apotomeGridPosition0

int apotomeGridPosition0

apotomeGridPosition1

int apotomeGridPosition1

apotomeGridPosition2

int apotomeGridPosition2

apotomeGridPosition3

int apotomeGridPosition3

apotomeGridPositionChannel0

int apotomeGridPositionChannel0

apotomeGridPositionChannel1

int apotomeGridPositionChannel1

apotomeGridPositionChannel2

int apotomeGridPositionChannel2

apotomeGridPositionChannel3

int apotomeGridPositionChannel3

apotomeProcessingMode

int apotomeProcessingMode

axioCamAnalogGainEnable

int axioCamAnalogGainEnable

axioCamBlackReference

int axioCamBlackReference

axioCamColorModel

int axioCamColorModel

axioCamDelayTime

int axioCamDelayTime

axioCamEnhanceColor

int axioCamEnhanceColor

axioCamMicroScanning

int axioCamMicroScanning

axioCamNIRMode

int axioCamNIRMode

axioCamResolution

int axioCamResolution

axioCamSaturation

double axioCamSaturation

axioCamSelector

int axioCamSelector

axioCamShutterControl

int axioCamShutterControl

axioCamShutterSignal

int axioCamShutterSignal

axioCamType

int axioCamType

blackValue0

double blackValue0

blackValue1

double blackValue1

blackValue2

double blackValue2

blackValue3

double blackValue3

camera

java.lang.String camera

cameraAdapterMagnification

double cameraAdapterMagnification

cameraBinning

int cameraBinning

cameraBitDepth

int cameraBitDepth

cameraFrameHeight

int cameraFrameHeight

cameraFrameImageOrientation

int cameraFrameImageOrientation

cameraFramePixelDistance

double cameraFramePixelDistance

cameraFrameScalingFactor

double cameraFrameScalingFactor

cameraFrameStartLeft

int cameraFrameStartLeft

cameraFrameStartTop

int cameraFrameStartTop

cameraFrameWidth

int cameraFrameWidth

cameraImageAcquisitionTime0

java.lang.String cameraImageAcquisitionTime0

cameraImageAcquisitionTime1

java.lang.String cameraImageAcquisitionTime1

cameraImageAcquisitionTime2

java.lang.String cameraImageAcquisitionTime2

cameraImageAcquisitionTime3

java.lang.String cameraImageAcquisitionTime3

cameraLiveScalingFactor

double cameraLiveScalingFactor

cameraShadingCorrection

int cameraShadingCorrection

cameraShutterLiveEnable

int cameraShutterLiveEnable

channel0

int channel0

channel1

int channel1

channel2

int channel2

channel3

int channel3

channelName0

java.lang.String channelName0

channelName1

java.lang.String channelName1

channelName2

java.lang.String channelName2

channelName3

java.lang.String channelName3

channelNameChannel0

int channelNameChannel0

channelNameChannel1

int channelNameChannel1

channelNameChannel2

int channelNameChannel2

channelNameChannel3

int channelNameChannel3

comments

java.lang.String comments

condenserContrast

int condenserContrast

condenserNumericalAperture

double condenserNumericalAperture

contrastManagerMode

int contrastManagerMode

dazzleProtection

java.lang.String dazzleProtection

deviceScalingName

java.lang.String deviceScalingName

documentSubtype

java.lang.String documentSubtype

documentType

java.lang.String documentType

emissionWavelength0

int emissionWavelength0

emissionWavelength1

int emissionWavelength1

emissionWavelength2

int emissionWavelength2

emissionWavelength3

int emissionWavelength3

emissionWavelengthChannel0

int emissionWavelengthChannel0

emissionWavelengthChannel1

int emissionWavelengthChannel1

emissionWavelengthChannel2

int emissionWavelengthChannel2

emissionWavelengthChannel3

int emissionWavelengthChannel3

excitationWavelength0

int excitationWavelength0

excitationWavelength1

int excitationWavelength1

excitationWavelength2

int excitationWavelength2

excitationWavelength3

int excitationWavelength3

excitationWavelengthChannel0

int excitationWavelengthChannel0

excitationWavelengthChannel1

int excitationWavelengthChannel1

excitationWavelengthChannel2

int excitationWavelengthChannel2

excitationWavelengthChannel3

int excitationWavelengthChannel3

exposureTime0

double exposureTime0

exposureTime1

double exposureTime1

exposureTime2

double exposureTime2

exposureTime3

double exposureTime3

exposureTimeChannel0

int exposureTimeChannel0

exposureTimeChannel1

int exposureTimeChannel1

exposureTimeChannel2

int exposureTimeChannel2

exposureTimeChannel3

int exposureTimeChannel3

externalShutter1

int externalShutter1

fileDate

java.lang.String fileDate

fileID

java.lang.String fileID

fileLink

java.lang.String fileLink

fileSize

int fileSize

focusCalibrated

java.lang.String focusCalibrated

focusDepth

double focusDepth

focusPosition

double focusPosition

gammaValue

double gammaValue

IDTagFileName

java.lang.String IDTagFileName

imageMemoryUsage

double imageMemoryUsage

imageRelativeTime0

java.lang.String imageRelativeTime0

imageRelativeTime1

java.lang.String imageRelativeTime1

imageRelativeTime2

java.lang.String imageRelativeTime2

imageRelativeTime3

java.lang.String imageRelativeTime3

lastModifiedBy

java.lang.String lastModifiedBy

lightManagerEnabled

java.lang.String lightManagerEnabled

lightManagerMode

int lightManagerMode

microscopeIllumination

int microscopeIllumination

microscopeMagnification

double microscopeMagnification

microscopeName

java.lang.String microscopeName

microscopePort

int microscopePort

microscopeType

int microscopeType

multichannelColor0

int multichannelColor0

multichannelColor1

int multichannelColor1

multichannelColor2

int multichannelColor2

multichannelColor3

int multichannelColor3

multichannelColorChannel0

int multichannelColorChannel0

multichannelColorChannel1

int multichannelColorChannel1

multichannelColorChannel2

int multichannelColorChannel2

multichannelColorChannel3

int multichannelColorChannel3

multichannelWeight

double multichannelWeight

objectiveContrastMethod

int objectiveContrastMethod

objectiveID

java.lang.String objectiveID

objectiveImmersionType

java.lang.String objectiveImmersionType

objectiveMagnification

double objectiveMagnification

objectiveNA

double objectiveNA

objectiveName

java.lang.String objectiveName

objectiveTurretPosition

int objectiveTurretPosition

objectiveWorkingDistance

double objectiveWorkingDistance

objectType

int objectType

ocularTotalMagnification

double ocularTotalMagnification

optovar

double optovar

originalStagePositionX

double originalStagePositionX

originalStagePositionY

double originalStagePositionY

parfocalCorrection

java.lang.String parfocalCorrection

reference

java.lang.String reference

reflectedLightHalogenLampMode

int reflectedLightHalogenLampMode

reflectedLightHalogenLampVoltage

double reflectedLightHalogenLampVoltage

reflectedLightShutter

int reflectedLightShutter

reflector

java.lang.String reflector

reflectorID

java.lang.String reflectorID

reflectorMagnification

double reflectorMagnification

reflectorPosition0

int reflectorPosition0

reflectorPosition1

int reflectorPosition1

reflectorPosition2

int reflectorPosition2

reflectorPosition3

int reflectorPosition3

reflectorPositionChannel0

int reflectorPositionChannel0

reflectorPositionChannel1

int reflectorPositionChannel1

reflectorPositionChannel2

int reflectorPositionChannel2

reflectorPositionChannel3

int reflectorPositionChannel3

relFocusPosition1

double relFocusPosition1

relFocusPosition2

double relFocusPosition2

scaleHeight

double scaleHeight

scaleWidth

double scaleWidth

stageCalibrated

java.lang.String stageCalibrated

stagePositionX

double stagePositionX

stagePositionY

double stagePositionY

title

java.lang.String title

transmittedLightHalogenLampMode

int transmittedLightHalogenLampMode

transmittedLightHalogenLampVoltage

double transmittedLightHalogenLampVoltage

transmittedLightShutter

int transmittedLightShutter

userAddress

java.lang.String userAddress

userCity

java.lang.String userCity

userCompany

java.lang.String userCompany

userCompanyLogo

java.lang.String userCompanyLogo

userCountry

java.lang.String userCountry

userFax

java.lang.String userFax

userID

java.lang.String userID

userName

java.lang.String userName

userPhone

java.lang.String userPhone

validBitsPerPixel

int validBitsPerPixel

whiteValue0

double whiteValue0

whiteValue1

double whiteValue1

whiteValue2

double whiteValue2

whiteValue3

double whiteValue3

Class gov.nih.mipav.model.file.FileMincAttElem extends ModelSerialCloneable implements Serializable

serialVersionUID:

-4847649204791713924L

Serialized Fields

name

java.lang.String name

DOCUMENT ME!

nc_type

int nc_type

DOCUMENT ME!

nelems

int nelems

DOCUMENT ME!

values

java.lang.Object[] values

DOCUMENT ME!

Class gov.nih.mipav.model.file.FileMincDimElem extends ModelSerialCloneable implements Serializable

serialVersionUID:

-8677079575179802672L

Serialized Fields

length

int length

DOCUMENT ME!

name

java.lang.String name

DOCUMENT ME!

Class gov.nih.mipav.model.file.FileMincHDF.HDFNode extends javax.swing.tree.DefaultMutableTreeNode implements Serializable

serialVersionUID:

240L

Class gov.nih.mipav.model.file.FileMincVarElem extends ModelSerialCloneable implements Serializable

serialVersionUID:

-3229377471887553687L

Serialized Fields

begin

int begin

DOCUMENT ME!

comments

java.lang.String comments

DOCUMENT ME!

cosines

double[] cosines

DOCUMENT ME!

dimid

int[] dimid

DOCUMENT ME!

name

java.lang.String name

DOCUMENT ME!

nc_type

int nc_type

DOCUMENT ME!

nelems

int nelems

DOCUMENT ME!

signtype

java.lang.String signtype

DOCUMENT ME!

start

double start

DOCUMENT ME!

step

double step

in zspace, step == slice gap, not necessarily slice thickness

trueStart

double trueStart

DOCUMENT ME!

units

java.lang.String units

DOCUMENT ME!

values

java.util.Vector<java.lang.Object> values

DOCUMENT ME!

vattArray

FileMincAttElem[] vattArray

DOCUMENT ME!

vmax

double vmax

DOCUMENT ME!

vmin

double vmin

DOCUMENT ME!

vsize

int vsize

DOCUMENT ME!

Class gov.nih.mipav.model.file.FileSVS.ModHuffmanInputStream.ModHuffmanCodingException extends java.io.IOException implements Serializable

Class gov.nih.mipav.model.file.FileTiff.ModHuffmanInputStream.ModHuffmanCodingException extends java.io.IOException implements Serializable

Class gov.nih.mipav.model.file.MetadataExtractor.BufferBoundsException extends java.io.IOException implements Serializable

serialVersionUID:

2911102837808946396L

Class gov.nih.mipav.model.file.MetadataExtractor.CompoundException extends java.lang.Exception implements Serializable

serialVersionUID:

-9207883813472069925L

Serialized Fields

_innerException

java.lang.Throwable _innerException

Class gov.nih.mipav.model.file.MetadataExtractor.ImageProcessingException extends MetadataExtractor.CompoundException implements Serializable

serialVersionUID:

-9115669182209912676L

Class gov.nih.mipav.model.file.MetadataExtractor.JpegComponent extends java.lang.Object implements Serializable

serialVersionUID:

61121257899091914L

Serialized Fields

_componentId

int _componentId

_quantizationTableNumber

int _quantizationTableNumber

_samplingFactorByte

int _samplingFactorByte

Class gov.nih.mipav.model.file.MetadataExtractor.JpegProcessingException extends MetadataExtractor.ImageProcessingException implements Serializable

serialVersionUID:

-7870179776125450158L

Class gov.nih.mipav.model.file.MetadataExtractor.MetadataException extends MetadataExtractor.CompoundException implements Serializable

serialVersionUID:

8612756143363919682L

Class gov.nih.mipav.model.file.MetadataExtractor.PngProcessingException extends MetadataExtractor.ImageProcessingException implements Serializable

serialVersionUID:

-687991554932005033L

Class gov.nih.mipav.model.file.MetadataExtractor.Rational extends java.lang.Number implements Serializable

serialVersionUID:

510688928138848770L

Serialized Fields

_denominator

long _denominator

Holds the denominator.

_numerator

long _numerator

Holds the numerator.

Class gov.nih.mipav.model.file.MetadataExtractor.TiffProcessingException extends MetadataExtractor.ImageProcessingException implements Serializable

serialVersionUID:

-1658134119488001891L

Class gov.nih.mipav.model.file.PrivateFileDicomKey extends FileDicomKey implements Serializable

Serialized Fields

publisher

java.lang.String publisher

The publisher for this tag.

Class gov.nih.mipav.model.file.XMLParameter extends java.lang.Object implements Serializable

serialVersionUID:

4475674642754924771L

Serialized Fields

date

java.lang.String date

Parameter date.

description

java.lang.String description

Parameter description.

name

java.lang.String name

Parameter name.

time

java.lang.String time

Parameter time.

value

java.lang.String value

Parameter value.

valueType

java.lang.String valueType

Parameter value type.

Class gov.nih.mipav.model.file.XMLPSet extends java.lang.Object implements Serializable

serialVersionUID:

1087870691598758048L

Serialized Fields

currentParameterName

java.lang.String currentParameterName

Current parameter name.

description

java.lang.String description

Description of parameter.

parameterTable

java.util.Hashtable<java.lang.String,XMLParameter> parameterTable

Parameter hashtable.

Package gov.nih.mipav.model.provenance

Class gov.nih.mipav.model.provenance.ProvenanceChangeEvent extends javax.swing.event.ChangeEvent implements Serializable

Serialized Fields

entry

ProvenanceEntry entry

Class gov.nih.mipav.model.provenance.ProvenanceEntry extends ModelSerialCloneable implements Serializable

Serialized Fields

action

java.lang.String action

action describing the event

architecture

java.lang.String architecture

compilerVersion

java.lang.String compilerVersion

java's version

hostName

java.lang.String hostName

the machine host name

mipavBuild

java.lang.String mipavBuild

probably unused

mipavInputs

java.lang.String mipavInputs

mipav cmd line arguments

mipavOutputs

java.lang.String mipavOutputs

probably unused

mipavVersion

java.lang.String mipavVersion

mipav's version

platform

java.lang.String platform

the name of the operating system

platformVersion

java.lang.String platformVersion

the operating system's version

programName

java.lang.String programName

timeStamp

java.lang.String timeStamp

The timestamp

user

java.lang.String user

the user name

Class gov.nih.mipav.model.provenance.ProvenanceHolder extends java.util.Vector<ProvenanceEntry> implements Serializable

Serialized Fields

listenerList

javax.swing.event.EventListenerList listenerList

A list of the ChangeListeners which are interested in the ChangeEvent.

Package gov.nih.mipav.model.scripting

Class gov.nih.mipav.model.scripting.ImageVariableTable extends java.util.Hashtable<java.lang.String,java.lang.String> implements Serializable

serialVersionUID:

4108175711902767830L

Serialized Fields

currentImageNumber

int currentImageNumber

The number to use for the next image placeholder variable to be added to the table. Starts at 1.

Class gov.nih.mipav.model.scripting.ParserException extends java.lang.Exception implements Serializable

serialVersionUID:

-7330285082866837830L

Serialized Fields

lineNumber

int lineNumber

The line number in the script where this error occurred.

parsedFileName

java.lang.String parsedFileName

The file name of the script where this error occurred ('-' if no corresponding file on disk).

Class gov.nih.mipav.model.scripting.VariableTable extends java.util.Hashtable implements Serializable

serialVersionUID:

4108175711902767830L

Package gov.nih.mipav.model.scripting.parameters

Class gov.nih.mipav.model.scripting.parameters.ParameterException extends java.lang.RuntimeException implements Serializable

Serialized Fields

parameterLabel

java.lang.String parameterLabel

The label of the parameter which there was an error retrieving.

Package gov.nih.mipav.model.structures

Class gov.nih.mipav.model.structures.BufferBase extends java.lang.Object implements Serializable

serialVersionUID:

-5379757071350175311L

Class gov.nih.mipav.model.structures.BufferBoolean extends BufferBase implements Serializable

serialVersionUID:

588861892470975804L

Serialized Fields

dataArray

java.util.BitSet dataArray

1D Data array of boolean stored in the BitSet object.

Class gov.nih.mipav.model.structures.BufferByte extends BufferBase implements Serializable

serialVersionUID:

-4876739041350991776L

Serialized Fields

dataArray

byte[] dataArray

1D Data array of bytes.

Class gov.nih.mipav.model.structures.BufferDouble extends BufferBase implements Serializable

serialVersionUID:

3953733643360606122L

Serialized Fields

dataArray

double[] dataArray

1D Data array of doubles.

Class gov.nih.mipav.model.structures.BufferFloat extends BufferBase implements Serializable

serialVersionUID:

-3011094039945269732L

Serialized Fields

dataArray

float[] dataArray

1D Data array of floats.

Class gov.nih.mipav.model.structures.BufferInt extends BufferBase implements Serializable

serialVersionUID:

-2929615702424425376L

Serialized Fields

dataArray

int[] dataArray

1D Data array of integers.

Class gov.nih.mipav.model.structures.BufferLong extends BufferBase implements Serializable

serialVersionUID:

-7762001591051273716L

Serialized Fields

dataArray

long[] dataArray

1D Data array of longs.

Class gov.nih.mipav.model.structures.BufferShort extends BufferBase implements Serializable

serialVersionUID:

784194545397056669L

Serialized Fields

dataArray

short[] dataArray

1D Data array of shorts.

Class gov.nih.mipav.model.structures.BufferUByte extends BufferBase implements Serializable

serialVersionUID:

-3712379512280992650L

Serialized Fields

dataArray

byte[] dataArray

1D Data array of unsigned bytes (bytes).

Class gov.nih.mipav.model.structures.BufferUInt extends BufferBase implements Serializable

serialVersionUID:

1794760958290773461L

Serialized Fields

dataArray

int[] dataArray

1D Data array of unsigned integers.

Class gov.nih.mipav.model.structures.BufferUShort extends BufferBase implements Serializable

serialVersionUID:

-5218443296426650180L

Serialized Fields

dataArray

short[] dataArray

1D Data array of unsigned shorts.

Class gov.nih.mipav.model.structures.CustomHashtable extends java.util.Hashtable<java.lang.String,V> implements Serializable

serialVersionUID:

-8592617112282655416L

Class gov.nih.mipav.model.structures.MatrixHolder extends ModelSerialCloneable implements Serializable

serialVersionUID:

6886161945452841455L

Serialized Fields

compositeMatrix

TransMatrix compositeMatrix

The composite matrix formed by multiplying (in reverse order) all stored matrices.

matrixMap

java.util.LinkedHashMap<java.lang.String,TransMatrix> matrixMap

Linked hash map that will store all of the images associated matrices.

Class gov.nih.mipav.model.structures.ModelHistogram extends ModelStorageBase implements Serializable

serialVersionUID:

3128722138789734543L

Serialized Fields

endRange

int endRange

DOCUMENT ME!

histogramFrameVector

java.util.Vector<java.awt.Frame> histogramFrameVector

DOCUMENT ME!

maxEntropyThreshold

int maxEntropyThreshold

DOCUMENT ME!

mean

double mean

DOCUMENT ME!

mode

int mode

DOCUMENT ME!

otsuThreshold

int otsuThreshold

DOCUMENT ME!

stRange

int stRange

DOCUMENT ME!

totalPixels

int totalPixels

DOCUMENT ME!

Class gov.nih.mipav.model.structures.ModelImage extends ModelStorageBase implements Serializable

serialVersionUID:

1234298038008494667L

Serialized Fields

dtiParameters

DTIParameters dtiParameters

Reference to DWI bvalue and gradient information.

imageName

java.lang.String imageName

ImageName is patient's name when using DICOM images. It is filename for any other image something other than filename must be used for DICOM because one DICOM image is made of many seperate files. ** Not necessarily the file name.

imageNameArray

java.lang.String[] imageNameArray

If imageNameArray is not null, then a different image name will appear on every slice

imageOrder

int imageOrder

Indicates the image order when two images are displayed in the same frame.

mask

java.util.BitSet mask

Mask is a binary object that is true interior to a VOI and false otherwise used in algorithms to process only on VOIs if indicated by the user.

maskBU

java.util.BitSet maskBU

Backup of mask for undoing.

matrixHolder

MatrixHolder matrixHolder

Holds all of the images associated matrices.

talairach

TalairachTransformInfo talairach

Reference to talairach transform information.

useMask

boolean useMask

voiVector

VOIVector voiVector

List of VOIs that are displayed with this image.

Class gov.nih.mipav.model.structures.ModelLUT extends ModelStorageBase implements Serializable

serialVersionUID:

5061105716563814614L

Serialized Fields

alphaLine

TransferFunction alphaLine

Fucntion that attenuates image values.

blueLine

TransferFunction blueLine

Function that maps the blue function of the LUT.

greenLine

TransferFunction greenLine

Function that maps the green function of the LUT.

indexedLUT

int[] indexedLUT

Special int array where the LUT is packed with alpha in the most significant byte of the int, followed red, green, and blue.

nColors

int nColors

Number of colors in the LUT.

redLine

TransferFunction redLine

Function that maps the red function of the LUT.

remappedLUT

int[] remappedLUT

DOCUMENT ME!

transferLine

TransferFunction transferLine

Function that maps image values into the LUT. The x coord. ranges [image.min, image.max];

type

int type

DOCUMENT ME!

x

float[] x

The X coordinates of the transfer functions.

Class gov.nih.mipav.model.structures.ModelRGB extends ModelStorageBase implements Serializable

serialVersionUID:

-718098067552795698L

Serialized Fields

blueLine

TransferFunction blueLine

Function that maps the blue function of the LUT.

BOn

boolean BOn

Flag indicating whether the blue channel should be displayed.

GOn

boolean GOn

Flag indicating whether the green channel should be displayed.

greenLine

TransferFunction greenLine

Function that maps the green function of the LUT.

indexedRGB

int[] indexedRGB

DOCUMENT ME!

nColors

int nColors

Number of colors in the LUT.

redLine

TransferFunction redLine

Function that maps the red function of the LUT.

ROn

boolean ROn

Flag indicating whether the red channel should be displayed.

x

float[] x

The X coordinates of the transfer functions.

Class gov.nih.mipav.model.structures.ModelSerialCloneable extends java.lang.Object implements Serializable

serialVersionUID:

7436115594993339188L

Class gov.nih.mipav.model.structures.ModelSimpleImage extends ModelSerialCloneable implements Serializable

serialVersionUID:

7953112445452821048L

Serialized Fields

cMassX

float cMassX

X coordinate value of the center of mass for the image.

cMassY

float cMassY

Y coordinate value of the center of mass for the image.

cMassZ

float cMassZ

Z coordinate value of the center of mass for the image.

data

float[] data

Data buffer that is used to store the image.

dataSize

int dataSize

Size of the data buffer (number of pixels in image).

extents

int[] extents

The dimensionality of the dataset.

isColor

boolean isColor

Indicates whether is image is a color image or not.

max

float max

Maximum intensity values of image.

maxB

float maxB

Maximum intensity values of image.

maxG

float maxG

Maximum intensity values of image.

maxR

float maxR

Maximum intensity values of image.

min

float min

Minimum intensity values of image.

minB

float minB

Minimum intensity values of image.

minG

float minG

Minimum intensity values of image.

minR

float minR

Minimum intensity values of image.

name

java.lang.String name

add simple image name for AAM model only.

nDims

int nDims

Number of dimensions of the image.

resolutions

float[] resolutions

Voxel resolutions (typically x,y,z(slice spacing),t).

tDim

int tDim

Number of volumes in the dataset. Typically t represents time.

tRes

float tRes

Resolution in the time dimension.

xDim

int xDim

Number of pixels in x dimension.

xRes

float xRes

X pixel resolution.

yDim

int yDim

Number of pixels in y dimension.

yRes

float yRes

Y pixel resolution.

zDim

int zDim

Number of pixels in z dimension.

zRes

float zRes

Z voxel resolution.

Class gov.nih.mipav.model.structures.ModelStorageBase extends ModelSerialCloneable implements Serializable

serialVersionUID:

-3710345290762731636L

Serialized Fields

avgInten

float avgInten

avgIntenB

float avgIntenB

avgIntenG

float avgIntenG

avgIntenR

float avgIntenR

bufferType

ModelStorageBase.DataType bufferType

Type of image buffer (i.e. BOOLEAN, BYTE, UBYTE, SHORT ...)

data

BufferBase data

Storage location of image data.

dataSize

int dataSize

Total buffer length.

dimExtents

int[] dimExtents

Bounds of the image where.

• dimExtents[0] = x dimension
• dimExtents[1] = y dimension
• dimExtents[2] = z dimension (typically)
• dimExtents[3] = fourth dimension (ie time)...

dimOriginalExtents

int[] dimOriginalExtents

Bounds of the image where.

• dimOriginalExtents[0] = x dimension
• dimOriginalExtents[1] = y dimension
• dimOriginalExtents[2] = z dimension (typically)
• dimOriginalExtents[3] = fourth dimension (ie time)...

fileInfo

FileInfoBase[] fileInfo

Each image slice has a information that describes aspects of each slice of an image.

filterType

int filterType

DOCUMENT ME! - TO BE MOVED - redesigned

freq1

float freq1

DOCUMENT ME! - TO BE MOVED - redesigned

freq2

float freq2

DOCUMENT ME! - TO BE MOVED - redesigned

freqU

float freqU

5 variables used in Gabor transform. - should be removed - redesigned

freqV

float freqV

DOCUMENT ME! - TO BE MOVED - redesigned

haveWindowed

boolean haveWindowed

DOCUMENT ME! - TO BE MOVED - redesigned

image25D

boolean image25D

Boolean telling if 3D images are processed 1 slice at a time.

lastMax

double lastMax

lastMin and lastMax store the last min and max values for an image. these are used as a trigger for resetting the transfer function.

lastMin

double lastMin

lastMin and lastMax store the last min and max values for an image. these are used as a trigger for resetting the transfer function.

lockStatus

int lockStatus

Locking status of the image. Default = UNLOCKED

logMagDisp

boolean logMagDisp

Boolean telling if log magnitude display is used for the data buffer

m_bConvolve

boolean m_bConvolve

Set to true when the image is the product of the ffts of two images, so that on an inverse_fft this image will be centered properly. Default is false.

m_bRadiologicalView

boolean m_bRadiologicalView

When true, display the data in the Radiological View, when false display the Neurological View:.

m_kColorVector

java.util.Vector<WildMagic.LibFoundation.Mathematics.ColorRGBA> m_kColorVector

Surface color vector. - TO BE MOVED - redesigned

m_kMaskColorVector

java.util.Vector<WildMagic.LibFoundation.Mathematics.ColorRGBA[]> m_kMaskColorVector

Surface mask color vector. - TO BE MOVED - redesigned

m_kMaskVector

java.util.Vector<java.util.BitSet> m_kMaskVector

Surface mask vector.- TO BE MOVED - redesigned.

max

double max

Minimum and maximum image intensity.

maxA

double maxA

Minimum and maximum for a color image.

maxB

double maxB

Minimum and maximum for a color image.

maxG

double maxG

Minimum and maximum for a color image.

maxR

double maxR

Minimum and maximum for a color image.

min

double min

Minimum and maximum image intensity.

minA

double minA

Minimum and maximum for a color image.

minB

double minB

Minimum and maximum for a color image.

minG

double minG

Minimum and maximum for a color image.

minR

double minR

Minimum and maximum for a color image.

nDims

int nDims

Number of dimensions of the data.

noLogMax

double noLogMax

Minimum and maximum image intensity with log magnitude operation removed. - TO BE MOVED

noLogMin

double noLogMin

Minimum and maximum image intensity with log magnitude operation removed. - TO BE MOVED

noLogMinNonZero

double noLogMinNonZero

Minimum and maximum image intensity with log magnitude operation removed. - TO BE MOVED

nonZeroMax

double nonZeroMax

Minimum and maximum nonzero intensity. - TO BE MOVED - redesigned

nonZeroMaxB

double nonZeroMaxB

Minimum and maximum nonzero image RGB. - TO BE MOVED - redesigned

nonZeroMaxG

double nonZeroMaxG

Minimum and maximum nonzero image RGB. - TO BE MOVED - redesigned

nonZeroMaxR

double nonZeroMaxR

Minimum and maximum nonzero image RGB. - TO BE MOVED - redesigned

nonZeroMin

double nonZeroMin

Minimum and maximum nonzero intensity. - TO BE MOVED - redesigned

nonZeroMinB

double nonZeroMinB

Minimum and maximum nonzero image RGB. - TO BE MOVED - redesigned

nonZeroMinG

double nonZeroMinG

Minimum and maximum nonzero image RGB. - TO BE MOVED - redesigned

nonZeroMinR

double nonZeroMinR

Minimum and maximum nonzero image RGB. - TO BE MOVED - redesigned

numPixels

int numPixels

originalCropCheckbox

boolean originalCropCheckbox

DOCUMENT ME!- TO BE MOVED - redesigned.

originalDoCrop

boolean originalDoCrop

DOCUMENT ME! - TO BE MOVED - redesigned

originalEnd

int[] originalEnd

DOCUMENT ME!- TO BE MOVED - redesigned.

originalEpsilon

double originalEpsilon

The maximum filter ripple in Chebyshev I and II The passband ripple in decibels in Elliptic

originalFilterConstruction

int originalFilterConstruction

DOCUMENT ME! - TO BE MOVED- redesigned

originalFilterOrder

int originalFilterOrder

DOCUMENT ME!- TO BE MOVED - redesigned.

originalKernelDimension

int originalKernelDimension

This are variables used by the FFT filter algorithm. - should be removed - redesigned

originalRs

double originalRs

Decibels stopband is down in Elliptic

originalStart

int[] originalStart

DOCUMENT ME! - TO BE MOVED - redesigned

sigmaU

float sigmaU

DOCUMENT ME! - TO BE MOVED - redesigned

sigmaV

float sigmaV

DOCUMENT ME! - should be removed - redesigned

smallestMagnitudeNegative

double smallestMagnitudeNegative

smallest magnitude negative and positive.

smallestMagnitudeNegativeB

double smallestMagnitudeNegativeB

smallest magnitude negative and positive.

smallestMagnitudeNegativeG

double smallestMagnitudeNegativeG

smallest magnitude negative and positive.

smallestMagnitudeNegativeR

double smallestMagnitudeNegativeR

smallest magnitude negative and positive.

smallestMagnitudePositive

double smallestMagnitudePositive

smallest magnitude negative and positive.

smallestMagnitudePositiveB

double smallestMagnitudePositiveB

smallest magnitude negative and positive.

smallestMagnitudePositiveG

double smallestMagnitudePositiveG

smallest magnitude negative and positive.

smallestMagnitudePositiveR

double smallestMagnitudePositiveR

smallest magnitude negative and positive.

stdDeviation

float stdDeviation

stdDeviationB

float stdDeviationB

stdDeviationG

float stdDeviationG

stdDeviationR

float stdDeviationR

sumPixelInten

double sumPixelInten

sumPixelIntenB

double sumPixelIntenB

sumPixelIntenG

double sumPixelIntenG

sumPixelIntenR

double sumPixelIntenR

theta

float theta

DOCUMENT ME! - TO BE MOVED - redesigned

unequalDim

boolean unequalDim

Boolean telling if unequal dimensions are allowed in the FFT image. TO BE MOVED

writeLockCount

int writeLockCount

Locking write count.

Class gov.nih.mipav.model.structures.SortingTableModel extends javax.swing.table.DefaultTableModel implements Serializable

serialVersionUID:

-1782879801334035117L

Serialized Fields

htColumnClass

java.util.Hashtable<java.lang.Integer,java.lang.Class<?>> htColumnClass

DOCUMENT ME!

Class gov.nih.mipav.model.structures.TableSorter extends javax.swing.table.AbstractTableModel implements Serializable

serialVersionUID:

3279717528747239046L

Serialized Fields

columnComparators

java.util.Map<java.lang.Class,java.util.Comparator> columnComparators

modelToView

int[] modelToView

DOCUMENT ME!

mouseListener

java.awt.event.MouseListener mouseListener

DOCUMENT ME!

sortingColumns

java.util.List<TableSorter.Directive> sortingColumns

DOCUMENT ME!

tableHeader

javax.swing.table.JTableHeader tableHeader

DOCUMENT ME!

tableModel

javax.swing.table.TableModel tableModel

DOCUMENT ME!

tableModelListener

javax.swing.event.TableModelListener tableModelListener

DOCUMENT ME!

viewToModel

TableSorter.Row[] viewToModel

DOCUMENT ME!

Class gov.nih.mipav.model.structures.TalairachTransformInfo extends java.lang.Object implements Serializable

serialVersionUID:

5791995578653926105L

Serialized Fields

acpcAC

WildMagic.LibFoundation.Mathematics.Vector3f acpcAC

Anterior Comissure in acpc space.

acpcDim

int[] acpcDim

Image dimensions.

acpcMax

WildMagic.LibFoundation.Mathematics.Vector3f acpcMax

ACPC min and max extents of the brain.

acpcMin

WildMagic.LibFoundation.Mathematics.Vector3f acpcMin

ACPC min and max extents of the brain.

acpcPC

WildMagic.LibFoundation.Mathematics.Vector3f acpcPC

Posterior Comissure in acpc space.

acpcRes

float acpcRes

Voxel resolution (cubic).

isAcpc

boolean isAcpc

True if we have the data to compute orig <-> acpc.

isTlrc

boolean isTlrc

True if we ahve the data to compute acpc <-> tlrc.

origAC

WildMagic.LibFoundation.Mathematics.Vector3f origAC

Anterior Comissure in original space.

origDim

int[] origDim

Original image dimensions.

origOrient

float[][] origOrient

ACPC orientation in original image.

origOrigin

float[] origOrigin

Original image origin.

origPC

WildMagic.LibFoundation.Mathematics.Vector3f origPC

Posterior Comissure in original space.

origRes

float[] origRes

Original image voxel resolutions.

tlrcAC

WildMagic.LibFoundation.Mathematics.Vector3f tlrcAC

Anterior Comissure in Talairach space.

tlrcDim

int[] tlrcDim

Image dimensions.

tlrcPC

WildMagic.LibFoundation.Mathematics.Vector3f tlrcPC

Posterior Comissure in Talairach space.

tlrcRes

float[] tlrcRes

Voxel resolutions for the sub-boxes.

useIncorrectAcpcXDim

boolean useIncorrectAcpcXDim

Whether to use the old, incorrect ACPC X dim calculation, which overcounted by one (used in backwards compatibility for Dr. Pierpaoli's group).

Class gov.nih.mipav.model.structures.TokenizerException extends java.lang.Exception implements Serializable

serialVersionUID:

-5430332821046122039L

Class gov.nih.mipav.model.structures.TransferFunction extends ModelSerialCloneable implements Serializable

serialVersionUID:

-6859218214454354638L

Serialized Fields

capacity

int capacity

The total capacity of the 2D point array. Initial capacity = 10

endPtr

int endPtr

Points to the next available storage location for the point.

pts

WildMagic.LibFoundation.Mathematics.Vector2f[] pts

The array of 2D points that define the line.

slopes

float[] slopes

The array of pre-calculated slope values.

Class gov.nih.mipav.model.structures.TransMatrix extends WildMagic.LibFoundation.Mathematics.Matrix4f implements Serializable

serialVersionUID:

5604493833934574127L

Serialized Fields

m_Is2D

boolean m_Is2D

Transform was constructed to transform 2D vectors, instead of 3D

m_IsNIFTI

boolean m_IsNIFTI

boolean indicating whether this matrix is associated with a NIFTI image (special case handling)

m_IsQform

boolean m_IsQform

If true, nifti matrix codes for a qform matrix If false, nifti matrix codes for a sform matrix Value has no effect if not a nifti matrix

m_TransformID

int m_TransformID

Transform ID associated with the matrix.

Class gov.nih.mipav.model.structures.TransMatrixd extends WildMagic.LibFoundation.Mathematics.Matrix4d implements Serializable

Serialized Fields

m_Is2D

boolean m_Is2D

Transform was constructed to transform 2D vectors, instead of 3D

m_IsNIFTI

boolean m_IsNIFTI

boolean indicating whether this matrix is associated with a NIFTI image (special case handling)

m_IsQform

boolean m_IsQform

If true, nifti matrix codes for a qform matrix If false, nifti matrix codes for a sform matrix Value has no effect if not a nifti matrix

m_TransformID

int m_TransformID

Transform ID associated with the matrix.

Class gov.nih.mipav.model.structures.UneditableTableModel extends javax.swing.table.DefaultTableModel implements Serializable

serialVersionUID:

6185277710154266940L

Class gov.nih.mipav.model.structures.UpdateVOIEvent extends java.util.EventObject implements Serializable

serialVersionUID:

8233713497226707057L

Serialized Fields

curve

VOIBase curve

DOCUMENT ME!

source

java.lang.Object source

DOCUMENT ME!

usedCurve

boolean usedCurve

DOCUMENT ME!

voi

VOI voi

DOCUMENT ME!

Class gov.nih.mipav.model.structures.VOI extends ModelSerialCloneable implements Serializable

serialVersionUID:

4045424525937515770L

Serialized Fields

active

boolean active

boundingBox

boolean boundingBox

If true the bounding box of the VOI should be displayed.

color

java.awt.Color color

Indicates the color or the VOI.

comments

java.util.ArrayList<java.lang.String> comments

curves

VOIBaseVector curves

A vector array of curves per slice.

curveType

int curveType

Indicates the type of VOI (i.e. CONTOUR, POLYLINE, LINE, POINT, PROTRACTOR, etc. ... )

displayMode

int displayMode

Indicates if the VOI should be shown as a boundary or a solid.

extension

java.lang.String extension

extension of voi file name of voi was read in through file

fixed

boolean fixed

If true the VOI cannot be moved, if false this VOI can be moved.

ID

short ID

ID of the VOI, also used when choosing the display color.

ignoreMax

float ignoreMax

Sets the maximum intensity value for operations on B & W images segmented by this VOI

ignoreMaxB

float ignoreMaxB

Sets the maximum blue intensity value for operations on RGB images segmented by this VOI

ignoreMaxG

float ignoreMaxG

Sets the maximum green intensity value for operations on RGB images segmented by this VOI

ignoreMaxR

float ignoreMaxR

Sets the maximum red intensity value for operations on RGB images segmented by this VOI

ignoreMin

float ignoreMin

Sets the minimum intensity value for operations on B & W images segmented by this VOI

ignoreMinB

float ignoreMinB

Sets the minimum blue intensity value for operations on RGB images segmented by this VOI

ignoreMinG

float ignoreMinG

Sets the minimum green intensity value for operations on RGB images segmented by this VOI

ignoreMinR

float ignoreMinR

Sets the minimum red intensity value for operations on RGB images segmented by this VOI

name

java.lang.String name

Name of the VOI stored as a string.

NOT_A_POINT

int NOT_A_POINT

int indicating that no point was found.

opacity

float opacity

When in the solid display mode indicates how opaque the VOI should be. Zero is transparent and one is opaque.

polarity

int polarity

Indicates if the VOI should mask ones or mask as zeros.

process

boolean process

If true this flag indicates that the VOI should be included (applied) when processing the image.

thickness

int thickness

The thickness of the VOI lines

UID

int UID

Unique ID for saving & retrieving.

visible

boolean visible

If true the VOI is visible.

watershedID

short watershedID

Used to objects a label or ID inconjuction with the watershed algorithm.

xBounds

float[] xBounds

The x - dimension bounds: xBounds [0] = min and xBounds[1] = max.

yBounds

float[] yBounds

The y - dimension bounds: yBounds [0] = min and yBounds[1] = max.

zBounds

float[] zBounds

The z - dimension bounds: zBounds [0] = min and zBounds[1] = max.

Class gov.nih.mipav.model.structures.VOIBase extends java.util.Vector<WildMagic.LibFoundation.Mathematics.Vector3f> implements Serializable

serialVersionUID:

-3872480526036224600L

Serialized Fields

active

boolean active

Flag indicating whether or not a VOI is active (selected). If the VOI is selected then the flag is true else it is false

autoLabel

boolean autoLabel

Automatically generate the label, unless it is set explicitly:

averagePt

WildMagic.LibFoundation.Mathematics.Vector3f averagePt

Stores the average of the contour of a VOI.

cenMassPt

WildMagic.LibFoundation.Mathematics.Vector3f cenMassPt

Stores the black and white center of mass of the contour of a VOI.

cenMassPtB

WildMagic.LibFoundation.Mathematics.Vector3f cenMassPtB

Stores the blue center of mass of the contour of a VOI.

cenMassPtG

WildMagic.LibFoundation.Mathematics.Vector3f cenMassPtG

Stores the green center of mass of the contour of a VOI.

cenMassPtR

WildMagic.LibFoundation.Mathematics.Vector3f cenMassPtR

Stores the red center of mass of the contour of a VOI.

closed

boolean closed

True when this is a closed contour.

display

boolean display

displays the voi in the volume renderer:

doGeometricCenterLabel

boolean doGeometricCenterLabel

If doGeometricCenterLabel = true and if active == false and if closed = true, execute drawGeometricCenterLabel when in drawSelf

fixed

boolean fixed

Flag that indicates if the VOI is movable.

gcPt

WildMagic.LibFoundation.Mathematics.Vector3f gcPt

Stores the geometric center of the contour of a VOI.

label

java.lang.String label

Label (Name) for this member of the VOI.

lastPoint

int lastPoint

Keeps track of the last near point value (for keyboard moving of individual pts.

m_akImageMinMax

WildMagic.LibFoundation.Mathematics.Vector3f[] m_akImageMinMax

Current contour bounding-box.

m_bQuickLUT

boolean m_bQuickLUT

True is this is a QuickLUT contour.

m_bReloadPoints

boolean m_bReloadPoints

m_bSplit

boolean m_bSplit

True is this is a split-line contour.

m_bUpdateAverage

boolean m_bUpdateAverage

Set to true if the geometric center needs updating.

m_bUpdateBounds

boolean m_bUpdateBounds

Set to true if the contour bounding-box needs updating.

m_bUpdateGeometricCenter

boolean m_bUpdateGeometricCenter

Set to true if the geometric center needs updating.

m_bUpdateMask

boolean m_bUpdateMask

Set to true if the contour changes, so the mask will update when needed.

m_bUpdatePlane

boolean m_bUpdatePlane

Set to true if the contour plane needs updating.

m_iAnchorIndex

int m_iAnchorIndex

Anchor point.

m_iPlane

int m_iPlane

Current plane of this contour.

m_iVOIType

int m_iVOIType

VOI type of this contour.

m_kColor

WildMagic.LibFoundation.Mathematics.ColorRGBA m_kColor

Contour color.

m_kPositionSum

WildMagic.LibFoundation.Mathematics.Vector3f m_kPositionSum

nearBoundPoint

int nearBoundPoint

Flag used to indicate if the cursor is near a point on the VOI bounding box.

nearPoint

int nearPoint

Flag used to indicate if the cursor is near a point of the VOI member.

numPixels

int numPixels

Number of pixels in the array used in graphing intensity along the boundary.

process

boolean process

If true this flag indicates that the shape should be included (applied) when processing the image. It is possible that an individual contour may not be set for processing, while a VOI may be processed.

subtype

int subtype

initialize subtype to unknown

voiGroup

VOI voiGroup

Reference to the containing VOI object.

volumeDisplayRange

float volumeDisplayRange

Used to display 3D VOIs in the three orthogonal views of the data in the volume renderer

xPts

float[] xPts

yPts

float[] yPts

zPts

float[] zPts

Class gov.nih.mipav.model.structures.VOIBaseVector extends java.util.Vector<VOIBase> implements Serializable

serialVersionUID:

8244024438846673669L

Serialized Fields

parent

VOI parent

Class gov.nih.mipav.model.structures.VOIContour extends VOIBase implements Serializable

serialVersionUID:

-6479418081230834617L

Class gov.nih.mipav.model.structures.VOILine extends VOIBase implements Serializable

serialVersionUID:

-2836164853862289329L

Class gov.nih.mipav.model.structures.VOIPoint extends VOIBase implements Serializable

serialVersionUID:

48410548552570045L

Serialized Fields

distanceString

java.lang.String distanceString

Distance between segments shown only for active point in polyline_slices

firstSlicePoint

boolean firstSlicePoint

True if this point is the 1st point in a slice/frame of Polyline_Slice

isActivePoint

boolean isActivePoint

True only for the active point of a polyline_slice structure (display's coordinates)

m_iID

int m_iID

ID if this VOIPoint is contained in a PolyLineSlice object.

m_kRotation

TransMatrix m_kRotation

m_kRotationInverse

TransMatrix m_kRotationInverse

totalDistanceString

java.lang.String totalDistanceString

Distance is calculated and passed in by VOI for polyline_slices

Class gov.nih.mipav.model.structures.VOIPolyLineSlice extends VOIBase implements Serializable

serialVersionUID:

-7909604245705492799L

Serialized Fields

m_kPoints

java.util.Vector<VOIPoint> m_kPoints

List of VOIPoint that make up the polyline.

Class gov.nih.mipav.model.structures.VOIProtractor extends VOIBase implements Serializable

serialVersionUID:

4213485128976585397L

Serialized Fields

allSlices

boolean allSlices

Set to true, displays this protractor object for any z-value.

Class gov.nih.mipav.model.structures.VOIText extends VOIBase implements Serializable

serialVersionUID:

-6408262409409720727L

Serialized Fields

backgroundColor

java.awt.Color backgroundColor

The color used to draw behind the main text (so that the text will stand out)

comments

java.util.ArrayList<java.lang.String> comments

fontDescriptors

int fontDescriptors

The descriptors for the font which start at PLAIN and are additive (PLAIN + BOLD = bold) (BOLD+ITALIC = bold and italic) etc.

fontName

java.lang.String fontName

The name (or type) of the font.

fontSize

int fontSize

The size of the font (half-sizes not allowed...int).

noteString

java.lang.String noteString

The note stored in VOIText, has same font as textString

textColor

java.awt.Color textColor

This must be kept separate (but parallel) to the VOI color.

textFont

java.awt.Font textFont

The font is stored here so that it does not have to be reallocated on each redraw. It is only new'd at the beginning or if the fontDescriptors variable changes

textString

java.lang.String textString

The String to be displayed.

useMarker

boolean useMarker

If this is set to true, a draggable arrow will be displayed

Class gov.nih.mipav.model.structures.VOIVector extends ViewVOIVector implements Serializable

serialVersionUID:

-7391734288216133947L

Serialized Fields

listenerList

javax.swing.event.EventListenerList listenerList

holds all interfaces listening to this vector.

voiUpdate

VOIVectorEvent voiUpdate

an instnace of the VOI update event.

Package gov.nih.mipav.model.structures.event

Class gov.nih.mipav.model.structures.event.VOIEvent extends java.util.EventObject implements Serializable

serialVersionUID:

-5542473955796520517L

Serialized Fields

mostRecentUpdate

VOIBase mostRecentUpdate

holds reference because referring to a VOI held by the ViewVOIVector would cause all kinds of memory clean-up concerns. may be null.

Class gov.nih.mipav.model.structures.event.VOIVectorEvent extends java.util.EventObject implements Serializable

serialVersionUID:

-2033500015284877824L

Serialized Fields

mostRecentUpdate

VOI mostRecentUpdate

holds reference because referring to a VOI held by the ViewVOIVector would cause all kinds of memory clean-up concerns. may be null.

Package gov.nih.mipav.model.structures.jama

Class gov.nih.mipav.model.structures.jama.ComplexLinearEquations extends java.lang.Object implements Serializable

Serialized Fields

badc1_zlatb4

double badc1_zlatb4

badc2_zlatb4

double badc2_zlatb4

eps_zlatb4

double eps_zlatb4

first_zlartg

boolean first_zlartg

Double precision machine variables found in routine zlartg.

first_zlatb4

boolean first_zlatb4

Found in routine zlatb4

ge

GeneralizedEigenvalue ge

iparms

int[] iparms

large_zlatb4

double[] large_zlatb4

le

LinearEquations le

safmin

double safmin

DOCUMENT ME!

safmn2

double safmn2

DOCUMENT ME!

safmx2

double safmx2

DOCUMENT ME!

small_zlatb4

double[] small_zlatb4

UI

ViewUserInterface UI

Class gov.nih.mipav.model.structures.jama.GeneralizedEigenvalue extends java.lang.Object implements Serializable

serialVersionUID:

3809017135250813360L

Serialized Fields

badc1_dlatb4

double badc1_dlatb4

badc2_dlatb4

double badc2_dlatb4

base

double base

DOCUMENT ME!

emax

double emax

DOCUMENT ME!

emin

double emin

DOCUMENT ME!

eps

double eps

DOCUMENT ME!

eps_dlatb4

double eps_dlatb4

first

boolean first

------------------------ Class variables ------------------------ Double precision machine parameters found in routine dlamch.

first_dlartg

boolean first_dlartg

Double precison machine variables found in routine dlartg.

first_dlatb4

boolean first_dlatb4

Found in routine dlatb4

iparms

int[] iparms

DOCUMENT ME!

large_dlatb4

double[] large_dlatb4

prec

double prec

DOCUMENT ME!

rmax

double rmax

DOCUMENT ME!

rmin

double rmin

DOCUMENT ME!

rnd

double rnd

DOCUMENT ME!

safmin

double safmin

DOCUMENT ME!

safmn2

double safmn2

DOCUMENT ME!

safmx2

double safmx2

DOCUMENT ME!

sfmin

double sfmin

DOCUMENT ME!

small_dlatb4

double[] small_dlatb4

t

double t

DOCUMENT ME!

UI

ViewUserInterface UI

Common variables in testing routines.

Class gov.nih.mipav.model.structures.jama.GeneralizedEigenvalue2 extends java.lang.Object implements Serializable

Serialized Fields

ge

GeneralizedEigenvalue ge

gi2

GeneralizedInverse2 gi2

iparms

int[] iparms

Class gov.nih.mipav.model.structures.jama.GeneralizedInverse2 extends java.lang.Object implements Serializable

Serialized Fields

A

double[][] A

eps

double eps

ge

GeneralizedEigenvalue ge

iparms

int[] iparms

Found in routine xlaenv

sfmin

double sfmin

Class gov.nih.mipav.model.structures.jama.LinearEquations extends java.lang.Object implements Serializable

Serialized Fields

ge

GeneralizedEigenvalue ge

gi

GeneralizedInverse2 gi

iparms

int[] iparms

UI

ViewUserInterface UI

Class gov.nih.mipav.model.structures.jama.LinearEquations2 extends java.lang.Object implements Serializable

Serialized Fields

ge

GeneralizedEigenvalue ge

gi

GeneralizedInverse2 gi

iparms

int[] iparms

le

LinearEquations le

UI

ViewUserInterface UI

Class gov.nih.mipav.model.structures.jama.LinearEquations3 extends java.lang.Object implements Serializable

Serialized Fields

ge

GeneralizedEigenvalue ge

gi

GeneralizedInverse2 gi

iparms

int[] iparms

le

LinearEquations le

UI

ViewUserInterface UI

Class gov.nih.mipav.model.structures.jama.LUSOL extends java.lang.Object implements Serializable

Serialized Fields

doubleCheck

boolean doubleCheck

nf

java.text.DecimalFormat nf

rn

java.util.Random rn

seed

long seed

UI

ViewUserInterface UI

Class gov.nih.mipav.model.structures.jama.LUSOLEP extends java.lang.Object implements Serializable

Serialized Fields

rn

java.util.Random rn

seed

long seed

UI

ViewUserInterface UI

Class gov.nih.mipav.model.structures.jama.METIS extends java.lang.Object implements Serializable

Serialized Fields

gk_cur_jbufs

int gk_cur_jbufs

GK_MOPT_CORE

int GK_MOPT_CORE

GK_MOPT_HEAP

int GK_MOPT_HEAP

GK_MOPT_MARK

int GK_MOPT_MARK

gkmcore

METIS.gk_mcore_t gkmcore

KMETIS_DEFAULT_UFACTOR

int KMETIS_DEFAULT_UFACTOR

MAX_JBUFS

int MAX_JBUFS

MCPMETIS_DEFAULT_UFACTOR

int MCPMETIS_DEFAULT_UFACTOR

OMETIS_DEFAULT_UFACTOR

int OMETIS_DEFAULT_UFACTOR

PMETIS_DEFAULT_UFACTOR

int PMETIS_DEFAULT_UFACTOR

seed

long seed

Class gov.nih.mipav.model.structures.jama.SelectedEigenvalue extends java.lang.Object implements Serializable

Serialized Fields

ge

GeneralizedEigenvalue ge

UI

ViewUserInterface UI

Common variables in testing routines.

Class gov.nih.mipav.model.structures.jama.SelectedEigenvalue2 extends java.lang.Object implements Serializable

Serialized Fields

ge

GeneralizedEigenvalue ge

se

SelectedEigenvalue se

UI

ViewUserInterface UI

Common variables in testing routines.

Class gov.nih.mipav.model.structures.jama.SparseEigenvalue extends java.lang.Object implements Serializable

Serialized Fields

dgetv0_first

boolean dgetv0_first

dgetv0_inits

boolean dgetv0_inits

dgetv0_iseed

int[] dgetv0_iseed

dgetv0_iter

int dgetv0_iter

dgetv0_msglvl

int dgetv0_msglvl

dgetv0_orth

boolean dgetv0_orth

dgetv0_rnorm0

double dgetv0_rnorm0

dsaitr_first

boolean dsaitr_first

dsaitr_ierr

int[] dsaitr_ierr

dsaitr_ipj

int dsaitr_ipj

dsaitr_irj

int dsaitr_irj

dsaitr_iter

int dsaitr_iter

dsaitr_itry

int dsaitr_itry

dsaitr_ivj

int dsaitr_ivj

dsaitr_j

int dsaitr_j

dsaitr_msglvl

int dsaitr_msglvl

dsaitr_orth1

boolean dsaitr_orth1

dsaitr_orth2

boolean dsaitr_orth2

dsaitr_rnorm1

double dsaitr_rnorm1

dsaitr_rstart

boolean dsaitr_rstart

dsaitr_safmin

double dsaitr_safmin

dsaitr_step3

boolean dsaitr_step3

dsaitr_step4

boolean dsaitr_step4

dsaitr_wnorm

double dsaitr_wnorm

dsapps_epsmch

double dsapps_epsmch

dsapps_first

boolean dsapps_first

dsaup2_cnorm

boolean dsaup2_cnorm

dsaup2_eps23

double dsaup2_eps23

dsaup2_getv0

boolean dsaup2_getv0

dsaup2_initv

boolean dsaup2_initv

dsaup2_iter

int dsaup2_iter

dsaup2_kplusp

int dsaup2_kplusp

dsaup2_msglvl

int dsaup2_msglvl

dsaup2_nconv

int[] dsaup2_nconv

dsaup2_nev0

int dsaup2_nev0

dsaup2_np0

int dsaup2_np0

dsaup2_rnorm

double[] dsaup2_rnorm

dsaup2_update

boolean dsaup2_update

dsaup2_ushift

boolean dsaup2_ushift

dsaupd_bounds

int dsaupd_bounds

dsaupd_ierr

int dsaupd_ierr

dsaupd_ih

int dsaupd_ih

dsaupd_iq

int dsaupd_iq

dsaupd_ishift

int dsaupd_ishift

dsaupd_iupd

int dsaupd_iupd

dsaupd_iw

int dsaupd_iw

dsaupd_ldh

int dsaupd_ldh

dsaupd_ldq

int dsaupd_ldq

dsaupd_mode

int dsaupd_mode

dsaupd_msglvl

int dsaupd_msglvl

dsaupd_mxiter

int[] dsaupd_mxiter

dsaupd_nb

int dsaupd_nb

dsaupd_nev0

int[] dsaupd_nev0

dsaupd_next

int dsaupd_next

dsaupd_np

int[] dsaupd_np

dsaupd_ritz

int dsaupd_ritz

ge

GeneralizedEigenvalue ge

le

LinearEquations le

mgetv0

int mgetv0

msaitr

int msaitr

msapps

int msapps

msaup2

int msaup2

msaupd

int msaupd

mseigt

int mseigt

mseupd

int mseupd

msgets

int msgets

nbx

int nbx

nf

java.text.DecimalFormat nf

nitref

int nitref

nopx

int nopx

nrorth

int nrorth

nrstrt

int nrstrt

t0

long t0

t1

long t1

t2

long t2

t3

long t3

t4

long t4

t5

long t5

tgetv0

double tgetv0

titref

double titref

tmvbx

double tmvbx

tmvopx

double tmvopx

tsaitr

double tsaitr

tsapps

double tsapps

tsaup2

double tsaup2

tsaupd

double tsaupd

tsconv

double tsconv

tseigt

double tseigt

tsgets

double tsgets

UI

ViewUserInterface UI

Class gov.nih.mipav.model.structures.jama.SuperLU extends java.lang.Object implements Serializable

Serialized Fields

ALIVE

int ALIVE

COLAMD_AGGRESSIVE

int COLAMD_AGGRESSIVE

colamd_debug

int colamd_debug

COLAMD_DEFRAG_COUNT

int COLAMD_DEFRAG_COUNT

COLAMD_DENSE_COL

int COLAMD_DENSE_COL

COLAMD_DENSE_ROW

int COLAMD_DENSE_ROW

COLAMD_ERROR_A_not_present

int COLAMD_ERROR_A_not_present

COLAMD_ERROR_A_too_small

int COLAMD_ERROR_A_too_small

COLAMD_ERROR_col_length_negative

int COLAMD_ERROR_col_length_negative

COLAMD_ERROR_internal_error

int COLAMD_ERROR_internal_error

COLAMD_ERROR_ncol_negative

int COLAMD_ERROR_ncol_negative

COLAMD_ERROR_nnz_negative

int COLAMD_ERROR_nnz_negative

COLAMD_ERROR_nrow_negative

int COLAMD_ERROR_nrow_negative

COLAMD_ERROR_out_of_memory

int COLAMD_ERROR_out_of_memory

COLAMD_ERROR_p_not_present

int COLAMD_ERROR_p_not_present

COLAMD_ERROR_p0_nonzero

int COLAMD_ERROR_p0_nonzero

COLAMD_ERROR_row_index_out_of_bounds

int COLAMD_ERROR_row_index_out_of_bounds

COLAMD_INFO1

int COLAMD_INFO1

COLAMD_INFO2

int COLAMD_INFO2

COLAMD_INFO3

int COLAMD_INFO3

COLAMD_KNOBS

int COLAMD_KNOBS

COLAMD_OK

int COLAMD_OK

COLAMD_OK_BUT_JUMBLED

int COLAMD_OK_BUT_JUMBLED

COLAMD_STATS

int COLAMD_STATS

COLAMD_STATUS

int COLAMD_STATUS

DEAD

int DEAD

DEAD_NON_PRINCIPAL

int DEAD_NON_PRINCIPAL

DEAD_PRINCIPAL

int DEAD_PRINCIPAL

DEBUGlevel

int DEBUGlevel

DROP_AREA

int DROP_AREA

DROP_BASIC

int DROP_BASIC

DROP_COLUMN

int DROP_COLUMN

DROP_DYNAMIC

int DROP_DYNAMIC

DROP_INTERP

int DROP_INTERP

DROP_PROWS

int DROP_PROWS

DROP_SECONDARY

int DROP_SECONDARY

EMPTY

int EMPTY

FALSE

int FALSE

GLOBAL_A

SuperLU.SuperMatrix GLOBAL_A

GLOBAL_A_ORIG

SuperLU.SuperMatrix GLOBAL_A_ORIG

GLOBAL_C

double[] GLOBAL_C

GLOBAL_L

SuperLU.SuperMatrix GLOBAL_L

GLOBAL_MEM_USAGE

SuperLU.mem_usage_t GLOBAL_MEM_USAGE

GLOBAL_OPTIONS

SuperLU.superlu_options_t GLOBAL_OPTIONS

GLOBAL_PERM_C

int[] GLOBAL_PERM_C

GLOBAL_PERM_R

int[] GLOBAL_PERM_R

GLOBAL_R

double[] GLOBAL_R

GLOBAL_STAT

SuperLU.SuperLUStat_t GLOBAL_STAT

GLOBAL_U

SuperLU.SuperMatrix GLOBAL_U

HAVE_METIS

boolean HAVE_METIS

I_DBEG

int I_DBEG

I_ZBEG

int I_ZBEG

IC_DBEG

int IC_DBEG

IC_ZBEG

int IC_ZBEG

J_ZBEG

int J_ZBEG

MI_DBEG

int MI_DBEG

MI_ZBEG

int MI_ZBEG

MILU_ALPHA

double MILU_ALPHA

MJ_ZBEG

int MJ_ZBEG

NBUCKS

int NBUCKS

NO_MARKER

int NO_MARKER

NO_MEMTYPE

int NO_MEMTYPE

NODROP

int NODROP

num_dmatvec

int num_dmatvec

num_zmatvec

int num_zmatvec

PRNTlevel

int PRNTlevel

TRUE

int TRUE

Class gov.nih.mipav.model.structures.jama.SVD extends java.lang.Object implements Serializable

Serialized Fields

epsilon

double epsilon

ge

GeneralizedEigenvalue ge

gi

GeneralizedInverse2 gi

iparms

int[] iparms

UI

ViewUserInterface UI

Common variables in testing routines.

Package gov.nih.mipav.plugins

Class gov.nih.mipav.plugins.JDialogStandalonePlugin extends JDialogBase implements Serializable

Class gov.nih.mipav.plugins.JDialogStandaloneScriptablePlugin extends JDialogScriptableBase implements Serializable

Package gov.nih.mipav.util

Class gov.nih.mipav.util.DoubleDouble extends java.lang.Object implements Serializable

Serialized Fields

hi

double hi

The high-order component of the double-double precision value.

lo

double lo

The low-order component of the double-double precision value.

Package gov.nih.mipav.view

Class gov.nih.mipav.view.AlternatingTableCellRenderer extends javax.swing.table.DefaultTableCellRenderer implements Serializable

serialVersionUID:

3028551564787955672L

Serialized Fields

alternateRowCount

int alternateRowCount

DOCUMENT ME!

color1

java.awt.Color color1

DOCUMENT ME!

color2

java.awt.Color color2

DOCUMENT ME!

Class gov.nih.mipav.view.BarMeter extends javax.swing.JPanel implements Serializable

serialVersionUID:

-560671300642650806L

Serialized Fields

amplitude

int amplitude

DOCUMENT ME!

boxHeight

int boxHeight

DOCUMENT ME!

boxWidth

int boxWidth

DOCUMENT ME!

divisions

int divisions

DOCUMENT ME!

g2d

java.awt.Graphics2D g2d

DOCUMENT ME!

h

int h

DOCUMENT ME!

img

java.awt.image.BufferedImage img

DOCUMENT ME!

unusedColor

java.awt.Color unusedColor

DOCUMENT ME!

unusedRect

java.awt.geom.Rectangle2D unusedRect

DOCUMENT ME!

usedColor

java.awt.Color usedColor

DOCUMENT ME!

usedRect

java.awt.geom.Rectangle2D usedRect

DOCUMENT ME!

w

int w

DOCUMENT ME!

whitespaceH

int whitespaceH

DOCUMENT ME!

whitespaceW

int whitespaceW

DOCUMENT ME!

Class gov.nih.mipav.view.BorderedButton extends javax.swing.JButton implements Serializable

serialVersionUID:

-5566213886996905888L

Serialized Fields

borderColor

java.awt.Color borderColor

DOCUMENT ME!

borderOn

boolean borderOn

DOCUMENT ME!

Class gov.nih.mipav.view.CheckTreeManager.CheckTreeCellRenderer extends javax.swing.JPanel implements Serializable

serialVersionUID:

-8230844402715861092L

Serialized Fields

checkBox

javax.swing.JCheckBox checkBox

delegate

javax.swing.tree.TreeCellRenderer delegate

selectionModel

CheckTreeManager.CheckTreeSelectionModel selectionModel

Class gov.nih.mipav.view.CheckTreeManager.CheckTreeSelectionModel extends javax.swing.tree.DefaultTreeSelectionModel implements Serializable

serialVersionUID:

8918452189008290261L

Serialized Fields

model

javax.swing.tree.TreeModel model

Class gov.nih.mipav.view.ColorIcon extends ModelSerialCloneable implements Serializable

Serialized Fields

color

java.awt.Color color

DOCUMENT ME!

h

int h

DOCUMENT ME!

w

int w

DOCUMENT ME!

Class gov.nih.mipav.view.ColorWheel extends java.awt.Canvas implements Serializable

Serialized Fields

blueShiftColors

float[] blueShiftColors

array of r,g,b values after blue shifting

gamma

float gamma

gamma correction

greenAdjColors

float[] greenAdjColors

array of r,g,b values after green adj

offGraphics

java.awt.Graphics offGraphics

offscreen graphics handle

offImage

java.awt.Image offImage

offscreen image

pB

float pB

blue saturation

pC

float pC

color range

pG

float pG

green adj

pS

float pS

sat vs theta

r1

int r1

radii of all the circles...r6 is the outermost radius

r2

int r2

radii of all the circles...r6 is the outermost radius

r3

int r3

radii of all the circles...r6 is the outermost radius

r4

int r4

radii of all the circles...r6 is the outermost radius

r5

int r5

radii of all the circles...r6 is the outermost radius

r6

int r6

radii of all the circles...r6 is the outermost radius

redShiftColors

float[] redShiftColors

array of r,g,b values after red shifting

stevensBeta

float stevensBeta

Stevens Beta

type

java.lang.String type

type of color wheel ABSVAL, NOSYMM, ROTATIONALSYMM, MIRRORSYMM

Class gov.nih.mipav.view.DICOMDisplayer extends javax.swing.JTable implements Serializable

serialVersionUID:

-3693967365082796271L

Serialized Fields

columnNames

java.lang.String[] columnNames

DOCUMENT ME!

model

ViewTableModel model

DOCUMENT ME!

Class gov.nih.mipav.view.JFrameHistogram extends javax.swing.JPanel implements Serializable

serialVersionUID:

6057663900661366920L

Serialized Fields

colEMFrame

ViewJFrameColocalizationEM colEMFrame

reference to the colocalization frame for updatng the image.

colRegFrame

ViewJFrameColocalizationRegression colRegFrame

reference to the colocalization frame for updatng the image.

containingFrame

javax.swing.JFrame containingFrame

frame containing the lut interface (if display in a stand-alone window)

containingPanel

javax.swing.JPanel containingPanel

panel containing the lut interface (used in the stand-alone frame or in an outside frame)

dualImage

boolean dualImage

set to true when the lut interface contains two images (imageA and imageB)

imageA

ModelImage imageA

source image A

imageB

ModelImage imageB

source image B

LUTa

ModelStorageBase LUTa

lut a

LUTb

ModelStorageBase LUTb

lut b

menuObj

ViewMenuBuilder menuObj

menu builder

panelA

JPanelHistogram panelA

histogram interface panels for imageA and imageB

panelB

JPanelHistogram panelB

histogram interface panels for imageA and imageB

parentFrame

java.awt.Frame parentFrame

Parent frame of this dialog, usually of type ViewJFrameImage.

regComponent

ViewJComponentRegistration regComponent

false = apply algorithm only to VOI regions.

tabbedPane

javax.swing.JTabbedPane tabbedPane

tabbed pane, each separate tab contains the interface for imageA and imageB

useSeparateFrame

boolean useSeparateFrame

Whether this panel is contained in another frame or forms its own frame

voiDialog

javax.swing.JDialog voiDialog

Dialog that enables the user to choose to apply the lut to the entire image, or voi regions.

wholeImage

boolean wholeImage

true = apply algorithm to the whole image

Class gov.nih.mipav.view.JPanelAnonymizeImage extends JPanelChecklist implements Serializable

serialVersionUID:

-2842282459266721252L

Serialized Fields

dicomInfo

FileInfoDicom dicomInfo

all the tags that contain personal info:.

mincInfo

FileInfoMinc mincInfo

DOCUMENT ME!

Class gov.nih.mipav.view.JPanelAnonymizePrivateTags extends javax.swing.JPanel implements Serializable

serialVersionUID:

-410753580261870012L

Serialized Fields

checkTree

CheckTreeManager checkTree

The checkbox tree version of the tree in the panel. Used to actually display the information.

elementField

javax.swing.JTextField elementField

groupField

javax.swing.JTextField groupField

keyList

java.util.ArrayList<FileDicomKey> keyList

The list of private keys in the image

listModel

javax.swing.DefaultListModel listModel

nameField

javax.swing.JTextField nameField

tagList

java.util.ArrayList<java.lang.String> tagList

The list of private tags that map to the keys in the previous list

tree

javax.swing.JTree tree

The tree used to keep track of keys. Used to manipulate the selections.

Class gov.nih.mipav.view.JPanelAnonymizePublicTags extends javax.swing.JPanel implements Serializable

serialVersionUID:

-4032253276365568162L

Serialized Fields

checkTree

CheckTreeManager checkTree

keyList

java.util.ArrayList<FileDicomKey> keyList

suppTags

java.util.HashSet<java.lang.String> suppTags

tagList

java.util.ArrayList<java.lang.String> tagList

tree

javax.swing.JTree tree

Class gov.nih.mipav.view.JPanelChecklist extends javax.swing.JPanel implements Serializable

serialVersionUID:

-6168461302590312089L

Serialized Fields

checkboxLabels

java.lang.String[] checkboxLabels

must be same size as listLength.

checkboxList

javax.swing.JCheckBox[] checkboxList

DOCUMENT ME!

checkboxPanel

javax.swing.JPanel checkboxPanel

DOCUMENT ME!

checkButton

javax.swing.JButton checkButton

DOCUMENT ME!

chkUnchkPanel

javax.swing.JPanel chkUnchkPanel

DOCUMENT ME!

enabledList

boolean[] enabledList

the list of the choices that can be selected.

listLength

int listLength

must be given a nonzero number on instantiation. must be of same size as checkboxLabels.

removeList

boolean[] removeList

notice that for the next two lists, ith entry on one corresponds to the ith entry on the other. the entire list of choices possible.

scrollPane

javax.swing.JScrollPane scrollPane

DOCUMENT ME!

unCheckButton

javax.swing.JButton unCheckButton

DOCUMENT ME!

Class gov.nih.mipav.view.JPanelEdit extends javax.swing.JPanel implements Serializable

serialVersionUID:

-8206200502096634672L

Serialized Fields

errorComponent

java.awt.Component errorComponent

when necessary To CheckFields, and there is a problem with the panel such that a valid panel value cannot be made, the particular component which has a bad value will be pointed to here.

errorString

java.lang.String errorString

when necessary To CheckFields, and there is a problem with the panel such that a valid panel value cannot be made, the problem will be reported in this String.

propertyName

java.lang.String propertyName

A changable property name for firing PropertyChangeEvents. A panel has but one unique property associated with it, that is the file it references, but in a situation where more than one such panel may be listened to by a PropertyChangeListener, each of these panels may be given a unique name to help the Listener. Be careful when using this feature, however, because if there is more than one listener which is interested in changes in the PropertyChangeEvent, changing the property name will cause conflicts (and likely ignored events).

Class gov.nih.mipav.view.JPanelEditAxisOrientation extends JPanelEdit implements Serializable

serialVersionUID:

-6931501818687637674L

Serialized Fields

orientationBox

javax.swing.JComboBox orientationBox

DOCUMENT ME!

Class gov.nih.mipav.view.JPanelEditBoolean extends JPanelEdit implements Serializable

serialVersionUID:

6795672926611666135L

Serialized Fields

booleanBox

javax.swing.JComboBox booleanBox

DOCUMENT ME!

Class gov.nih.mipav.view.JPanelEditChar extends JPanelEdit implements Serializable

serialVersionUID:

216110617521213885L

Serialized Fields

editTextField

javax.swing.JTextField editTextField

DOCUMENT ME!

Class gov.nih.mipav.view.JPanelEditDate extends JPanelEdit implements Serializable

serialVersionUID:

3504702516257604573L

Serialized Fields

dayCombobox

javax.swing.JComboBox dayCombobox

DOCUMENT ME!

monthCombobox

javax.swing.JComboBox monthCombobox

DOCUMENT ME!

noFutureDates

boolean noFutureDates

DOCUMENT ME!

noPastDates

boolean noPastDates

DOCUMENT ME!

xml

boolean xml

DOCUMENT ME!

yearTextField

javax.swing.JTextField yearTextField

DOCUMENT ME!

Class gov.nih.mipav.view.JPanelEditDefault extends JPanelEdit implements Serializable

serialVersionUID:

-2218748402204415345L

Serialized Fields

editTextField

javax.swing.JTextField editTextField

DOCUMENT ME!

maxLength

int maxLength

DOCUMENT ME!

Class gov.nih.mipav.view.JPanelEditImageOrientation extends JPanelEdit implements Serializable

serialVersionUID:

155707351575492439L

Serialized Fields

orientationBox

javax.swing.JComboBox orientationBox

DOCUMENT ME!

Class gov.nih.mipav.view.JPanelEditModality extends JPanelEdit implements Serializable

serialVersionUID:

-7456502877292143209L

Serialized Fields

modalityBox

javax.swing.JComboBox modalityBox

DOCUMENT ME!

Class gov.nih.mipav.view.JPanelEditOrientation extends JPanelEdit implements Serializable

serialVersionUID:

-2127377398183049555L

Serialized Fields

orientationBox

javax.swing.JComboBox orientationBox

DOCUMENT ME!

Class gov.nih.mipav.view.JPanelEditRace extends JPanelEdit implements Serializable

serialVersionUID:

6499425054292194113L

Serialized Fields

raceBox

javax.swing.JComboBox raceBox

DOCUMENT ME!

Class gov.nih.mipav.view.JPanelEditSetOrParam extends JPanelEdit implements Serializable

serialVersionUID:

2261232133976028312L

Serialized Fields

editTextField

javax.swing.JTextField editTextField

DOCUMENT ME!

isSet

boolean isSet

DOCUMENT ME!

maxLength

int maxLength

DOCUMENT ME!

table

java.util.Hashtable<?,?> table

DOCUMENT ME!

Class gov.nih.mipav.view.JPanelEditSex extends JPanelEdit implements Serializable

serialVersionUID:

-3767740357915707674L

Serialized Fields

sexComboBox

javax.swing.JComboBox sexComboBox

DOCUMENT ME!

Class gov.nih.mipav.view.JPanelEditTime extends JPanelEdit implements Serializable

serialVersionUID:

-1541002811257405137L

Serialized Fields

hourCheckBox

javax.swing.JCheckBox hourCheckBox

permits whether or not to set this field.

hourComboBox

javax.swing.JComboBox hourComboBox

value to add to this time field.

minCheckBox

javax.swing.JCheckBox minCheckBox

permits whether or not to set this field.

minComboBox

javax.swing.JComboBox minComboBox

value to add to this time field.

secCheckBox

javax.swing.JCheckBox secCheckBox

permits whether or not to set this field.

secComboBox

javax.swing.JComboBox secComboBox

value to add to this time field.

secFraction

javax.swing.JTextField secFraction

DOCUMENT ME!

xml

boolean xml

DOCUMENT ME!

Class gov.nih.mipav.view.JPanelEditValueType extends JPanelEdit implements Serializable

serialVersionUID:

2306780604257062424L

Serialized Fields

valueTypeBox

javax.swing.JComboBox valueTypeBox

DOCUMENT ME!

Class gov.nih.mipav.view.JPanelFileSelection extends JPanelEdit implements Serializable

serialVersionUID:

5350976001384182834L

Serialized Fields

chooser

javax.swing.JFileChooser chooser

DOCUMENT ME!

chosenFile

java.io.File chosenFile

DOCUMENT ME!

fileBrowse

javax.swing.JButton fileBrowse

DOCUMENT ME!

fileTextField

javax.swing.JTextField fileTextField

DOCUMENT ME!

Class gov.nih.mipav.view.JPanelHistogram extends javax.swing.JPanel implements Serializable

serialVersionUID:

2049904743460024433L

Serialized Fields

blueCheckBox

javax.swing.JCheckBox blueCheckBox

checkbox for turning on / off the blue component of the color look-up table.

ctDialog

JDialogCT ctDialog

cursorIndex

int cursorIndex

Active mouse cursor index of the imageA, B and GM image A, B.

greenCheckBox

javax.swing.JCheckBox greenCheckBox

checkbox for turning on / off the green component of the color look-up table.

histogram

ModelHistogram histogram

red, green and blue histograms:

histogramB

ModelHistogram histogramB

red, green and blue histograms:

histogramG

ModelHistogram histogramG

red, green and blue histograms:

histoPanel

ViewJPanelHistoLUT histoPanel

histogram panel interface.

image

ModelImage image

input image

indexColorTextF

javax.swing.JTextField indexColorTextF

displays the selected LUT color

interpCheckBox

javax.swing.JCheckBox interpCheckBox

turns interpolation on/off

labelsTable

java.util.Hashtable<java.lang.Integer,javax.swing.JLabel> labelsTable

logCheckBox

javax.swing.JCheckBox logCheckBox

turns log display on/off

LUT

ModelStorageBase LUT

input LUT, either ModelLUT or ModelRGB

mouseSlider

javax.swing.JSlider mouseSlider

slider for small LUT changes

mouseSliderLabels

javax.swing.JLabel[] mouseSliderLabels

nColorsTextF

javax.swing.JTextField nColorsTextF

displays the number of colors in the LUT

oneBasedLUTCheckBoxImage

javax.swing.JCheckBox oneBasedLUTCheckBoxImage

sets the minimum LUT value to (1,1,1)

outputBox

javax.swing.JComboBox outputBox

enables the user to set the image output type or LUT-based image extration

panelParent

JFrameHistogram panelParent

containing parent class.

rangeX

float rangeX

X range value of the imageA, B and GM imageA, B.

redCheckBox

javax.swing.JCheckBox redCheckBox

checkbox for turning on / off the red component of the color look-up table.

scaleRange

int scaleRange

threshFillF

javax.swing.JTextField threshFillF

displays the threshold fill-value

threshLowerF

javax.swing.JTextField threshLowerF

displays the threshold lower-value

threshUpperF

javax.swing.JTextField threshUpperF

displays the threshold upper-value

toolBarBottom

javax.swing.JToolBar toolBarBottom

bottom tool bar

toolBarThreshold

javax.swing.JToolBar toolBarThreshold

threshold tool bar

updateCheckBox

javax.swing.JCheckBox updateCheckBox

enables the user to set updating the display in real-time or only on mouse-release

voxelVolumeLabel

javax.swing.JLabel voxelVolumeLabel

volume threshold vaue

wholeImage

boolean wholeImage

true = apply algorithm to the whole image

xRangeText

javax.swing.JTextField xRangeText

yRangeText

javax.swing.JTextField yRangeText

Class gov.nih.mipav.view.JPanelListController extends javax.swing.JPanel implements Serializable

serialVersionUID:

-3060198445145485002L

Serialized Fields

deleteSelection

javax.swing.JButton deleteSelection

'X'.

listA

javax.swing.JList listA

upper or left-most list.

listB

javax.swing.JList listB

lower or right-most list.

listLayout

int listLayout

DOCUMENT ME!

sendAllToListA

javax.swing.JButton sendAllToListA

DOCUMENT ME!

sendAllToListB

javax.swing.JButton sendAllToListB

DOCUMENT ME!

sendSelectionToListA

javax.swing.JButton sendSelectionToListA

left arrow or up arrow.

sendSelectionToListB

javax.swing.JButton sendSelectionToListB

right arrow or down arrow.

Class gov.nih.mipav.view.JPanelProgressBar extends javax.swing.JPanel implements Serializable

serialVersionUID:

-6963733511040621440L

Serialized Fields

pBar

javax.swing.JProgressBar pBar

Actual bar which fills with color as the percentage of completion increases.

Class gov.nih.mipav.view.JPanelStatisticsList extends JPanelChecklist implements Serializable

serialVersionUID:

-5517669600349449423L

Serialized Fields

byContour

boolean byContour

true if by contour or by slice and contour and show Totals is not selected

openContour

boolean openContour

Whether this list is dealing with open contours.

singleSlice

boolean singleSlice

Whether this list is dealing with lists of 2D contours.

Class gov.nih.mipav.view.JPanelTreeController extends javax.swing.JPanel implements Serializable

Serialized Fields

deleteSelection

javax.swing.JButton deleteSelection

'X'.

sendAllToTreeA

javax.swing.JButton sendAllToTreeA

DOCUMENT ME!

sendAllToTreeB

javax.swing.JButton sendAllToTreeB

DOCUMENT ME!

sendSelectionToTreeA

javax.swing.JButton sendSelectionToTreeA

left arrow or up arrow.

sendSelectionToTreeB

javax.swing.JButton sendSelectionToTreeB

right arrow or down arrow.

treeA

javax.swing.JTree treeA

upper or left-most tree.

treeB

javax.swing.JTree treeB

lower or right-most tree.

treeLayout

int treeLayout

DOCUMENT ME!

Class gov.nih.mipav.view.JPanelVolumeOpacity extends javax.swing.JPanel implements Serializable

serialVersionUID:

-5320201609864903620L

Serialized Fields

blendSlider

javax.swing.JSlider blendSlider

Opacity slider of texture 3D volume opacity changes.

componentOpacityA

ViewJComponentVolOpacityBase componentOpacityA

Reference to component opacity control A.

componentOpacityB

ViewJComponentVolOpacityBase componentOpacityB

Reference to component opacity control B.

componentOpacityGM_A

ViewJComponentVolOpacityBase componentOpacityGM_A

Reference to component opacity control A GM Rescale.

componentOpacityGM_B

ViewJComponentVolOpacityBase componentOpacityGM_B

Reference to component opacity control B GM Rescale.

GMCheckBox

javax.swing.JCheckBox GMCheckBox

Gradient Magnitude Check box of the grey scale image.

gradMagRescale_A

ModelImage gradMagRescale_A

Model image of the gradient magnitude of image A rescaled to have value in the range [0:255].

gradMagRescale_B

ModelImage gradMagRescale_B

Model image of the gradient magnitude of image B rescaled to have value in the range [0:255].

histogramA

ModelHistogram histogramA

Histogram reference for image A.

histogramB

ModelHistogram histogramB

Histogram reference for image B.

histogramGM_A

ModelHistogram histogramGM_A

Histogram reference for imageA GM.

histogramGM_B

ModelHistogram histogramGM_B

Histogram reference for imageB GM.

imageA

ModelImage imageA

Model image A.

imageB

ModelImage imageB

Model image B.

isActiveImage

boolean isActiveImage

isChanging

boolean isChanging

labelsTable

java.util.Hashtable<java.lang.Integer,javax.swing.JLabel> labelsTable

Historgram dialog slider labels of the imageA, B and GM imageA, B.

labelsTableB

java.util.Hashtable<java.lang.Integer,javax.swing.JLabel> labelsTableB

Historgram dialog slider labels of the imageA, B and GM imageA, B.

labelsTableGM_A

java.util.Hashtable<java.lang.Integer,javax.swing.JLabel> labelsTableGM_A

Historgram dialog slider labels of the imageA, B and GM imageA, B.

labelsTableGM_B

java.util.Hashtable<java.lang.Integer,javax.swing.JLabel> labelsTableGM_B

Historgram dialog slider labels of the imageA, B and GM imageA, B.

mainPanel

javax.swing.JPanel mainPanel

The main control.

middleLabelValueA

float middleLabelValueA

DOCUMENT ME!

middleLabelValueB

float middleLabelValueB

DOCUMENT ME!

middleLabelValueGM_A

float middleLabelValueGM_A

DOCUMENT ME!

middleLabelValueGM_B

float middleLabelValueGM_B

DOCUMENT ME!

mouseSlider

javax.swing.JSlider mouseSlider

DOCUMENT ME!

mouseSliderB

javax.swing.JSlider mouseSliderB

DOCUMENT ME!

mouseSliderGM_A

javax.swing.JSlider mouseSliderGM_A

DOCUMENT ME!

mouseSliderGM_B

javax.swing.JSlider mouseSliderGM_B

DOCUMENT ME!

opacitySliderLabelsA

javax.swing.JLabel[] opacitySliderLabelsA

The labels below the opacity slider.

opacitySliderLabelsB

javax.swing.JLabel[] opacitySliderLabelsB

The labels below the opacity slider.

opacitySliderLabelsGM_A

javax.swing.JLabel[] opacitySliderLabelsGM_A

DOCUMENT ME!

opacitySliderLabelsGM_B

javax.swing.JLabel[] opacitySliderLabelsGM_B

DOCUMENT ME!

panelOpacityA

javax.swing.JPanel panelOpacityA

Panels that hold the the control components (opacity maps).

panelOpacityB

javax.swing.JPanel panelOpacityB

DOCUMENT ME!

panelOpacityGM_A

javax.swing.JPanel panelOpacityGM_A

DOCUMENT ME!

panelOpacityGM_B

javax.swing.JPanel panelOpacityGM_B

DOCUMENT ME!

rangeText

javax.swing.JTextField rangeText

X range text field in the imageA, B histogram dialog.

rangeTextB

javax.swing.JTextField rangeTextB

X range text field in the imageA, B histogram dialog.

rangeTextGM_A

javax.swing.JTextField rangeTextGM_A

X range text field in the Gradient Magnitude imageA, B histogram dialog.

rangeTextGM_B

javax.swing.JTextField rangeTextGM_B

X range text field in the Gradient Magnitude imageA, B histogram dialog.

scaleRangeA

float scaleRangeA

Scale range value according to the image min and max.

scaleRangeB

float scaleRangeB

Scale range value according to the image min and max.

scaleRangeGM_A

float scaleRangeGM_A

Scale range value according to the image min and max.

scaleRangeGM_B

float scaleRangeGM_B

Scale range value according to the image min and max.

tabbedPane

javax.swing.JTabbedPane tabbedPane

Tabbed pane that contains the list of opacity functions.

xRangeTextA

javax.swing.JTextField xRangeTextA

X range text field in the imageA, B and GM image A, B histogram dialog. Following text fields are used by the tri-planar volume view.

xRangeTextB

javax.swing.JTextField xRangeTextB

X range text field in the imageA, B and GM image A, B histogram dialog. Following text fields are used by the tri-planar volume view.

xRangeTextGM_A

javax.swing.JTextField xRangeTextGM_A

X range text field in the imageA, B and GM image A, B histogram dialog. Following text fields are used by the tri-planar volume view.

xRangeTextGM_B

javax.swing.JTextField xRangeTextGM_B

X range text field in the imageA, B and GM image A, B histogram dialog. Following text fields are used by the tri-planar volume view.

yRangeTextA

javax.swing.JTextField yRangeTextA

Y range text field in the imageA, B and GM image A, B histogram dialog. Following text fields are used by the tri-planar volume view.

yRangeTextB

javax.swing.JTextField yRangeTextB

Y range text field in the imageA, B and GM image A, B histogram dialog. Following text fields are used by the tri-planar volume view.

yRangeTextGM_A

javax.swing.JTextField yRangeTextGM_A

Y range text field in the imageA, B and GM image A, B histogram dialog. Following text fields are used by the tri-planar volume view.

yRangeTextGM_B

javax.swing.JTextField yRangeTextGM_B

Y range text field in the imageA, B and GM image A, B histogram dialog. Following text fields are used by the tri-planar volume view.

Class gov.nih.mipav.view.JScrollMenu extends javax.swing.JMenu implements Serializable

Serialized Fields

popupMenu

javax.swing.JPopupMenu popupMenu

The popup menu portion of the menu.

Class gov.nih.mipav.view.JScrollPopupMenu extends javax.swing.JPopupMenu implements Serializable

Serialized Fields

popupScrollBar

javax.swing.JScrollBar popupScrollBar

Class gov.nih.mipav.view.JTreeDICOM extends javax.swing.JTree implements Serializable

serialVersionUID:

1L

Class gov.nih.mipav.view.LineMeter extends javax.swing.JPanel implements Serializable

serialVersionUID:

-7794163419733734911L

Serialized Fields

animationFrame

int animationFrame

DOCUMENT ME!

animationThread

java.lang.Thread animationThread

monitor animation happens in its own thread.

aniSampleRate

int aniSampleRate

DOCUMENT ME!

chartHeight

int chartHeight

DOCUMENT ME!

chartWidth

int chartWidth

DOCUMENT ME!

chartXend

int chartXend

DOCUMENT ME!

chartXstart

int chartXstart

DOCUMENT ME!

chartYend

int chartYend

DOCUMENT ME!

chartYstart

int chartYstart

DOCUMENT ME!

counterLock

boolean counterLock

DOCUMENT ME!

countSinceLastUpdate

int countSinceLastUpdate

DOCUMENT ME!

dim

java.awt.Dimension dim

DOCUMENT ME!

drawingHeight

int drawingHeight

DOCUMENT ME!

drawingWidth

int drawingWidth

DOCUMENT ME!

g2d

java.awt.Graphics2D g2d

DOCUMENT ME!

insets

java.awt.Insets insets

DOCUMENT ME!

lineColor

java.awt.Color lineColor

DOCUMENT ME!

lineSpacing

int lineSpacing

DOCUMENT ME!

numberOfDivisions

int numberOfDivisions

DOCUMENT ME!

numberOfSamplesDisplayed

int numberOfSamplesDisplayed

DOCUMENT ME!

numberOfSamplesPerDivision

int numberOfSamplesPerDivision

DOCUMENT ME!

panelHeight

int panelHeight

DOCUMENT ME!

panelWidth

int panelWidth

DOCUMENT ME!

paperColor

java.awt.Color paperColor

DOCUMENT ME!

penColor

java.awt.Color penColor

DOCUMENT ME!

pixelsWidePerSample

int pixelsWidePerSample

DOCUMENT ME!

recentSamples

float[] recentSamples

DOCUMENT ME!

sampleRate

int sampleRate

DOCUMENT ME!

samplesPerUpdate

int samplesPerUpdate

DOCUMENT ME!

whitespaceH

int whitespaceH

DOCUMENT ME!

whitespaceW

int whitespaceW

DOCUMENT ME!

yLocHistory

float[] yLocHistory

DOCUMENT ME!

Class gov.nih.mipav.view.MIPAVTableCellRenderer extends javax.swing.table.DefaultTableCellRenderer implements Serializable

serialVersionUID:

2587142275980890594L

Class gov.nih.mipav.view.MipavUtil extends javax.swing.JComponent implements Serializable

serialVersionUID:

4180127127881019813L

Class gov.nih.mipav.view.ProgressChangeEvent extends javax.swing.event.ChangeEvent implements Serializable

Serialized Fields

message

java.lang.String message

The message which will be shown with the progress bar

title

java.lang.String title

The title of the progress dialog

value

int value

The value of the progress bar, the range is from 0~100

Class gov.nih.mipav.view.Rubberband extends java.awt.Component implements Serializable

serialVersionUID:

7016153369248687772L

Serialized Fields

active

boolean active

DOCUMENT ME!

anchorPt

java.awt.Point anchorPt

DOCUMENT ME!

component

java.awt.Component component

DOCUMENT ME!

endPt

java.awt.Point endPt

DOCUMENT ME!

firstStretch

boolean firstStretch

DOCUMENT ME!

lastPt

java.awt.Point lastPt

DOCUMENT ME!

presetHue

float presetHue

DOCUMENT ME!

stretchedPt

java.awt.Point stretchedPt

DOCUMENT ME!

usableComponent

boolean usableComponent

DOCUMENT ME!

xMax

int xMax

DOCUMENT ME!

xS

int xS

DOCUMENT ME!

yMax

int yMax

DOCUMENT ME!

yS

int yS

DOCUMENT ME!

Class gov.nih.mipav.view.RubberbandEllipse extends Rubberband implements Serializable

serialVersionUID:

-3765430195677943807L

Serialized Fields

endAngle

int endAngle

DOCUMENT ME!

startAngle

int startAngle

DOCUMENT ME!

Class gov.nih.mipav.view.RubberbandLine extends Rubberband implements Serializable

serialVersionUID:

6355805256478756437L

Serialized Fields

doSplit

boolean doSplit

boolean for if this is a VOI Splitter (not line drawer)

x

int[] x

DOCUMENT ME!

y

int[] y

DOCUMENT ME!

z

int[] z

DOCUMENT ME!

Class gov.nih.mipav.view.RubberbandLivewire extends Rubberband implements Serializable

serialVersionUID:

-2803229062633426608L

Serialized Fields

activeTree

RubberbandLivewire.ActiveTree activeTree

DOCUMENT ME!

clickPoints

java.util.Vector<WildMagic.LibFoundation.Mathematics.Vector3f> clickPoints

DOCUMENT ME!

contour

VOIContour contour

DOCUMENT ME!

costGraph

byte[] costGraph

DOCUMENT ME!

count

int count

DOCUMENT ME!

currContourCost

float currContourCost

DOCUMENT ME!

firstPoint

boolean firstPoint

DOCUMENT ME!

grad_weight

float grad_weight

DOCUMENT ME!

localCosts

float[] localCosts

DOCUMENT ME!

presetHue

float presetHue

DOCUMENT ME!

prevContourCost

float prevContourCost

DOCUMENT ME!

prevXPoints

float[] prevXPoints

DOCUMENT ME!

prevYPoints

float[] prevYPoints

DOCUMENT ME!

processedIndicies

java.util.BitSet processedIndicies

DOCUMENT ME!

progressBar

ViewJProgressBar progressBar

DOCUMENT ME!

seededCosts

float[] seededCosts

DOCUMENT ME!

seedPoint

int seedPoint

DOCUMENT ME!

selection

int selection

DOCUMENT ME!

smoothVOIFlag

boolean smoothVOIFlag

DOCUMENT ME!

tmpPt

java.awt.Point tmpPt

DOCUMENT ME!

waitCursor

java.awt.Cursor waitCursor

DOCUMENT ME!

xDim

int xDim

DOCUMENT ME!

xDirections

float[] xDirections

DOCUMENT ME!

xPoints

float[] xPoints

DOCUMENT ME!

xPointsDraw

int[] xPointsDraw

DOCUMENT ME!

yDim

int yDim

DOCUMENT ME!

yDirections

float[] yDirections

DOCUMENT ME!

yPoints

float[] yPoints

DOCUMENT ME!

yPointsDraw

int[] yPointsDraw

DOCUMENT ME!

Class gov.nih.mipav.view.RubberbandPolyline extends Rubberband implements Serializable

serialVersionUID:

-9153642132322433825L

Serialized Fields

contour

VOIContour contour

DOCUMENT ME!

firstPoint

boolean firstPoint

DOCUMENT ME!

mouseDragged

boolean mouseDragged

DOCUMENT ME!

tmpPt

java.awt.Point tmpPt

DOCUMENT ME!

Class gov.nih.mipav.view.RubberbandProtractor extends Rubberband implements Serializable

serialVersionUID:

808272437770323870L

Serialized Fields

x

int[] x

DOCUMENT ME!

y

int[] y

DOCUMENT ME!

z

int[] z

DOCUMENT ME!

Class gov.nih.mipav.view.RubberbandRectangle extends Rubberband implements Serializable

serialVersionUID:

-6519290525624847778L

Class gov.nih.mipav.view.RubberbandRectangleVOI extends RubberbandRectangle implements Serializable

serialVersionUID:

3071762927070207288L

Class gov.nih.mipav.view.ViewControlsImage extends javax.swing.JPanel implements Serializable

serialVersionUID:

3317301000984234468L

Serialized Fields

alphaSlider

javax.swing.JSlider alphaSlider

DOCUMENT ME!

borderActiveImage

javax.swing.border.TitledBorder borderActiveImage

DOCUMENT ME!

borderImageSlider

javax.swing.border.TitledBorder borderImageSlider

DOCUMENT ME!

frame

ViewJFrameBase frame

DOCUMENT ME!

gbc

java.awt.GridBagConstraints gbc

DOCUMENT ME!

generalPanel

javax.swing.JPanel generalPanel

DOCUMENT ME!

group1

javax.swing.ButtonGroup group1

DOCUMENT ME!

imageSize

int imageSize

DOCUMENT ME!

paintToolBar

javax.swing.JToolBar paintToolBar

Paint toolbar.

panelActiveImage

javax.swing.JPanel panelActiveImage

DOCUMENT ME!

panelImageSlider

javax.swing.JPanel panelImageSlider

DOCUMENT ME!

panelOptionToolbars

javax.swing.JPanel panelOptionToolbars

DOCUMENT ME!

panelToolbars

javax.swing.JPanel panelToolbars

DOCUMENT ME!

radioImageA

javax.swing.JRadioButton radioImageA

DOCUMENT ME!

radioImageB

javax.swing.JRadioButton radioImageB

DOCUMENT ME!

registrationToolBar

javax.swing.JToolBar registrationToolBar

Registration toolbar.

scriptToolBar

javax.swing.JToolBar scriptToolBar

DOCUMENT ME!

tImageSlider

ViewJSlider tImageSlider

tImageSlider

toolBar

javax.swing.JToolBar toolBar

Main toolbar .

toolBarObj

ViewToolBarBuilder toolBarObj

Object builds and controls the toolbars.

zImageSlider

ViewJSlider zImageSlider

DOCUMENT ME!

Class gov.nih.mipav.view.ViewDICOMDoubleListPanel extends ViewSelectableDoubleListPanel implements Serializable

serialVersionUID:

3583232599838861716L

Serialized Fields

btnMoveDown

javax.swing.JButton btnMoveDown

DOCUMENT ME!

btnMoveUp

javax.swing.JButton btnMoveUp

DOCUMENT ME!

leftTableModel

SortingTableModel leftTableModel

DOCUMENT ME!

leftTableSorter

TableSorter leftTableSorter

DOCUMENT ME!

rightTableModel

SortingTableModel rightTableModel

DOCUMENT ME!

rightTableSorter

TableSorter rightTableSorter

DOCUMENT ME!

Class gov.nih.mipav.view.ViewFileChooserSubsample extends javax.swing.JFileChooser implements Serializable

serialVersionUID:

-5946259539592286508L

Serialized Fields

chkSave

javax.swing.JCheckBox chkSave

DOCUMENT ME!

txtResampleHeight

javax.swing.JTextField txtResampleHeight

DOCUMENT ME!

txtResampleWidth

javax.swing.JTextField txtResampleWidth

DOCUMENT ME!

Class gov.nih.mipav.view.ViewFileTreeNode extends javax.swing.tree.DefaultMutableTreeNode implements Serializable

serialVersionUID:

2761808148905905365L

Serialized Fields

directoriesOnly

boolean directoriesOnly

DOCUMENT ME!

explored

boolean explored

DOCUMENT ME!

rootfile

boolean rootfile

DOCUMENT ME!

Class gov.nih.mipav.view.ViewImageDirectory extends javax.swing.JFrame implements Serializable

serialVersionUID:

-1262294439731204344L

Serialized Fields

brightness

int brightness

DOCUMENT ME!

brightPanel

javax.swing.JPanel brightPanel

DOCUMENT ME!

brightSlider

javax.swing.JSlider brightSlider

DOCUMENT ME!

contrast

float contrast

DOCUMENT ME!

contSlider

javax.swing.JSlider contSlider

DOCUMENT ME!

current

javax.swing.JLabel current

DOCUMENT ME!

current2

javax.swing.JLabel current2

DOCUMENT ME!

defaultImageSize

java.awt.Dimension defaultImageSize

DOCUMENT ME!

directory

java.lang.String directory

DOCUMENT ME!

directoryTree

javax.swing.JTree directoryTree

DOCUMENT ME!

file

java.io.File file

DOCUMENT ME!

imageFilter

ViewImageFileFilter imageFilter

DOCUMENT ME!

imagePanel

javax.swing.JPanel imagePanel

DOCUMENT ME!

imageSliderPane

javax.swing.JSplitPane imageSliderPane

DOCUMENT ME!

img

ViewJComponentPreviewImage img

DOCUMENT ME!

nfc

java.text.NumberFormat nfc

DOCUMENT ME!

node

ViewFileTreeNode node

DOCUMENT ME!

openSeparate

boolean openSeparate

DOCUMENT ME!

openSeparateOption

javax.swing.JCheckBoxMenuItem openSeparateOption

DOCUMENT ME!

origBrightness

int origBrightness

DOCUMENT ME!

origContrast

float origContrast

DOCUMENT ME!

otherLabel

javax.swing.JLabel otherLabel

DOCUMENT ME!

primaryModel

ViewTableModel primaryModel

DOCUMENT ME!

primaryTable

javax.swing.JTable primaryTable

DOCUMENT ME!

secondaryModel

ViewTableModel secondaryModel

DOCUMENT ME!

secondaryTable

javax.swing.JTable secondaryTable

DOCUMENT ME!

serif12

java.awt.Font serif12

DOCUMENT ME!

serif12B

java.awt.Font serif12B

DOCUMENT ME!

showXMLThumbnail

boolean showXMLThumbnail

DOCUMENT ME!

sliderPanel

javax.swing.JPanel sliderPanel

DOCUMENT ME!

thumbnail

FileImageXML.Thumbnail thumbnail

DOCUMENT ME!

thumbnailOption

javax.swing.JCheckBoxMenuItem thumbnailOption

DOCUMENT ME!

treePanel

javax.swing.JPanel treePanel

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJColorChooser extends javax.swing.JColorChooser implements Serializable

serialVersionUID:

-7062915703384786855L

Serialized Fields

colorDialog

javax.swing.JDialog colorDialog

Main color dialog for display

Class gov.nih.mipav.view.ViewJComponentAnimate extends ViewJComponentBase implements Serializable

serialVersionUID:

-2707021974594065054L

Serialized Fields

alphaBlend

float alphaBlend

alphaBlending values for compositing two images.

blue

int blue

Border color, red, green, and blue components:

brightness

int brightness

offset ranging from -255 to 255 add to each scaled red, green, and blue

contrast

float contrast

scale factor ranging from 0.1 to 10.0 by which to multiply each red, green, and blue

disposeImage

boolean disposeImage

whether or not to dispose of imageA and imageB true unless ViewJFrameAnimate was passed an unscaled 3D image

frame

ViewJFrameBase frame

frame - frame where the component image is displayed.

green

int green

Border color, red, green, and blue components:

haveFiltered

boolean haveFiltered

whether or not the brightness/contrast filter has been invoked

ignoreSlice

boolean[] ignoreSlice

set true if deleteSlice hit in ViewJFrameAnimate

imageA

ModelImage imageA

imageA - model for image A.

imageActive

ModelImage imageActive

Which image is currently active

imageB

ModelImage imageB

imageB - model for image B.

img

java.awt.Image[] img

the image rendered in 2D graphics:

m_kPatientSlice

PatientSlice m_kPatientSlice

PatientSlice contains all the Patient Coordinate system view-specific data for rendering this component:

mt

java.awt.MediaTracker mt

DOCUMENT ME!

nColumn

int nColumn

in 4D row and column numbers for z slices

nRow

int nRow

in 4D row and column numbers for z slices

nVOI

int nVOI

number of vois

OPACITY

float OPACITY

Opacity value used by the paint brush. value = 1.0 - opaque value = 0.25 - default (mostly see through)

originalZDim

int originalZDim

the number of z slices in a 4D image equal to zDim before the JDialogAnimate 4D to 3D conversion

paintBitmap

java.util.BitSet paintBitmap

Buffer used to indicate if the pixel location is painted (true) or unpainted (false).

paintBuffer

int[] paintBuffer

Buffer that displays the combined paintBitmap and pixBuffer buffers.

paintImageBuffer

int[] paintImageBuffer

red

int red

Border color, red, green, and blue components:

showNumbers

boolean showNumbers

whether to number each z slice for 4D

slice

int slice

current slice for 3D images:

VOIs

ViewVOIVector VOIs

DOCUMENT ME!

xDim

int xDim

image x, y, z dimensions in FileCoordinates

xLabel

int[] xLabel

in 4D x location of slice numbering string

yDim

int yDim

image x, y, z dimensions in FileCoordinates

yLabel

int[] yLabel

in 4D y location of slice numbering string

zDim

int zDim

image x, y, z dimensions in FileCoordinates

zString

java.lang.String[] zString

string for displaying slice number

Class gov.nih.mipav.view.ViewJComponentAnimateClip extends ViewJComponentBase implements Serializable

serialVersionUID:

-3162752418756566668L

Serialized Fields

alphaBlend

float alphaBlend

alphaBlending values for compositing two images.

alphaPrime

float alphaPrime

DOCUMENT ME!

blue

int blue

DOCUMENT ME!

copy

java.awt.image.BufferedImage copy

DOCUMENT ME!

green

int green

DOCUMENT ME!

ignoreSlice

boolean[] ignoreSlice

DOCUMENT ME!

img

java.awt.Image[] img

DOCUMENT ME!

interpMode

int interpMode

DOCUMENT ME!

mode

int mode

mode - used to describe the cursor mode.

mt

java.awt.MediaTracker mt

DOCUMENT ME!

nColumn

int nColumn

DOCUMENT ME!

nRow

int nRow

DOCUMENT ME!

OPACITY

float OPACITY

Opacity value used by the paint brush. value = 1.0 - opaque value = 0.25 - default (mostly see through)

originalZDim

int originalZDim

DOCUMENT ME!

red

int red

DOCUMENT ME!

resX

float resX

DOCUMENT ME!

resY

float resY

DOCUMENT ME!

showNumbers

boolean showNumbers

DOCUMENT ME!

showSliceNumber

boolean showSliceNumber

DOCUMENT ME!

slice

int slice

DOCUMENT ME!

string

java.lang.String string

DOCUMENT ME!

time

long time

DOCUMENT ME!

timeSlice

int timeSlice

DOCUMENT ME!

xDim

int xDim

DOCUMENT ME!

xLabel

int[] xLabel

DOCUMENT ME!

yDim

int yDim

DOCUMENT ME!

yLabel

int[] yLabel

DOCUMENT ME!

zDim

int zDim

DOCUMENT ME!

zoomX

float zoomX

DOCUMENT ME!

zoomY

float zoomY

DOCUMENT ME!

zString

java.lang.String[] zString

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJComponentBase extends javax.swing.JComponent implements Serializable

serialVersionUID:

-1024094346997939797L

Serialized Fields

imageDim

java.awt.Dimension imageDim

DOCUMENT ME!

img

java.awt.Image img

DOCUMENT ME!

imgB

java.awt.Image imgB

DOCUMENT ME!

interpMode

int interpMode

Interpolation mode for image display

lastMouseX

int lastMouseX

used by the repaintPaintBrushCursorFast method

lastMouseY

int lastMouseY

used by the repaintPaintBrushCursorFast method

memImageA

java.awt.image.MemoryImageSource memImageA

DOCUMENT ME!

memImageB

java.awt.image.MemoryImageSource memImageB

DOCUMENT ME!

OUT_OF_BOUNDS

int OUT_OF_BOUNDS

DOCUMENT ME!

resolutionX

float resolutionX

resolutionX and Y are used to correct difference in intra and inter plane voxel resolution These represent the aspect ratio of the image These are NOT to be confused with the pixel resolutions.

resolutionY

float resolutionY

DOCUMENT ME!

showSliceNumber

boolean showSliceNumber

DOCUMENT ME!

sliceString

java.lang.String sliceString

DOCUMENT ME!

textColor

java.awt.Color textColor

DOCUMENT ME!

zoomX

float zoomX

DOCUMENT ME!

zoomY

float zoomY

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJComponentColocalizationEM extends ViewJComponentBase implements Serializable

serialVersionUID:

6577659651877049839L

Serialized Fields

bin2

int bin2

DOCUMENT ME!

blue

int blue

DOCUMENT ME!

bottomPad

int bottomPad

DOCUMENT ME!

brightness

int brightness

DOCUMENT ME!

contrast

float contrast

DOCUMENT ME!

destImage

ModelImage destImage

DOCUMENT ME!

frame

ViewJFrameBase frame

frame - frame where the component image is displayed.

green

int green

DOCUMENT ME!

halfMajor

double[] halfMajor

DOCUMENT ME!

halfMinor

double[] halfMinor

DOCUMENT ME!

haveFiltered

boolean haveFiltered

DOCUMENT ME!

imageA

ModelImage imageA

imageA - model for image A.

imageB

ModelImage imageB

imageB - model for image B.

imageBufferDest

float[] imageBufferDest

DOCUMENT ME!

imgDest

java.awt.Image imgDest

DOCUMENT ME!

interpMode

int interpMode

Creates histogram with ellipses around most prominent clusters.

leftPad

int leftPad

DOCUMENT ME!

logMagDisplay

boolean logMagDisplay

DOCUMENT ME!

lutBufferRemappedDest

int[] lutBufferRemappedDest

DOCUMENT ME!

LUTdest

ModelLUT LUTdest

LUTa - lookup table for destImage.

max1

double max1

DOCUMENT ME!

max2

double max2

DOCUMENT ME!

mean

double[][] mean

DOCUMENT ME!

memImageDest

java.awt.image.MemoryImageSource memImageDest

DOCUMENT ME!

min1

double min1

DOCUMENT ME!

min2

double min2

DOCUMENT ME!

OPACITY

float OPACITY

Opacity value used by the paint brush. value = 1.0 - opaque value = 0.25 - default (mostly see through)

paintBitmapDest

java.util.BitSet paintBitmapDest

Buffer used to indicate if the pixel location is painted (true) or unpainted (false).

paintBufferDest

int[] paintBufferDest

Buffer that displays the combined paintBitmap and pixBuffer buffers.

pixBufferDest

int[] pixBufferDest

Buffer used to store ARGB images of the image presently being displayed.

red

int red

DOCUMENT ME!

resX

float resX

DOCUMENT ME!

resY

float resY

DOCUMENT ME!

RGBTA

ModelRGB RGBTA

true if selected red, green, blue components present in RGB image.

RGBTB

ModelRGB RGBTB

DOCUMENT ME!

rightPad

int rightPad

DOCUMENT ME!

scale1

double scale1

DOCUMENT ME!

scale2

double scale2

DOCUMENT ME!

theta

double[] theta

DOCUMENT ME!

topPad

int topPad

DOCUMENT ME!

useBlue

boolean useBlue

DOCUMENT ME!

useGreen

boolean useGreen

DOCUMENT ME!

useRed

boolean useRed

DOCUMENT ME!

zoomX

float zoomX

DOCUMENT ME!

zoomY

float zoomY

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJComponentColocalizationRegression extends ViewJComponentBase implements Serializable

serialVersionUID:

-2295519432253254184L

Serialized Fields

alg

AlgorithmColocalizationRegression alg

DOCUMENT ME!

bin1

int bin1

DOCUMENT ME!

bin2

int bin2

DOCUMENT ME!

blue

int blue

DOCUMENT ME!

bottomPad

int bottomPad

DOCUMENT ME!

brightness

int brightness

DOCUMENT ME!

colocIntensity1

float[] colocIntensity1

DOCUMENT ME!

colocIntensity2

float[] colocIntensity2

DOCUMENT ME!

colocSize

float[] colocSize

DOCUMENT ME!

contrast

float contrast

DOCUMENT ME!

destImage

ModelImage destImage

DOCUMENT ME!

doSecondIteration

boolean doSecondIteration

DOCUMENT ME!

editImageFrameA

ViewJComponentEditImage editImageFrameA

DOCUMENT ME!

editImageFrameB

ViewJComponentEditImage editImageFrameB

DOCUMENT ME!

firstIndex

float firstIndex

DOCUMENT ME!

frame

ViewJFrameBase frame

frame - frame where the component image is displayed.

freeRangeColocIntensity1

float[] freeRangeColocIntensity1

DOCUMENT ME!

freeRangeColocIntensity2

float[] freeRangeColocIntensity2

DOCUMENT ME!

freeRangeColocSize

float[] freeRangeColocSize

DOCUMENT ME!

freeRangeMode

boolean freeRangeMode

DOCUMENT ME!

freeRangeRThreshold

float[] freeRangeRThreshold

DOCUMENT ME!

green

int green

DOCUMENT ME!

haveFiltered

boolean haveFiltered

DOCUMENT ME!

haveFreeRangeThreshold

boolean[] haveFreeRangeThreshold

DOCUMENT ME!

haveThreshold

boolean[] haveThreshold

DOCUMENT ME!

imageA

ModelImage imageA

imageA - model for image A.

imageB

ModelImage imageB

imageB - model for image B.

imageBufferDest

float[] imageBufferDest

DOCUMENT ME!

imgDest

java.awt.Image imgDest

DOCUMENT ME!

interpMode

int interpMode

DOCUMENT ME!

leftPad

int leftPad

DOCUMENT ME!

linearCorrelation

float linearCorrelation

DOCUMENT ME!

lineMin

int lineMin

DOCUMENT ME!

lineOffset

double lineOffset

DOCUMENT ME!

lineSlope

double lineSlope

DOCUMENT ME!

lineVOI

VOI lineVOI

DOCUMENT ME!

localizeFrame

ViewJFrameColocalizationRegression localizeFrame

DOCUMENT ME!

logMagDisplay

boolean logMagDisplay

DOCUMENT ME!

lutBufferRemappedDest

int[] lutBufferRemappedDest

DOCUMENT ME!

LUTdest

ModelLUT LUTdest

LUTa - lookup table for destImage.

max1

double max1

DOCUMENT ME!

max2

double max2

DOCUMENT ME!

maximumx

double maximumx

DOCUMENT ME!

memImageDest

java.awt.image.MemoryImageSource memImageDest

DOCUMENT ME!

min1

double min1

DOCUMENT ME!

min2

double min2

DOCUMENT ME!

minimumx

double minimumx

DOCUMENT ME!

nVOI

int nVOI

DOCUMENT ME!

OPACITY

float OPACITY

Opacity value used by the paint brush. value = 1.0 - opaque value = 0.25 - default (mostly see through)

originalLineOffset

float originalLineOffset

DOCUMENT ME!

originalLineSlope

float originalLineSlope

DOCUMENT ME!

paintBitmapDest

java.util.BitSet paintBitmapDest

Buffer used to indicate if the pixel location is painted (true) or unpainted (false).

paintBufferDest

int[] paintBufferDest

Buffer that displays the combined paintBitmap and pixBuffer buffers.

pixBufferDest

int[] pixBufferDest

Buffer used to store ARGB images of the image presently being displayed.

pointVOI

VOI pointVOI

DOCUMENT ME!

red

int red

DOCUMENT ME!

regionLinesDisplay

boolean regionLinesDisplay

DOCUMENT ME!

resX

float resX

DOCUMENT ME!

resY

float resY

DOCUMENT ME!

RGBTA

ModelRGB RGBTA

true if selected red, green, blue components present in RGB image.

RGBTB

ModelRGB RGBTB

DOCUMENT ME!

rightPad

int rightPad

DOCUMENT ME!

rThreshold

float[] rThreshold

DOCUMENT ME!

scale1

double scale1

DOCUMENT ME!

scale2

double scale2

DOCUMENT ME!

secondIndex

float secondIndex

DOCUMENT ME!

tDim

int tDim

Note that xDim and yDim refer to destImage, while zDim and tDim refer to imageA.

thresholdOn1

boolean thresholdOn1

DOCUMENT ME!

topPad

int topPad

DOCUMENT ME!

useBlue

boolean useBlue

DOCUMENT ME!

useGreen

boolean useGreen

DOCUMENT ME!

useRed

boolean useRed

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

VOIs

ViewVOIVector VOIs

DOCUMENT ME!

xArray

float[] xArray

DOCUMENT ME!

xdiff

double xdiff

DOCUMENT ME!

xDim

int xDim

Note that xDim and yDim refer to destImage, while zDim and tDim refer to imageA.

yArray

float[] yArray

DOCUMENT ME!

ydiff

double ydiff

DOCUMENT ME!

yDim

int yDim

Note that xDim and yDim refer to destImage, while zDim and tDim refer to imageA.

zArray

float[] zArray

DOCUMENT ME!

zDim

int zDim

Note that xDim and yDim refer to destImage, while zDim and tDim refer to imageA.

zoomX

float zoomX

DOCUMENT ME!

zoomY

float zoomY

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJComponentDTIImage extends ViewJComponentEditImage implements Serializable

Serialized Fields

adjustExp

float adjustExp

adjust exp *

anisotropyBuffer

float[] anisotropyBuffer

anisotropy file data buffer *

anisotropyMax

float anisotropyMax

anisotropy max *

anisotropyMin

float anisotropyMin

anisotropy min *

blueShiftColors

float[] blueShiftColors

arry of r,g,b after blue shift *

clippedBuffer

float[] clippedBuffer

anisotropy file data buffer *

gamma

float gamma

gamma correction *

greenAdjColors

float[] greenAdjColors

arry of r,g,b after green adj *

imageA

ModelImage imageA

model image *

isMultiply

boolean isMultiply

boolean for truncate/multiply *

pB

float pB

blue saturation *

pC

float pC

color range *

pG

float pG

green adj *

piDivTwo

float piDivTwo

pi div two *

pS

float pS

sat vs theta *

redShiftColors

float[] redShiftColors

array of r,g,b values after red shifting *

stevensBeta

float stevensBeta

Stevens Beta *

truncMultColors

float[] truncMultColors

arry of r,g,b after scaling/truncating *

twoPi

float twoPi

two pi *

type

java.lang.String type

type of color wheel ABSVAL, NOSYMM, ROTATIONALSYMM, MIRRORSYMM *

Class gov.nih.mipav.view.ViewJComponentEditImage extends ViewJComponentBase implements Serializable

serialVersionUID:

-3799092616373463766L

Serialized Fields

allActive

boolean allActive

Set to true when all contours of a VOI are active.

alphaBlend

float alphaBlend

Value used to control the display when compositing two images. Usually = 1 - alphaPrime.

alphaPrime

float alphaPrime

Value used to control the display when compositing two images. It is the amount of image A to display and is has a range of [0,1]

bandSpacing

int[] bandSpacing

checkerDialog

JDialogCheckerBoard checkerDialog

Dialog used to set properties of the checkerboard display:(Image A displayed in alternating squares with Image B.

cleanImageB

java.awt.Image cleanImageB

DOCUMENT ME!

cleanImageBufferA

int[] cleanImageBufferA

Buffer used to store ARGB images of the image presently being displayed.

cleanImageBufferB

int[] cleanImageBufferB

Buffer used to store ARGB images of the image presently being displayed.

crosshairCursor

java.awt.Cursor crosshairCursor

Crosshair cursor that can be changed per user preference (in Mipav Options).

cursorMode

int cursorMode

Used to describe the cursor mode.

displayFuzzy

boolean displayFuzzy

DOCUMENT ME!

doCheckerboardAnimate

boolean doCheckerboardAnimate

drawVOIs

boolean drawVOIs

Flag used to prohibit VOI drawing.

eyeTrackerRecordingMode

int eyeTrackerRecordingMode

frame

ViewJFrameBase frame

Frame where the component image is displayed.

frameControls

ViewControlsImage frameControls

Controls having color and opacity.

fuzzyThreshold

float fuzzyThreshold

Region grow parameters fuzzyConnectedness is not used if fuzzyThreshold is less than 0. When fuzzyConnectedness is used, fuzzyThreshold ranges from 0 to 1.

gridColor

java.awt.Color gridColor

color of grid.

gridLabelingOn

boolean gridLabelingOn

if number/lettering should be displayed for grid boxes.

gridLabelOrientation

boolean gridLabelOrientation

boolean to determine the orientation: true is x-axis numbered false is x-axis lettered.

gridOverlayOn

boolean gridOverlayOn

Flag to indicate if NEI grid overlay should be displayed.

gridSpacingX

float gridSpacingX

spacing of the grid (horizontal) in terms of resolution.

gridSpacingY

float gridSpacingY

spacing of the grid (vertical) in terms of resolution.

growDialog

RegionGrowDialog growDialog

Dialog used to control region growing of the paint tool.

imageA

ModelImage imageA

Model for image A.

imageActive

ModelImage imageActive

Active image.

imageB

ModelImage imageB

Model for image B.

imageBufferA

float[] imageBufferA

Buffer for image A, raw intensity.

imageBufferActive

float[] imageBufferActive

Buffer for active image.

imageBufferB

float[] imageBufferB

Buffer for image B, raw intensity.

imageExtents

int[] imageExtents

The dimensionality of the image.

imageStatList

JDialogVOIStatistics imageStatList

DOCUMENT ME!

intensityDropper

float intensityDropper

Used in paint to indicate intensity painted into the image.

intensityLabel

boolean intensityLabel

If true then the x,y location and pixel/voxel intensity should be displayed (x,y: intensity).

lastMouseEvent

long lastMouseEvent

lastWinRegionSlice

int lastWinRegionSlice

Last slice the image was at when win region was ON. its necessary because otherwise, a new cleanImageB would have to be created upon every repaint. should be initialized to a negative number

less

float less

DOCUMENT ME!

lessB

float lessB

DOCUMENT ME!

lessG

float lessG

DOCUMENT ME!

lessR

float lessR

DOCUMENT ME!

logMagDisplay

boolean logMagDisplay

Flag for displaying logMag.

LUTa

ModelLUT LUTa

Lookup table for image A.

LUTb

ModelLUT LUTb

Lookup table for image B.

m_kPatientSlice

PatientSlice m_kPatientSlice

PatientSlice contains all the Patient Coordinate system view-specific data for rendering this component:.

m_kWinLevel

WindowLevel m_kWinLevel

window / level mouse control:.

MAGR_HEIGHT

int MAGR_HEIGHT

Default size of magnifier window = 120 pixels.

MAGR_MAG

float MAGR_MAG

Magnification value of magnifier window -- default = 4.0.

MAGR_WIDTH

int MAGR_WIDTH

default = 120 pixels.

magSettings

JDialogMagnificationControls magSettings

Dialog used to control the magnification of the image.

makingCheckerboard

boolean makingCheckerboard

maxDistance

float maxDistance

DOCUMENT ME!

maxExtents

int[] maxExtents

DOCUMENT ME!

modifyFlag

boolean modifyFlag

Used to "lock" display when an algorithm is in the calculation process.

more

float more

DOCUMENT ME!

moreB

float moreB

DOCUMENT ME!

moreG

float moreG

DOCUMENT ME!

moreR

float moreR

DOCUMENT ME!

mousePressIsShiftDown

boolean mousePressIsShiftDown

Keep track of state of shift for mouse Pressed events.

nColumnCheckers

int nColumnCheckers

The number columns when two images are displayed in the checker board mode.

nRowCheckers

int nRowCheckers

Checkerboard display parameters. The number of rows to display.

offscreenImage

java.awt.Image offscreenImage

DOCUMENT ME!

onTop

boolean onTop

for the use of the user-notifier.

orientation

int orientation

orientation of the slice, may be AXIAL, CORONAL, SAGITTAL, or UNKNOWN_ORIENT.

overlayOn

boolean overlayOn

Flag to indicate if DICOM overlay should be displayed.

paintBitmap

java.util.BitSet paintBitmap

Buffer used to indicate if the pixel location is painted (true) or unpainted (false).

paintBitmapBU

java.util.BitSet paintBitmapBU

Backup of paint buffer for undo.

paintBitmapSwitch

boolean paintBitmapSwitch

if true do not getMask on a setActiveImage command so as to keep the mask from the old active image.

paintBrush

java.util.BitSet paintBrush

BitSet used for painting (brushes on/off).

paintBrushDim

java.awt.Dimension paintBrushDim

Dimension of the paint.

paintBrushDimPrevious

java.awt.Dimension paintBrushDimPrevious

DOCUMENT ME!

paintBrushPrevious

java.util.BitSet paintBrushPrevious

DOCUMENT ME!

paintBrushSize

int paintBrushSize

Paint brush size.

paintBuffer

int[] paintBuffer

paintImage

java.awt.image.BufferedImage paintImage

buffered image that is transparent to show the paintbrush cursor.

paintImageBuffer

int[] paintImageBuffer

This image indicates which images have been painted.

paintImagePrevious

java.awt.image.BufferedImage paintImagePrevious

DOCUMENT ME!

pixBuffer

int[] pixBuffer

The buffer used to store the ARGB image of the image presently being displayed.

pixBufferB

int[] pixBufferB

Buffer used to store ARGB image of the windowed imageB.

previousPaintBrush

int previousPaintBrush

The previous paint brush we were using when the user temporarily changes the paint brush size using keyboard shortcuts (by pressing 1, 2, 3, 4).

refPtsLocation

java.lang.String refPtsLocation

rgbString

java.lang.String rgbString

String representing RGB components used in applied paint

RGBTA

ModelRGB RGBTA

DOCUMENT ME!

RGBTB

ModelRGB RGBTB

DOCUMENT ME!

saveValue

float saveValue

Used with commitMask(int imagesDone), to save the value.

saveValueB

float saveValueB

DOCUMENT ME!

saveValueG

float saveValueG

DOCUMENT ME!

saveValueR

float saveValueR

DOCUMENT ME!

saveX

short saveX

Used with commitMask(int imagesDone), to save positions.

saveY

short saveY

Used with commitMask(int imagesDone), to save positions.

saveZ

short saveZ

Used with commitMask(int imagesDone), to save positions.

seedPaintBitmap

java.util.BitSet seedPaintBitmap

Buffer used to remember the area painted around the last seed point for region growing.

seedVal

float seedVal

Seed value to start the region grow.

seedValB

float seedValB

DOCUMENT ME!

seedValG

float seedValG

DOCUMENT ME!

seedValR

float seedValR

DOCUMENT ME!

shiftDown

boolean shiftDown

Flag used to indicate if the shift key is depressed. True indicates the shift key is depressed.

showMagIntensity

boolean showMagIntensity

Flag used to indicate that the intensity values of the image should be displayed in the magnified portion of the image. The intensity values can only be shown if the magnification is high enough to fit the text representation of the value in the magnified voxel/pixel.

sizeLimit

int sizeLimit

DOCUMENT ME!

slice

int slice

DOCUMENT ME!

stringOverride

java.lang.String stringOverride

String used to override the slice number in the lower left corner.

time

long time

DOCUMENT ME!

timeSlice

int timeSlice

DOCUMENT ME!

toppedColor

java.awt.Color toppedColor

DOCUMENT ME!

useBComp

boolean useBComp

useGComp

boolean useGComp

useRComp

boolean useRComp

useVOI

boolean useVOI

This flag is used by the fuzzy connectedness to indicate that a VOI should be used to calculate certain values to initialize the process.

variableThresholds

boolean variableThresholds

DOCUMENT ME!

visRect

java.awt.Rectangle visRect

Visible rectangle to draw topped.

voiManager

VOIManager voiManager

wasDragging

boolean wasDragging

Boolean to determine if the mouse had been dragging before mouse release (for moving and setting active).

windowedRegionSize

int windowedRegionSize

The window region size of used when two images are displayed in the same frame. The size of the window indicates how much of image B is displayed.

winLevel

JDialogWinLevel winLevel

winLevelSet

boolean winLevelSet

User invokes window and level adjustment with right mouse drag in DEFAULT mode.

xMod

int xMod

xPG

short xPG

X coord of seed point.

xSep

int xSep

xStart

int[] xStart

yMod

int yMod

yPG

short yPG

Y coord of seed point.

ySep

int ySep

yStart

int[] yStart

zeroToOneLUTAdj

boolean zeroToOneLUTAdj

flag indicating whether there is 0 to 1 LUT Adjustment *

zPG

short zPG

Z coord of seed point.

Class gov.nih.mipav.view.ViewJComponentFunct extends javax.swing.JComponent implements Serializable

serialVersionUID:

-2525400551576940334L

Serialized Fields

functName

java.lang.String functName

DOCUMENT ME!

lineColor

java.awt.Color lineColor

DOCUMENT ME!

newX

int[] newX

DOCUMENT ME!

newXLength

int newXLength

DOCUMENT ME!

newY

int[] newY

DOCUMENT ME!

newYLength

int newYLength

DOCUMENT ME!

originalX

float[] originalX

DOCUMENT ME!

originalY

float[] originalY

DOCUMENT ME!

showFitFunction

boolean showFitFunction

DOCUMENT ME!

showFunction

boolean showFunction

DOCUMENT ME!

voi

VOI voi

DOCUMENT ME!

X

float[] X

DOCUMENT ME!

XYCoords

int[][] XYCoords

xy coordinates of voi boundar

Y

float[] Y

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJComponentGraph extends javax.swing.JComponent implements Serializable

serialVersionUID:

4064300190247654824L

Serialized Fields

addSchwarzChristoffelLines

boolean addSchwarzChristoffelLines

backgroundColor

java.awt.Color backgroundColor

DOCUMENT ME!

bounds

java.awt.Rectangle bounds

DOCUMENT ME!

crosshairCursor

java.awt.Cursor crosshairCursor

DOCUMENT ME!

defaultCursor

java.awt.Cursor defaultCursor

DOCUMENT ME!

defaultMaxDomain

float defaultMaxDomain

DOCUMENT ME!

defaultMaxRange

float defaultMaxRange

DOCUMENT ME!

defaultMinDomain

float defaultMinDomain

DOCUMENT ME!

defaultMinRange

float defaultMinRange

DOCUMENT ME!

doLogX

boolean doLogX

doLogY

boolean doLogY

fittedFunctions

ViewJComponentFunct[] fittedFunctions

DOCUMENT ME!

font10

java.awt.Font font10

DOCUMENT ME!

font12

java.awt.Font font12

DOCUMENT ME!

font12B

java.awt.Font font12B

DOCUMENT ME!

fun2Icon

javax.swing.ImageIcon fun2Icon

DOCUMENT ME!

fun2PrintIcon

javax.swing.ImageIcon fun2PrintIcon

DOCUMENT ME!

fun3Icon

javax.swing.ImageIcon fun3Icon

DOCUMENT ME!

fun3PrintIcon

javax.swing.ImageIcon fun3PrintIcon

DOCUMENT ME!

fun4Icon

javax.swing.ImageIcon fun4Icon

DOCUMENT ME!

fun4PrintIcon

javax.swing.ImageIcon fun4PrintIcon

DOCUMENT ME!

fun5Icon

javax.swing.ImageIcon fun5Icon

DOCUMENT ME!

fun5PrintIcon

javax.swing.ImageIcon fun5PrintIcon

DOCUMENT ME!

functions

ViewJComponentFunct[] functions

DOCUMENT ME!

graphBounds

java.awt.Rectangle graphBounds

DOCUMENT ME!

maxDomain

float maxDomain

DOCUMENT ME!

maxRange

float maxRange

DOCUMENT ME!

minDomain

float minDomain

DOCUMENT ME!

minRange

float minRange

DOCUMENT ME!

newX

int[] newX

DOCUMENT ME!

newY

int[] newY

DOCUMENT ME!

oldRubberband

java.awt.Rectangle oldRubberband

DOCUMENT ME!

parentFrame

javax.swing.JFrame parentFrame

DOCUMENT ME!

rubberbandRect

RubberbandRectangle rubberbandRect

DOCUMENT ME!

showFittedFunctions

boolean showFittedFunctions

DOCUMENT ME!

showFunctions

boolean showFunctions

DOCUMENT ME!

showGridLines

boolean showGridLines

DOCUMENT ME!

showLegend

boolean showLegend

DOCUMENT ME!

showMinorTickMarks

boolean showMinorTickMarks

DOCUMENT ME!

showPointsAndLines

int showPointsAndLines

DOCUMENT ME!

title

java.lang.String title

DOCUMENT ME!

userXGrid

boolean userXGrid

userYGrid

boolean userYGrid

x1Vector

java.util.Vector<java.lang.Double> x1Vector

x2Vector

java.util.Vector<java.lang.Double> x2Vector

xGridLines

int xGridLines

DOCUMENT ME!

xGridUserPositions

int[] xGridUserPositions

xLabel

java.lang.String xLabel

DOCUMENT ME!

xScale

double xScale

DOCUMENT ME!

xTick

double xTick

DOCUMENT ME!

y1Vector

java.util.Vector<java.lang.Double> y1Vector

y2Vector

java.util.Vector<java.lang.Double> y2Vector

yGridLines

int yGridLines

DOCUMENT ME!

yGridUserPositions

int[] yGridUserPositions

yInvert

int yInvert

yLabel

java.lang.String yLabel

DOCUMENT ME!

yScale

double yScale

DOCUMENT ME!

yTick

double yTick

DOCUMENT ME!

zeroXMin

boolean zeroXMin

zeroYMin

boolean zeroYMin

Class gov.nih.mipav.view.ViewJComponentGraphAxes extends javax.swing.JComponent implements Serializable

serialVersionUID:

4064300190247654824L

Serialized Fields

border

int border

bounds

java.awt.Rectangle bounds

DOCUMENT ME!

font12B

java.awt.Font font12B

DOCUMENT ME!

gridLines

int gridLines

DOCUMENT ME!

justified

int justified

label

java.lang.String label

DOCUMENT ME!

max

float max

min

float min

orientation

int orientation

Class gov.nih.mipav.view.ViewJComponentHistoLUT extends ViewJComponentHLUTBase implements Serializable

serialVersionUID:

-1320755809299024115L

Serialized Fields

lut

ModelLUT lut

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJComponentHistoRGB extends ViewJComponentHLUTBase implements Serializable

serialVersionUID:

288314366500212340L

Serialized Fields

RGBT

ModelRGB RGBT

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJComponentHLUTBase extends javax.swing.JComponent implements Serializable

serialVersionUID:

3244043088343763762L

Serialized Fields

addPointFlag

boolean addPointFlag

DOCUMENT ME!

componentDim

java.awt.Dimension componentDim

The outer dimension of the histogram component we will be drawing.

dim

java.awt.Dimension dim

The histogram image dimension.

histogram

ModelHistogram histogram

The image histogram.

histogramBuffer

int[] histogramBuffer

DOCUMENT ME!

histogramMax

double histogramMax

DOCUMENT ME!

histogramMaxLog

double histogramMaxLog

DOCUMENT ME!

histogramParent

HistoLUTParent histogramParent

The container of this histogram component.

image

ModelImage image

The image whose histo lut we are displaying.

img

java.awt.Image img

DOCUMENT ME!

index

int index

DOCUMENT ME!

logFlag

boolean logFlag

Whether to transform the histogram data by log10.

lutIndexBuffer

int[] lutIndexBuffer

DOCUMENT ME!

mode

int mode

The current mode of the histogram component.

offsetX

int offsetX

DOCUMENT ME!

offsetY

int offsetY

DOCUMENT ME!

pixBuffer

int[] pixBuffer

DOCUMENT ME!

range

int range

DOCUMENT ME!

stRange

int stRange

DOCUMENT ME!

thresholdMode

int thresholdMode

The current threshold mode (dual or dual inverse) or NO_THRESHOLD if not in theshold mode.

x

float[] x

DOCUMENT ME!

xN

int[] xN

DOCUMENT ME!

y

float[] y

DOCUMENT ME!

yN

int[] yN

DOCUMENT ME!

z

float[] z

DOCUMENT ME!

zN

int[] zN

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJComponentLUT extends ViewJComponentBase implements Serializable

serialVersionUID:

5027534629757769708L

Serialized Fields

LUT

ModelLUT LUT

DOCUMENT ME!

LUTDims

java.awt.Dimension LUTDims

DOCUMENT ME!

LUTIndexBuffer

int[] LUTIndexBuffer

DOCUMENT ME!

orientation

int orientation

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJComponentLUTTable extends ViewJComponentBase implements Serializable

serialVersionUID:

4862175635665317557L

Serialized Fields

image

ModelImage image

DOCUMENT ME!

LUT

ModelLUT LUT

DOCUMENT ME!

LUTDims

java.awt.Dimension LUTDims

DOCUMENT ME!

LUTIndexBuffer

int[] LUTIndexBuffer

DOCUMENT ME!

offsetX

int offsetX

Offset to draw the tick mark and value label.

offsetY

int offsetY

DOCUMENT ME!

orientation

int orientation

DOCUMENT ME!

x

float[] x

control points coordinate of LUT transfer function .

xN

int[] xN

DOCUMENT ME!

y

float[] y

DOCUMENT ME!

yN

int[] yN

DOCUMENT ME!

z

float[] z

DOCUMENT ME!

zN

int[] zN

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJComponentPedsAtlasIconImage extends ViewJComponentEditImage implements Serializable

Serialized Fields

iconHeight

int iconHeight

iconWidth

int iconWidth

linePosition

int linePosition

selectedOrientation

java.lang.String selectedOrientation

selected orientation

thisOrientation

java.lang.String thisOrientation

Class gov.nih.mipav.view.ViewJComponentPreviewImage extends ViewJComponentBase implements Serializable

serialVersionUID:

5183033960229966439L

Serialized Fields

brightness

int brightness

DOCUMENT ME!

contrast

float contrast

DOCUMENT ME!

image

ModelImage image

The model image this preview image is derived from.

imageSize

int imageSize

DOCUMENT ME!

imgHeight

int imgHeight

DOCUMENT ME!

imgWidth

int imgWidth

DOCUMENT ME!

m_kPatientSlice

PatientSlice m_kPatientSlice

PatientSlice interfaces with the ModelImage class to render the image w/LUT changes for this component. Slices are rendered in FileCoordinates.

memImage

java.awt.image.MemoryImageSource memImage

DOCUMENT ME!

overlayText

java.lang.String overlayText

Overlay text to show on the image.

paintBuffer

int[] paintBuffer

DOCUMENT ME!

panelHeight

int panelHeight

DOCUMENT ME!

panelWidth

int panelWidth

DOCUMENT ME!

parent

PreviewImageContainer parent

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJComponentRegistration extends ViewJComponentEditImage implements Serializable

serialVersionUID:

4961820290271772572L

Serialized Fields

addPointCursor

java.awt.Cursor addPointCursor

DOCUMENT ME!

adjMark

int adjMark

number of VOIs for adjustable slice

anchorPt

java.awt.Point anchorPt

DOCUMENT ME!

blue

int blue

DOCUMENT ME!

centerid

short centerid

id of rotation center

centerVOI

VOI centerVOI

center rotation VOI

defaultCursor

java.awt.Cursor defaultCursor

DOCUMENT ME!

doAdjMark

boolean doAdjMark

DOCUMENT ME!

doCenter

boolean doCenter

DOCUMENT ME!

doDrag

boolean doDrag

no adjusted slice movements with mouseDrag

doRefMark

boolean doRefMark

DOCUMENT ME!

green

int green

DOCUMENT ME!

hue

float hue

DOCUMENT ME!

id

short id

DOCUMENT ME!

magRegionCursor

java.awt.Cursor magRegionCursor

Custom cursor: magnify region.

markerType

int[] markerType

DOCUMENT ME!

memCount

int memCount

DOCUMENT ME!

moveCursor

java.awt.Cursor moveCursor

DOCUMENT ME!

newVOI

VOI newVOI

DOCUMENT ME!

newX

int newX

adjustable slice VOI.

newY

int newY

adjustable slice VOI.

oldFrame

boolean oldFrame

Used to set old or new mode of registration.

OPACITY

float OPACITY

Opacity value used by the paint brush. value = 1.0 - opaque value = 0.25 - default (mostly see through)

pointCursor

java.awt.Cursor pointCursor

DOCUMENT ME!

ptCoord

float[] ptCoord

DOCUMENT ME!

rectCursor

java.awt.Cursor rectCursor

DOCUMENT ME!

red

int red

DOCUMENT ME!

refMark

int refMark

number of VOIs for reference slice

removePointCursor

java.awt.Cursor removePointCursor

DOCUMENT ME!

rotCenterMark

int rotCenterMark

number of VOIs for rotation center

toolFrame

ViewJFrameRegistrationTool toolFrame

Frame where component image is displayed (only for new RegistrationTool).

waitCursor

java.awt.Cursor waitCursor

DOCUMENT ME!

wandCursor

java.awt.Cursor wandCursor

DOCUMENT ME!

xFinish

float xFinish

values obtained when mouseReleased

xOrg

int[] xOrg

DOCUMENT ME!

xPres

int[] xPres

DOCUMENT ME!

xRotation

float xRotation

DOCUMENT ME!

xStart

float xStart

values obtained when mousePressed

yFinish

float yFinish

values obtained when mouseReleased

yOrg

int[] yOrg

DOCUMENT ME!

yPres

int[] yPres

DOCUMENT ME!

yRotation

float yRotation

DOCUMENT ME!

yStart

float yStart

values obtained when mousePressed

Class gov.nih.mipav.view.ViewJComponentSingleRegistration extends ViewJComponentEditImage implements Serializable

serialVersionUID:

-6751136899996457162L

Serialized Fields

centerPtLocation

int centerPtLocation

location of the center pt VOI (for registration rotation).

isReference

boolean isReference

if the image is in a registration window, is the image the reference (and not the adjusted).

ptCoord

float[] ptCoord

Temporary buffer used when extracting points from a VOI. Save reallocating memory often.

xCoords

int[] xCoords

Buffers used to save the X coordinates for the points that make up a VOI.

yCoords

int[] yCoords

Buffers used to save the Y coordinates for the points that make up a VOI.

Class gov.nih.mipav.view.ViewJComponentTriImage extends ViewJComponentEditImage implements Serializable

serialVersionUID:

-389214941507734031L

Serialized Fields

axisLabels

java.lang.String[][] axisLabels

Labels for the axes:.

axisOrientation

int[] axisOrientation

cornerCropPt

WildMagic.LibFoundation.Mathematics.Vector3f[] cornerCropPt

Crop Bounding Box Corners in Screen Coordinates:.

cropColor

java.awt.Color[] cropColor

Crop Bounding Box Colors:.

cropPoints

WildMagic.LibFoundation.Mathematics.Vector2f[] cropPoints

Crop Bounding Box in Screen Coordinates:.

crosshairPixelGap

int crosshairPixelGap

the gap (in one direction) between the center of the crosshair and the actual crosshair line

crosshairPt

WildMagic.LibFoundation.Mathematics.Vector3f crosshairPt

The x and y coordinate of the cursor position in screen space of this component.

doCenter

boolean doCenter

Whether to show the center of rotation point in the volume and allow the user to change it. doCenter is set true by center command and set false by DEFAULT and CUBE_BOUNDS modes.

dragBBpt

int dragBBpt

DOCUMENT ME!

dragCenterPt

boolean dragCenterPt

DOCUMENT ME!

hasOrientation

boolean hasOrientation

true if the imageActive has an orientation, false if imageActive is of FileInfoBase.UNKNOWN_ORIENT.

horizontalTalGridPts

int[] horizontalTalGridPts

DOCUMENT ME!

localImageExtents

int[] localImageExtents

imageActive extents in the local (Patient) coordinate system:.

m_kLocalCropLower

WildMagic.LibFoundation.Mathematics.Vector3f m_kLocalCropLower

Lower Crop Bounding Box in Patient Coordinates:.

m_kLocalCropUpper

WildMagic.LibFoundation.Mathematics.Vector3f m_kLocalCropUpper

Upper Crop Bounding Box in Patient Coordinates:.

m_kVolumePoint

WildMagic.LibFoundation.Mathematics.Vector3f m_kVolumePoint

Cursor 3D point in FileCoordinates.

res

float[] res

Reordered resolutions according to orientation. See ModelStorageBase.getResolutions( int index, int orientation ). The orientation parameter may be either: FileInfoBase.AXIAL, FileInfoBase.CORONAL, FileInfoBase.SAGITTAL for oriented slices, or FileInfoBase.UNKNOWN_ORIENT for the default slice orientation.

showAxes

boolean showAxes

If true, show XY, XZ, or ZY orientation axes in a corner of the component.

showBoundingRect

boolean showBoundingRect

Specifies whether the user wants to show the cropping / paint bounds rectangle.

showCrosshairs

boolean showCrosshairs

If true, show crosshairs indicating the currently position within the component.

showTalairachGrid

boolean showTalairachGrid

Whether to show the talairach grid on the component.

showTalairachGridmarkers

boolean showTalairachGridmarkers

Whether to show the talairach gridmarkers on the component.

talairachMajorLineColor

java.awt.Color talairachMajorLineColor

DOCUMENT ME!

talairachMinorLineColor

java.awt.Color talairachMinorLineColor

DOCUMENT ME!

triImageFrame

ViewJFrameTriImage triImageFrame

The tri image frame of which this object is a component.

verticalTalGridPts

int[] verticalTalGridPts

DOCUMENT ME!

voiProtractor

VOIProtractor voiProtractor

The protractor VOI.

xColor

java.awt.Color[] xColor

color of the crosshairs.

xCursorAdjustment

int xCursorAdjustment

yColor

java.awt.Color[] yColor

DOCUMENT ME!

yCursorAdjustment

int yCursorAdjustment

zColor

java.awt.Color[] zColor

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJFrameAnimate extends ViewJFrameBase implements Serializable

serialVersionUID:

-2372670418729121051L

Serialized Fields

actualPerSecond

float actualPerSecond

DOCUMENT ME!

alphaBlend

float alphaBlend

DOCUMENT ME!

aps

java.lang.String aps

set to give 2 digits to the right of the decimal.

backForthButton

javax.swing.JToggleButton backForthButton

DOCUMENT ME!

bfRun

boolean bfRun

DOCUMENT ME!

borderCol

java.awt.Color borderCol

z slice.

buttonArray

javax.swing.JButton[] buttonArray

DOCUMENT ME!

cForwardButton

javax.swing.JToggleButton cForwardButton

DOCUMENT ME!

cfRun

boolean cfRun

DOCUMENT ME!

componentImage

ViewJComponentAnimate componentImage

with complex images.

componentY

int componentY

DOCUMENT ME!

controlFrame

ViewJFrameBase controlFrame

DOCUMENT ME!

controlPanel

javax.swing.JPanel controlPanel

DOCUMENT ME!

controls

ViewControlsImage controls

DOCUMENT ME!

cpGBC

java.awt.GridBagConstraints cpGBC

DOCUMENT ME!

cpGBL

java.awt.GridBagLayout cpGBL

DOCUMENT ME!

cReverseButton

javax.swing.JToggleButton cReverseButton

DOCUMENT ME!

crRun

boolean crRun

DOCUMENT ME!

cycleTime

long cycleTime

DOCUMENT ME!

deleteButton

javax.swing.JButton deleteButton

DOCUMENT ME!

disposeImage

boolean disposeImage

DOCUMENT ME!

etchedBorder

javax.swing.border.Border etchedBorder

DOCUMENT ME!

extents

int[] extents

DOCUMENT ME!

forwardButton

javax.swing.JToggleButton forwardButton

DOCUMENT ME!

fpsSlider

javax.swing.JSlider fpsSlider

DOCUMENT ME!

framesPerSecond

float framesPerSecond

DOCUMENT ME!

fRun

boolean fRun

DOCUMENT ME!

gbcTP

java.awt.GridBagConstraints gbcTP

DOCUMENT ME!

imageA

ModelImage imageA

DOCUMENT ME!

imageB

ModelImage imageB

DOCUMENT ME!

imageBufferA

float[] imageBufferA

DOCUMENT ME!

imageBufferB

float[] imageBufferB

DOCUMENT ME!

innerPanel

javax.swing.JPanel innerPanel

DOCUMENT ME!

labelAnimationFrame

javax.swing.JLabel labelAnimationFrame

DOCUMENT ME!

labelFramesPerSecond

javax.swing.JLabel labelFramesPerSecond

DOCUMENT ME!

labelTable

java.util.Hashtable<java.lang.Integer,javax.swing.JLabel> labelTable

DOCUMENT ME!

localTime

long localTime

newmsWait = msWait - msElapsed is passed to the sleep function.

localTime2

long localTime2

DOCUMENT ME!

logMagDisplay

boolean logMagDisplay

DOCUMENT ME!

LUTa

ModelLUT LUTa

DOCUMENT ME!

LUTb

ModelLUT LUTb

DOCUMENT ME!

menuObj

ViewMenuBuilder menuObj

DOCUMENT ME!

minimumHeight

int minimumHeight

DOCUMENT ME!

minimumToolBarWidth

int minimumToolBarWidth

DOCUMENT ME!

mjpegQuality

float mjpegQuality

DOCUMENT ME!

msElapsed

long msElapsed

DOCUMENT ME!

msWait

long msWait

DOCUMENT ME!

nColumn

int nColumn

DOCUMENT ME!

newmsWait

long newmsWait

DOCUMENT ME!

nf

java.text.NumberFormat nf

DOCUMENT ME!

nImage

int nImage

DOCUMENT ME!

nRow

int nRow

DOCUMENT ME!

openingMenuBar

javax.swing.JMenuBar openingMenuBar

DOCUMENT ME!

origBrightness

int origBrightness

DOCUMENT ME!

origContrast

float origContrast

red, green, and blue origBrightness remains constant until applyButton is pressed, restores brightness if cancelButton is pressed.

originalZDim

int originalZDim

for 4D originalXDim and originalYDim are xDim and yDim before 4D to 3D conversion.

paintBuffer

int[] paintBuffer

DOCUMENT ME!

pause

boolean pause

DOCUMENT ME!

pauseButton

javax.swing.JToggleButton pauseButton

DOCUMENT ME!

pixBuffer

int[] pixBuffer

DOCUMENT ME!

pressedBorder

javax.swing.border.Border pressedBorder

DOCUMENT ME!

progressBar

ViewJProgressBar progressBar

currently running.

recordButton

javax.swing.JButton recordButton

DOCUMENT ME!

reverseButton

javax.swing.JToggleButton reverseButton

DOCUMENT ME!

RGBTA

ModelRGB RGBTA

DOCUMENT ME!

RGBTB

ModelRGB RGBTB

DOCUMENT ME!

rRun

boolean rRun

currently running.

scrollPane

javax.swing.JScrollPane scrollPane

DOCUMENT ME!

scrollPaneSize

int scrollPaneSize

DOCUMENT ME!

showFrameBorder

boolean showFrameBorder

DOCUMENT ME!

showNumbers

boolean showNumbers

equals zDim of original 4D before 4D to 3D conversion.

sliceOldNumber

int[] sliceOldNumber

red, green, and blue origContrast remains constant until applyButton is pressed, restores contrast if cancelButton is pressed.

slider

javax.swing.JSlider slider

DOCUMENT ME!

startTime

long startTime

= localTime2 - localTime.

stop

boolean stop

containing only 5 msec. sleep commands.

stopButton

javax.swing.JToggleButton stopButton

DOCUMENT ME!

stopTime

long stopTime

= localTime2 - localTime.

structureY

int structureY

DOCUMENT ME!

textActualPerSecond

javax.swing.JTextField textActualPerSecond

DOCUMENT ME!

textAnimationFrame

javax.swing.JTextField textAnimationFrame

Note that an attempt to have DocumentListener for textAnimationFrame set the slider value was unsuccessful.

textFramesPerSecond

javax.swing.JTextField textFramesPerSecond

DOCUMENT ME!

toggleArray

javax.swing.JToggleButton[] toggleArray

DOCUMENT ME!

toolBar

javax.swing.JToolBar toolBar

DOCUMENT ME!

topPanel

javax.swing.JPanel topPanel

and innerPanel placed in scrollPane.

xScreen

int xScreen

DOCUMENT ME!

yScreen

int yScreen

DOCUMENT ME!

zoom

float zoom

DOCUMENT ME!

zShow

int zShow

DOCUMENT ME!

zSlice

int zSlice

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJFrameAnimateClip extends ViewJFrameBase implements Serializable

serialVersionUID:

8057377898754491817L

Serialized Fields

actualPerSecond

float actualPerSecond

DOCUMENT ME!

aps

java.lang.String aps

set to give 2 digits to the right of the decimal.

backForthButton

javax.swing.JToggleButton backForthButton

DOCUMENT ME!

bfRun

boolean bfRun

DOCUMENT ME!

buttonArray

javax.swing.JButton[] buttonArray

DOCUMENT ME!

cForwardButton

javax.swing.JToggleButton cForwardButton

DOCUMENT ME!

cfRun

boolean cfRun

DOCUMENT ME!

componentImage

ViewJComponentAnimateClip componentImage

with complex images.

componentY

int componentY

DOCUMENT ME!

controlPanel

javax.swing.JPanel controlPanel

DOCUMENT ME!

controls

ViewControlsImage controls

DOCUMENT ME!

cpGBC

java.awt.GridBagConstraints cpGBC

DOCUMENT ME!

cpGBL

java.awt.GridBagLayout cpGBL

DOCUMENT ME!

cReverseButton

javax.swing.JToggleButton cReverseButton

DOCUMENT ME!

crRun

boolean crRun

DOCUMENT ME!

cycleTime

long cycleTime

DOCUMENT ME!

deleteButton

javax.swing.JButton deleteButton

DOCUMENT ME!

dir

java.lang.String dir

DOCUMENT ME!

etchedBorder

javax.swing.border.Border etchedBorder

DOCUMENT ME!

forwardButton

javax.swing.JToggleButton forwardButton

DOCUMENT ME!

fpsSlider

javax.swing.JSlider fpsSlider

DOCUMENT ME!

framesPerSecond

float framesPerSecond

DOCUMENT ME!

fRun

boolean fRun

DOCUMENT ME!

gbcTP

java.awt.GridBagConstraints gbcTP

DOCUMENT ME!

innerPanel

javax.swing.JPanel innerPanel

DOCUMENT ME!

labelAnimationFrame

javax.swing.JLabel labelAnimationFrame

DOCUMENT ME!

labelFramesPerSecond

javax.swing.JLabel labelFramesPerSecond

DOCUMENT ME!

labelTable

java.util.Hashtable<java.lang.Integer,javax.swing.JLabel> labelTable

DOCUMENT ME!

localTime

long localTime

newmsWait = msWait - msElapsed is passed to the sleep function.

localTime2

long localTime2

DOCUMENT ME!

menuObj

ViewMenuBuilder menuObj

DOCUMENT ME!

minimumHeight

int minimumHeight

DOCUMENT ME!

minimumToolBarWidth

int minimumToolBarWidth

DOCUMENT ME!

msElapsed

long msElapsed

DOCUMENT ME!

msWait

long msWait

DOCUMENT ME!

nColumn

int nColumn

DOCUMENT ME!

newmsWait

long newmsWait

DOCUMENT ME!

nf

java.text.NumberFormat nf

DOCUMENT ME!

nImage

int nImage

DOCUMENT ME!

nRow

int nRow

DOCUMENT ME!

openingMenuBar

javax.swing.JMenuBar openingMenuBar

DOCUMENT ME!

pause

boolean pause

DOCUMENT ME!

pauseButton

javax.swing.JToggleButton pauseButton

DOCUMENT ME!

pressedBorder

javax.swing.border.Border pressedBorder

DOCUMENT ME!

progressBar

ViewJProgressBar progressBar

currently running.

recordButton

javax.swing.JButton recordButton

DOCUMENT ME!

reverseButton

javax.swing.JToggleButton reverseButton

DOCUMENT ME!

rRun

boolean rRun

currently running.

scrollPane

javax.swing.JScrollPane scrollPane

DOCUMENT ME!

scrollPaneSize

int scrollPaneSize

DOCUMENT ME!

showNumbers

boolean showNumbers

equals zDim of original 4D before 4D to 3D conversion.

sliceOldNumber

int[] sliceOldNumber

DOCUMENT ME!

slider

javax.swing.JSlider slider

DOCUMENT ME!

startTime

long startTime

= localTime2 - localTime.

stop

boolean stop

containing only 5 msec. sleep commands.

stopButton

javax.swing.JToggleButton stopButton

DOCUMENT ME!

stopTime

long stopTime

= localTime2 - localTime.

structureY

int structureY

DOCUMENT ME!

textActualPerSecond

javax.swing.JTextField textActualPerSecond

DOCUMENT ME!

textAnimationFrame

javax.swing.JTextField textAnimationFrame

Note that an attempt to have DocumentListener for textAnimationFrame set the slider value was unsuccessful.

textFramesPerSecond

javax.swing.JTextField textFramesPerSecond

DOCUMENT ME!

toggleArray

javax.swing.JToggleButton[] toggleArray

DOCUMENT ME!

toolBar

javax.swing.JToolBar toolBar

DOCUMENT ME!

topPanel

javax.swing.JPanel topPanel

and innerPanel placed in scrollPane.

xScreen

int xScreen

DOCUMENT ME!

yScreen

int yScreen

DOCUMENT ME!

zoom

float zoom

DOCUMENT ME!

zShow

int zShow

DOCUMENT ME!

zSlice

int zSlice

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJFrameBase extends javax.swing.JFrame implements Serializable

serialVersionUID:

-3040123414501128141L

Serialized Fields

absoluteGoToButton

javax.swing.JButton absoluteGoToButton

absoluteGoToPanel

javax.swing.JPanel absoluteGoToPanel

absoluteLabel

javax.swing.JLabel absoluteLabel

Labels for the current absolute position:.

absoluteLabelVals

javax.swing.JLabel[] absoluteLabelVals

Labels for the current absolute position values:.

absolutePanel

javax.swing.JPanel absolutePanel

JPanel containing the absoulte position labels:.

absoluteXLabel

javax.swing.JLabel absoluteXLabel

voxel absolute goto components*

absoluteXTextField

javax.swing.JTextField absoluteXTextField

absoluteYLabel

javax.swing.JLabel absoluteYLabel

voxel absolute goto components*

absoluteYTextField

javax.swing.JTextField absoluteYTextField

absoluteZLabel

javax.swing.JLabel absoluteZLabel

voxel absolute goto components*

absoluteZTextField

javax.swing.JTextField absoluteZTextField

alphaBlend

float alphaBlend

Indicates the amount of blending when two images are loaded in the image frame.

blue

int blue

Blue channel value of the paint color.

defaultLUTa

ModelLUT defaultLUTa

Reference to LUT for image A and to the default LUT for image A.

defaultLUTb

ModelLUT defaultLUTb

Reference to LUT for image B and to the default LUT for image B.

displayMode

int displayMode

Indicates which image is to be acted upon when two images are displayed.

enableCloseImageB

boolean enableCloseImageB

Tells whether the ViewMenuBuilder should allow Close Image(B) after loading image B.

green

int green

Green channel value of the paint color.

imageA

ModelImage imageA

Reference to the image A of this frame.

imageB

ModelImage imageB

Reference to the image B of this frame.

isClosing

boolean isClosing

Whether the frame's close() method is being called.

lastState

int lastState

Save if last state was iconified or normal.

linkedScrolling

boolean linkedScrolling

Variable indicating if images of like dimensions should be scrolled simult.

linkFrame

ViewJFrameImage linkFrame

Holds a reference (link) to another frame so that it be updated with this frame.

linkTriFrame

ViewJFrameTriImage linkTriFrame

Holds a reference (link) to another frame so that it can be updated with this frame.

LUTa

ModelLUT LUTa

Reference to LUT for image A and to the default LUT for image A.

LUTb

ModelLUT LUTb

Reference to LUT for image B and to the default LUT for image B.

newFrameCreated

boolean newFrameCreated

opacity

float opacity

Opacity value of the paint color.

paintBitmap

java.util.BitSet paintBitmap

Reference to the BitSet map used in painting the image.

progressBar

ViewJProgressBar progressBar

Reference to progress bar.

red

int red

Red channel value of the paint color.

scannerLPS_APLabel

javax.swing.JLabel scannerLPS_APLabel

scanner lps goto components*

scannerLPS_APTextField

javax.swing.JTextField scannerLPS_APTextField

scannerLPS_GoToButton

javax.swing.JButton scannerLPS_GoToButton

scannerLPS_GoToPanel

javax.swing.JPanel scannerLPS_GoToPanel

scannerLPS_ISLabel

javax.swing.JLabel scannerLPS_ISLabel

scanner lps goto components*

scannerLPS_ISTextField

javax.swing.JTextField scannerLPS_ISTextField

scannerLPS_RLLabel

javax.swing.JLabel scannerLPS_RLLabel

scanner lps goto components*

scannerLPS_RLTextField

javax.swing.JTextField scannerLPS_RLTextField

scannerLPSLabel

javax.swing.JLabel scannerLPSLabel

Labels for the current scanner position:.

scannerLPSLabelVals

javax.swing.JLabel[] scannerLPSLabelVals

Labels for the current scanner position values:.

scannerLPSPanel

javax.swing.JPanel scannerLPSPanel

JPanel containing the scanner position labels:.

scannerRAS_APLabel

javax.swing.JLabel scannerRAS_APLabel

scanner ras goto components*

scannerRAS_APTextField

javax.swing.JTextField scannerRAS_APTextField

scannerRAS_GoToButton

javax.swing.JButton scannerRAS_GoToButton

scannerRAS_GoToPanel

javax.swing.JPanel scannerRAS_GoToPanel

scannerRAS_ISLabel

javax.swing.JLabel scannerRAS_ISLabel

scanner ras goto components*

scannerRAS_ISTextField

javax.swing.JTextField scannerRAS_ISTextField

scannerRAS_RLLabel

javax.swing.JLabel scannerRAS_RLLabel

scanner ras goto components*

scannerRAS_RLTextField

javax.swing.JTextField scannerRAS_RLTextField

scannerRASLabel

javax.swing.JLabel scannerRASLabel

Labels for the current scanner position:.

scannerRASLabelVals

javax.swing.JLabel[] scannerRASLabelVals

Labels for the current scanner position values:.

scannerRASPanel

javax.swing.JPanel scannerRASPanel

JPanel containing the scanner position labels:.

scannerTabbedPane

javax.swing.JTabbedPane scannerTabbedPane

The tabbed pane to hold teh LPS, RAS and absolution coordinate panels.

tabbedPane

javax.swing.JTabbedPane tabbedPane

The main tabbed pane in the volume view frame.

talGoToButton

javax.swing.JButton talGoToButton

talGoToPanel

javax.swing.JPanel talGoToPanel

talXLabel

javax.swing.JLabel talXLabel

talairach goto components*

talXTextField

javax.swing.JTextField talXTextField

talYLabel

javax.swing.JLabel talYLabel

talairach goto components*

talYTextField

javax.swing.JTextField talYTextField

talZLabel

javax.swing.JLabel talZLabel

talairach goto components*

talZTextField

javax.swing.JTextField talZTextField

userInterface

ViewUserInterface userInterface

Reference to the user interface.

voiSavedFileName

java.lang.String voiSavedFileName

DOCUMENT ME!

zoomMode

int zoomMode

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJFrameColocalizationEM extends ViewJFrameBase implements Serializable

serialVersionUID:

-7006573111870808134L

Serialized Fields

bottomPad

int bottomPad

DOCUMENT ME!

componentImage

ViewJComponentColocalizationEM componentImage

DOCUMENT ME!

componentY

int componentY

DOCUMENT ME!

controlFrame

ViewJFrameBase controlFrame

DOCUMENT ME!

controls

ViewControlsImage controls

DOCUMENT ME!

destImage

ModelImage destImage

The image containing the 2D histogram.

etchedBorder

javax.swing.border.Border etchedBorder

DOCUMENT ME!

extents

int[] extents

DOCUMENT ME!

gbcTP

java.awt.GridBagConstraints gbcTP

DOCUMENT ME!

halfMajor

double[] halfMajor

DOCUMENT ME!

halfMinor

double[] halfMinor

DOCUMENT ME!

imageA

ModelImage imageA

DOCUMENT ME!

imageB

ModelImage imageB

DOCUMENT ME!

imageBufferDest

float[] imageBufferDest

DOCUMENT ME!

innerPanel

javax.swing.JPanel innerPanel

DOCUMENT ME!

leftPad

int leftPad

The spaces around the histogram bin area.

logDisplayButton

javax.swing.JToggleButton logDisplayButton

DOCUMENT ME!

logMagDisplay

boolean logMagDisplay

DOCUMENT ME!

LUTa

ModelLUT LUTa

DOCUMENT ME!

LUTdest

ModelLUT LUTdest

The LUT for the 2D histogram.

max1

double max1

Minimum and maximum buffer and secondBuffer areas.

max2

double max2

Minimum and maximum buffer and secondBuffer areas.

mean

double[][] mean

red, green, and blue origContrast remains constant until applyButton is pressed, restores contrast if cancelButton is pressed.

menuObj

ViewMenuBuilder menuObj

DOCUMENT ME!

min1

double min1

Minimum and maximum buffer and secondBuffer areas.

min2

double min2

Minimum and maximum buffer and secondBuffer areas.

minimumHeight

int minimumHeight

DOCUMENT ME!

minimumToolBarWidth

int minimumToolBarWidth

DOCUMENT ME!

openingMenuBar

javax.swing.JMenuBar openingMenuBar

DOCUMENT ME!

origBrightness

int origBrightness

DOCUMENT ME!

origContrast

float origContrast

red, green, and blue origBrightness remains constant until applyButton is pressed, restores brightness if cancelButton is pressed.

paintBufferDest

int[] paintBufferDest

DOCUMENT ME!

pixBufferDest

int[] pixBufferDest

DOCUMENT ME!

pressedBorder

javax.swing.border.Border pressedBorder

DOCUMENT ME!

raisedBorder

javax.swing.border.Border raisedBorder

DOCUMENT ME!

RGBTA

ModelRGB RGBTA

DOCUMENT ME!

rightPad

int rightPad

DOCUMENT ME!

scale1

double scale1

bin1 is generated from Math.round(scale1*(buffer[i]-min1)) and bin2 is generated from Math.round(scale2*(secondBuffer[i]-min2)).

scale2

double scale2

bin1 is generated from Math.round(scale1*(buffer[i]-min1)) and bin2 is generated from Math.round(scale2*(secondBuffer[i]-min2)).

scrollPane

javax.swing.JScrollPane scrollPane

DOCUMENT ME!

scrollPaneSize

int scrollPaneSize

DOCUMENT ME!

structureY

int structureY

DOCUMENT ME!

theta

double[] theta

DOCUMENT ME!

toolBar

javax.swing.JToolBar toolBar

DOCUMENT ME!

topPad

int topPad

DOCUMENT ME!

topPanel

javax.swing.JPanel topPanel

and innerPanel placed in scrollPane.

useBlue

boolean useBlue

DOCUMENT ME!

useGreen

boolean useGreen

DOCUMENT ME!

useRed

boolean useRed

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

xScreen

int xScreen

DOCUMENT ME!

yScreen

int yScreen

DOCUMENT ME!

zoom

float zoom

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJFrameColocalizationRegression extends ViewJFrameBase implements Serializable

serialVersionUID:

-2084669389930362925L

Serialized Fields

alg

AlgorithmColocalizationRegression alg

DOCUMENT ME!

bottomPad

int bottomPad

DOCUMENT ME!

colocIntensity1

float[] colocIntensity1

DOCUMENT ME!

colocIntensity2

float[] colocIntensity2

DOCUMENT ME!

colocSize

float[] colocSize

DOCUMENT ME!

componentImage

ViewJComponentColocalizationRegression componentImage

DOCUMENT ME!

componentY

int componentY

DOCUMENT ME!

controlFrame

ViewJFrameBase controlFrame

DOCUMENT ME!

controls

ViewControlsImage controls

DOCUMENT ME!

cpGBC

java.awt.GridBagConstraints cpGBC

DOCUMENT ME!

cpGBL

java.awt.GridBagLayout cpGBL

DOCUMENT ME!

dataLine1

java.lang.String dataLine1

DOCUMENT ME!

dataLine2

java.lang.String dataLine2

DOCUMENT ME!

destImage

ModelImage destImage

The image containing the 2D histogram.

doSecondIteration

boolean doSecondIteration

DOCUMENT ME!

etchedBorder

javax.swing.border.Border etchedBorder

DOCUMENT ME!

extents

int[] extents

DOCUMENT ME!

freeRangeButton

javax.swing.JToggleButton freeRangeButton

DOCUMENT ME!

freeRangeMode

boolean freeRangeMode

DOCUMENT ME!

gbcTP

java.awt.GridBagConstraints gbcTP

DOCUMENT ME!

haveFreeRangeThreshold

boolean[] haveFreeRangeThreshold

true for pixels with calculated freeRangeRThreshold values.

haveThreshold

boolean[] haveThreshold

DOCUMENT ME!

imageA

ModelImage imageA

DOCUMENT ME!

imageB

ModelImage imageB

DOCUMENT ME!

imageBufferDest

float[] imageBufferDest

DOCUMENT ME!

innerPanel

javax.swing.JPanel innerPanel

DOCUMENT ME!

labelCurrent

javax.swing.JLabel labelCurrent

DOCUMENT ME!

labelCurrentColoc

javax.swing.JLabel labelCurrentColoc

private JLabel labelLineFunction;.

labelCurrentIntensity1

javax.swing.JLabel labelCurrentIntensity1

DOCUMENT ME!

labelCurrentIntensity2

javax.swing.JLabel labelCurrentIntensity2

DOCUMENT ME!

labelLinearCorrelation

javax.swing.JLabel labelLinearCorrelation

DOCUMENT ME!

labelPValue

javax.swing.JLabel labelPValue

DOCUMENT ME!

leftPad

int leftPad

The spaces around the histogram bin area.

linearCorrelation

float linearCorrelation

The linear correlation coefficient for all points with either buffer[i] >= threshold1 or secondBuffer[i] >= threshold2.

lineMax1

double lineMax1

The endpoints of the line segment in (buffer,secondBuffer) values.

lineMax2

double lineMax2

The endpoints of the line segment in (buffer,secondBuffer) values.

lineMin1

double lineMin1

The endpoints of the line segment in (buffer,secondBuffer) values.

lineMin2

double lineMin2

The endpoints of the line segment in (buffer,secondBuffer) values.

logDisplayButton

javax.swing.JToggleButton logDisplayButton

DOCUMENT ME!

logMagDisplay

boolean logMagDisplay

DOCUMENT ME!

LUTa

ModelLUT LUTa

DOCUMENT ME!

LUTdest

ModelLUT LUTdest

The LUT for the 2D histogram.

max1

double max1

Minimum and maximum buffer and secondBuffer areas.

max2

double max2

Minimum and maximum buffer and secondBuffer areas.

menuObj

ViewMenuBuilder menuObj

DOCUMENT ME!

min1

double min1

Minimum and maximum buffer and secondBuffer areas.

min2

double min2

Minimum and maximum buffer and secondBuffer areas.

minimumHeight

int minimumHeight

DOCUMENT ME!

minimumToolBarWidth

int minimumToolBarWidth

DOCUMENT ME!

nf

java.text.NumberFormat nf

DOCUMENT ME!

nVOI

int nVOI

DOCUMENT ME!

offset

float offset

DOCUMENT ME!

openingMenuBar

javax.swing.JMenuBar openingMenuBar

DOCUMENT ME!

origBrightness

int origBrightness

DOCUMENT ME!

origContrast

float origContrast

red, green, and blue origBrightness remains constant until applyButton is pressed, restores brightness if cancelButton is pressed.

originalX

int originalX

DOCUMENT ME!

originalY

int originalY

DOCUMENT ME!

paintBufferDest

int[] paintBufferDest

DOCUMENT ME!

pixBufferDest

int[] pixBufferDest

DOCUMENT ME!

pointCalculation

boolean pointCalculation

DOCUMENT ME!

pointVOI

VOI pointVOI

DOCUMENT ME!

pressedBorder

javax.swing.border.Border pressedBorder

DOCUMENT ME!

PValue

float PValue

statistic giving the portion of images generated with randomly scrambled blocks of pixels having a linear correlation coefficient less than that of the actual image.

raisedBorder

javax.swing.border.Border raisedBorder

DOCUMENT ME!

regionLinesDisplay

boolean regionLinesDisplay

DOCUMENT ME!

regionLinesDisplayButton

javax.swing.JToggleButton regionLinesDisplayButton

DOCUMENT ME!

RGBTA

ModelRGB RGBTA

set to give 6 digits to the right of the decimal.

rightPad

int rightPad

DOCUMENT ME!

rThreshold

float[] rThreshold

The linear correlation coefficients for all pixels with values either below color1 for buffer or below a*color1 + b for secondBuffer.

scale1

double scale1

bin1 is generated from Math.round(scale1*(buffer[i]-min1)) and bin2 is generated from Math.round(scale2*(secondBuffer[i]-min2)).

scale2

double scale2

bin1 is generated from Math.round(scale1*(buffer[i]-min1)) and bin2 is generated from Math.round(scale2*(secondBuffer[i]-min2)).

scrollPane

javax.swing.JScrollPane scrollPane

DOCUMENT ME!

scrollPaneSize

int scrollPaneSize

DOCUMENT ME!

slope

float slope

The slope and offset of the total least squares line.

statusPanel

javax.swing.JPanel statusPanel

DOCUMENT ME!

structureY

int structureY

DOCUMENT ME!

thresholdOn1

boolean thresholdOn1

If true, the matrix of linear correlation coefficients is taken along color 1 at unity spacings. If false, along color 2.

toolBar

javax.swing.JToolBar toolBar

DOCUMENT ME!

topPad

int topPad

DOCUMENT ME!

topPanel

javax.swing.JPanel topPanel

and innerPanel placed in scrollPane.

useBlue

boolean useBlue

DOCUMENT ME!

useGreen

boolean useGreen

DOCUMENT ME!

useRed

boolean useRed

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

VOIs

ViewVOIVector VOIs

red, green, and blue origContrast remains constant until applyButton is pressed, restores contrast if cancelButton is pressed.

xScreen

int xScreen

DOCUMENT ME!

yScreen

int yScreen

DOCUMENT ME!

zoom

float zoom

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJFrameCreatePaint extends javax.swing.JFrame implements Serializable

Serialized Fields

blackImage

javax.swing.ImageIcon blackImage

used to create the "selected" state of the buttons

buttonGrid

javax.swing.JToggleButton[][] buttonGrid

Array of toggle buttons used to create the grid

buttonSize

java.awt.Dimension buttonSize

Make sure the button size is always this dimension

gridDialog

ViewJFrameCreatePaint.JDialogGridSize gridDialog

The grid resize dialog

gridHeight

int gridHeight

grid's height

gridPanel

javax.swing.JPanel gridPanel

Panel that holds the grid (stored as private variable so as to remove/rebuild the grid as needed

gridWidth

int gridWidth

grid's width

loadName

java.lang.String loadName

the name of the loaded brush (used with the above wasLoaded parameter)

openItem

javax.swing.JMenu openItem

Menu item that holds the list of paintbrushes to open (for editing)

wasLoaded

boolean wasLoaded

switch that tells the save-dialog that this brush was opened from disk, so brush will be re-written on save

whiteImage

javax.swing.ImageIcon whiteImage

used to create the "unselected" state of the buttons

Class gov.nih.mipav.view.ViewJFrameDICOMParser extends ViewImageDirectory implements Serializable

serialVersionUID:

1085995416072088026L

Serialized Fields

brightness

int brightness

DOCUMENT ME!

brightnessContrastPanel

javax.swing.JPanel brightnessContrastPanel

DOCUMENT ME!

brightnessSlider

javax.swing.JSlider brightnessSlider

DOCUMENT ME!

columnKeyTable

java.util.Hashtable columnKeyTable

DOCUMENT ME!

componentImageDicom

ViewJComponentPreviewImage componentImageDicom

DOCUMENT ME!

contrast

float contrast

DOCUMENT ME!

contrastSlider

javax.swing.JSlider contrastSlider

DOCUMENT ME!

current

javax.swing.JLabel current

DOCUMENT ME!

current2

javax.swing.JLabel current2

DOCUMENT ME!

fileInfoVector

java.util.Vector<FileInfoDicom> fileInfoVector

fileInfoVector represents images in image table but imageTableVector was needed also becasue this handles multiple series in the same dir. fileInfoVector is all the images in the dir but imageTableVector represents all the images that are in the image table at a particular instance or series

imageTable

javax.swing.JTable imageTable

DOCUMENT ME!

imageTableModel

SortingTableModel imageTableModel

DOCUMENT ME!

imageTableSorter

TableSorter imageTableSorter

DOCUMENT ME!

imageTableVector

java.util.Vector<FileInfoDicom> imageTableVector

nfc

java.text.NumberFormat nfc

DOCUMENT ME!

origBrightness

int origBrightness

DOCUMENT ME!

origContrast

float origContrast

DOCUMENT ME!

rightPane

javax.swing.JSplitPane rightPane

DOCUMENT ME!

seriesNumberCounters

java.util.HashMap<java.lang.String,java.lang.Integer> seriesNumberCounters

This is a hashmasp of series numbers and corresponding counter for the number of images in each series.*

seriesOptionBox

javax.swing.JCheckBoxMenuItem seriesOptionBox

DOCUMENT ME!

seriesTable

javax.swing.JTable seriesTable

DOCUMENT ME!

seriesTableModel

SortingTableModel seriesTableModel

DOCUMENT ME!

seriesTableSorter

TableSorter seriesTableSorter

DOCUMENT ME!

studyTable

javax.swing.JTable studyTable

DOCUMENT ME!

studyTableModel

SortingTableModel studyTableModel

DOCUMENT ME!

studyTableSorter

TableSorter studyTableSorter

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJFrameDICOMQuery extends javax.swing.JFrame implements Serializable

serialVersionUID:

3899062842723888728L

Serialized Fields

aboutPanel

javax.swing.JPanel aboutPanel

activateStore

javax.swing.JButton activateStore

Buttons used for the host tab

browseButton

javax.swing.JButton browseButton

DOCUMENT ME!

cancel

javax.swing.JButton cancel

Buttons used for the host tab

cancelQ

javax.swing.JButton cancelQ

DOCUMENT ME!

create

javax.swing.JButton create

DOCUMENT ME!

createStore

javax.swing.JButton createStore

Buttons used for the host tab

currentDateL

javax.swing.JLabel currentDateL

DOCUMENT ME!

delete

javax.swing.JButton delete

DOCUMENT ME!

deleteStore

javax.swing.JButton deleteStore

Buttons used for the host tab

dicomQuery

DICOM_Query dicomQuery

DOCUMENT ME!

down

javax.swing.JButton down

DOCUMENT ME!

edit

javax.swing.JButton edit

DOCUMENT ME!

editStore

javax.swing.JButton editStore

Buttons used for the host tab

endCalendar

java.util.Calendar endCalendar

DOCUMENT ME!

endDayBox

javax.swing.JComboBox endDayBox

DOCUMENT ME!

endMonthBox

javax.swing.JComboBox endMonthBox

DOCUMENT ME!

endYearBox

javax.swing.JComboBox endYearBox

DOCUMENT ME!

help1

javax.swing.JButton help1

Buttons used for the host tab

help2

javax.swing.JButton help2

Buttons used for the host tab

help3

javax.swing.JButton help3

Buttons used for the host tab

help4

javax.swing.JButton help4

Buttons used for the host tab

listPanel

javax.swing.JPanel listPanel

DOCUMENT ME!

messageTable

DICOMDisplayer messageTable

DOCUMENT ME!

move

javax.swing.JButton move

DOCUMENT ME!

moveRequestHash

java.util.Hashtable<java.lang.String,ViewJFrameDICOMQuery.MoveRequestInfo> moveRequestHash

DOCUMENT ME!

physText

javax.swing.JTextField physText

DOCUMENT ME!

ptIDText

javax.swing.JTextField ptIDText

DOCUMENT ME!

ptNameText

javax.swing.JTextField ptNameText

DOCUMENT ME!

queryLev

javax.swing.JLabel queryLev

DOCUMENT ME!

queryLevel

int queryLevel

DOCUMENT ME!

queryMsgID

int queryMsgID

DOCUMENT ME!

queryPDU

DICOM_PDUService queryPDU

DOCUMENT ME!

queryResultTable

javax.swing.JTable queryResultTable

DOCUMENT ME!

queryTableModel

ViewTableModel queryTableModel

DOCUMENT ME!

refreshButton

javax.swing.JButton refreshButton

DOCUMENT ME!

rootQueryPanel

javax.swing.JPanel rootQueryPanel

DOCUMENT ME!

send

javax.swing.JButton send

DOCUMENT ME!

sendButton

javax.swing.JButton sendButton

DOCUMENT ME!

sendDestCBox

javax.swing.JComboBox sendDestCBox

DOCUMENT ME!

sendModel

ViewTableModel sendModel

DOCUMENT ME!

sendPanel

javax.swing.JPanel sendPanel

sendQueryThread

java.lang.Thread sendQueryThread

DOCUMENT ME!

sendStatusClearButton

javax.swing.JButton sendStatusClearButton

DOCUMENT ME!

sendStatusTArea

javax.swing.JTextArea sendStatusTArea

DOCUMENT ME!

sendTable

javax.swing.JTable sendTable

DOCUMENT ME!

seriesInstanceUID

java.lang.String seriesInstanceUID

DOCUMENT ME!

serverModel

ViewTableModel serverModel

DOCUMENT ME!

serverTable

javax.swing.JTable serverTable

DOCUMENT ME!

set

javax.swing.JButton set

Buttons used for the host tab

setStore

javax.swing.JButton setStore

Buttons used for the host tab

SOPInstanceUID

java.lang.String SOPInstanceUID

DOCUMENT ME!

sourceTextF

javax.swing.JTextField sourceTextF

DOCUMENT ME!

startCalendar

java.util.Calendar startCalendar

DOCUMENT ME!

startDayBox

javax.swing.JComboBox startDayBox

DOCUMENT ME!

startMonthBox

javax.swing.JComboBox startMonthBox

DOCUMENT ME!

startYearBox

javax.swing.JComboBox startYearBox

DOCUMENT ME!

storageModel

ViewTableModel storageModel

DOCUMENT ME!

storageTable

javax.swing.JTable storageTable

DOCUMENT ME!

studyInstanceUID

java.lang.String studyInstanceUID

DOCUMENT ME!

studyNOText

javax.swing.JTextField studyNOText

DOCUMENT ME!

subQueryPanel

javax.swing.JPanel subQueryPanel

DOCUMENT ME!

tabbedPane

javax.swing.JTabbedPane tabbedPane

DOCUMENT ME!

testButton

javax.swing.JButton testButton

DOCUMENT ME!

textArea

javax.swing.JTextArea textArea

DOCUMENT ME!

todayCalendar

java.util.Calendar todayCalendar

DOCUMENT ME!

uids

DICOM_UID[] uids

DOCUMENT ME!

up

javax.swing.JButton up

DOCUMENT ME!

upDirButton

javax.swing.JButton upDirButton

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJFrameFastMarching2 extends ViewJFrameImage implements Serializable

serialVersionUID:

-949160895087175876L

Serialized Fields

m_bIterate

boolean m_bIterate

DOCUMENT ME!

m_bNext

boolean m_bNext

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJFrameFastMarching3 extends ViewJFrameImage implements Serializable

serialVersionUID:

7827645314485923857L

Serialized Fields

m_bIterate

boolean m_bIterate

DOCUMENT ME!

m_bNext

boolean m_bNext

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJFrameGraph extends javax.swing.JFrame implements Serializable

serialVersionUID:

5127841803361813975L

Serialized Fields

autoShrinkDomain

boolean autoShrinkDomain

autoShrinkDomainCheckbox

javax.swing.JCheckBox autoShrinkDomainCheckbox

autoShrinkRange

boolean autoShrinkRange

DOCUMENT ME!

autoShrinkRangeCheckbox

javax.swing.JCheckBox autoShrinkRangeCheckbox

DOCUMENT ME!

axisPanel

javax.swing.JPanel axisPanel

DOCUMENT ME!

backgroundButton

javax.swing.JButton backgroundButton

DOCUMENT ME!

backgroundLabel

javax.swing.JLabel backgroundLabel

DOCUMENT ME!

backgroundPanel

javax.swing.JPanel backgroundPanel

DOCUMENT ME!

binsField

javax.swing.JTextField binsField

colorChooser

ViewJColorChooser colorChooser

DOCUMENT ME!

colorDialog

javax.swing.JDialog colorDialog

DOCUMENT ME!

copyMenu

javax.swing.JMenu copyMenu

DOCUMENT ME!

defaultDirectory

java.lang.String defaultDirectory

DOCUMENT ME!

deleteMenu

javax.swing.JMenu deleteMenu

DOCUMENT ME!

doLogX

boolean doLogX

doLogY

boolean doLogY

domainPanel

javax.swing.JPanel domainPanel

editMenu

javax.swing.JMenu editMenu

DOCUMENT ME!

entireImage

boolean entireImage

fileMenu

javax.swing.JMenu fileMenu

DOCUMENT ME!

fitFunctPanel

javax.swing.JPanel fitFunctPanel

DOCUMENT ME!

fitFunctTypePanel

javax.swing.JPanel fitFunctTypePanel

DOCUMENT ME!

fitFunctVisibleCheckbox

javax.swing.JCheckBox[] fitFunctVisibleCheckbox

DOCUMENT ME!

fitFunctVisiblePanel

javax.swing.JPanel fitFunctVisiblePanel

DOCUMENT ME!

fitMode

ViewJFrameGraph.FitMode fitMode

Current mode for fitting functions

fitType

javax.swing.JComboBox fitType

Combo box for selecting the fitting function type

frameGraphVOI

VOI frameGraphVOI

DOCUMENT ME!

functionIndex

int functionIndex

DOCUMENT ME!

functionLabel

javax.swing.JLabel[] functionLabel

DOCUMENT ME!

functionPropPanel

javax.swing.JPanel functionPropPanel

DOCUMENT ME!

functLineColorButton

javax.swing.JButton[] functLineColorButton

DOCUMENT ME!

functVisibleCheckbox

javax.swing.JCheckBox[] functVisibleCheckbox

the slope changes.

graph

ViewJComponentGraph graph

DOCUMENT ME!

gridlinesCheckbox

javax.swing.JCheckBox gridlinesCheckbox

DOCUMENT ME!

gridPanel

javax.swing.JPanel gridPanel

DOCUMENT ME!

histogramPanel

javax.swing.JPanel histogramPanel

image

ModelImage image

imageMax

double imageMax

imageMin

double imageMin

initialSummaryBins

int initialSummaryBins

initialUserMax

double initialUserMax

initialUserMin

double initialUserMin

itemClose

javax.swing.JMenuItem itemClose

DOCUMENT ME!

itemModifyGraph

javax.swing.JMenuItem itemModifyGraph

DOCUMENT ME!

itemNormalize

javax.swing.JMenuItem itemNormalize

DOCUMENT ME!

itemOpenNewGraph

javax.swing.JMenuItem itemOpenNewGraph

itemOpenSameGraph

javax.swing.JMenuItem itemOpenSameGraph

DOCUMENT ME!

itemPasteFunct

javax.swing.JMenuItem itemPasteFunct

DOCUMENT ME!

itemPrintGraph

javax.swing.JMenuItem itemPrintGraph

DOCUMENT ME!

itemResetDomain

javax.swing.JMenuItem itemResetDomain

itemResetGraph

javax.swing.JMenuItem itemResetGraph

DOCUMENT ME!

itemResetRange

javax.swing.JMenuItem itemResetRange

DOCUMENT ME!

itemSaveGraph

javax.swing.JMenuItem itemSaveGraph

DOCUMENT ME!

itemTableOutput

javax.swing.JMenuItem itemTableOutput

lastUnits

java.lang.String lastUnits

DOCUMENT ME!

legendCheckbox

javax.swing.JCheckBox legendCheckbox

DOCUMENT ME!

legendPanel

javax.swing.JPanel legendPanel

DOCUMENT ME!

linesOnlyButton

javax.swing.JRadioButton linesOnlyButton

DOCUMENT ME!

logScaleCheckboxX

javax.swing.JCheckBox logScaleCheckboxX

logScaleCheckboxY

javax.swing.JCheckBox logScaleCheckboxY

mainPanel

javax.swing.JPanel mainPanel

DOCUMENT ME!

maxBins

int maxBins

maxDomainField

javax.swing.JTextField maxDomainField

maxDomainLabel

javax.swing.JLabel maxDomainLabel

maxField

javax.swing.JTextField maxField

maxRangeField

javax.swing.JTextField maxRangeField

DOCUMENT ME!

maxRangeLabel

javax.swing.JLabel maxRangeLabel

DOCUMENT ME!

minDomainField

javax.swing.JTextField minDomainField

minDomainLabel

javax.swing.JLabel minDomainLabel

minField

javax.swing.JTextField minField

minorTickMarksCheckbox

javax.swing.JCheckBox minorTickMarksCheckbox

DOCUMENT ME!

minRangeField

javax.swing.JTextField minRangeField

DOCUMENT ME!

minRangeLabel

javax.swing.JLabel minRangeLabel

DOCUMENT ME!

modifyDialog

javax.swing.JDialog modifyDialog

DOCUMENT ME!

modifyGraphPanel

javax.swing.JPanel modifyGraphPanel

DOCUMENT ME!

nameField

javax.swing.JTextField[] nameField

DOCUMENT ME!

numVariables

int numVariables

numVariablesField

javax.swing.JTextField numVariablesField

numVariablesLabel

javax.swing.JLabel numVariablesLabel

openingMenuBar

javax.swing.JMenuBar openingMenuBar

DOCUMENT ME!

pointsAndLinesButton

javax.swing.JRadioButton pointsAndLinesButton

pointsAndLinesGroup

javax.swing.ButtonGroup pointsAndLinesGroup

pointsOnlyButton

javax.swing.JRadioButton pointsOnlyButton

pointsVisiblePanel

javax.swing.JPanel pointsVisiblePanel

DOCUMENT ME!

rangePanel

javax.swing.JPanel rangePanel

DOCUMENT ME!

resetDomainButton

javax.swing.JButton resetDomainButton

resetRangeButton

javax.swing.JButton resetRangeButton

DOCUMENT ME!

RGBOffset

int RGBOffset

showPanel

javax.swing.JPanel showPanel

DOCUMENT ME!

summaryBins

int summaryBins

tabbedPane

javax.swing.JTabbedPane tabbedPane

DOCUMENT ME!

titleField

javax.swing.JTextField titleField

DOCUMENT ME!

titleLabel

javax.swing.JLabel titleLabel

DOCUMENT ME!

units

java.lang.String units

DOCUMENT ME!

updateRGBIndex

int updateRGBIndex

DOCUMENT ME!

userMax

double userMax

userMin

double userMin

vectorCopyFunct

java.util.Vector<javax.swing.JMenuItem> vectorCopyFunct

DOCUMENT ME!

vectorDeleteFunct

java.util.Vector<javax.swing.JMenuItem> vectorDeleteFunct

DOCUMENT ME!

viewMenu

javax.swing.JMenu viewMenu

DOCUMENT ME!

voi

VOI voi

DOCUMENT ME!

xAxisLabel

javax.swing.JLabel xAxisLabel

DOCUMENT ME!

xAxisLabelField

javax.swing.JTextField xAxisLabelField

DOCUMENT ME!

xGridButtonGroup

javax.swing.ButtonGroup xGridButtonGroup

xGridCheckBoxList

javax.swing.JCheckBox[] xGridCheckBoxList

xGridCheckBoxPanel

javax.swing.JPanel xGridCheckBoxPanel

xGridEvenSpacedButton

javax.swing.JRadioButton xGridEvenSpacedButton

xGridLineField

javax.swing.JTextField xGridLineField

DOCUMENT ME!

xGridLineLabel

javax.swing.JLabel xGridLineLabel

DOCUMENT ME!

xGridScrollPane

javax.swing.JScrollPane xGridScrollPane

xGridUserSpacedButton

javax.swing.JRadioButton xGridUserSpacedButton

xyCoords

int[][] xyCoords

this is a list of the x,y coords of the voi's boundary

yAxisLabel

javax.swing.JLabel yAxisLabel

DOCUMENT ME!

yAxisLabelField

javax.swing.JTextField yAxisLabelField

DOCUMENT ME!

yGridButtonGroup

javax.swing.ButtonGroup yGridButtonGroup

yGridCheckBoxList

javax.swing.JCheckBox[] yGridCheckBoxList

yGridCheckBoxPanel

javax.swing.JPanel yGridCheckBoxPanel

yGridEvenSpacedButton

javax.swing.JRadioButton yGridEvenSpacedButton

yGridLineField

javax.swing.JTextField yGridLineField

DOCUMENT ME!

yGridLineLabel

javax.swing.JLabel yGridLineLabel

DOCUMENT ME!

yGridScrollPane

javax.swing.JScrollPane yGridScrollPane

yGridUserSpacedButton

javax.swing.JRadioButton yGridUserSpacedButton

Class gov.nih.mipav.view.ViewJFrameHistoLUT extends ViewJFrameBase implements Serializable

serialVersionUID:

-5323312688163424096L

Serialized Fields

calcThresholdVolume

boolean calcThresholdVolume

Deprecated.

DOCUMENT ME!

colEMFrame

ViewJFrameColocalizationEM colEMFrame

Deprecated.

DOCUMENT ME!

colRegFrame

ViewJFrameColocalizationRegression colRegFrame

Deprecated.

DOCUMENT ME!

entireFlag

boolean entireFlag

Deprecated.

DOCUMENT ME!

lutPanel

ViewJPanelLUT lutPanel

Deprecated.

DOCUMENT ME!

menuObj

ViewMenuBuilder menuObj

Deprecated.

DOCUMENT ME!

parentFrame

java.awt.Frame parentFrame

Deprecated.

Parent frame

regComponent

ViewJComponentRegistration regComponent

Deprecated.

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJFrameHistoRGB extends ViewJFrameBase implements Serializable

serialVersionUID:

-4685406207107911894L

Serialized Fields

allRGBButton

javax.swing.JToggleButton allRGBButton

Deprecated.

DOCUMENT ME!

blueCheckBoxA

javax.swing.JCheckBox blueCheckBoxA

Deprecated.

DOCUMENT ME!

blueCheckBoxB

javax.swing.JCheckBox blueCheckBoxB

Deprecated.

DOCUMENT ME!

blueRGBButton

javax.swing.JToggleButton blueRGBButton

Deprecated.

DOCUMENT ME!

calcThresholdVolume

boolean calcThresholdVolume

Deprecated.

DOCUMENT ME!

entireFlag

boolean entireFlag

Deprecated.

DOCUMENT ME!

fillValuesA

float[] fillValuesA

Deprecated.

DOCUMENT ME!

fillValuesB

float[] fillValuesB

Deprecated.

DOCUMENT ME!

greenCheckBoxA

javax.swing.JCheckBox greenCheckBoxA

Deprecated.

DOCUMENT ME!

greenCheckBoxB

javax.swing.JCheckBox greenCheckBoxB

Deprecated.

DOCUMENT ME!

greenRGBButton

javax.swing.JToggleButton greenRGBButton

Deprecated.

DOCUMENT ME!

histogramABlue

ModelHistogram histogramABlue

Deprecated.

DOCUMENT ME!

histogramAGreen

ModelHistogram histogramAGreen

Deprecated.

DOCUMENT ME!

histogramARed

ModelHistogram histogramARed

Deprecated.

DOCUMENT ME!

histogramBBlue

ModelHistogram histogramBBlue

Deprecated.

DOCUMENT ME!

histogramBGreen

ModelHistogram histogramBGreen

Deprecated.

DOCUMENT ME!

histogramBRed

ModelHistogram histogramBRed

Deprecated.

DOCUMENT ME!

histoPanelA

ViewJPanelHistoLUT histoPanelA

Deprecated.

DOCUMENT ME!

histoPanelB

ViewJPanelHistoLUT histoPanelB

Deprecated.

DOCUMENT ME!

logCheckBoxA

javax.swing.JCheckBox logCheckBoxA

Deprecated.

DOCUMENT ME!

logCheckBoxB

javax.swing.JCheckBox logCheckBoxB

Deprecated.

DOCUMENT ME!

lutAdjustCheckboxB

javax.swing.JCheckBox lutAdjustCheckboxB

Deprecated.

DOCUMENT ME

menuObj

ViewMenuBuilder menuObj

Deprecated.

DOCUMENT ME!

panelA

javax.swing.JPanel panelA

Deprecated.

DOCUMENT ME!

panelB

javax.swing.JPanel panelB

Deprecated.

DOCUMENT ME!

redCheckBoxA

javax.swing.JCheckBox redCheckBoxA

Deprecated.

DOCUMENT ME!

redCheckBoxB

javax.swing.JCheckBox redCheckBoxB

Deprecated.

DOCUMENT ME!

redRGBButton

javax.swing.JToggleButton redRGBButton

Deprecated.

DOCUMENT ME!

regComponent

ViewJComponentRegistration regComponent

Deprecated.

DOCUMENT ME!

RGBExtents

int[] RGBExtents

Deprecated.

DOCUMENT ME!

RGBTA

ModelRGB RGBTA

Deprecated.

DOCUMENT ME!

RGBTB

ModelRGB RGBTB

Deprecated.

DOCUMENT ME!

tabbedPane

javax.swing.JTabbedPane tabbedPane

Deprecated.

DOCUMENT ME!

threshFillBF

javax.swing.JTextField threshFillBF

Deprecated.

DOCUMENT ME!

threshFillF

javax.swing.JTextField threshFillF

Deprecated.

threshold related.

threshLowerBF

javax.swing.JTextField threshLowerBF

Deprecated.

DOCUMENT ME!

threshLowerF

javax.swing.JTextField threshLowerF

Deprecated.

threshold related.

threshUpperBF

javax.swing.JTextField threshUpperBF

Deprecated.

DOCUMENT ME!

threshUpperF

javax.swing.JTextField threshUpperF

Deprecated.

threshold related.

toolBar

javax.swing.JToolBar toolBar

Deprecated.

DOCUMENT ME!

toolBarObj

ViewToolBarBuilder toolBarObj

Deprecated.

Object which generates the toolbar.

updateCheckBoxA

javax.swing.JCheckBox updateCheckBoxA

Deprecated.

DOCUMENT ME!

updateCheckBoxB

javax.swing.JCheckBox updateCheckBoxB

Deprecated.

DOCUMENT ME!

useThresholdChannelA

boolean[] useThresholdChannelA

Deprecated.

DOCUMENT ME!

useThresholdChannelB

boolean[] useThresholdChannelB

Deprecated.

DOCUMENT ME!

voxelVolumeLabel

javax.swing.JLabel voxelVolumeLabel

Deprecated.

DOCUMENT ME!

voxelVolumeLabelB

javax.swing.JLabel voxelVolumeLabelB

Deprecated.

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJFrameImage extends ViewJFrameBase implements Serializable

serialVersionUID:

-5990635548319625443L

Serialized Fields

colorChooser

ViewJColorChooser colorChooser

Reference to the color chooser.

componentImage

ViewJComponentEditImage componentImage

Object where DICOM image, ... is converted and displayed as a Java image

controls

ViewControlsImage controls

Reference to the toolbars located in the controls object.

doOrients

boolean doOrients

DOCUMENT ME!

doOrigins

boolean doOrigins

When loading an image into B slot, should origins and orients be matched?

dpDialog

JDialogDataProvenance dpDialog

Data provenance dialog

gridOptions

JDialogGridOptions gridOptions

Only want one gridoptions dialog per jframeimage.

heightResFactor

float heightResFactor

Storage for correction parameters where datasets have non isotropic values.

imageBufferA

float[] imageBufferA

Buffer used to store image intensities the presently viewed slice of image A.

imageBufferB

float[] imageBufferB

Buffer used to store image intensities the presently viewed slice of image B.

infoDialogA

JDialogImageInfo infoDialogA

reference to the JDialogImageInfo for updating slice/resolutions.

infoDialogB

JDialogImageInfo infoDialogB

DOCUMENT ME!

isShiftDown

boolean isShiftDown

boolean indicating if shift button is down.

logMagDisplay

boolean logMagDisplay

Flag indicating whether or not that the image should be displayed in Log scale. Used primarily for displaying the FFT of an image.

menuBar

javax.swing.JMenuBar menuBar

Reference to the frame's menu bar.

menuBarMaker

ViewMenuBar menuBarMaker

Constructs the image menu bar.

menuBuilder

ViewMenuBuilder menuBuilder

This object contains a number of useful functions for building a menu and querying the state of menu items.

multipaintDialog

JDialogMultiPaint multipaintDialog

reference to the JDialogMultiPaint for shortcuts

nImage

int nImage

Number of slices in a 3D dataset.

nTImage

int nTImage

Number of time sequences in a 4D dataset.

paintBrushLocked

boolean paintBrushLocked

used in conjuction with the above variable, stating that the paint brush has been changed but will change back to previous.

pixBuffer

int[] pixBuffer

Integer buffer (4 bytes that stores the concatenated Alpha (1 byte), Red (1 byte), Green ( 1 byte ), Blue (1 byte ) data. The ARGB values are generated by using the imageA intensities as a index into a LUT.

pixBufferB

int[] pixBufferB

Integer buffer (4 bytes that stores the concatenated Alpha (1 byte), Red (1 byte), Green ( 1 byte ), Blue (1 byte ) data. The ARGB values are generated by using the imageB intensities as a index into a LUT.

prostateAAMClassification

JDialogAAMClassification prostateAAMClassification

prostateML

JDialogAAMplusSVM prostateML

quickPaintBrushIndex

int quickPaintBrushIndex

DOCUMENT ME!

resols

float[] resols

Storage of the image voxel resolutions. One resolution value per dimension.

scrollPane

javax.swing.JScrollPane scrollPane

The scrollPane where the image is displayed.

units

int[] units

Storage of the resolution units of measure. For example, mm, cm, inches ...

VOIGroup

javax.swing.ButtonGroup VOIGroup

voiManager

VOIManagerInterface voiManager

voiMenu

javax.swing.JMenu voiMenu

widthResFactor

float widthResFactor

Storage for correction parameters where datasets have non isotropic values.

windowLevel

JDialogWinLevel[] windowLevel

Reference to the two window and level dialogs where [0] is for imageA, [1] for imageB.

zoom

float zoom

Defaults magnification of image to 1.

zoomDialog

JDialogZoom zoomDialog

Reference to the magnification tool.

Class gov.nih.mipav.view.ViewJFrameLightBox extends ViewJFrameBase implements Serializable

serialVersionUID:

-4014825600247045462L

Serialized Fields

activeSliceButton

javax.swing.JButton activeSliceButton

DOCUMENT ME!

borderColor

java.awt.Color borderColor

Color for the line border surrounding each image in the light-box.

borderSize

int borderSize

Spacing for the line border surrounding each image in the light-box.

componentImage

ViewJComponentEditImage[] componentImage

DOCUMENT ME!

controls

ViewControlsImage controls

DOCUMENT ME!

currentPage

int currentPage

Page information.

currentSelectedSlice

int currentSelectedSlice

DOCUMENT ME!

currentSlice

int currentSlice

Current info -- this slice info refers to the *real* slice number, not the page index for a slice on a page.

currentTSlice

int currentTSlice

DOCUMENT ME!

deleteButton

javax.swing.JButton deleteButton

DOCUMENT ME!

deleteSelection

javax.swing.JMenuItem deleteSelection

DOCUMENT ME!

extractButton

javax.swing.JButton extractButton

DOCUMENT ME!

extractSelection

javax.swing.JMenuItem extractSelection

DOCUMENT ME!

firstPageButton

javax.swing.JButton firstPageButton

DOCUMENT ME!

firstPageMenuItem

javax.swing.JMenuItem firstPageMenuItem

DOCUMENT ME!

frameHeight

int frameHeight

DOCUMENT ME!

frameWidth

int frameWidth

Frame information.

goToSliceText

javax.swing.JTextField goToSliceText

DOCUMENT ME!

gridColor

java.awt.Color gridColor

Color for the region in-between the images in the light-box.

gridColumn

int gridColumn

DOCUMENT ME!

gridRow

int gridRow

Value for the number of rows (number of images along the y-axis) and columns (number of images along the x-axis) in the light-box.

Note that both row and column set to 1 cannot make sense, but that one or the other will be the 'dependent variable' as defined by the row_dependent boolean var.

A value of 0 means that the dependent variable will automatically be sized to its maximum size that can fit nicely on the screen.

gridSpacing

int gridSpacing

Spacing between images in the light-box.

group

javax.swing.ButtonGroup group

DOCUMENT ME!

imageBorder

javax.swing.border.CompoundBorder[] imageBorder

DOCUMENT ME!

imageBufferA

float[] imageBufferA

DOCUMENT ME!

imageBufferB

float[] imageBufferB

DOCUMENT ME!

imageFrame

ViewJFrameImage imageFrame

DOCUMENT ME!

imageHeight

int imageHeight

DOCUMENT ME!

imagePanel

javax.swing.JPanel[] imagePanel

DOCUMENT ME!

imagePanelSizeX

int imagePanelSizeX

Per num visible images information.

imagePanelSizeY

int imagePanelSizeY

Per num visible images information.

imageWidth

int imageWidth

DOCUMENT ME!

increment

int increment

interpolateShapesButton

javax.swing.JButton interpolateShapesButton

DOCUMENT ME!

lastPageButton

javax.swing.JButton lastPageButton

DOCUMENT ME!

lastPageMenuItem

javax.swing.JMenuItem lastPageMenuItem

DOCUMENT ME!

lastSelectedSlice

int lastSelectedSlice

DOCUMENT ME!

lightBoxOptions

JDialogLightBox lightBoxOptions

DOCUMENT ME!

LUTa

ModelLUT LUTa

DOCUMENT ME!

LUTb

ModelLUT LUTb

DOCUMENT ME!

magMax

float magMax

DOCUMENT ME!

magMin

float magMin

DOCUMENT ME!

magnification

float magnification

Magnification of images in the light-box (mag is a percentage).

maxPagePanelSizeX

int maxPagePanelSizeX

DOCUMENT ME!

maxPagePanelSizeY

int maxPagePanelSizeY

DOCUMENT ME!

menuBar

javax.swing.JMenuBar menuBar

Variables for the menubar.

nextPageButton

javax.swing.JButton nextPageButton

elements of paging toolbar.

nextPageMenuItem

javax.swing.JMenuItem nextPageMenuItem

DOCUMENT ME!

numPages

int numPages

DOCUMENT ME!

numTotalSlices

int numTotalSlices

DOCUMENT ME!

numTSlices

int numTSlices

DOCUMENT ME!

numVisibleSlices

int numVisibleSlices

DOCUMENT ME!

pagePanel

javax.swing.JPanel pagePanel

DOCUMENT ME!

pagePanelSizeX

int pagePanelSizeX

DOCUMENT ME!

pagePanelSizeY

int pagePanelSizeY

DOCUMENT ME!

pagingTBar

javax.swing.JToolBar pagingTBar

DOCUMENT ME!

pixBuffer

int[] pixBuffer

DOCUMENT ME!

pixBufferB

int[] pixBufferB

DOCUMENT ME!

prevPageButton

javax.swing.JButton prevPageButton

DOCUMENT ME!

prevPageMenuItem

javax.swing.JMenuItem prevPageMenuItem

DOCUMENT ME!

repaintButton

javax.swing.JButton repaintButton

DOCUMENT ME!

resolutionX

float resolutionX

DOCUMENT ME!

resolutionY

float resolutionY

DOCUMENT ME!

row_dependent

boolean row_dependent

Indicates which--row or column--should be dependent on the other.

the default is the number of rows is the dependent variable, and is dependent apon the total number of images and the number of columns. Don't confuse the reading to be "This display is (t/f) dependent on the row." It -could- be read as "The display is a column-independent (t/f) matrix".

selectedBorderColor

java.awt.Color selectedBorderColor

Color for the line border surrounding each selected image in the light-box.

selectedBorderSize

int selectedBorderSize

Spacing for the selected line border surrounding each image in the light-box.

selectedImages

java.util.Vector<java.lang.String> selectedImages

The selectedImages contains the *real* slice numbers -- not the index of a slice on a page. So the maximum number in the vector will be numTotalSlices - 1.

selectedTimeSlices

java.util.Vector<java.lang.String> selectedTimeSlices

The selected Time Slices vector contains the real slice number and time slice number in the format (slice #).(time slice #) the maximum number in the vector will be numTotalSlices * t.

selectIndividualTSlices

javax.swing.JCheckBoxMenuItem selectIndividualTSlices

DOCUMENT ME!

singleTSlice

boolean singleTSlice

DOCUMENT ME!

srcImage

ModelImage srcImage

DOCUMENT ME!

tBar

javax.swing.JToolBar tBar

DOCUMENT ME!

toolbarPanel

javax.swing.JPanel toolbarPanel

Variables for the toolbar.

unselectedBorderColor

java.awt.Color unselectedBorderColor

DOCUMENT ME!

updatePaint

javax.swing.JCheckBoxMenuItem updatePaint

DOCUMENT ME!

voiManager

VOIManagerInterface voiManager

xScreen

int xScreen

DOCUMENT ME!

yScreen

int yScreen

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJFrameMemory extends javax.swing.JFrame implements Serializable

serialVersionUID:

-8863264033308071151L

Serialized Fields

bm

BarMeter bm

DOCUMENT ME!

callGCbutton

javax.swing.JButton callGCbutton

DOCUMENT ME!

lm

LineMeter lm

DOCUMENT ME!

pauseButton

javax.swing.JButton pauseButton

DOCUMENT ME!

paused

boolean paused

DOCUMENT ME!

percentUsed

javax.swing.JLabel percentUsed

DOCUMENT ME!

sampleRate

javax.swing.JTextField sampleRate

DOCUMENT ME!

surf

ViewJFrameMemory.MemoryMonitor surf

thread.

total

javax.swing.JLabel total

DOCUMENT ME!

used

javax.swing.JLabel used

test notification of memory used.

Class gov.nih.mipav.view.ViewJFrameMessage extends javax.swing.JFrame implements Serializable

serialVersionUID:

-1198653323631787447L

Serialized Fields

delTabButton

javax.swing.JButton delTabButton

DOCUMENT ME!

frameInsets

java.awt.Insets frameInsets

DOCUMENT ME!

lastState

int lastState

Indicates last state of frame - NORMAL or ICONIFIED.

menu

javax.swing.JMenuBar menu

DOCUMENT ME!

removeCurrentTab

javax.swing.JMenuItem removeCurrentTab

DOCUMENT ME!

tabbedPane

javax.swing.JTabbedPane tabbedPane

DOCUMENT ME!

tBar

javax.swing.JToolBar tBar

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJFrameMessage.ScrollTextArea extends javax.swing.JScrollPane implements Serializable

serialVersionUID:

3869765356771292936L

Serialized Fields

maxLinesListener

MaximumLinesDocumentListener maxLinesListener

tArea

javax.swing.JTextArea tArea

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJFrameMessageGraph extends javax.swing.JFrame implements Serializable

serialVersionUID:

-3229727417859189823L

Serialized Fields

debugArea

javax.swing.JTextArea debugArea

DOCUMENT ME!

debugSPane

javax.swing.JScrollPane debugSPane

DOCUMENT ME!

font12

java.awt.Font font12

DOCUMENT ME!

font12B

java.awt.Font font12B

DOCUMENT ME!

frameInsets

java.awt.Insets frameInsets

DOCUMENT ME!

menu

javax.swing.JMenuBar menu

DOCUMENT ME!

tBar

javax.swing.JToolBar tBar

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJFrameMultimodalitySingleViewer extends ViewJFrameTriImage implements Serializable

Serialized Fields

blackImage

javax.swing.ImageIcon blackImage

comboBoxImage

javax.swing.JComboBox comboBoxImage

cornerImage

javax.swing.ImageIcon cornerImage

currentFrame

ViewJFrameImage currentFrame

currentSlice

int currentSlice

imageActiveIndex

int imageActiveIndex

imageComp

ViewJComponentEditImage[] imageComp

imageFrame

ViewJFrameImage[] imageFrame

imageNames

java.lang.String[] imageNames

imageNamesIndex

int imageNamesIndex

images

ModelImage[] images

imagesChooser

javax.swing.JFileChooser imagesChooser

target image variables.

imageScroll

javax.swing.JScrollPane imageScroll

initZoomFactor

float initZoomFactor

label1

javax.swing.JLabel label1

label2

javax.swing.JLabel label2

label3

javax.swing.JLabel label3

label4

javax.swing.JLabel label4

label5

javax.swing.JLabel label5

label6

javax.swing.JLabel label6

label7

javax.swing.JLabel label7

label8

javax.swing.JLabel label8

leftPanel

javax.swing.JPanel leftPanel

lowerPanel

javax.swing.JPanel lowerPanel

origin

java.awt.Point origin

popup

javax.swing.JPopupMenu popup

pressed

boolean pressed

quadImagePanel

javax.swing.JPanel quadImagePanel

rightPanel

javax.swing.JPanel rightPanel

serif12

java.awt.Font serif12

serif12B

java.awt.Font serif12B

sliceNumCache

int sliceNumCache

slicesTextField

javax.swing.JTextField[] slicesTextField

sliderMax

javax.swing.JLabel[] sliderMax

sliderPanel

javax.swing.JPanel sliderPanel

topPanel

javax.swing.JPanel topPanel

UI

ViewUserInterface UI

The main user interface.

zDim

int[] zDim

zImageSlider

javax.swing.JSlider[] zImageSlider

Class gov.nih.mipav.view.ViewJFrameMultimodalityViewer extends ViewJFrameTriImage implements Serializable

Serialized Fields

currentFrame

ViewJFrameImage currentFrame

image1Slice

int image1Slice

imageActiveIndex

int imageActiveIndex

imageComp

ViewJComponentEditImage[] imageComp

imageFrame

ViewJFrameImage[] imageFrame

imageNames

java.lang.String[] imageNames

imageNamesIndex

int imageNamesIndex

images

ModelImage[] images

imagesChooser

javax.swing.JFileChooser imagesChooser

target image variables.

imageScroll

javax.swing.JScrollPane[] imageScroll

label5

javax.swing.JLabel label5

namesTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> namesTable

origin

java.awt.Point origin

popup

javax.swing.JPopupMenu popup

quadImagePanel

javax.swing.JPanel[] quadImagePanel

splitPaneCenter

javax.swing.JSplitPane splitPaneCenter

splitPaneLower

javax.swing.JSplitPane splitPaneLower

splitPaneUpper

javax.swing.JSplitPane splitPaneUpper

UI

ViewUserInterface UI

The main user interface.

zDim

int zDim

zOffset

int zOffset

Class gov.nih.mipav.view.ViewJFramePaintVasculature extends ViewJFrameBase implements Serializable

serialVersionUID:

1332576394417707204L

Serialized Fields

componentImage

ViewJComponentEditImage componentImage

Display of the MIP image.

fudgeFactor

int fudgeFactor

Frame adjustment to keep the frame from being just small enough for the ScrollPane to display the scroll bars. Windows seems to find an inset value needing a fudge factor of 3, but Mac OS 10 (X), doesn't, and needs a fudge factor of 7 to not require scroll bars. Either way, insets + fudge-factor must equal 7.

heightResFactor

float heightResFactor

Storage for correction parameters where datasets have non isotropic values.

imageBuffer

float[] imageBuffer

Buffer used to store image intensities the presently viewed slice of image.

logMagDisplay

boolean logMagDisplay

Flag indicating whether or not that the image should be displayed in Log scale. Used primarily for displaying the FFT of an image.

mipBuffer

float[] mipBuffer

Buffer to store the MIP image that results from the raytrace.

mipExtents

int[] mipExtents

The dimensions of the MIP image.

mipImage

ModelImage mipImage

MIP image generated from the volume.

mipZTable

java.util.Hashtable<java.lang.Integer,java.lang.Float> mipZTable

Table which holds the z coordinate on the 3D volume for a point (x,y) on the 2D MIP image.

paintDialog

JDialogPaintVasculature paintDialog

Dialog to facilitate vasculature painting.

parent

ViewJFrameBase parent

Parent frame of this frame.

pixBuffer

int[] pixBuffer

Integer buffer (4 bytes that stores the concatenated Alpha (1 byte), Red (1 byte), Green ( 1 byte ), Blue (1 byte ) data. The ARGB values are generated by using the mipImage intensities as a index into a LUT.

resols

float[] resols

Storage of the image voxel resolutions. One resolution value per dimension.

scrollPane

javax.swing.JScrollPane scrollPane

The scrollPane where the image is displayed.

seedPoints

VOI seedPoints

VOI containing the possible seed points.

units

int[] units

Storage of the resolution units of measure. For example, mm, cm, inches ...

widthResFactor

float widthResFactor

Storage for correction parameters where datasets have non isotropic values.

xScreen

int xScreen

Width of the display screen.

yScreen

int yScreen

Height of the display screen.

zoom

float zoom

Defaults magnification of image to 1.

Class gov.nih.mipav.view.ViewJFrameRegisteredImages extends javax.swing.JFrame implements Serializable

serialVersionUID:

-4417297294466318211L

Serialized Fields

callFrameDeleteAllButton

javax.swing.JButton callFrameDeleteAllButton

Buttons for dealing with frame deletion.

callFrameDeleteButton

javax.swing.JButton callFrameDeleteButton

Buttons for dealing with frame deletion.

callFrameToFrontButton

javax.swing.JButton callFrameToFrontButton

Button for bringing frame to front

callGCButton

javax.swing.JButton callGCButton

Button for dealing with garbage collection

callImageDeleteAllButton

javax.swing.JButton callImageDeleteAllButton

Buttons for dealing with image deletions

callImageDeleteButton

javax.swing.JButton callImageDeleteButton

Buttons for dealing with image deletions

imageList

javax.swing.JList imageList

The list of images and frames

pauseButton

javax.swing.JButton pauseButton

Button for pausing updating of currently registered images

paused

boolean paused

Whether currently registered images list is updating

sampleRate

javax.swing.JTextField sampleRate

The rate at which to update imageList

scrollPane

javax.swing.JScrollPane scrollPane

The scroll pane containing the image list

surf

ImageRegistryMonitor surf

thread to watch image registry.

UI

ViewUserInterface UI

The current user interface

Class gov.nih.mipav.view.ViewJFrameRegistration extends ViewJFrameBase implements Serializable

serialVersionUID:

229266911029610324L

Serialized Fields

adjMark

int adjMark

DOCUMENT ME!

adjMarkButton

javax.swing.JToggleButton adjMarkButton

DOCUMENT ME!

adjMarkMinusButton

javax.swing.JButton adjMarkMinusButton

DOCUMENT ME!

algoCost

AlgorithmCostFunctions2D algoCost

alphaSlider

javax.swing.JSlider alphaSlider

DOCUMENT ME!

bufferFactor

int bufferFactor

DOCUMENT ME!

bufferSize

int bufferSize

DOCUMENT ME!

buttonArray

javax.swing.JButton[] buttonArray

DOCUMENT ME!

calculateCostButton

javax.swing.JButton calculateCostButton

ccwButton

javax.swing.JButton ccwButton

DOCUMENT ME!

componentImage

ViewJComponentRegistration componentImage

DOCUMENT ME!

componentY

int componentY

DOCUMENT ME!

controlPanel

javax.swing.JPanel controlPanel

DOCUMENT ME!

controls

ViewControlsImage controls

DOCUMENT ME!

costFunctionScrollPane

javax.swing.JScrollPane costFunctionScrollPane

Scroll Pane for the Text Area

costFunctionTextArea

javax.swing.JTextArea costFunctionTextArea

cpGBC

java.awt.GridBagConstraints cpGBC

DOCUMENT ME!

cpGBL

java.awt.GridBagLayout cpGBL

DOCUMENT ME!

curAdjMark

int curAdjMark

DOCUMENT ME!

curRefMark

int curRefMark

DOCUMENT ME!

cwButton

javax.swing.JButton cwButton

DOCUMENT ME!

defaultModeButton

javax.swing.JToggleButton defaultModeButton

DOCUMENT ME!

degreeIncrement

float degreeIncrement

DOCUMENT ME!

degreeIncrementButton

javax.swing.JButton degreeIncrementButton

DOCUMENT ME!

doDrag

boolean doDrag

DOCUMENT ME!

doneLeastSquares

boolean doneLeastSquares

DOCUMENT ME!

doRegionB

boolean doRegionB

DOCUMENT ME!

downButton

javax.swing.JButton downButton

DOCUMENT ME!

dragButton

javax.swing.JToggleButton dragButton

DOCUMENT ME!

etchedBorder

javax.swing.border.Border etchedBorder

DOCUMENT ME!

extents

int[] extents

DOCUMENT ME!

fileMenu

javax.swing.JMenu fileMenu

DOCUMENT ME!

font12

java.awt.Font font12

DOCUMENT ME!

gbc

java.awt.GridBagConstraints gbc

DOCUMENT ME!

haveVOIPoints

boolean haveVOIPoints

DOCUMENT ME!

helpMenu

javax.swing.JMenu helpMenu

DOCUMENT ME!

i

int i

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

imageBufferA

float[] imageBufferA

DOCUMENT ME!

imageBufferB

float[] imageBufferB

DOCUMENT ME!

imageBufferOriginalB

float[] imageBufferOriginalB

DOCUMENT ME!

imageSize

int imageSize

DOCUMENT ME!

itemClose

javax.swing.JMenuItem itemClose

DOCUMENT ME!

itemHelp

javax.swing.JMenuItem itemHelp

DOCUMENT ME!

j

int j

DOCUMENT ME!

labelAdjustedSlice

javax.swing.JLabel labelAdjustedSlice

DOCUMENT ME!

labelReferenceSlice

javax.swing.JLabel labelReferenceSlice

DOCUMENT ME!

labelTable

java.util.Hashtable<java.lang.Integer,javax.swing.JLabel> labelTable

DOCUMENT ME!

labelTable2

java.util.Hashtable<java.lang.Integer,javax.swing.JLabel> labelTable2

DOCUMENT ME!

leftButton

javax.swing.JButton leftButton

DOCUMENT ME!

logMagDisplay

boolean logMagDisplay

DOCUMENT ME!

markerType

int[] markerType

DOCUMENT ME!

minimumToolBarWidth

int minimumToolBarWidth

DOCUMENT ME!

mode

int mode

DOCUMENT ME!

movementGroup

javax.swing.ButtonGroup movementGroup

DOCUMENT ME!

n

int n

DOCUMENT ME!

newAlphaBlend

int newAlphaBlend

DOCUMENT ME!

newExtents

int[] newExtents

DOCUMENT ME!

nImage

int nImage

DOCUMENT ME!

nVOI

int nVOI

DOCUMENT ME!

openingMenuBar

javax.swing.JMenuBar openingMenuBar

DOCUMENT ME!

pixBuffer

int[] pixBuffer

DOCUMENT ME!

pixBufferB

int[] pixBufferB

DOCUMENT ME!

pixelIncrement

float pixelIncrement

DOCUMENT ME!

pixelIncrementButton

javax.swing.JButton pixelIncrementButton

DOCUMENT ME!

pointSetA

double[][] pointSetA

DOCUMENT ME!

pointSetB

double[][] pointSetB

DOCUMENT ME!

refMark

int refMark

DOCUMENT ME!

refMarkButton

javax.swing.JToggleButton refMarkButton

DOCUMENT ME!

refMarkMinusButton

javax.swing.JButton refMarkMinusButton

DOCUMENT ME!

rightButton

javax.swing.JButton rightButton

DOCUMENT ME!

rotateButton

javax.swing.JToggleButton rotateButton

DOCUMENT ME!

scrollPane

javax.swing.JScrollPane scrollPane

DOCUMENT ME!

scrollPaneSize

int scrollPaneSize

DOCUMENT ME!

secondImage

ModelImage secondImage

DOCUMENT ME!

serif12

java.awt.Font serif12

DOCUMENT ME!

simpleImg1

ModelSimpleImage simpleImg1

Holds extents, other info about firstImage and SecondImage

simpleImg2

ModelSimpleImage simpleImg2

Holds extents, other info about firstImage and SecondImage

slider

javax.swing.JSlider slider

DOCUMENT ME!

slider2

javax.swing.JSlider slider2

DOCUMENT ME!

textAdjustedSlice

javax.swing.JTextField textAdjustedSlice

DOCUMENT ME!

textReferenceSlice

javax.swing.JTextField textReferenceSlice

DOCUMENT ME!

tMatrix

TransMatrix tMatrix

Identity matrix for testing cost

toggleArray

javax.swing.JToggleButton[] toggleArray

DOCUMENT ME!

toolBar

javax.swing.JToolBar toolBar

DOCUMENT ME!

toolBar2

javax.swing.JToolBar toolBar2

DOCUMENT ME!

topPanel

javax.swing.JPanel topPanel

DOCUMENT ME!

translateButton

javax.swing.JToggleButton translateButton

DOCUMENT ME!

upButton

javax.swing.JButton upButton

DOCUMENT ME!

voi

VOI voi

DOCUMENT ME!

voiManager

VOIManagerInterface voiManager

VOIPoints

java.util.Vector<WildMagic.LibFoundation.Mathematics.Vector3f> VOIPoints

DOCUMENT ME!

xDim

int xDim

DOCUMENT ME!

xfrm

TransMatrix xfrm

DOCUMENT ME!

xfrmBA

TransMatrix xfrmBA

DOCUMENT ME!

xfrmD

TransMatrix xfrmD

DOCUMENT ME!

xfrmH

TransMatrix xfrmH

DOCUMENT ME!

xOrg

int[] xOrg

DOCUMENT ME!

xPres

int[] xPres

DOCUMENT ME!

xRes

float xRes

DOCUMENT ME!

xRotation

float xRotation

DOCUMENT ME!

xScreen

int xScreen

DOCUMENT ME!

yDim

int yDim

DOCUMENT ME!

yOrg

int[] yOrg

DOCUMENT ME!

yPres

int[] yPres

DOCUMENT ME!

yRes

float yRes

DOCUMENT ME!

yRotation

float yRotation

DOCUMENT ME!

yScreen

int yScreen

DOCUMENT ME!

zLastSlice

int zLastSlice

DOCUMENT ME!

zLastSlice2

int zLastSlice2

DOCUMENT ME!

zoom

float zoom

DOCUMENT ME!

zSlice

int zSlice

DOCUMENT ME!

zSlice2

int zSlice2

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJFrameRegistrationTool extends ViewJFrameBase implements Serializable

serialVersionUID:

5476210706978180244L

Serialized Fields

adjMark

int adjMark

DOCUMENT ME!

adjMarkButton

javax.swing.JToggleButton adjMarkButton

DOCUMENT ME!

adjMarkMinusButton

javax.swing.JButton adjMarkMinusButton

DOCUMENT ME!

algoCost

AlgorithmCostFunctions2D algoCost

alphaSlider

javax.swing.JSlider alphaSlider

DOCUMENT ME!

bothPanel

javax.swing.JPanel bothPanel

DOCUMENT ME!

bufferFactor

int bufferFactor

DOCUMENT ME!

bufferSize

int bufferSize

DOCUMENT ME!

buttonArray

javax.swing.JButton[] buttonArray

DOCUMENT ME!

calculateCostButton

javax.swing.JButton calculateCostButton

ccwButton

javax.swing.JButton ccwButton

DOCUMENT ME!

componentImage

ViewJComponentRegistration componentImage

for both images displayed together.

componentImageA

ViewJComponentSingleRegistration componentImageA

for images to be displayed separately.

componentImageB

ViewJComponentSingleRegistration componentImageB

DOCUMENT ME!

controlPanel

javax.swing.JPanel controlPanel

DOCUMENT ME!

controls

ViewControlsImage controls

DOCUMENT ME!

copyAdjToRefButton

javax.swing.JButton copyAdjToRefButton

DOCUMENT ME!

copyRefToAdjButton

javax.swing.JButton copyRefToAdjButton

DOCUMENT ME!

costFunctionScrollPane

javax.swing.JScrollPane costFunctionScrollPane

Scroll Pane for the Text Area

costFunctionTextArea

javax.swing.JTextArea costFunctionTextArea

cpGBC

java.awt.GridBagConstraints cpGBC

DOCUMENT ME!

cpGBL

java.awt.GridBagLayout cpGBL

DOCUMENT ME!

curAdjMark

int curAdjMark

DOCUMENT ME!

curRefMark

int curRefMark

DOCUMENT ME!

cwButton

javax.swing.JButton cwButton

DOCUMENT ME!

defaultModeButton

javax.swing.JToggleButton defaultModeButton

DOCUMENT ME!

degreeIncrement

float degreeIncrement

DOCUMENT ME!

degreeIncrementButton

javax.swing.JButton degreeIncrementButton

DOCUMENT ME!

doDrag

boolean doDrag

DOCUMENT ME!

doneLeastSquares

boolean doneLeastSquares

DOCUMENT ME!

doRegionB

boolean doRegionB

DOCUMENT ME!

downButton

javax.swing.JButton downButton

DOCUMENT ME!

etchedBorder

javax.swing.border.Border etchedBorder

DOCUMENT ME!

extents

int[] extents

DOCUMENT ME!

fileMenu

javax.swing.JMenu fileMenu

DOCUMENT ME!

firstDraw

boolean firstDraw

DOCUMENT ME!

font12

java.awt.Font font12

DOCUMENT ME!

gbc

java.awt.GridBagConstraints gbc

DOCUMENT ME!

helpMenu

javax.swing.JMenu helpMenu

DOCUMENT ME!

i

int i

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

imageBufferA

float[] imageBufferA

DOCUMENT ME!

imageBufferB

float[] imageBufferB

DOCUMENT ME!

imageBufferOriginalB

float[] imageBufferOriginalB

DOCUMENT ME!

imageSize

int imageSize

DOCUMENT ME!

itemClose

javax.swing.JMenuItem itemClose

DOCUMENT ME!

itemHelp

javax.swing.JMenuItem itemHelp

DOCUMENT ME!

j

int j

DOCUMENT ME!

leftButton

javax.swing.JButton leftButton

DOCUMENT ME!

logMagDisplay

boolean logMagDisplay

DOCUMENT ME!

lsPerformed

boolean lsPerformed

DOCUMENT ME!

mode

int mode

DOCUMENT ME!

movementGroup

javax.swing.ButtonGroup movementGroup

DOCUMENT ME!

n

int n

DOCUMENT ME!

newAlphaBlend

int newAlphaBlend

DOCUMENT ME!

newExtents

int[] newExtents

DOCUMENT ME!

openingMenuBar

javax.swing.JMenuBar openingMenuBar

DOCUMENT ME!

pixBuffer

int[] pixBuffer

DOCUMENT ME!

pixBufferB

int[] pixBufferB

DOCUMENT ME!

pixBufferCompA

int[] pixBufferCompA

DOCUMENT ME!

pixBufferCompB

int[] pixBufferCompB

DOCUMENT ME!

pixelIncrement

float pixelIncrement

DOCUMENT ME!

pixelIncrementButton

javax.swing.JButton pixelIncrementButton

DOCUMENT ME!

pointSetA

double[][] pointSetA

DOCUMENT ME!

pointSetB

double[][] pointSetB

DOCUMENT ME!

pointSetBT

double[][] pointSetBT

DOCUMENT ME!

refMark

int refMark

DOCUMENT ME!

refMarkButton

javax.swing.JToggleButton refMarkButton

DOCUMENT ME!

refMarkMinusButton

javax.swing.JButton refMarkMinusButton

DOCUMENT ME!

regButton

javax.swing.JToggleButton regButton

DOCUMENT ME!

RGBa

ModelRGB RGBa

DOCUMENT ME!

RGBb

ModelRGB RGBb

DOCUMENT ME!

rightButton

javax.swing.JButton rightButton

DOCUMENT ME!

rotateButton

javax.swing.JToggleButton rotateButton

DOCUMENT ME!

scrollPane

javax.swing.JScrollPane scrollPane

DOCUMENT ME!

scrollPaneSeparateA

javax.swing.JScrollPane scrollPaneSeparateA

DOCUMENT ME!

scrollPaneSeparateB

javax.swing.JScrollPane scrollPaneSeparateB

DOCUMENT ME!

scrollPaneSize

int scrollPaneSize

DOCUMENT ME!

secondImage

ModelImage secondImage

DOCUMENT ME!

separatePanel

javax.swing.JPanel separatePanel

DOCUMENT ME!

serif12

java.awt.Font serif12

DOCUMENT ME!

showVOIs

javax.swing.JCheckBoxMenuItem showVOIs

DOCUMENT ME!

simpleImg1

ModelSimpleImage simpleImg1

Holds extents, other info about firstImage and SecondImage

simpleImg2

ModelSimpleImage simpleImg2

Holds extents, other info about firstImage and SecondImage

tabbedPane

javax.swing.JTabbedPane tabbedPane

DOCUMENT ME!

tMatrix

TransMatrix tMatrix

Identity matrix for testing cost

toggleArray

javax.swing.JToggleButton[] toggleArray

DOCUMENT ME!

toolBar

javax.swing.JToolBar toolBar

DOCUMENT ME!

toolBar2

javax.swing.JToolBar toolBar2

DOCUMENT ME!

toolBarSep

javax.swing.JToolBar toolBarSep

DOCUMENT ME!

topPanel

javax.swing.JPanel topPanel

DOCUMENT ME!

translateButton

javax.swing.JToggleButton translateButton

DOCUMENT ME!

upButton

javax.swing.JButton upButton

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

voiManager

VOIManagerInterface voiManager

xCoords

int[] xCoords

DOCUMENT ME!

xDim

int xDim

DOCUMENT ME!

xfrm

TransMatrix xfrm

DOCUMENT ME!

xfrmBA

TransMatrix xfrmBA

DOCUMENT ME!

xfrmD

TransMatrix xfrmD

DOCUMENT ME!

xfrmH

TransMatrix xfrmH

DOCUMENT ME!

xOrg

int[] xOrg

DOCUMENT ME!

xRes

float xRes

DOCUMENT ME!

xRotation

float xRotation

DOCUMENT ME!

xScreen

int xScreen

DOCUMENT ME!

yCoords

int[] yCoords

DOCUMENT ME!

yDim

int yDim

DOCUMENT ME!

yOrg

int[] yOrg

DOCUMENT ME!

yRes

float yRes

DOCUMENT ME!

yRotation

float yRotation

DOCUMENT ME!

yScreen

int yScreen

DOCUMENT ME!

zoom

float zoom

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJFrameTriImage extends ViewJFrameBase implements Serializable

serialVersionUID:

-7588617549055746009L

Serialized Fields

addPointToggleButton

javax.swing.JToggleButton addPointToggleButton

Toggle buttons for voi/points

bogusBorderPaintButton

javax.swing.JToggleButton bogusBorderPaintButton

borderPaintButton

javax.swing.JToggleButton borderPaintButton

btnInvisible

javax.swing.JToggleButton[] btnInvisible

DOCUMENT ME!

bufferFactor

int bufferFactor

1 for black and white, 4 for color.

centerButtonSelected

boolean centerButtonSelected

DOCUMENT ME!

chkShowTalairachGrid

javax.swing.JCheckBox chkShowTalairachGrid

"Show talairach grid" checkbox.

chkShowTalairachGridMarkers

javax.swing.JCheckBox chkShowTalairachGridMarkers

"Show talairach gridmarkers" checkbox.

color

java.awt.Color color

Color of the paint.

colorChooser

ViewJColorChooser colorChooser

Color chooser to use when selecting paint color.

colorPaintButton

javax.swing.JButton colorPaintButton

Button for changing the color of the paint.

controls

ViewControlsImage controls

Used to obtain initial paint opacity and color.

coordinateListeners

java.util.Vector<CoordinateChangeListener> coordinateListeners

A list of CoordinateChangeListeners who want to know about changes to the coordinate currently pointed to by the tri-image frame's crosshairs.

crosshairSpinner

javax.swing.JSpinner crosshairSpinner

Spinner component for the crosshair gap size.

currentAbsolutePositionLabels

Point3D currentAbsolutePositionLabels

The current values of the absolute position labels.

currentOrientation

int currentOrientation

defaultPreferredHeight

int defaultPreferredHeight

The default hight of the window, if it cannot be calculated.

dropperPaintToggleButton

javax.swing.JToggleButton dropperPaintToggleButton

Toggle buttons for voi/points

extents

int[] extents

Extents of image.

imageAlignToolBar

javax.swing.JToolBar imageAlignToolBar

imageToolBar

javax.swing.JToolBar imageToolBar

Image control toolbar.

indivMagButton

javax.swing.JToggleButton indivMagButton

refs to indiviadual frame zooming in and out buttons.

indivMinButton

javax.swing.JToggleButton indivMinButton

refs to indiviadual frame zooming in and out buttons.

intensitySpinner

javax.swing.JSpinner intensitySpinner

Spinner component for the paint intensity.

iTalLabel

javax.swing.JLabel iTalLabel

talaraich intensity label*

labelXTal

javax.swing.JTextField labelXTal

Label the Talairach position x value in the image volume.

labelYTal

javax.swing.JTextField labelYTal

Label the Talairach position y value in the image volume.

labelZTal

javax.swing.JTextField labelZTal

Label the Talairach position z value in the image volume.

leastSquaresButton

javax.swing.JButton leastSquaresButton

DOCUMENT ME!

magButton

javax.swing.JButton magButton

refs to the magnify and minimize button.*

menuObj

ViewMenuBuilder menuObj

Menu items storage.

minButton

javax.swing.JButton minButton

refs to the magnify and minimize button.*

oldLayout

boolean oldLayout

DOCUMENT ME!

OPACITY

float OPACITY

Opacity of paint.

paintBox

javax.swing.JComboBox paintBox

Box holding the list of available paint brushes.

paintBrushLocked

boolean paintBrushLocked

used with the above to say the paint brush has been changed, waiting to change back.

paintBrushNames

java.lang.String[] paintBrushNames

List of built-in and user-defined paint brushes.

paintCanToggleButton

javax.swing.JToggleButton paintCanToggleButton

Toggle buttons for voi/points

paintToolBar

javax.swing.JToolBar paintToolBar

Paint tool bar.

panelActiveImage

javax.swing.JPanel panelActiveImage

Panel for deciding which image is active; appears when 2 images are loaded.

panelToolbar

javax.swing.JPanel panelToolbar

Panel that holds the toolbars.

panelToolBarGBC

java.awt.GridBagConstraints panelToolBarGBC

parentFrame

ViewJFrameImage parentFrame

Reference to the parent window.

pluginPanel

java.awt.Component pluginPanel

Reference to the plug-in panel in the 2x2 (old) layout.

quickPaintBrushIndex

int quickPaintBrushIndex

int used for quick-key painting for speedier paint brush access.

radioImageA

javax.swing.JRadioButton radioImageA

Radio button for selecting image A as active.

radioImageB

javax.swing.JRadioButton radioImageB

Radio button for selecting image B as active.

radioImageBoth

javax.swing.JRadioButton radioImageBoth

Radio button for selecting both images as active.

resols

float[] resols

Resolutions of image.

RGBTa

ModelRGB RGBTa

RGB tables for imageA and imageB

RGBTb

ModelRGB RGBTb

RGB tables for imageA and imageB

scrollButton

javax.swing.JCheckBox scrollButton

The button that indicates whether this triframe is linked with tri-frames of similar dimensionality.

scrollOriginalCrosshair

boolean scrollOriginalCrosshair

Flag telling the crosshair movement to update slice in original image frame.

scrollPane

javax.swing.JScrollPane[] scrollPane

DOCUMENT ME!

showTalairachGrid

boolean showTalairachGrid

Flag for showing the Talairach grid on the component images.

showTalairachPosition

boolean showTalairachPosition

Flag for showing the Talairach position on the component images.

spinnerDefaultValue

double spinnerDefaultValue

Used to setup the paint spinner.

spinnerMax

double spinnerMax

Used to setup the paint spinner.

spinnerMin

double spinnerMin

Used to setup the paint spinner.

spinnerStep

double spinnerStep

Used to setup the paint spinner.

talairachPanel

javax.swing.JPanel talairachPanel

Panel for Talairach position display.

tDim

int tDim

Time dimension of the original image.

tImageSlider

javax.swing.JSlider tImageSlider

Slider for 4D images, time dimension.

toolbarBuilder

ViewToolBarBuilder toolbarBuilder

Toolbar builder reference.

tpSplineButton

javax.swing.JButton tpSplineButton

DOCUMENT ME!

traverseButton

javax.swing.JToggleButton traverseButton

Button for traversing the images.

triImage

ViewJComponentTriImage[] triImage

DOCUMENT ME!

triImagePanel

javax.swing.JPanel[] triImagePanel

DOCUMENT ME!

tSlice

int tSlice

Time slice that this image is on.

tTalVoxLabel

javax.swing.JLabel tTalVoxLabel

talairach voxel label *

units

int[] units

Units of image - mm, inches, etc.

useInfNew

boolean useInfNew

if true use cerebellum-adjusted static variable.

viewPanel

javax.swing.JPanel viewPanel

Panel for switching between radiological and neurological viewing conventions.

VOIGroup

javax.swing.ButtonGroup VOIGroup

voiManager

VOIManagerInterface voiManager

The VOI managers for each triComponent

voiMenu

javax.swing.JMenu voiMenu

Menu displaying VOI options

volumeBounds

CubeBounds volumeBounds

Volume Boundary may be changed for cropping the volume.

volumeCenter

int[] volumeCenter

The point to become center of transformed image.

volumePositionFrame

VolumePositionFrame volumePositionFrame

Reference to the volume coordinate frame.

volumePositionPanel

javax.swing.JPanel volumePositionPanel

Reference to the volume coordinate panel when it is in the plug-in position.

xTalLabel

javax.swing.JLabel xTalLabel

yTalLabel

javax.swing.JLabel yTalLabel

zoom

float zoom

Magnification for image.

zTalLabel

javax.swing.JLabel zTalLabel

Class gov.nih.mipav.view.ViewJPanelHistoLUT extends javax.swing.JPanel implements Serializable

serialVersionUID:

-3873204112932340987L

Serialized Fields

colorChooser

ViewJColorChooser colorChooser

The LUT color chooser.

componentHistogram

ViewJComponentHLUTBase componentHistogram

The histogram LUT of the image. The square one.

componentLUT

ViewJComponentLUT componentLUT

Lookup table of image. The narrow rectangular one.

histogram

ModelHistogram histogram

Model histogram.

histoLUTType

int histoLUTType

The type of histogram component to show.

image

ModelImage image

The image.

lut

ModelLUT lut

The grayscale lookup table for the image.

LUTIndex

int LUTIndex

The LUT index used when chaning the LUT color by clicking on the ViewJComponentLUT.

lutRecorder

JDialogRecordLUT lutRecorder

LUT recorder.

parent

HistoLUTParent parent

The component containing this panel.

RGBT

ModelRGB RGBT

The RGB lookup table.

Class gov.nih.mipav.view.ViewJPanelLUT extends javax.swing.JPanel implements Serializable

serialVersionUID:

-1769974472965867218L

Serialized Fields

ctDialogA

JDialogCT ctDialogA

Deprecated.

DOCUMENT ME!

ctDialogB

JDialogCT ctDialogB

Deprecated.

DOCUMENT ME!

cursorIndex

int cursorIndex

Deprecated.

Active mouse cursor index of the imageA, B and GM image A, B.

cursorIndexB

int cursorIndexB

Deprecated.

Active mouse cursor index of the imageA, B and GM image A, B.

entireFlag

boolean entireFlag

Deprecated.

DOCUMENT ME!

histogramA

ModelHistogram histogramA

Deprecated.

DOCUMENT ME!

histogramB

ModelHistogram histogramB

Deprecated.

DOCUMENT ME!

histoPanelA

ViewJPanelHistoLUT histoPanelA

Deprecated.

DOCUMENT ME!

histoPanelB

ViewJPanelHistoLUT histoPanelB

Deprecated.

DOCUMENT ME!

indexColorATextF

javax.swing.JTextField indexColorATextF

Deprecated.

DOCUMENT ME!

indexColorBTextF

javax.swing.JTextField indexColorBTextF

Deprecated.

DOCUMENT ME!

interpCheckBoxA

javax.swing.JCheckBox interpCheckBoxA

Deprecated.

DOCUMENT ME!

interpCheckBoxB

javax.swing.JCheckBox interpCheckBoxB

Deprecated.

DOCUMENT ME!

labelsTable

java.util.Hashtable<java.lang.Integer,javax.swing.JLabel> labelsTable

Deprecated.

Histogram dialog slider labels of the imageA, B and GM imageA, B.

labelsTableB

java.util.Hashtable<java.lang.Integer,javax.swing.JLabel> labelsTableB

Deprecated.

Histogram dialog slider labels of the imageA, B and GM imageA, B.

logCheckBoxA

javax.swing.JCheckBox logCheckBoxA

Deprecated.

DOCUMENT ME!

logCheckBoxB

javax.swing.JCheckBox logCheckBoxB

Deprecated.

DOCUMENT ME!

mouseLabel

javax.swing.JLabel mouseLabel

Deprecated.

The opacity slider label.

mouseLabelB

javax.swing.JLabel mouseLabelB

Deprecated.

The opacity slider label.

mouseSlider

javax.swing.JSlider mouseSlider

Deprecated.

Opacity X scale sliders.

mouseSliderB

javax.swing.JSlider mouseSliderB

Deprecated.

Opacity X scale sliders.

mouseSliderLabels

javax.swing.JLabel[] mouseSliderLabels

Deprecated.

The labels below the opacity slider.

mouseSliderLabelsB

javax.swing.JLabel[] mouseSliderLabelsB

Deprecated.

The labels below the opacity slider.

nColorsATextF

javax.swing.JTextField nColorsATextF

Deprecated.

DOCUMENT ME!

nColorsBTextF

javax.swing.JTextField nColorsBTextF

Deprecated.

DOCUMENT ME!

oneBasedLUTCheckBoxImageB

javax.swing.JCheckBox oneBasedLUTCheckBoxImageB

Deprecated.

DOCUMENT ME!

outputBox

javax.swing.JComboBox outputBox

Deprecated.

DOCUMENT ME!

outputBoxB

javax.swing.JComboBox outputBoxB

Deprecated.

DOCUMENT ME!

panelA

javax.swing.JPanel panelA

Deprecated.

DOCUMENT ME!

panelB

javax.swing.JPanel panelB

Deprecated.

DOCUMENT ME!

panelParent

ViewJFrameHistoLUT panelParent

Deprecated.

DOCUMENT ME!

rangeText

javax.swing.JTextField rangeText

Deprecated.

X range text field in the imageA, B histogram dialog.

rangeTextB

javax.swing.JTextField rangeTextB

Deprecated.

X range text field in the imageA, B histogram dialog.

rangeX

float rangeX

Deprecated.

X range value of the imageA, B and GM imageA, B.

rangeXB

float rangeXB

Deprecated.

X range value of the imageA, B and GM imageA, B.

scaleRangeA

int scaleRangeA

Deprecated.

Scale range value according to the image min and max.

scaleRangeB

int scaleRangeB

Deprecated.

Scale range value according to the image min and max.

tabbedPane

javax.swing.JTabbedPane tabbedPane

Deprecated.

DOCUMENT ME!

threshFillBF

javax.swing.JTextField threshFillBF

Deprecated.

DOCUMENT ME!

threshFillF

javax.swing.JTextField threshFillF

Deprecated.

threshold related.

threshLowerBF

javax.swing.JTextField threshLowerBF

Deprecated.

DOCUMENT ME!

threshLowerF

javax.swing.JTextField threshLowerF

Deprecated.

threshold related.

threshUpperBF

javax.swing.JTextField threshUpperBF

Deprecated.

DOCUMENT ME!

threshUpperF

javax.swing.JTextField threshUpperF

Deprecated.

threshold related.

toolBarBottom

javax.swing.JToolBar toolBarBottom

Deprecated.

DOCUMENT ME!

toolBarCenter

javax.swing.JToolBar toolBarCenter

Deprecated.

center toolbar

toolBarObj

ViewToolBarBuilder toolBarObj

Deprecated.

DOCUMENT ME!

toolBarThreshold

javax.swing.JToolBar toolBarThreshold

Deprecated.

DOCUMENT ME!

toolBarTop

javax.swing.JToolBar toolBarTop

Deprecated.

DOCUMENT ME!

updateCheckBoxA

javax.swing.JCheckBox updateCheckBoxA

Deprecated.

DOCUMENT ME!

updateCheckBoxB

javax.swing.JCheckBox updateCheckBoxB

Deprecated.

DOCUMENT ME!

voxelVolumeLabel

javax.swing.JLabel voxelVolumeLabel

Deprecated.

Used to display the volume or area of the voxels/pixels between the upper and lower bounds.

xRangeTextA

javax.swing.JTextField xRangeTextA

Deprecated.

X range text field in the imageA, B and GM image A, B histogram dialog. Following text fields are used by the tri-planar volume view.

xRangeTextB

javax.swing.JTextField xRangeTextB

Deprecated.

X range text field in the imageA, B and GM image A, B histogram dialog. Following text fields are used by the tri-planar volume view.

yRangeTextA

javax.swing.JTextField yRangeTextA

Deprecated.

Y range text field in the imageA, B and GM image A, B histogram dialog. Following text fields are used by the tri-planar volume view.

yRangeTextB

javax.swing.JTextField yRangeTextB

Deprecated.

Y range text field in the imageA, B and GM image A, B histogram dialog. Following text fields are used by the tri-planar volume view.

Class gov.nih.mipav.view.ViewJPopupPlugin extends javax.swing.JPanel implements Serializable

Serialized Fields

itemProps

javax.swing.JMenuItem itemProps

The uninstall menu item

pluginName

java.lang.String pluginName

String text of the button representing the plugin to be uninstalled.

popup

javax.swing.JPopupMenu popup

The stored popup menu

Class gov.nih.mipav.view.ViewJPopupPt extends javax.swing.JPanel implements Serializable

serialVersionUID:

393929198484576018L

Serialized Fields

itemShowGraph

javax.swing.JMenuItem itemShowGraph

DOCUMENT ME!

itemShowPAAIDialog

javax.swing.JMenuItem itemShowPAAIDialog

DOCUMENT ME!

propSubMenu

javax.swing.JMenu propSubMenu

DOCUMENT ME!

ptPopup

javax.swing.JPopupMenu ptPopup

DOCUMENT ME!

voiHandler

VOIHandlerInterface voiHandler

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJPopupVOI extends javax.swing.JPanel implements Serializable

serialVersionUID:

-7134535981914560813L

Serialized Fields

contourOrderSubMenu

javax.swing.JMenu contourOrderSubMenu

DOCUMENT ME!

editCircleDiameter

javax.swing.JMenuItem editCircleDiameter

editSquareLength

javax.swing.JMenuItem editSquareLength

editSubMenu

javax.swing.JMenu editSubMenu

DOCUMENT ME!

flipSubMenu

javax.swing.JMenu flipSubMenu

DOCUMENT ME!

graphSubMenu

javax.swing.JMenu graphSubMenu

DOCUMENT ME!

itemClose

javax.swing.JMenuItem itemClose

DOCUMENT ME!

itemCrop

javax.swing.JMenuItem itemCrop

DOCUMENT ME!

itemOutputDistance

javax.swing.JMenuItem itemOutputDistance

DOCUMENT ME!

itemProps

javax.swing.JMenuItem itemProps

DOCUMENT ME!

itemTrim

javax.swing.JMenuItem itemTrim

orderSubMenu

javax.swing.JMenu orderSubMenu

DOCUMENT ME!

popup

javax.swing.JPopupMenu popup

DOCUMENT ME!

propSubMenu

javax.swing.JMenu propSubMenu

DOCUMENT ME!

selectedVOI

VOIBase selectedVOI

selectionMenu

javax.swing.JMenu selectionMenu

DOCUMENT ME!

voiHandler

VOIHandlerInterface voiHandler

DOCUMENT ME!

Class gov.nih.mipav.view.ViewJProgressBar extends javax.swing.JFrame implements Serializable

serialVersionUID:

-4893646677987678693L

Serialized Fields

cancelButton

javax.swing.JButton cancelButton

Cancel button, if applicable.

messageLocked

boolean messageLocked

indicates if the message string (in the progress bar) is locked so that it wont be updated

messagePBar

javax.swing.JLabel messagePBar

Label directly above the bar that is updated during operation if necessary.

pBar

javax.swing.JProgressBar pBar

Actual bar which fills with color as the percentage of completion increases.

percentage

javax.swing.JLabel percentage

Percentage label, puts a number next to the bar with the actual percent completed.

readyToDispose

boolean readyToDispose

For users wanting to override the automatic closing option when progress reaches 100.

separateThread

boolean separateThread

DOCUMENT ME!

title

java.lang.String title

Title of the frame for the progress bar.

Class gov.nih.mipav.view.ViewJProgressBarMulti extends ViewJProgressBar implements Serializable

serialVersionUID:

1298459723854411415L

Serialized Fields

actionListener

java.awt.event.ActionListener actionListener

algCont

java.util.ArrayList<ViewJProgressBarMulti.AlgoContainer> algCont

List of containers that hold all the information to correctly draw each progress bar

algList

java.util.ArrayList<java.lang.Runnable> algList

List containing which runnables are registered to this listener

barPanel

javax.swing.JPanel barPanel

Panel containing all the progress bars as well as relevent text labels

cancelButton

javax.swing.JButton cancelButton

cancelFlag

boolean cancelFlag

closeList

java.util.ArrayList<javax.swing.JLabel> closeList

List to determine which progress bar to close

emptyDisplayed

boolean emptyDisplayed

Whether or not emptyLabel is currently displayed

emptyLabel

javax.swing.JLabel emptyLabel

Label to display when there are no runnables to display or listen for.

gbc

java.awt.GridBagConstraints gbc

hideList

java.util.ArrayList<javax.swing.JLabel> hideList

List to determine which progress bar to hide/show

messageLocked

boolean messageLocked

windowListener

java.awt.event.WindowListener windowListener

Class gov.nih.mipav.view.ViewJSlider extends javax.swing.JSlider implements Serializable

Serialized Fields

dim

java.awt.Dimension dim

Holds the old dimension to minimize redrawing of slider table

minAllowableMajorTickSpacing

double minAllowableMajorTickSpacing

minAllowableMinorTickSpacing

double minAllowableMinorTickSpacing

The closest number of pixels that major/minor ticks may be next to each other. Used to set GUI and create labels.

type

ViewJSlider.SliderType type

Refers to the type of slider being used by MIPAV

Class gov.nih.mipav.view.ViewMenuBuilder.QuickList extends javax.swing.JComponent implements Serializable

serialVersionUID:

-4787325627153954566L

Serialized Fields

listener

java.awt.event.ActionListener listener

DOCUMENT ME!

quickListItems

java.util.Vector<javax.swing.JMenuItem> quickListItems

DOCUMENT ME!

Class gov.nih.mipav.view.ViewOpenImageSequence extends javax.swing.JFrame implements Serializable

serialVersionUID:

5007701357886039L

Serialized Fields

brightnessSlider

javax.swing.JSlider brightnessSlider

DOCUMENT ME!

cellRenderer

AlternatingTableCellRenderer cellRenderer

DOCUMENT ME!

channelMap

int[] channelMap

DOCUMENT ME!

chkForceUBYTE

javax.swing.JCheckBox chkForceUBYTE

DOCUMENT ME!

cmbFilter

javax.swing.JComboBox cmbFilter

DOCUMENT ME!

contrastSlider

javax.swing.JSlider contrastSlider

DOCUMENT ME!

CTZ

int CTZ

Int denoting CTZ sequence

currentPath

java.io.File currentPath

DOCUMENT ME!

CZT

int CZT

Int denoting CZT sequence

enableCheckbox

javax.swing.JCheckBox enableCheckbox

DOCUMENT ME!

fileListData

java.io.File[] fileListData

DOCUMENT ME!

filenameTable

javax.swing.JTable filenameTable

DOCUMENT ME!

filenameTableModel

SortingTableModel filenameTableModel

DOCUMENT ME!

filenameTableSorter

TableSorter filenameTableSorter

DOCUMENT ME!

lblOrigDim

javax.swing.JLabel lblOrigDim

DOCUMENT ME!

previewFilename

java.lang.String previewFilename

DOCUMENT ME!

previewPanel

javax.swing.JPanel previewPanel

DOCUMENT ME!

radCTZ

javax.swing.JRadioButton radCTZ

Radio button for CTZ sequence

radCZT

javax.swing.JRadioButton radCZT

Radio button for CZT sequence

radTCZ

javax.swing.JRadioButton radTCZ

Radio button for TCZ sequence

radTZC

javax.swing.JRadioButton radTZC

Radio button for TZC sequence

radZCT

javax.swing.JRadioButton radZCT

Radio button for ZCT sequence

radZTC

javax.swing.JRadioButton radZTC

Radio button for ZTC sequence

table

javax.swing.JTable table

DOCUMENT ME!

tableModel

UneditableTableModel tableModel

DOCUMENT ME!

TCZ

int TCZ

Int denoting TCZ sequence

txtChannels

javax.swing.JTextField txtChannels

DOCUMENT ME!

txtDirectory

javax.swing.JTextField txtDirectory

DOCUMENT ME!

txtHeight

javax.swing.JTextField txtHeight

DOCUMENT ME!

txtSlices

javax.swing.JTextField txtSlices

DOCUMENT ME!

txtTimePoints

javax.swing.JTextField txtTimePoints

DOCUMENT ME!

txtWidth

javax.swing.JTextField txtWidth

DOCUMENT ME!

TZC

int TZC

Int denoting TZC sequence

ZCT

int ZCT

Int denoting ZCT sequence

ZTC

int ZTC

Int denoting ZTC sequence

Class gov.nih.mipav.view.ViewSelectableDoubleListPanel extends javax.swing.JPanel implements Serializable

serialVersionUID:

-7066171606587907360L

Serialized Fields

btnAdd

javax.swing.JButton btnAdd

DOCUMENT ME!

btnRemove

javax.swing.JButton btnRemove

DOCUMENT ME!

gbConstraints

java.awt.GridBagConstraints gbConstraints

DOCUMENT ME!

gbLayout

java.awt.GridBagLayout gbLayout

DOCUMENT ME!

leftTable

javax.swing.JTable leftTable

DOCUMENT ME!

rightTable

javax.swing.JTable rightTable

DOCUMENT ME!

Class gov.nih.mipav.view.ViewSplashScreen extends javax.swing.JFrame implements Serializable

serialVersionUID:

924235664168779459L

Serialized Fields

image

java.awt.Image image

The splash screen image.

loadOK

boolean loadOK

Whether the splash screen was loaded from disk successfully.

Class gov.nih.mipav.view.ViewTableModel extends javax.swing.table.DefaultTableModel implements Serializable

serialVersionUID:

487484434950231158L

Class gov.nih.mipav.view.ViewToolBarBuilder extends java.lang.Object implements Serializable

Serialized Fields

bgVector

java.util.Vector<javax.swing.ButtonGroup> bgVector

Vector to hold all toggle groups for VOI toggle (and custom toggle configurations)

bogusBorderPaintButton

javax.swing.JToggleButton bogusBorderPaintButton

The button used to toggle borders around painted areas.

borderPaintButton

javax.swing.JToggleButton borderPaintButton

The button used to toggle borders around painted areas.

checkerBoardButton

javax.swing.JButton checkerBoardButton

The button used to enable checker board display of two images.

colorPaintButton

javax.swing.JButton colorPaintButton

The button used to select the color of the paint used.

ctButton

javax.swing.JButton ctButton

The button for presets used only for CT images.

currentScriptComboBox

javax.swing.JComboBox currentScriptComboBox

The combo box containing the possible choices for the current script in the script toolbar. Filled with entries from the currently selected "Scripting directory".

currentSelectedScript

java.lang.String currentSelectedScript

The script currently selected in the scripting toolbar (null if no script is selected).

intensitySpinner

javax.swing.JSpinner intensitySpinner

The spinner for indicating the intensity to fill the image with when commiting paint in an image.

intensityStep

double intensityStep

The amount to change the value in the intensity spinner by when the user clicks it.

intensityValue

double intensityValue

The current value chosen in the intensity spinner.

maxIntensity

double maxIntensity

The maximum value which can be chosen in the intensity spinner.

minIntensity

double minIntensity

The minimum value which can be chosen in the intensity spinner.

opacity

float opacity

The opacity of the paint, between 0 (transparent) and 1 (opaque). Set from the opacity dialog.

paintBox

javax.swing.JComboBox paintBox

Combo box to hold all of the paint brushes.

paintBrushButton

javax.swing.JToggleButton paintBrushButton

DOCUMENT ME!

paintBrushNames

java.lang.String[] paintBrushNames

DOCUMENT ME!

paintColor

java.awt.Color paintColor

The paint color to be used when the user paints in the image.

pointerVOIButton

javax.swing.JToggleButton pointerVOIButton

The button for the "default" mode of the mouse, where clicking in the image shows the intensity of that voxel.

popup

javax.swing.JPopupMenu popup

DOCUMENT ME!

popupListener

ViewToolBarBuilder.PopupListener popupListener

DOCUMENT ME!

regButton

javax.swing.JToggleButton regButton

The button used to enable the showing of a small portion of image b near the mouse cursor.

scriptTable

java.util.Hashtable<java.lang.String,java.lang.String> scriptTable

DOCUMENT ME!

scrollButton

javax.swing.JCheckBox scrollButton

syncImagesIcon

javax.swing.JButton syncImagesIcon

UI

java.lang.Object UI

The class which wants to listen to changes made to this components of the toolbars. May have to be a ActionListener, MouseListener, ChangeListener, or ViewJFrameBase depending on which toolbars are being used in a particular dialog or frame.

voiColorButton

ViewToolBarBuilder.VOIColorButton voiColorButton

VOIGroup

javax.swing.ButtonGroup VOIGroup

A button group for all toggle buttons which change the effect of mouse usage in the image.

voiRedoButton

javax.swing.JButton voiRedoButton

voiUndoButton

javax.swing.JButton voiUndoButton

Class gov.nih.mipav.view.ViewToolBarBuilder.JScriptToolBar extends javax.swing.JToolBar implements Serializable

serialVersionUID:

6205577015710803423L

Serialized Fields

recordScriptButton

javax.swing.JButton recordScriptButton

The recording button.

Class gov.nih.mipav.view.ViewToolBarBuilder.VOIColorButton extends javax.swing.JButton implements Serializable

Class gov.nih.mipav.view.ViewVOIVector extends java.util.Vector<VOI> implements Serializable

serialVersionUID:

6003086288473157573L

Class gov.nih.mipav.view.VOIContourNode extends javax.swing.tree.DefaultMutableTreeNode implements Serializable

serialVersionUID:

-1101994985217434811L

Class gov.nih.mipav.view.VOIFrameNode extends javax.swing.tree.DefaultMutableTreeNode implements Serializable

serialVersionUID:

-6795049606234900885L

Serialized Fields

frameNumber

int frameNumber

The slice number of the VOI component

Class gov.nih.mipav.view.VOIGroupNode extends javax.swing.tree.DefaultMutableTreeNode implements Serializable

serialVersionUID:

2278502889235734935L

Serialized Fields

extents

int[] extents

Class gov.nih.mipav.view.VOIGroupTree extends javax.swing.JTree implements Serializable

serialVersionUID:

-6853661393602487962L

Class gov.nih.mipav.view.VOIOrientationNode extends javax.swing.tree.DefaultMutableTreeNode implements Serializable

serialVersionUID:

-6795049606234900885L

Serialized Fields

orientation

java.lang.String orientation

voiName

java.lang.String voiName

Name of parent voi

Class gov.nih.mipav.view.VolumePositionFrame extends javax.swing.JFrame implements Serializable

serialVersionUID:

3115465399315063208L

Serialized Fields

parentFrame

ViewJFrameTriImage parentFrame

Reference to the parentFrame, to notify when this window closes:.

Package gov.nih.mipav.view.components

Class gov.nih.mipav.view.components.JPanelAlgorithmOutputOptions extends javax.swing.JPanel implements Serializable

serialVersionUID:

-5964491506018618684L

Serialized Fields

newImageRadio

javax.swing.JRadioButton newImageRadio

DOCUMENT ME!

replaceImageRadio

javax.swing.JRadioButton replaceImageRadio

DOCUMENT ME!

srcImage

ModelImage srcImage

DOCUMENT ME!

voiRegionsRadio

javax.swing.JRadioButton voiRegionsRadio

DOCUMENT ME!

wholeImageRadio

javax.swing.JRadioButton wholeImageRadio

DOCUMENT ME!

Class gov.nih.mipav.view.components.JPanelColorChannels extends javax.swing.JPanel implements Serializable

serialVersionUID:

3679634471868989877L

Serialized Fields

blueCheckbox

javax.swing.JCheckBox blueCheckbox

DOCUMENT ME!

greenCheckbox

javax.swing.JCheckBox greenCheckbox

DOCUMENT ME!

redCheckbox

javax.swing.JCheckBox redCheckbox

DOCUMENT ME!

srcImage

ModelImage srcImage

DOCUMENT ME!

Class gov.nih.mipav.view.components.JPanelSigmas extends javax.swing.JPanel implements Serializable

serialVersionUID:

4032897701053956108L

Serialized Fields

correctionFactorCheckbox

javax.swing.JCheckBox correctionFactorCheckbox

gui

correctionFactorLabel

javax.swing.JLabel correctionFactorLabel

label

labelGaussX

javax.swing.JLabel labelGaussX

labelGaussY

javax.swing.JLabel labelGaussY

labelGaussZ

javax.swing.JLabel labelGaussZ

label

srcImage

ModelImage srcImage

the input image which will be processed

textGaussX

javax.swing.JTextField textGaussX

gui, sigma value

textGaussY

javax.swing.JTextField textGaussY

gui, sigma value

textGaussZ

javax.swing.JTextField textGaussZ

gui, sigma value

Class gov.nih.mipav.view.components.WidgetFactory.ScrollTextArea extends javax.swing.JScrollPane implements Serializable

serialVersionUID:

3869765356771292936L

Serialized Fields

tArea

javax.swing.JTextArea tArea

accessible JTextArea

Package gov.nih.mipav.view.dialogs

Class gov.nih.mipav.view.dialogs.DialogDTIColorDisplay extends ViewJFrameBase implements Serializable

serialVersionUID:

7511908857729035381L

Serialized Fields

adjustExp

float adjustExp

adjust exp *

adjustExpPanel

javax.swing.JPanel adjustExpPanel

panels *

adjustExpSlider

javax.swing.JSlider adjustExpSlider

various sliders in dialog *

adjustExpTextField

javax.swing.JTextField adjustExpTextField

textfields *

alg

AlgorithmDTIColorDisplay alg

handle to the algorithm *

anisotropyFilename

java.lang.String anisotropyFilename

names of eigenvector and anisotropy files*

anisotropyImage

ModelImage anisotropyImage

anisotropy src image *

anisotropyMax

float anisotropyMax

anisotropy max *

anisotropyMaxPanel

javax.swing.JPanel anisotropyMaxPanel

panels *

anisotropyMaxSlider

javax.swing.JSlider anisotropyMaxSlider

various sliders in dialog *

anisotropyMaxTextField

javax.swing.JTextField anisotropyMaxTextField

textfields *

anisotropyMin

float anisotropyMin

anisotropy min *

anisotropyMinPanel

javax.swing.JPanel anisotropyMinPanel

panels *

anisotropyMinSlider

javax.swing.JSlider anisotropyMinSlider

various sliders in dialog *

anisotropyMinTextField

javax.swing.JTextField anisotropyMinTextField

textfields *

bottomPanel

javax.swing.JPanel bottomPanel

panels *

captureImageButton

javax.swing.JButton captureImageButton

buttons *

colorPanel

javax.swing.JPanel colorPanel

panels *

colorRangePanel

javax.swing.JPanel colorRangePanel

panels *

colorRangeSlider

javax.swing.JSlider colorRangeSlider

various sliders in dialog *

colorRangeTextField

javax.swing.JTextField colorRangeTextField

textfields *

colorWheel

ColorWheel colorWheel

Color Wheels *

colorWheelChoicesPanel

javax.swing.JPanel colorWheelChoicesPanel

panels *

colorWheelComboBox

javax.swing.JComboBox colorWheelComboBox

color wheel choices combo box *

colorWheelPanel

javax.swing.JPanel colorWheelPanel

panels *

componentImage

ViewJComponentDTIImage componentImage

ViewJComponentDTIImage *

currentColorWheelType

java.lang.String currentColorWheelType

String indicating current color wheel type *

currentRectangle

java.awt.Rectangle currentRectangle

rectangle for screen capture*

currentResultImageSlicesLabel

javax.swing.JLabel currentResultImageSlicesLabel

labels *

dimGreenPanel

javax.swing.JPanel dimGreenPanel

panels *

dimGreenSlider

javax.swing.JSlider dimGreenSlider

various sliders in dialog *

dimGreenTextField

javax.swing.JTextField dimGreenTextField

textfields *

eigvecFilename

java.lang.String eigvecFilename

names of eigenvector and anisotropy files*

eigvecSrcImage

ModelImage eigvecSrcImage

eigenvector src image *

flag

boolean flag

flag needed when performing restore defaults *

gamma

float gamma

gamma correction *

gammaPanel

javax.swing.JPanel gammaPanel

panels *

gammaSlider

javax.swing.JSlider gammaSlider

various sliders in dialog *

gammaTextField

javax.swing.JTextField gammaTextField

textfields *

gbc

java.awt.GridBagConstraints gbc

GridbagConstraints *

gbl

java.awt.GridBagLayout gbl

GridBagLayout *

heightResFactor

float heightResFactor

Storage for correction parameters where datasets have non isotropic values.

heuristicParametersPanel

javax.swing.JPanel heuristicParametersPanel

panels *

imageBufferA

float[] imageBufferA

Buffer used to store image intensities the presently viewed slice of image A.

in

java.io.BufferedReader in

Buffered Reader for loading params *

isMultiply

boolean isMultiply

boolean for truncate/multiply *

loadButton

javax.swing.JButton loadButton

buttons *

m_afScreenResolutions

float[] m_afScreenResolutions

Sets the correct resolutions for the image that is created by captureImage.

m_fSliceThickness

float m_fSliceThickness

Sets the correct slice thickness

magButton

javax.swing.JButton magButton

buttons *

magLabel

javax.swing.JLabel magLabel

labels *

mainPanel

javax.swing.JPanel mainPanel

panels *

maxAdjustExp

float maxAdjustExp

mins and maxes for heuristic parameters*

maxAdjustExpLabel

javax.swing.JLabel maxAdjustExpLabel

labels *

maxAnisotropyMax

float maxAnisotropyMax

mins and maxes for heuristic parameters*

maxAnisotropyMaxLabel

javax.swing.JLabel maxAnisotropyMaxLabel

labels *

maxAnisotropyMin

float maxAnisotropyMin

mins and maxes for heuristic parameters*

maxAnisotropyMinLabel

javax.swing.JLabel maxAnisotropyMinLabel

labels *

maxColorRange

float maxColorRange

mins and maxes for heuristic parameters*

maxColorRangeLabel

javax.swing.JLabel maxColorRangeLabel

labels *

maxDimGreen

float maxDimGreen

mins and maxes for heuristic parameters*

maxDimGreenLabel

javax.swing.JLabel maxDimGreenLabel

labels *

maxGamma

float maxGamma

mins and maxes for heuristic parameters*

maxGammaLabel

javax.swing.JLabel maxGammaLabel

labels *

maxResultImageSlicesLabel

javax.swing.JLabel maxResultImageSlicesLabel

labels *

maxSatBlue

float maxSatBlue

mins and maxes for heuristic parameters*

maxSatBlueLabel

javax.swing.JLabel maxSatBlueLabel

labels *

maxSatVsTheta

float maxSatVsTheta

mins and maxes for heuristic parameters*

maxSatVsThetaLabel

javax.swing.JLabel maxSatVsThetaLabel

labels *

maxStevensBeta

float maxStevensBeta

mins and maxes for heuristic parameters*

maxStevensBetaLabel

javax.swing.JLabel maxStevensBetaLabel

labels *

minAdjustExp

float minAdjustExp

mins and maxes for heuristic parameters*

minAdjustExpLabel

javax.swing.JLabel minAdjustExpLabel

labels *

minAnisotropyMax

float minAnisotropyMax

mins and maxes for heuristic parameters*

minAnisotropyMaxLabel

javax.swing.JLabel minAnisotropyMaxLabel

labels *

minAnisotropyMin

float minAnisotropyMin

mins and maxes for heuristic parameters*

minAnisotropyMinLabel

javax.swing.JLabel minAnisotropyMinLabel

labels *

minColorRange

float minColorRange

mins and maxes for heuristic parameters*

minColorRangeLabel

javax.swing.JLabel minColorRangeLabel

labels *

minDimGreen

float minDimGreen

mins and maxes for heuristic parameters*

minDimGreenLabel

javax.swing.JLabel minDimGreenLabel

labels *

minGamma

float minGamma

mins and maxes for heuristic parameters*

minGammaLabel

javax.swing.JLabel minGammaLabel

labels *

minResultImageSlicesLabel

javax.swing.JLabel minResultImageSlicesLabel

labels *

minSatBlue

float minSatBlue

mins and maxes for heuristic parameters*

minSatBlueLabel

javax.swing.JLabel minSatBlueLabel

labels *

minSatVsTheta

float minSatVsTheta

mins and maxes for heuristic parameters*

minSatVsThetaLabel

javax.swing.JLabel minSatVsThetaLabel

labels *

minStevensBeta

float minStevensBeta

mins and maxes for heuristic parameters*

minStevensBetaLabel

javax.swing.JLabel minStevensBetaLabel

labels *

multRadio

javax.swing.JRadioButton multRadio

radio buttons for truncate/multiply *

nImage

int nImage

Number of slices in a 3D dataset.

nTImage

int nTImage

Number of time sequences in a 4D dataset.

numSlices

int numSlices

num slices for result image *

optionsPanel

javax.swing.JPanel optionsPanel

panels *

out

java.io.BufferedWriter out

Buffered Writer for saving params *

pB

float pB

blue saturation *

pC

float pC

color range *

pG

float pG

green saturation *

pixBuffer

int[] pixBuffer

Integer buffer (4 bytes that stores the concatenated Alpha (1 byte), Red (1 byte), Green ( 1 byte ), Blue (1 byte ) data. The ARGB values are generated by using the imageA intensities as a index into a LUT.

pS

float pS

saturation vs theta *

refLabel1

javax.swing.JLabel refLabel1

labels *

refLabel2

javax.swing.JLabel refLabel2

labels *

refLabel3

javax.swing.JLabel refLabel3

labels *

refPanel

javax.swing.JPanel refPanel

panels *

resols

float[] resols

Storage of the image voxel resolutions. One resolution value per dimension.

restoreDefaultsButton

javax.swing.JButton restoreDefaultsButton

buttons *

restoreDefaultsPanel

javax.swing.JPanel restoreDefaultsPanel

panels *

resultImage

ModelImage resultImage

result image *

resultImagePanel

javax.swing.JPanel resultImagePanel

panels *

resultImageSlider

javax.swing.JSlider resultImageSlider

various sliders in dialog *

resultImageSliderPanel

javax.swing.JPanel resultImageSliderPanel

panels *

resultPanel

javax.swing.JPanel resultPanel

panels *

resultScrollPanel

javax.swing.JScrollPane resultScrollPanel

scroll pane for result image *

satBluePanel

javax.swing.JPanel satBluePanel

panels *

satBlueSlider

javax.swing.JSlider satBlueSlider

various sliders in dialog *

satBlueTextField

javax.swing.JTextField satBlueTextField

textfields *

satVsThetaPanel

javax.swing.JPanel satVsThetaPanel

panels *

satVsThetaSlider

javax.swing.JSlider satVsThetaSlider

various sliders in dialog *

satVsThetaTextField

javax.swing.JTextField satVsThetaTextField

textfields *

saveButton

javax.swing.JButton saveButton

buttons *

saveLoadPanel

javax.swing.JPanel saveLoadPanel

panels *

stevensBeta

float stevensBeta

steven's beta *

stevensBetaPanel

javax.swing.JPanel stevensBetaPanel

panels *

stevensBetaSlider

javax.swing.JSlider stevensBetaSlider

various sliders in dialog *

stevensBetaTextField

javax.swing.JTextField stevensBetaTextField

textfields *

tempPanel

javax.swing.JPanel tempPanel

panels *

title

java.lang.String title

dialog title and version *

titledBorder

javax.swing.border.TitledBorder titledBorder

titled border for certain components *

toolbarBuilder

ViewToolBarBuilder toolbarBuilder

ViewToolBarBuilder *

toolbarPanel

javax.swing.JPanel toolbarPanel

panels *

truncMultPanel

javax.swing.JPanel truncMultPanel

panels *

truncMultRadioGroup

javax.swing.ButtonGroup truncMultRadioGroup

radio group for truncate/multiply *

truncRadio

javax.swing.JRadioButton truncRadio

radio buttons for truncate/multiply *

tSlice

int tSlice

Image time sequence number of image that is displayed. Zero indexed based.

type

java.lang.String type

type of color wheel ABSVAL, NOSYMM, ROTATIONALSYMM, MIRRORSYMM *

units

int[] units

Storage of the resolution units of measure. For example, mm, cm, inches ...

unMagButton

javax.swing.JButton unMagButton

buttons *

widthResFactor

float widthResFactor

Storage for correction parameters where datasets have non isotropic values.

zoom

float zoom

current zoom for result image *

zoomOneButton

javax.swing.JButton zoomOneButton

buttons *

zSlice

int zSlice

current z slice *

Class gov.nih.mipav.view.dialogs.JDialog3DMosaicTo4DSlices extends JDialogScriptableBase implements Serializable

Serialized Fields

displayLoc

int displayLoc

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

mathAlgo

AlgorithmMosaicToSlices mathAlgo

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

subTDim

int subTDim

subXDim

int subXDim

subYDim

int subYDim

subZDim

int subZDim

textTDim

javax.swing.JTextField textTDim

textXDim

javax.swing.JTextField textXDim

textYDim

javax.swing.JTextField textYDim

textZDim

javax.swing.JTextField textZDim

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialog4DImageCalculator extends JDialogScriptableBase implements Serializable

Serialized Fields

alg

Algorithm4DImageCalculator alg

handle to alg

comboBoxOperator

javax.swing.JComboBox comboBoxOperator

combo box of operations

destImage

ModelImage destImage

images

image

ModelImage image

images

radioClip

javax.swing.JRadioButton radioClip

clip or promote radio button options

radioPromote

javax.swing.JRadioButton radioPromote

clip or promote radio button options

Class gov.nih.mipav.view.dialogs.JDialogACPC extends JDialogBase implements Serializable

Serialized Fields

ACPCGroup

javax.swing.ButtonGroup ACPCGroup

ACPCImage

ModelImage ACPCImage

anotherMidSagPt

WildMagic.LibFoundation.Mathematics.Vector3f anotherMidSagPt

anotherPt

javax.swing.JRadioButton anotherPt

applyACPCButton

javax.swing.JButton applyACPCButton

cancelACPCButton

javax.swing.JButton cancelACPCButton

clearACPCButton

javax.swing.JButton clearACPCButton

comboBoxOrientX

javax.swing.JComboBox comboBoxOrientX

comboBoxOrientY

javax.swing.JComboBox comboBoxOrientY

comboBoxOrientZ

javax.swing.JComboBox comboBoxOrientZ

firstMidSagPt

WildMagic.LibFoundation.Mathematics.Vector3f firstMidSagPt

firstPt

javax.swing.JRadioButton firstPt

frame

ViewJFrameTriImage frame

haveAnotherPt

boolean haveAnotherPt

haveFirstPt

boolean haveFirstPt

haveInferiorEdge

boolean haveInferiorEdge

havePosteriorMargin

boolean havePosteriorMargin

haveSuperiorEdge

boolean haveSuperiorEdge

image

ModelImage image

inferiorEdge

javax.swing.JRadioButton inferiorEdge

inferiorEdgePt

WildMagic.LibFoundation.Mathematics.Vector3f inferiorEdgePt

interpolation

int interpolation

orient

int[] orient

posteriorMargin

javax.swing.JRadioButton posteriorMargin

posteriorMarginPt

WildMagic.LibFoundation.Mathematics.Vector3f posteriorMarginPt

setACPCButton

javax.swing.JButton setACPCButton

setOrientationButton

javax.swing.JButton setOrientationButton

superiorEdge

javax.swing.JRadioButton superiorEdge

superiorEdgePt

WildMagic.LibFoundation.Mathematics.Vector3f superiorEdgePt

textVoxelLength

javax.swing.JTextField textVoxelLength

transform

TalairachTransformInfo transform

useIncorrectAcpcXDim

boolean useIncorrectAcpcXDim

Flag used to force acpc x dim to old (incorrect) value of 192 instead of fixed value calculation (which results in x dim of 191).

voxelLength

float voxelLength

Class gov.nih.mipav.view.dialogs.JDialogActiveContoursWithoutEdges extends JDialogScriptableBase implements Serializable

Serialized Fields

activeContoursAlgo

AlgorithmActiveContoursWithoutEdges activeContoursAlgo

DOCUMENT ME!

channelButton

javax.swing.JRadioButton channelButton

DOCUMENT ME!

holesAndSmallCircularButton

javax.swing.JRadioButton holesAndSmallCircularButton

holesButton

javax.swing.JRadioButton holesButton

image

ModelImage image

DOCUMENT ME!

iterations

int iterations

largeCircularButton

javax.swing.JRadioButton largeCircularButton

DOCUMENT ME!

mainPanel

javax.swing.JPanel mainPanel

DOCUMENT ME!

maskGroup

javax.swing.ButtonGroup maskGroup

DOCUMENT ME!

maskPanel

javax.swing.JPanel maskPanel

DOCUMENT ME!

maskType

int maskType

DOCUMENT ME!

mediumCircularButton

javax.swing.JRadioButton mediumCircularButton

DOCUMENT ME!

method

int method

methodGroup

javax.swing.ButtonGroup methodGroup

DOCUMENT ME!

methodPanel

javax.swing.JPanel methodPanel

DOCUMENT ME!

mu

double mu

parameterPanel

javax.swing.JPanel parameterPanel

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

smallCircularButton

javax.swing.JRadioButton smallCircularButton

DOCUMENT ME!

textIterations

javax.swing.JTextField textIterations

textMu

javax.swing.JTextField textMu

titles

java.lang.String[] titles

DOCUMENT ME!

twoPhaseButton

javax.swing.JRadioButton twoPhaseButton

DOCUMENT ME!

userVOIButton

javax.swing.JRadioButton userVOIButton

DOCUMENT ME!

vectorButton

javax.swing.JRadioButton vectorButton

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogAdaptiveKuwaharaFilter extends JDialogScriptableBase implements Serializable

Serialized Fields

image

ModelImage image

DOCUMENT ME!

kuwaharaAlgo

AlgorithmAdaptiveKuwaharaFilter kuwaharaAlgo

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogAddMargins extends JDialogScriptableBase implements Serializable

serialVersionUID:

8624253753510650511L

Serialized Fields

backInput

javax.swing.JTextField backInput

DOCUMENT ME!

blueValue

double blueValue

DOCUMENT ME!

bottomInput

javax.swing.JTextField bottomInput

DOCUMENT ME!

colorFactor

int colorFactor

DOCUMENT ME!

defaultBlueInput

javax.swing.JTextField defaultBlueInput

DOCUMENT ME!

defaultGreenInput

javax.swing.JTextField defaultGreenInput

DOCUMENT ME!

defaultImaginaryInput

javax.swing.JTextField defaultImaginaryInput

defaultRealInput

javax.swing.JTextField defaultRealInput

defaultRedInput

javax.swing.JTextField defaultRedInput

DOCUMENT ME!

defaultValue

double defaultValue

DOCUMENT ME!

defaultValueInput

javax.swing.JTextField defaultValueInput

DOCUMENT ME!

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

frontInput

javax.swing.JTextField frontInput

DOCUMENT ME!

greenValue

double greenValue

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

imageMarginsAlgo

AlgorithmAddMargins imageMarginsAlgo

DOCUMENT ME!

imaginaryValue

double imaginaryValue

leftSideInput

javax.swing.JTextField leftSideInput

DOCUMENT ME!

marginX

int[] marginX

DOCUMENT ME!

marginY

int[] marginY

marginZ

int[] marginZ

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

realValue

double realValue

redValue

double redValue

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

rightSideInput

javax.swing.JTextField rightSideInput

DOCUMENT ME!

topInput

javax.swing.JTextField topInput

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogAGCIE extends JDialogScriptableBase implements Serializable

Serialized Fields

agcieAlgo

AlgorithmAGCIE agcieAlgo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogAGVF extends JDialogBase implements Serializable

serialVersionUID:

-3328779751424483654L

Serialized Fields

agvfAlgo

AlgorithmAGVF agvfAlgo

DOCUMENT ME!

boundaryIterations

int boundaryIterations

DOCUMENT ME!

checkboxDisplay

javax.swing.JCheckBox checkboxDisplay

DOCUMENT ME!

dilation

float dilation

default dilation:.

do25D

boolean do25D

DOCUMENT ME!

do25DCheckBox

javax.swing.JCheckBox do25DCheckBox

DOCUMENT ME!

doCellTracking

boolean doCellTracking

When true, do a Cell-tracking version of Active GVF Contours:.

doCellTrackingCheckBox

javax.swing.JCheckBox doCellTrackingCheckBox

Checkbox to turn cell-tracking on/off:.

doDilate

boolean doDilate

When true, dilate the cell radius before finding the next contour:.

doDilateCheckBox

javax.swing.JCheckBox doDilateCheckBox

Checkbox to turn cell-tracking on/off:.

groupNum

int groupNum

DOCUMENT ME!

gvfIterations

int gvfIterations

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

kValue

float kValue

DOCUMENT ME!

labelDilation

javax.swing.JLabel labelDilation

user-interface for setting the cell-radius dilation (multiple of cell expected radius).

labelGaussZ

javax.swing.JLabel labelGaussZ

DOCUMENT ME!

labelRadius

javax.swing.JLabel labelRadius

user-interface for setting the estimated cell-radius (pixels).

labelResampling

javax.swing.JLabel labelResampling

user-interface for setting the uniform-resampling constraint contribution:.

labelShape

javax.swing.JLabel labelShape

user-interface for setting the shape constraint contribution:.

labelSize

javax.swing.JLabel labelSize

user-interface for setting the size constraint contribution:.

labelVelocity

javax.swing.JLabel labelVelocity

user-interface for setting the initial cell velocity:.

propagate

javax.swing.JRadioButton propagate

DOCUMENT ME!

propagationFlag

boolean propagationFlag

DOCUMENT ME!

radiusConstraint

float radiusConstraint

Default cell radius (pixels).

removeOriginal

boolean removeOriginal

DOCUMENT ME!

removeOriginalCheckBox

javax.swing.JCheckBox removeOriginalCheckBox

DOCUMENT ME!

resamplingConstraint

float resamplingConstraint

default sampling constraint contribution:.

resultImage

ModelImage resultImage

DOCUMENT ME!

scaleX

float scaleX

DOCUMENT ME!

scaleY

float scaleY

DOCUMENT ME!

scaleZ

float scaleZ

DOCUMENT ME!

shapeConstraint

float shapeConstraint

default shape constraint contribution:.

sigmas

float[] sigmas

DOCUMENT ME!

singleSlice

javax.swing.JRadioButton singleSlice

DOCUMENT ME!

sizeConstraint

float sizeConstraint

default size constraint contribution:.

smoothness

float smoothness

DOCUMENT ME!

srcVOI

VOI srcVOI

DOCUMENT ME!

textBoundaryIterations

javax.swing.JTextField textBoundaryIterations

DOCUMENT ME!

textDilation

javax.swing.JTextField textDilation

DOCUMENT ME!

textDx

javax.swing.JTextField textDx

DOCUMENT ME!

textDy

javax.swing.JTextField textDy

DOCUMENT ME!

textGaussX

javax.swing.JTextField textGaussX

DOCUMENT ME!

textGaussY

javax.swing.JTextField textGaussY

DOCUMENT ME!

textGaussZ

javax.swing.JTextField textGaussZ

DOCUMENT ME!

textGVFIterations

javax.swing.JTextField textGVFIterations

DOCUMENT ME!

textK

javax.swing.JTextField textK

DOCUMENT ME!

textRadius

javax.swing.JTextField textRadius

DOCUMENT ME!

textResampling

javax.swing.JTextField textResampling

DOCUMENT ME!

textShape

javax.swing.JTextField textShape

DOCUMENT ME!

textSize

javax.swing.JTextField textSize

DOCUMENT ME!

textSmoothness

javax.swing.JTextField textSmoothness

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

velocityDx

float velocityDx

default initial velocity (dx):.

velocityDy

float velocityDy

default initial velocity (dx):.

voiColor

java.awt.Color voiColor

DOCUMENT ME!

VOIs

ViewVOIVector VOIs

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogAHE extends JDialogScriptableBase implements Serializable

serialVersionUID:

-6408786765504411315L

Serialized Fields

aheAlgo

AlgorithmAHE aheAlgo

DOCUMENT ME!

blueBox

javax.swing.JCheckBox blueBox

CIELabButton

javax.swing.JRadioButton CIELabButton

clamp

boolean clamp

DOCUMENT ME!

clampImage

javax.swing.JCheckBox clampImage

DOCUMENT ME!

clampingValue

javax.swing.JTextField clampingValue

DOCUMENT ME!

clampValue

int clampValue

DOCUMENT ME!

clampValueLabel

javax.swing.JLabel clampValueLabel

DOCUMENT ME!

colorGroup

javax.swing.ButtonGroup colorGroup

comboBoxHeightDiv

javax.swing.JComboBox comboBoxHeightDiv

DOCUMENT ME!

comboBoxWidthDiv

javax.swing.JComboBox comboBoxWidthDiv

DOCUMENT ME!

destinationGroup

javax.swing.ButtonGroup destinationGroup

or if the source image is to be replaced.

displayLoc

int displayLoc

DOCUMENT ME!

greenBox

javax.swing.JCheckBox greenBox

heightDivisions

int heightDivisions

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

redBox

javax.swing.JCheckBox redBox

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

RGBButton

javax.swing.JRadioButton RGBButton

titles

java.lang.String[] titles

DOCUMENT ME!

useBlue

boolean useBlue

useCIELab

boolean useCIELab

useGreen

boolean useGreen

useRed

boolean useRed

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

widthDivisions

int widthDivisions

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogAHElocal extends JDialogScriptableBase implements Serializable

serialVersionUID:

-6607139120847474768L

Serialized Fields

aheAlgo

AlgorithmAHElocal aheAlgo

DOCUMENT ME!

blueBox

javax.swing.JCheckBox blueBox

CIELabButton

javax.swing.JRadioButton CIELabButton

clamp

boolean clamp

DOCUMENT ME!

clampCheckBox

javax.swing.JCheckBox clampCheckBox

DOCUMENT ME!

clampLabel

javax.swing.JLabel clampLabel

DOCUMENT ME!

clampValue

int clampValue

DOCUMENT ME!

clampValueText

javax.swing.JTextField clampValueText

DOCUMENT ME!

colorGroup

javax.swing.ButtonGroup colorGroup

colorPanel

JPanelColorChannels colorPanel

DOCUMENT ME!

comboBoxKernelShape

javax.swing.JComboBox comboBoxKernelShape

DOCUMENT ME!

comboBoxKernelSize

javax.swing.JComboBox comboBoxKernelSize

DOCUMENT ME!

comboBoxScaleMax

javax.swing.JComboBox comboBoxScaleMax

DOCUMENT ME!

greenBox

javax.swing.JCheckBox greenBox

image

ModelImage image

DOCUMENT ME!

kernelShape

int kernelShape

DOCUMENT ME!

kernelSize

int kernelSize

DOCUMENT ME!

Lmax

float[] Lmax

Lmin

float[] Lmin

minThresholdLabel

javax.swing.JLabel minThresholdLabel

DOCUMENT ME!

minThresholdText

javax.swing.JTextField minThresholdText

DOCUMENT ME!

minThresholdValue

float minThresholdValue

DOCUMENT ME!

minThresholdValueL

float minThresholdValueL

minThresholdValueRGB

float minThresholdValueRGB

outputPanel

JPanelAlgorithmOutputOptions outputPanel

DOCUMENT ME!

redBox

javax.swing.JCheckBox redBox

resultImage

ModelImage resultImage

DOCUMENT ME!

RGBButton

javax.swing.JRadioButton RGBButton

scaleMaxValue

int scaleMaxValue

DOCUMENT ME!

threshold

boolean threshold

DOCUMENT ME!

thresholdCheckBox

javax.swing.JCheckBox thresholdCheckBox

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

useBlue

boolean useBlue

useCIELab

boolean useCIELab

useGreen

boolean useGreen

useRed

boolean useRed

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogAINDANE extends JDialogScriptableBase implements Serializable

Serialized Fields

aindaneAlgo

AlgorithmAINDANE aindaneAlgo

DOCUMENT ME!

c1

double c1

c2

double c2

DOCUMENT ME!

c3

double c3

image

ModelImage image

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textScale1

javax.swing.JTextField textScale1

textScale2

javax.swing.JTextField textScale2

DOCUMENT ME!

textScale3

javax.swing.JTextField textScale3

Class gov.nih.mipav.view.dialogs.JDialogAnalyzeNIFTIChoice extends JDialogBase implements Serializable

serialVersionUID:

4588130080855618027L

Serialized Fields

analyzeFile

javax.swing.JRadioButton analyzeFile

Radio button to indicate that an analyze img file should be written out.

comboBoxSaveMethod

javax.swing.JComboBox comboBoxSaveMethod

Whether to save as selected by dialog or always as analyze, interfile, or nifti.

interfileFile

javax.swing.JRadioButton interfileFile

Radio button to indicate that an Interfile img file should be written out.

niftiFile

javax.swing.JRadioButton niftiFile

Radio button to indicate that a nifti img file should be written out.

okayPressed

boolean okayPressed

Whether the window was closed through the user clicking the OK button (and not just killing the dialog).

zeroCheckBox

javax.swing.JCheckBox zeroCheckBox

Checkbox to zero funused fields at 112, 116, and 120. Default is not selected.

Class gov.nih.mipav.view.dialogs.JDialogAnimate extends JDialogBase implements Serializable

serialVersionUID:

3763989468823480229L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

DOCUMENT ME!

algoTransB

AlgorithmTransform algoTransB

DOCUMENT ME!

borderB

javax.swing.JButton borderB

false if column radio button selected.

borderCol

java.awt.Color borderCol

DOCUMENT ME!

colorChooser

ViewJColorChooser colorChooser

DOCUMENT ME!

comboBoxInterp

javax.swing.JComboBox comboBoxInterp

DOCUMENT ME!

controlFrame

ViewJFrameBase controlFrame

DOCUMENT ME!

DIM

int DIM

DOCUMENT ME!

frameAnimate

ViewJFrameAnimate frameAnimate

DOCUMENT ME!

frameBorderCheckBox

javax.swing.JCheckBox frameBorderCheckBox

DOCUMENT ME!

imageA

ModelImage imageA

DOCUMENT ME!

imageB

ModelImage imageB

DOCUMENT ME!

isVisible

boolean isVisible

Is dialog visible or not.

LUTa

ModelLUT LUTa

DOCUMENT ME!

LUTb

ModelLUT LUTb

DOCUMENT ME!

radioColumn

javax.swing.JRadioButton radioColumn

DOCUMENT ME!

radioRow

javax.swing.JRadioButton radioRow

DOCUMENT ME!

rcText

javax.swing.JTextField rcText

DOCUMENT ME!

resultImageA

ModelImage resultImageA

DOCUMENT ME!

resultImageB

ModelImage resultImageB

DOCUMENT ME!

RGBTA

ModelRGB RGBTA

DOCUMENT ME!

RGBTB

ModelRGB RGBTB

DOCUMENT ME!

rowBFlag

boolean rowBFlag

each z slice in 4D images.

scaleText

javax.swing.JTextField scaleText

DOCUMENT ME!

showFrameBorder

boolean showFrameBorder

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogAnisotropicDiffusion extends JDialogScriptableBase implements Serializable

serialVersionUID:

-7624088316240843823L

Serialized Fields

diffusionAlgo

AlgorithmAnisotropicDiffusion diffusionAlgo

DOCUMENT ME!

image

ModelImage image

Source image.

image25D

boolean image25D

DOCUMENT ME!

image25DCheckbox

javax.swing.JCheckBox image25DCheckbox

DOCUMENT ME!

iters

int iters

DOCUMENT ME!

konst

float konst

DOCUMENT ME!

outputPanel

JPanelAlgorithmOutputOptions outputPanel

resultImage

ModelImage resultImage

Result image.

sigmaPanel

JPanelSigmas sigmaPanel

textIters

javax.swing.JTextField textIters

DOCUMENT ME!

textK

javax.swing.JTextField textK

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogAnnotation extends JDialogBase implements Serializable

serialVersionUID:

2171038314100102783L

Serialized Fields

activeImage

ModelImage activeImage

The image that contains the VOI text.

backgroundColorButton

javax.swing.JButton backgroundColorButton

button to bring up the background color chooser.

boldBox

javax.swing.JCheckBox boldBox

checkbox for bold style.

buttonPanel

javax.swing.JPanel buttonPanel

Panel to contain the okay/cancel/help buttons.

colorButton

javax.swing.JButton colorButton

button to bring up color chooser.

colorChooser

ViewJColorChooser colorChooser

color chooser to select text color.

element

int element

the VOIText element in the VOI to modify

fontDescriptors

int fontDescriptors

descriptors for font (BOLD, PLAIN, ITALIC).

fontName

java.lang.String fontName

name/style of the font.

fontSize

int fontSize

size of font (int).

fontSizeField

javax.swing.JTextField fontSizeField

textfield for font size (int only).

fontTypeBox

javax.swing.JComboBox fontTypeBox

combobox to hold the names of all available fonts.

isBackground

boolean isBackground

toggle between background and text color changing.

isRegistered

boolean isRegistered

whether this is an existing or new VOIText (isRegistered = existing).

italicBox

javax.swing.JCheckBox italicBox

checkbox for italic style.

nameField

javax.swing.JTextField nameField

NameField that will contain the string to be displayed.

noteField

javax.swing.JTextArea noteField

NoteField for providing a note about this marker. Note only displayed when clicked.

textEditable

boolean textEditable

textVOI

VOI textVOI

the VOI that contains the VOIText.

useMarkerBox

javax.swing.JCheckBox useMarkerBox

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogAnnotation.UpdateTextAction extends javax.swing.AbstractAction implements Serializable

serialVersionUID:

-7210907002611412247L

Class gov.nih.mipav.view.dialogs.JDialogAnonymizeDirectory extends JDialogBase implements Serializable

serialVersionUID:

-6606891655523582196L

Serialized Fields

actOnPath

javax.swing.tree.TreePath[] actOnPath

for the files selected ...

anonymizer

java.lang.Thread anonymizer

Access to the running thread which is anonymising directories.

changeFilenameBox

javax.swing.JCheckBox changeFilenameBox

DOCUMENT ME!

checkBoxPanel

JPanelAnonymizeImage checkBoxPanel

DOCUMENT ME!

directoryTree

javax.swing.JTree directoryTree

Actual things we can see...

everything

javax.swing.JTabbedPane everything

Onscreen objects.

filePanel

javax.swing.JPanel filePanel

Logical construct to reuild a source tree...

genericImageName

java.lang.String genericImageName

Used as part of the image name; used in all processed image-sets.

grouping

javax.swing.ButtonGroup grouping

DOCUMENT ME!

imageDestBrowse

javax.swing.JButton imageDestBrowse

DOCUMENT ME!

imageDestDirectory

java.io.File imageDestDirectory

private File srcDirectory; // Defined by the.

imageDestDirText

javax.swing.JTextField imageDestDirText

DOCUMENT ME!

imageNameText

javax.swing.JTextField imageNameText

DOCUMENT ME!

keyLog

java.lang.String keyLog

Translation key, stored in "patient.key.doc".

logPane

javax.swing.JTextArea logPane

holds output log; updated as processed.

noisyProcess

boolean noisyProcess

Noisy means notifying the user of stupid errors.

noRandButton

javax.swing.JRadioButton noRandButton

DOCUMENT ME!

outputLog

java.lang.String outputLog

String to hold all file checks, changes and ignores.

privateTagsPanel

JPanelAnonymizePrivateTags privateTagsPanel

publicTagsPanel

JPanelAnonymizePublicTags publicTagsPanel

rand

java.util.Random rand

To generate wierd, unrecoverable names for anon images.

randChildButton

javax.swing.JRadioButton randChildButton

DOCUMENT ME!

randTopButton

javax.swing.JRadioButton randTopButton

DOCUMENT ME!

recursiveCheckBox

javax.swing.JCheckBox recursiveCheckBox

private JButton srcBrowse;.

removeBox

javax.swing.JCheckBox removeBox

selectedList

javax.swing.JTextArea selectedList

All directory-tree selected directories are listed for user-consumption in this whitespace.

sequenceStart

int sequenceStart

Used as part of the image name; represents beginning of sequence for all processed image sets.

sequenceText

javax.swing.JTextField sequenceText

DOCUMENT ME!

sourcePanel

javax.swing.JPanel sourcePanel

DOCUMENT ME!

stopButton

javax.swing.JButton stopButton

stops the thread from continuing its processing. on same panel as OK and Cancel.

toplevelOnly

int toplevelOnly

DOCUMENT ME!

xlatDestBrowse

javax.swing.JButton xlatDestBrowse

DOCUMENT ME!

xlatDestDirectory

java.io.File xlatDestDirectory

DOCUMENT ME!

xlatDestDirText

javax.swing.JTextField xlatDestDirText

DOCUMENT ME!

xlatDestinationUsage

int xlatDestinationUsage

Defines options for WRITE, OVERWRITE, APPEND for the xlat file.

Class gov.nih.mipav.view.dialogs.JDialogAnonymizeImage extends JDialogScriptableBase implements Serializable

serialVersionUID:

-5845185607194185354L

Serialized Fields

checkboxPanel

JPanelAnonymizeImage checkboxPanel

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

privateTagsPanel

JPanelAnonymizePrivateTags privateTagsPanel

publicTagsPanel

JPanelAnonymizePublicTags publicTagsPanel

radioPreset

javax.swing.JRadioButton radioPreset

radioSelection

javax.swing.JRadioButton radioSelection

removeBox

javax.swing.JCheckBox removeBox

scriptStringParams

java.lang.String scriptStringParams

seqTags

java.util.Vector<FileDicomSQItem> seqTags

tabs

javax.swing.JTabbedPane tabs

Class gov.nih.mipav.view.dialogs.JDialogAnonymizePresets extends JDialogBase implements Serializable

serialVersionUID:

1564864947768799239L

Serialized Fields

boxes

java.util.ArrayList<javax.swing.JCheckBox> boxes

fullDatesBox

javax.swing.JCheckBox fullDatesBox

im

ModelImage im

modifDatesBox

javax.swing.JCheckBox modifDatesBox

Class gov.nih.mipav.view.dialogs.JDialogAntigradient2 extends JDialogScriptableBase implements Serializable

Serialized Fields

antigradient2Algo

AlgorithmAntigradient2 antigradient2Algo

DOCUMENT ME!

entireImage

boolean entireImage

image

ModelImage image

DOCUMENT ME!

iters

int iters

DOCUMENT ME!

labelDestinationMean

javax.swing.JLabel labelDestinationMean

DOCUMENT ME!

mean

double mean

DOCUMENT ME!

radioEntireImage

javax.swing.JRadioButton radioEntireImage

radioVOIRegion

javax.swing.JRadioButton radioVOIRegion

resultImage

ModelImage resultImage

DOCUMENT ME!

textDestinationMean

javax.swing.JTextField textDestinationMean

DOCUMENT ME!

textNIter

javax.swing.JTextField textNIter

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogAnyTwoImagesSNR extends JDialogBase implements Serializable

Serialized Fields

comboBoxCostFunct

javax.swing.JComboBox comboBoxCostFunct

DOCUMENT ME!

cost

int cost

DOCUMENT ME!

createRegCheckBox

javax.swing.JCheckBox createRegCheckBox

DOCUMENT ME!

createRegImage

boolean createRegImage

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

image2

ModelImage image2

DOCUMENT ME!

imageComboBox

javax.swing.JComboBox imageComboBox

DOCUMENT ME!

labelCost

javax.swing.JLabel labelCost

DOCUMENT ME!

regCheckBox

javax.swing.JCheckBox regCheckBox

DOCUMENT ME!

register

boolean register

DOCUMENT ME!

scale

boolean scale

scaleCheckBox

javax.swing.JCheckBox scaleCheckBox

snrAlgo

AlgorithmAnyTwoImagesSNR snrAlgo

DOCUMENT ME!

UI

ViewUserInterface UI

Class gov.nih.mipav.view.dialogs.JDialogAutoCorrelation extends JDialogScriptableBase implements Serializable

serialVersionUID:

5909303016264063087L

Serialized Fields

algoAutoCorrelation

AlgorithmAutoCorrelation algoAutoCorrelation

DOCUMENT ME!

haveBlue

boolean haveBlue

DOCUMENT ME!

haveGreen

boolean haveGreen

DOCUMENT ME!

haveRed

boolean haveRed

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

maxB

double maxB

DOCUMENT ME!

maxG

double maxG

DOCUMENT ME!

maxR

double maxR

DOCUMENT ME!

minB

double minB

DOCUMENT ME!

minG

double minG

DOCUMENT ME!

minR

double minR

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

resultImageB

ModelImage resultImageB

DOCUMENT ME!

resultImageG

ModelImage resultImageG

DOCUMENT ME!

resultImageR

ModelImage resultImageR

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

UI

ViewUserInterface UI

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogAutoCovariance extends JDialogScriptableBase implements Serializable

serialVersionUID:

5044633994224797404L

Serialized Fields

algoAutoCovariance

AlgorithmAutoCovariance algoAutoCovariance

DOCUMENT ME!

haveBlue

boolean haveBlue

DOCUMENT ME!

haveGreen

boolean haveGreen

DOCUMENT ME!

haveRed

boolean haveRed

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

maxB

double maxB

DOCUMENT ME!

maxG

double maxG

DOCUMENT ME!

maxR

double maxR

DOCUMENT ME!

minB

double minB

DOCUMENT ME!

minG

double minG

DOCUMENT ME!

minR

double minR

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

resultImageB

ModelImage resultImageB

DOCUMENT ME!

resultImageG

ModelImage resultImageG

DOCUMENT ME!

resultImageR

ModelImage resultImageR

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

UI

ViewUserInterface UI

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogAutoSeedWatershed extends JDialogScriptableBase implements Serializable

Serialized Fields

distanceLabel

javax.swing.JLabel distanceLabel

distanceText

javax.swing.JTextField distanceText

image

ModelImage image

DOCUMENT ME!

maxDistance

double maxDistance

mergeCheckBox

javax.swing.JCheckBox mergeCheckBox

mergeSimilar

boolean mergeSimilar

resultImage

ModelImage resultImage

DOCUMENT ME!

scaleX

float scaleX

scaleY

float scaleY

textGaussX

javax.swing.JTextField textGaussX

textGaussY

javax.swing.JTextField textGaussY

wsAlgo

AlgorithmAutoSeedWatershed wsAlgo

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogAVIChoice extends JDialogBase implements Serializable

serialVersionUID:

4858762290060675316L

Serialized Fields

compressionBox

javax.swing.JComboBox compressionBox

Combo box to select compression.

okayPressed

boolean okayPressed

DOCUMENT ME!

operating_system

int operating_system

DOCUMENT ME!

qualityField

javax.swing.JTextField qualityField

Text Field for M-JPEG quality.

Class gov.nih.mipav.view.dialogs.JDialogBarrelDistortion extends JDialogScriptableBase implements Serializable

Serialized Fields

a

float a

aLabel

javax.swing.JLabel aLabel

aText

javax.swing.JTextField aText

b

float b

bdAlgo

AlgorithmBarrelDistortion bdAlgo

DOCUMENT ME!

bLabel

javax.swing.JLabel bLabel

bText

javax.swing.JTextField bText

c

float c

cLabel

javax.swing.JLabel cLabel

cText

javax.swing.JTextField cText

d

float d

dLabel

javax.swing.JLabel dLabel

dText

javax.swing.JTextField dText

image

ModelImage image

Source image.

mainLabel

javax.swing.JLabel mainLabel

mainLabel2

javax.swing.JLabel mainLabel2

noScalingD

boolean noScalingD

noScalingDCheckBox

javax.swing.JCheckBox noScalingDCheckBox

paramsPanel

javax.swing.JPanel paramsPanel

DOCUMENT ME!

resultImage

ModelImage resultImage

Result image.

Class gov.nih.mipav.view.dialogs.JDialogBase extends javax.swing.JDialog implements Serializable

serialVersionUID:

-6802105487936807310L

Serialized Fields

applyButton

javax.swing.JButton applyButton

Apply button is used to apply the setting of the dialog.

bar

javax.swing.JMenuBar bar

JMenuBar for loading/saving defaults

cancelButton

javax.swing.JButton cancelButton

Cancel button is used on most dialogs. Defining it in the base allows default actions if the user presses return and the button is in focus.

cancelFlag

boolean cancelFlag

Flag indicating if the dialog had been cancelled or not.

closeButton

javax.swing.JButton closeButton

Close button is used to close the dialog.

helpButton

javax.swing.JButton helpButton

Help button is used on most dialogs. Defining it in the base allows default actions if the user presses return and the button is in focus.

mainDialogPanel

javax.swing.JPanel mainDialogPanel

The main panel of the dialog. To be filled by inheriting classes. Defaults to BorderLayout since that's what the contentPane defaults to (makes it easier to change over to using mainDialogPanel without messing up the layout).

OKButton

javax.swing.JButton OKButton

OK button is used on most dialogs. Defining it in the base allows default actions if the user presses return and the button is in focus.

parentFrame

java.awt.Frame parentFrame

Parent frame of this dialog, usually of type ViewJFrameImage.

profiles

java.util.ArrayList<java.lang.String> profiles

List of existing default profiles for this dialog

progressBar

ViewJProgressBar progressBar

Progress bar that will listen to a dialog's algorithm (and reflect current progress)

runInSeparateThread

boolean runInSeparateThread

Flag indicating if the algorithm should run in a separate thread. Default is true.

runningScriptFlag

boolean runningScriptFlag

Whether we are using this dialog as part of a script.

runQuiet

boolean runQuiet

Whether algorithm is running in quiet mode (such as part of a script, in headless environment, within other algorithm )

serif12

java.awt.Font serif12

Fonts, same as MipavUtil.font12 and MipavUtil.font12B.

serif12B

java.awt.Font serif12B

Fonts, same as MipavUtil.font12 and MipavUtil.font12B.

voiManager

VOIManagerInterface voiManager

Class gov.nih.mipav.view.dialogs.JDialogBase.CancelAction extends javax.swing.AbstractAction implements Serializable

serialVersionUID:

8763437075181255552L

Class gov.nih.mipav.view.dialogs.JDialogBase.HelpAction extends javax.swing.AbstractAction implements Serializable

serialVersionUID:

-1362974760098666480L

Class gov.nih.mipav.view.dialogs.JDialogBase.OKAction extends javax.swing.AbstractAction implements Serializable

serialVersionUID:

-7409235372458546982L

Class gov.nih.mipav.view.dialogs.JDialogBGAndFGDistanceMap extends JDialogScriptableBase implements Serializable

Serialized Fields

distanceMapAlgo2D

AlgorithmMorphology2D distanceMapAlgo2D

distanceMapAlgo3D

AlgorithmMorphology3D distanceMapAlgo3D

image

ModelImage image

DOCUMENT ME!

outputPanel

JPanelAlgorithmOutputOptions outputPanel

resultImage

ModelImage resultImage

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogBGDistanceMap extends JDialogScriptableBase implements Serializable

serialVersionUID:

8286579547782268746L

Serialized Fields

distanceMapAlgo2D

AlgorithmMorphology2D distanceMapAlgo2D

DOCUMENT ME!

distanceMapAlgo3D

AlgorithmMorphology3D distanceMapAlgo3D

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

outputPanel

JPanelAlgorithmOutputOptions outputPanel

resultImage

ModelImage resultImage

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogBilateralFilter extends JDialogScriptableBase implements Serializable

Serialized Fields

bilateralFilterAlgo

AlgorithmBilateralFilter bilateralFilterAlgo

DOCUMENT ME!

image

ModelImage image

Source image.

image25D

boolean image25D

Flag indicating if slices should be blurred independently.

image25DCheckbox

javax.swing.JCheckBox image25DCheckbox

DOCUMENT ME!

intensityFraction

float intensityFraction

intensityLabel

javax.swing.JLabel intensityLabel

intensityPanel

javax.swing.JPanel intensityPanel

intensityText

javax.swing.JTextField intensityText

outputOptionsPanel

JPanelAlgorithmOutputOptions outputOptionsPanel

DOCUMENT ME!

resultImage

ModelImage resultImage

Result image.

sigmaPanel

JPanelSigmas sigmaPanel

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

useProgressBar

boolean useProgressBar

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogBiorthogonalWavelets extends JDialogScriptableBase implements Serializable

Serialized Fields

bwAlgo

BiorthogonalWavelets bwAlgo

CDF_type

int CDF_type

Use serialVersionUID for interoperability.

CDFButton

javax.swing.JRadioButton CDFButton

compressedTransformImage

ModelImage compressedTransformImage

compressionFactor

double compressionFactor

compressionText

javax.swing.JTextField compressionText

convolution_method

int convolution_method

convolutionButton

javax.swing.JRadioButton convolutionButton

display

boolean display

displayCheckBox

javax.swing.JCheckBox displayCheckBox

iterations

int iterations

iterationsText

javax.swing.JTextField iterationsText

len

int len

lent

int lent

lenText

javax.swing.JTextField lenText

lentText

javax.swing.JTextField lentText

method

int method

methodGroup

javax.swing.ButtonGroup methodGroup

reconstructedImage

ModelImage reconstructedImage

spline_type

int spline_type

splineButton

javax.swing.JRadioButton splineButton

srcImage

ModelImage srcImage

transformImage

ModelImage transformImage

type

int type

typeGroup

javax.swing.ButtonGroup typeGroup

waveletMatrix_method

int waveletMatrix_method

waveletMatrixButton

javax.swing.JRadioButton waveletMatrixButton

Class gov.nih.mipav.view.dialogs.JDialogBlankImage extends JDialogBase implements Serializable

serialVersionUID:

8301756369819912860L

Serialized Fields

dataType

ModelStorageBase.DataType dataType

The ModelStorageBase.DataType of the blank image.

group1

javax.swing.ButtonGroup group1

The composed group of radio buttons.

image

ModelImage image

The blank image to be created.

radioTypes

javax.swing.JRadioButton[] radioTypes

The Radio buttons for selecting the new data type of the image

Class gov.nih.mipav.view.dialogs.JDialogBM3D extends JDialogScriptableBase implements Serializable

Serialized Fields

bm3dAlgo

BM3D bm3dAlgo

checkBoxHardSDWeighting

javax.swing.JCheckBox checkBoxHardSDWeighting

checkBoxWienerSDWeighting

javax.swing.JCheckBox checkBoxWienerSDWeighting

destImage

ModelImage[] destImage

estimateNoiseCheckBox

javax.swing.JCheckBox estimateNoiseCheckBox

estimateNoiseStandardDeviation

boolean estimateNoiseStandardDeviation

filterPanel

javax.swing.JPanel filterPanel

hardBIORButton

javax.swing.JRadioButton hardBIORButton

hardDCTButton

javax.swing.JRadioButton hardDCTButton

hardTransformGroup

javax.swing.ButtonGroup hardTransformGroup

image

ModelImage image

Use serialVersionUID for interoperability.

labelHardCoefficient

javax.swing.JLabel labelHardCoefficient

labelHardSearchSize

javax.swing.JLabel labelHardSearchSize

labelHardSimilar

javax.swing.JLabel labelHardSimilar

labelHardStep

javax.swing.JLabel labelHardStep

labelHardTransform

javax.swing.JLabel labelHardTransform

labelSigma

javax.swing.JLabel labelSigma

labelWienerSearchSize

javax.swing.JLabel labelWienerSearchSize

labelWienerSimilar

javax.swing.JLabel labelWienerSimilar

labelWienerStep

javax.swing.JLabel labelWienerStep

labelWienerTransform

javax.swing.JLabel labelWienerTransform

lambda3D_H

double lambda3D_H

n_H

int n_H

N_H

int N_H

n_W

int n_W

N_W

int N_W

p_H

int p_H

p_W

int p_W

sigma

double sigma

tau_2D_H

java.lang.String tau_2D_H

tau_2D_W

java.lang.String tau_2D_W

textHardCoefficient

javax.swing.JTextField textHardCoefficient

textHardSearchSize

javax.swing.JTextField textHardSearchSize

textHardSimilar

javax.swing.JTextField textHardSimilar

textHardStep

javax.swing.JTextField textHardStep

textSigma

javax.swing.JTextField textSigma

textWienerSearchSize

javax.swing.JTextField textWienerSearchSize

textWienerSimilar

javax.swing.JTextField textWienerSimilar

textWienerStep

javax.swing.JTextField textWienerStep

useSD_H

boolean useSD_H

useSD_W

boolean useSD_W

WienerBIORButton

javax.swing.JRadioButton WienerBIORButton

WienerDCTButton

javax.swing.JRadioButton WienerDCTButton

WienerTransformGroup

javax.swing.ButtonGroup WienerTransformGroup

Class gov.nih.mipav.view.dialogs.JDialogBorderClearing extends JDialogScriptableBase implements Serializable

Serialized Fields

borderClearAlgo25D

AlgorithmMorphology25D borderClearAlgo25D

DOCUMENT ME!

borderClearAlgo2D

AlgorithmMorphology2D borderClearAlgo2D

DOCUMENT ME!

borderClearAlgo3D

AlgorithmMorphology3D borderClearAlgo3D

DOCUMENT ME!

comboBoxKernel

javax.swing.JComboBox comboBoxKernel

DOCUMENT ME!

destinationGroup

javax.swing.ButtonGroup destinationGroup

destinationPanel

javax.swing.JPanel destinationPanel

displayLoc

int displayLoc

do25D

boolean do25D

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

image25D

javax.swing.JCheckBox image25D

DOCUMENT ME!

kernel

int kernel

DOCUMENT ME!

kernelSize

float kernelSize

DOCUMENT ME!

labelKernel

javax.swing.JLabel labelKernel

DOCUMENT ME!

maskPanel

javax.swing.JPanel maskPanel

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

outputPanel

JPanelAlgorithmOutputOptions outputPanel

processPanel

javax.swing.JPanel processPanel

replaceImage

javax.swing.JRadioButton replaceImage

resultImage

ModelImage resultImage

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogBottomHat extends JDialogScriptableBase implements Serializable

Serialized Fields

comboBoxKernel

javax.swing.JComboBox comboBoxKernel

DOCUMENT ME!

do25D

boolean do25D

DOCUMENT ME!

gsBottomHatAlgo25D

AlgorithmGrayScaleMorphology25D gsBottomHatAlgo25D

gsBottomHatAlgo2D

AlgorithmGrayScaleMorphology2D gsBottomHatAlgo2D

Use serialVersionUID for interoperability.

gsBottomHatAlgo3D

AlgorithmGrayScaleMorphology3D gsBottomHatAlgo3D

image

ModelImage image

DOCUMENT ME!

image25D

javax.swing.JCheckBox image25D

DOCUMENT ME!

itersD

int itersD

or if the source image is to be replaced.

itersE

int itersE

DOCUMENT ME!

kernel

int kernel

DOCUMENT ME!

kernelSize

float kernelSize

DOCUMENT ME!

labelKernel

javax.swing.JLabel labelKernel

DOCUMENT ME!

labelKernelSize

javax.swing.JLabel labelKernelSize

DOCUMENT ME!

labelNIterD

javax.swing.JLabel labelNIterD

DOCUMENT ME!

labelNIterE

javax.swing.JLabel labelNIterE

DOCUMENT ME!

maskPanel

javax.swing.JPanel maskPanel

DOCUMENT ME!

outputPanel

JPanelAlgorithmOutputOptions outputPanel

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textKernelSize

javax.swing.JTextField textKernelSize

DOCUMENT ME!

textNIterD

javax.swing.JTextField textNIterD

DOCUMENT ME!

textNIterE

javax.swing.JTextField textNIterE

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogBoundaryAttenuation extends JDialogScriptableBase implements Serializable

serialVersionUID:

-7736447447170989384L

Serialized Fields

attenuationAlgo

AlgorithmBoundaryAttenuation attenuationAlgo

The attenuation algorithm.

destImage

ModelImage destImage

The attenuated image.

maxAttenuation

float maxAttenuation

The maximum amount of attenuation to apply to the image (0 = no attenuation, 1 = full attenuation).

maxAttenuationTF

javax.swing.JTextField maxAttenuationTF

Maximum attenuation text field.

numErosions

int numErosions

The number of levels of attenuation to perform (done through morphological erosion).

numErosionsTF

javax.swing.JTextField numErosionsTF

Number of erosions text field.

srcImage

ModelImage srcImage

The image to attenuate.

userInterface

ViewUserInterface userInterface

The MIPAV user interface.

Class gov.nih.mipav.view.dialogs.JDialogBoundingVOIs extends JDialogBase implements Serializable

Serialized Fields

doInner

boolean doInner

doOuter

boolean doOuter

groupNum

int groupNum

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

innerCurveCheckBox

javax.swing.JCheckBox innerCurveCheckBox

innerDistance

float innerDistance

innerDistanceLabel

javax.swing.JLabel innerDistanceLabel

innerDistanceText

javax.swing.JTextField innerDistanceText

maxDistance

float maxDistance

outerCurveCheckBox

javax.swing.JCheckBox outerCurveCheckBox

outerDistance

float outerDistance

outerDistanceLabel

javax.swing.JLabel outerDistanceLabel

outerDistanceText

javax.swing.JTextField outerDistanceText

removeOriginal

boolean removeOriginal

DOCUMENT ME!

removeOriginalCheckBox

javax.swing.JCheckBox removeOriginalCheckBox

DOCUMENT ME!

sideLabel

javax.swing.JLabel sideLabel

sidePointsForTangent

int sidePointsForTangent

Maximum number of points to take from each side of a point on a curve in determining a tangent

sideText

javax.swing.JTextField sideText

srcVOI

VOI srcVOI

DOCUMENT ME!

voiColor

java.awt.Color voiColor

DOCUMENT ME!

VOIs

ViewVOIVector VOIs

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogBoxCount extends JDialogScriptableBase implements Serializable

Serialized Fields

boxCountAlgo

AlgorithmBoxCount boxCountAlgo

DOCUMENT ME!

entireImage

boolean entireImage

image

ModelImage image

DOCUMENT ME!

radioEntireImage

javax.swing.JRadioButton radioEntireImage

radioVOIRegion

javax.swing.JRadioButton radioVOIRegion

Class gov.nih.mipav.view.dialogs.JDialogBrainSurfaceExtractor extends JDialogScriptableBase implements Serializable

serialVersionUID:

-4594568089644651497L

Serialized Fields

closeKernelSize

float closeKernelSize

Size of the kernel used in the closing operations.

closeKernelSizeTF

javax.swing.JTextField closeKernelSizeTF

Text field used to enter the number of closings to perform.

edgeKernelSize

float edgeKernelSize

Edge detection kernel size (.6 in Shattuck paper).

edgeKernelSizeTF

javax.swing.JTextField edgeKernelSizeTF

Text field used to enter the edge detection kernel size.

erosion25D

boolean erosion25D

Whether to process the slices of the 3D image separately while performing the erosion / dilation.

erosion25DCB

javax.swing.JCheckBox erosion25DCB

Check box for indicating whether erosion / dilation should process slices independently.

erosionIterations

int erosionIterations

Number of erosion / dilation operations to perform (2 in Shattuck paper).

erosionIterationsTF

javax.swing.JTextField erosionIterationsTF

Text field used to enter the number of erosions / dilations.

extractBrainAlgo

AlgorithmBrainSurfaceExtractor extractBrainAlgo

Reference to the algorithm we will be running.

extractPaint

boolean extractPaint

Whether to extract the brain to paint instead of removing image data.

extractPaintCheckBox

javax.swing.JCheckBox extractPaintCheckBox

Checkbox to extract the brain to paint instead of removing image data.

fillHoles

boolean fillHoles

Whether to fill in all internal holes in the extracted brain.

fillHolesCB

javax.swing.JCheckBox fillHolesCB

Checkbox for indicating whether to close all of the interior holes in the extracted brain.

filterGaussianStdDev

float filterGaussianStdDev

Standard deviation of the filter's gaussian kernel.

filterGaussianStdDevTF

javax.swing.JTextField filterGaussianStdDevTF

Text field used to enter the standard deviation of the filter's gaussian kernel.

filterIterations

int filterIterations

Number of filter iterations.

filterIterationsTF

javax.swing.JTextField filterIterationsTF

Text field used to enter the number of filter iterations.

image

ModelImage image

The source image.

imageCopy

ModelImage imageCopy

A copy of the source image to run the algorithm on.

imgName

java.lang.String imgName

The original image name.

resultImage

ModelImage resultImage

The result image.

showIntermediateImages

boolean showIntermediateImages

Whether to show images from intermediate steps of the BSE algorithm.

showIntermediateImagesCB

javax.swing.JCheckBox showIntermediateImagesCB

Checkbox to show images which can help in paramater tweaking.

userInterface

ViewUserInterface userInterface

Reference to the main user interface.

useSeparable

boolean useSeparable

Whether to use a separable convolver during edge detection.

useSeparableCB

javax.swing.JCheckBox useSeparableCB

Checkbox to elect to use the separable convolver in the edge detection algorithm.

Class gov.nih.mipav.view.dialogs.JDialogBrightness extends JDialogBase implements Serializable

serialVersionUID:

-1222614304368736757L

Serialized Fields

brightness

int brightness

DOCUMENT ME!

brightnessSlider

javax.swing.JSlider brightnessSlider

DOCUMENT ME!

componentImage

ViewJComponentAnimate componentImage

DOCUMENT ME!

componentImageColEM

ViewJComponentColocalizationEM componentImageColEM

DOCUMENT ME!

componentImageColReg

ViewJComponentColocalizationRegression componentImageColReg

DOCUMENT ME!

contrast

float contrast

DOCUMENT ME!

contrastSlider

javax.swing.JSlider contrastSlider

DOCUMENT ME!

current

javax.swing.JLabel current

DOCUMENT ME!

current2

javax.swing.JLabel current2

DOCUMENT ME!

nfc

java.text.NumberFormat nfc

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogBRISK extends JDialogScriptableBase implements Serializable

Serialized Fields

bAlgo

AlgorithmBRISK bAlgo

DOCUMENT ME!

comboBoxImage

javax.swing.JComboBox comboBoxImage

destImage

ModelImage destImage

DOCUMENT ME!

dMax

double dMax

dMin

double dMin

HammingDistanceThreshold

int HammingDistanceThreshold

image

ModelImage image

DOCUMENT ME!

imageVOIGroup

javax.swing.ButtonGroup imageVOIGroup

imageVOIPanel

javax.swing.JPanel imageVOIPanel

indexChange

java.util.Vector<java.lang.Integer> indexChange

labelHammingDistanceThreshold

javax.swing.JLabel labelHammingDistanceThreshold

labelOctaves

javax.swing.JLabel labelOctaves

labelThreshold

javax.swing.JLabel labelThreshold

numberList

java.util.Vector<java.lang.Integer> numberList

octaves

int octaves

paramPanel

javax.swing.JPanel paramPanel

patternScale

double patternScale

radiusList

java.util.Vector<java.lang.Double> radiusList

rotationCheckBox

javax.swing.JCheckBox rotationCheckBox

rotationInvariant

boolean rotationInvariant

scaleCheckBox

javax.swing.JCheckBox scaleCheckBox

scaleInvariant

boolean scaleInvariant

textHammingDistanceThreshold

javax.swing.JTextField textHammingDistanceThreshold

textOctaves

javax.swing.JTextField textOctaves

textThreshold

javax.swing.JTextField textThreshold

threshold

int threshold

userInterface

ViewUserInterface userInterface

VOIRegions

javax.swing.JRadioButton VOIRegions

wholeImage

javax.swing.JRadioButton wholeImage

wholeImageFlag

boolean wholeImageFlag

Class gov.nih.mipav.view.dialogs.JDialogBSmooth extends JDialogBase implements Serializable

serialVersionUID:

-2582311598077394632L

Serialized Fields

BSplineButton

javax.swing.JRadioButton BSplineButton

defaultPts

int defaultPts

DOCUMENT ME!

doEllipticFourierDescription

boolean doEllipticFourierDescription

doMinimumPerimeterPolygon

boolean doMinimumPerimeterPolygon

elementNum

int elementNum

DOCUMENT ME!

ellipticAlgo

AlgorithmEllipticFourierDescriptors ellipticAlgo

ellipticButton

javax.swing.JRadioButton ellipticButton

groupNum

int groupNum

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

labelInterpNPts

javax.swing.JLabel labelInterpNPts

minimumPerimeterPolygonButton

javax.swing.JRadioButton minimumPerimeterPolygonButton

mppAlgo

AlgorithmMinimumPerimeterPolygon mppAlgo

nPoints

int nPoints

nPts

int nPts

DOCUMENT ME!

removeOriginal

boolean removeOriginal

DOCUMENT ME!

removeOriginalCheckBox

javax.swing.JCheckBox removeOriginalCheckBox

DOCUMENT ME!

smoothAlgo

AlgorithmBSmooth smoothAlgo

DOCUMENT ME!

smoothGroup

javax.swing.ButtonGroup smoothGroup

textInterpNPts

javax.swing.JTextField textInterpNPts

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

trim

boolean trim

DOCUMENT ME!

trimCheckBox

javax.swing.JCheckBox trimCheckBox

DOCUMENT ME!

voiColor

java.awt.Color voiColor

DOCUMENT ME!

voiManager

VOIManagerInterface voiManager

VOIs

ViewVOIVector VOIs

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogBSnake extends JDialogBase implements Serializable

serialVersionUID:

6813632326437983422L

Serialized Fields

boundaryIterations

int boundaryIterations

DOCUMENT ME!

groupNum

int groupNum

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

labelCorrected

javax.swing.JLabel labelCorrected

DOCUMENT ME!

normFactor

float normFactor

DOCUMENT ME!

propagate

javax.swing.JRadioButton propagate

DOCUMENT ME!

propagationType

int propagationType

DOCUMENT ME!

removeOriginal

boolean removeOriginal

DOCUMENT ME!

removeOriginalCheckBox

javax.swing.JCheckBox removeOriginalCheckBox

DOCUMENT ME!

resolutionCheckbox

javax.swing.JCheckBox resolutionCheckbox

difference between x,y resolutions (in plane) and z resolution (between planes).

scaleX

float scaleX

DOCUMENT ME!

scaleY

float scaleY

DOCUMENT ME!

scaleZ

float scaleZ

DOCUMENT ME!

singleSlice

javax.swing.JRadioButton singleSlice

DOCUMENT ME!

snakeAlgo

AlgorithmBSnake snakeAlgo

DOCUMENT ME!

srcVOI

VOI srcVOI

DOCUMENT ME!

textBoundaryIterations

javax.swing.JTextField textBoundaryIterations

DOCUMENT ME!

textGaussX

javax.swing.JTextField textGaussX

DOCUMENT ME!

textGaussY

javax.swing.JTextField textGaussY

DOCUMENT ME!

textGaussZ

javax.swing.JTextField textGaussZ

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

voiColor

java.awt.Color voiColor

DOCUMENT ME!

VOIs

ViewVOIVector VOIs

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogBulkImageCalculator extends JDialogScriptableBase implements Serializable

Serialized Fields

addImageBrowseButton

javax.swing.JButton addImageBrowseButton

browse button

additionalImagesLabel

javax.swing.JLabel additionalImagesLabel

label for browsing for additional images

additionalImagesList

java.util.ArrayList<ModelImage> additionalImagesList

list of any additional images browsed to

alg

AlgorithmImageCalculator alg

handle to algorithm

clipMode

int clipMode

clip mode

comboBoxOperator

javax.swing.JComboBox comboBoxOperator

operator combo box

displayLoc

int displayLoc

result image in new frame

imageA

ModelImage imageA

source image.

isColor

boolean isColor

is color boolean

isMultifile

boolean isMultifile

boolean isMultifile

opType

int opType

operation type....for now set to ADD

removeSelectedButton

javax.swing.JButton removeSelectedButton

remove button

removeSelectedImagesLabel

javax.swing.JLabel removeSelectedImagesLabel

label for removing selected images

resultImage

ModelImage resultImage

result image

selectedRows

int[] selectedRows

indices of selcted rows to remove

srcImagesList

java.util.ArrayList<ModelImage> srcImagesList

list of images to send to algorithm

srcImagesTable

javax.swing.JTable srcImagesTable

table to display the src image names.

srcTableModel

ViewTableModel srcTableModel

table model for the srcimages.

Class gov.nih.mipav.view.dialogs.JDialogCannyEdgeDetection extends JDialogScriptableBase implements Serializable

Serialized Fields

cannyAlgo

AlgorithmCannyEdgeDetection cannyAlgo

DOCUMENT ME!

highThreshold

double highThreshold

image

ModelImage image

DOCUMENT ME!

lowThreshold

double lowThreshold

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

sigma

float sigma

textHighThreshold

javax.swing.JTextField textHighThreshold

textLowThreshold

javax.swing.JTextField textLowThreshold

DOCUMENT ME!

textSigma

javax.swing.JTextField textSigma

Class gov.nih.mipav.view.dialogs.JDialogCaptureScreen extends JDialogBase implements Serializable

serialVersionUID:

-2364847865242983737L

Serialized Fields

activeFrame

ViewJFrameImage activeFrame

Active frame

copy

boolean copy

Flag that indicates whether to copy capture to clipboard

copyCheck

javax.swing.JRadioButton copyCheck

Button for selecting copy to clipboard.

currentRectangle

java.awt.Rectangle currentRectangle

The rectangle that will be captured from the screen to save to a file.

display

boolean display

Flag that indicates whether to put capture in a new frame on screen.

displayCheck

javax.swing.JRadioButton displayCheck

Button for selecting display in window.

fileField

javax.swing.JTextField fileField

JTextField for the name of the file being attached

fileName

java.lang.String fileName

String to house the user inputed file name

imageAttacher

boolean imageAttacher

Boolean indicating if JDialogCaptureScreen has been initialized through ReportBugBuilder

imagePix

java.awt.Image imagePix

The image selected by the user

insert

boolean insert

Boolean indicating if the Insert button has been pressed

insertButton

javax.swing.JButton insertButton

Button for inserting the image into the body of a bug report

instructions

javax.swing.JLabel instructions

Instructions on how to use screen capture, line 1.

instructions2

javax.swing.JLabel instructions2

Instructions on how to use screen capture, line 2.

instructions3

javax.swing.JLabel instructions3

Instructions on how to use screen capture, line 3.

mode

JDialogCaptureScreen.WindowProperties mode

Mode - region or window

myGlassPanes

JDialogCaptureScreen.MyGlassPane[] myGlassPanes

Special glass panes for all the valid frames in the GUI so that the user can draw rectangles on top of objects in the GUI.

ok

boolean ok

Boolean indicating if the OK button has been pressed when JDialogCaptureScreen is launched through the report bug form

oldFrames

javax.swing.JFrame[] oldFrames

All the valid JFrames in the GUI.

oldPanes

java.awt.Component[] oldPanes

Old glass panes to reset to after drawing is done.

regionButton

javax.swing.JRadioButton regionButton

Button for selecting region mode.

save

boolean save

Flag that indicates whether to save capture as file.

saveCheck

javax.swing.JRadioButton saveCheck

Button for selecting save to computer.

userInterface

ViewUserInterface userInterface

Pointer to the user interface.

windowButton

javax.swing.JRadioButton windowButton

Button for selecting window mode.

Class gov.nih.mipav.view.dialogs.JDialogCaptureScreens extends JDialogBase implements Serializable

serialVersionUID:

5133757391495903883L

Serialized Fields

currentRectangle

java.awt.Rectangle currentRectangle

The rectangle that will be captured from the screen to save to a file.

currentSlice

int currentSlice

imageFrame

ViewJFrameImage imageFrame

The parent image frame.

numSlices

int numSlices

Number of slices in the image.

Class gov.nih.mipav.view.dialogs.JDialogCenterOfMass extends JDialogScriptableBase implements Serializable

Serialized Fields

comAlgo

AlgorithmCenterOfMass comAlgo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

labelThres2

javax.swing.JLabel labelThres2

DOCUMENT ME!

max

float max

DOCUMENT ME!

min

float min

DOCUMENT ME!

regionFlag

boolean regionFlag

or if the source image is to be replaced.

textThres1

javax.swing.JTextField textThres1

DOCUMENT ME!

textThres2

javax.swing.JTextField textThres2

DOCUMENT ME!

thres1

float thres1

DOCUMENT ME!

thres2

float thres2

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

VOIRegions

javax.swing.JRadioButton VOIRegions

DOCUMENT ME!

wholeImage

javax.swing.JRadioButton wholeImage

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogCenterOfMass.CheckValueAction extends javax.swing.AbstractAction implements Serializable

serialVersionUID:

-1531686009578681460L

Class gov.nih.mipav.view.dialogs.JDialogCenterOfMassRGB extends JDialogScriptableBase implements Serializable

Serialized Fields

applyToAllBox

javax.swing.JCheckBox applyToAllBox

false = apply algorithm only to VOI regions apply same threshold to all.

comAlgoRGB

AlgorithmCenterOfMassRGB comAlgoRGB

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

maxs

float[] maxs

DOCUMENT ME!

mins

float[] mins

Minimum and maximum values for red/gree/blue.

regionFlag

boolean regionFlag

or if the source image is to be replaced.

textThreshold1

javax.swing.JTextField[] textThreshold1

Text fields for lower & upper thresholds and fill values.

textThreshold2

javax.swing.JTextField[] textThreshold2

DOCUMENT ME!

thresholdB

float[] thresholdB

DOCUMENT ME!

thresholdG

float[] thresholdG

DOCUMENT ME!

thresholdLabels1

javax.swing.JLabel[] thresholdLabels1

DOCUMENT ME!

thresholdLabels2

javax.swing.JLabel[] thresholdLabels2

DOCUMENT ME!

thresholdR

float[] thresholdR

lower [0] and upper [1] thresholds for RGB.

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

VOIRegions

javax.swing.JRadioButton VOIRegions

DOCUMENT ME!

wholeImage

javax.swing.JRadioButton wholeImage

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogCentroidThreshold extends JDialogBase implements Serializable

serialVersionUID:

5102272946311012581L

Serialized Fields

centroids

float[] centroids

DOCUMENT ME!

defaultValueInput

javax.swing.JTextField[] defaultValueInput

DOCUMENT ME!

gbc

java.awt.GridBagConstraints gbc

DOCUMENT ME!

gbl

java.awt.GridBagLayout gbl

DOCUMENT ME!

i

int i

DOCUMENT ME!

imageName

java.lang.String imageName

DOCUMENT ME!

maximum

float maximum

DOCUMENT ME!

minimum

float minimum

DOCUMENT ME!

nClasses

int nClasses

DOCUMENT ME!

threshold

float threshold

DOCUMENT ME!

thresholdValueInput

javax.swing.JTextField thresholdValueInput

DOCUMENT ME!

tmpStr

java.lang.String tmpStr

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogChangeMaskNumber extends JDialogBase implements Serializable

Serialized Fields

btArrayList

java.util.ArrayList<java.lang.Integer> btArrayList

this is the array list of the texts on the buttons

changeButton

javax.swing.JButton changeButton

this is the action button to change

changeLabel

javax.swing.JLabel changeLabel

this is the text in the Dialog

color

java.awt.Color[] color

re f to Color array

correspButton

javax.swing.JButton correspButton

this is a ref to the corresponding button becasue they need to be in sync

currentMaskNumberIndex

int currentMaskNumberIndex

this represents the current index of the btArrayList

image

ModelImage image

ref to image

intensityLockVector

java.util.Vector<java.lang.Integer> intensityLockVector

ref to IntensityLockVector

lutB

ModelLUT lutB

lutB

numberField

javax.swing.JTextField numberField

this is the input for the user to enter what number they want to change to

srcButton

javax.swing.JButton srcButton

this is a ref to the source button so that the text on the button can be changed

srcValue

int srcValue

src button text number

Class gov.nih.mipav.view.dialogs.JDialogCheckerBoard extends JDialogBase implements Serializable

serialVersionUID:

4180573157937289440L

Serialized Fields

animateButton

javax.swing.JButton animateButton

animateThread

java.lang.Thread animateThread

animateTime

long animateTime

animating

boolean animating

bandSpacingCounter

int bandSpacingCounter

cc

int cc

checkerboardApplied

boolean checkerboardApplied

checkerboardTypesCB

javax.swing.JComboBox checkerboardTypesCB

DOCUMENT ME!

checkerboardTypesLabel

javax.swing.JLabel checkerboardTypesLabel

cleanImageBufferB

int[] cleanImageBufferB

closeButton

javax.swing.JButton closeButton

DOCUMENT ME!

columnNumber

int columnNumber

compImage

ViewJComponentEditImage compImage

DOCUMENT ME!

doReg

boolean doReg

DOCUMENT ME!

isStopped

boolean isStopped

labelColumnNumber

javax.swing.JLabel labelColumnNumber

DOCUMENT ME!

labelRowNumber

javax.swing.JLabel labelRowNumber

DOCUMENT ME!

labelTable

java.util.Hashtable<java.lang.Integer,javax.swing.JLabel> labelTable

DOCUMENT ME!

labelTable2

java.util.Hashtable<java.lang.Integer,javax.swing.JLabel> labelTable2

DOCUMENT ME!

maxColumn

int maxColumn

DOCUMENT ME!

maxExtents

int[] maxExtents

maxRow

int maxRow

DOCUMENT ME!

negativeSpeed

boolean negativeSpeed

pixBufferB

int[] pixBufferB

pressedStart

int pressedStart

regImage

ViewJComponentRegistration regImage

DOCUMENT ME!

rowNumber

int rowNumber

slider

javax.swing.JSlider slider

DOCUMENT ME!

slider2

javax.swing.JSlider slider2

DOCUMENT ME!

speedLabel

javax.swing.JLabel speedLabel

DOCUMENT ME!

speedLabelTable

java.util.Hashtable<java.lang.Integer,javax.swing.JLabel> speedLabelTable

DOCUMENT ME!

speedSlider

javax.swing.JSlider speedSlider

DOCUMENT ME!

textColumnNumber

javax.swing.JTextField textColumnNumber

DOCUMENT ME!

textRowNumber

javax.swing.JTextField textRowNumber

DOCUMENT ME!

xMod

int xMod

xSep

int xSep

yMod

int yMod

ySep

int ySep

Class gov.nih.mipav.view.dialogs.JDialogCircleGeneration extends JDialogBase implements Serializable

serialVersionUID:

0L

Serialized Fields

aggregatedButton

javax.swing.JRadioButton aggregatedButton

aggregatedCirclesDifferentSizesButton

javax.swing.JRadioButton aggregatedCirclesDifferentSizesButton

aggregatedEllipseButton

javax.swing.JRadioButton aggregatedEllipseButton

aggregatedEllipseRandomOrientationButton

javax.swing.JRadioButton aggregatedEllipseRandomOrientationButton

aggregatedEllipseRandomOrientationDifferentSizes

javax.swing.JRadioButton aggregatedEllipseRandomOrientationDifferentSizes

cAlgo

AlgorithmCircleGeneration cAlgo

DOCUMENT ME!

constrainedButton

javax.swing.JRadioButton constrainedButton

extents

int[] extents

highestForbiddenLabel

javax.swing.JLabel highestForbiddenLabel

highestForbiddenNNDistance

double highestForbiddenNNDistance

highestForbiddenText

javax.swing.JTextField highestForbiddenText

highestRegenerationLabel

javax.swing.JLabel highestRegenerationLabel

highestRegenerationNNDistance

double highestRegenerationNNDistance

highestRegenerationText

javax.swing.JTextField highestRegenerationText

initialCirclesLabel

javax.swing.JLabel initialCirclesLabel

initialCirclesText

javax.swing.JTextField initialCirclesText

initialRandomCircles

int initialRandomCircles

lowestForbiddenLabel

javax.swing.JLabel lowestForbiddenLabel

lowestForbiddenNNDistance

double lowestForbiddenNNDistance

lowestForbiddenText

javax.swing.JTextField lowestForbiddenText

maximumDistanceLabel

javax.swing.JLabel maximumDistanceLabel

maximumDistanceText

javax.swing.JTextField maximumDistanceText

maximumNearestNeighborDistance

double maximumNearestNeighborDistance

minimumDistanceLabel

javax.swing.JLabel minimumDistanceLabel

minimumDistanceText

javax.swing.JTextField minimumDistanceText

minimumNearestNeighborDistance

double minimumNearestNeighborDistance

numCircles

int numCircles

numCirclesText

javax.swing.JTextField numCirclesText

pattern

int pattern

patternGroup

javax.swing.ButtonGroup patternGroup

phi

double phi

phiLabel

javax.swing.JLabel phiLabel

phiText

javax.swing.JTextField phiText

radius

int radius

radiusText

javax.swing.JTextField radiusText

DOCUMENT ME!

randomButton

javax.swing.JRadioButton randomButton

ratioLabel

javax.swing.JLabel ratioLabel

ratioText

javax.swing.JTextField ratioText

regularButton

javax.swing.JRadioButton regularButton

resultImage

ModelImage resultImage

DOCUMENT ME!

semiMajorAxis

double semiMajorAxis

semiMajorAxisLabel

javax.swing.JLabel semiMajorAxisLabel

semiMajorAxisText

javax.swing.JTextField semiMajorAxisText

semiMinorAxis

double semiMinorAxis

semiMinorAxisLabel

javax.swing.JLabel semiMinorAxisLabel

semiMinorAxisText

javax.swing.JTextField semiMinorAxisText

smallestToLargestAxisRatio

double smallestToLargestAxisRatio

xDim

int xDim

DOCUMENT ME!

xDimText

javax.swing.JTextField xDimText

DOCUMENT ME!

yDim

int yDim

DOCUMENT ME!

yDimText

javax.swing.JTextField yDimText

Class gov.nih.mipav.view.dialogs.JDialogCircleToRectangle extends JDialogBase implements Serializable

serialVersionUID:

0L

Serialized Fields

cAlgo

AlgorithmCircleToRectangle cAlgo

DOCUMENT ME!

extents

int[] extents

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

xDim

int xDim

DOCUMENT ME!

xSource

double[] xSource

DOCUMENT ME!

xText

javax.swing.JTextField xText

DOCUMENT ME!

yDim

int yDim

DOCUMENT ME!

ySource

double[] ySource

DOCUMENT ME!

yText

javax.swing.JTextField yText

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogCircularSectorToRectangle extends JDialogBase implements Serializable

serialVersionUID:

0L

Serialized Fields

cAlgo

AlgorithmCircularSectorToRectangle cAlgo

DOCUMENT ME!

extents

int[] extents

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

xDim

int xDim

DOCUMENT ME!

xSource

double[] xSource

DOCUMENT ME!

xText

javax.swing.JTextField xText

DOCUMENT ME!

yDim

int yDim

DOCUMENT ME!

ySource

double[] ySource

DOCUMENT ME!

yText

javax.swing.JTextField yText

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogClose extends JDialogScriptableBase implements Serializable

serialVersionUID:

-8489706932459076773L

Serialized Fields

binaryButton

javax.swing.JRadioButton binaryButton

binaryMorphology

boolean binaryMorphology

closeAlgo25D

AlgorithmMorphology25D closeAlgo25D

DOCUMENT ME!

closeAlgo2D

AlgorithmMorphology2D closeAlgo2D

DOCUMENT ME!

closeAlgo3D

AlgorithmMorphology3D closeAlgo3D

DOCUMENT ME!

comboBoxKernel

javax.swing.JComboBox comboBoxKernel

DOCUMENT ME!

do25D

boolean do25D

DOCUMENT ME!

grayScaleButton

javax.swing.JRadioButton grayScaleButton

gsCloseAlgo25D

AlgorithmGrayScaleMorphology25D gsCloseAlgo25D

gsCloseAlgo2D

AlgorithmGrayScaleMorphology2D gsCloseAlgo2D

gsCloseAlgo3D

AlgorithmGrayScaleMorphology3D gsCloseAlgo3D

image

ModelImage image

DOCUMENT ME!

image25D

javax.swing.JCheckBox image25D

DOCUMENT ME!

itersD

int itersD

or if the source image is to be replaced.

itersE

int itersE

DOCUMENT ME!

kernel

int kernel

DOCUMENT ME!

kernelSize

float kernelSize

DOCUMENT ME!

labelKernel

javax.swing.JLabel labelKernel

DOCUMENT ME!

labelKernelSize

javax.swing.JLabel labelKernelSize

DOCUMENT ME!

labelNIterD

javax.swing.JLabel labelNIterD

DOCUMENT ME!

labelNIterE

javax.swing.JLabel labelNIterE

DOCUMENT ME!

maskPanel

javax.swing.JPanel maskPanel

DOCUMENT ME!

morphologyGroup

javax.swing.ButtonGroup morphologyGroup

outputPanel

JPanelAlgorithmOutputOptions outputPanel

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textKernelSize

javax.swing.JTextField textKernelSize

DOCUMENT ME!

textNIterD

javax.swing.JTextField textNIterD

DOCUMENT ME!

textNIterE

javax.swing.JTextField textNIterE

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogCoherenceEnhancingDiffusion extends JDialogScriptableBase implements Serializable

serialVersionUID:

1141466038513737001L

Serialized Fields

checkBox25D

javax.swing.JCheckBox checkBox25D

DOCUMENT ME!

coherenceEnhancingDiffusionAlgo

AlgorithmCoherenceEnhancingDiffusion coherenceEnhancingDiffusionAlgo

DOCUMENT ME!

derivativeScale

float derivativeScale

DOCUMENT ME!

diffusitivityDenom

float diffusitivityDenom

DOCUMENT ME!

do25D

boolean do25D

DOCUMENT ME!

entireImage

boolean entireImage

DOCUMENT ME!

gaussianScale

float gaussianScale

DOCUMENT ME!

numIterations

int numIterations

DOCUMENT ME!

radioEntireImage

javax.swing.JRadioButton radioEntireImage

DOCUMENT ME!

radioVOIRegion

javax.swing.JRadioButton radioVOIRegion

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

srcImage

ModelImage srcImage

DOCUMENT ME!

textDerivative

javax.swing.JTextField textDerivative

DOCUMENT ME!

textDiffusitivity

javax.swing.JTextField textDiffusitivity

DOCUMENT ME!

textGaussian

javax.swing.JTextField textGaussian

DOCUMENT ME!

textNumberIterations

javax.swing.JTextField textNumberIterations

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogColocalizationEM extends JDialogScriptableBase implements Serializable

serialVersionUID:

-2241466976779150747L

Serialized Fields

andButton

javax.swing.JRadioButton andButton

DOCUMENT ME!

bin1

int bin1

DOCUMENT ME!

bin1Label

javax.swing.JLabel bin1Label

DOCUMENT ME!

bin1Text

javax.swing.JTextField bin1Text

DOCUMENT ME!

bin2

int bin2

DOCUMENT ME!

bin2Label

javax.swing.JLabel bin2Label

DOCUMENT ME!

bin2Text

javax.swing.JTextField bin2Text

DOCUMENT ME!

blueCheckBox

javax.swing.JCheckBox blueCheckBox

DOCUMENT ME!

bottomPad

int bottomPad

DOCUMENT ME!

buffer

float[] buffer

DOCUMENT ME!

colocalizationAlgo

AlgorithmColocalizationEM colocalizationAlgo

DOCUMENT ME!

colorsPresent

int colorsPresent

DOCUMENT ME!

comboBoxCostFunct

javax.swing.JComboBox comboBoxCostFunct

DOCUMENT ME!

cost

int cost

DOCUMENT ME!

doOr

boolean doOr

DOCUMENT ME!

entireImage

boolean entireImage

DOCUMENT ME!

firstImage

ModelImage firstImage

DOCUMENT ME!

gaussianLabel

javax.swing.JLabel gaussianLabel

DOCUMENT ME!

gaussians

int gaussians

DOCUMENT ME!

gaussianText

javax.swing.JTextField gaussianText

DOCUMENT ME!

greenCheckBox

javax.swing.JCheckBox greenCheckBox

DOCUMENT ME!

imageComboBox

javax.swing.JComboBox imageComboBox

DOCUMENT ME!

imageLength

int imageLength

DOCUMENT ME!

iterationLabel

javax.swing.JLabel iterationLabel

DOCUMENT ME!

iterations

int iterations

DOCUMENT ME!

iterationText

javax.swing.JTextField iterationText

DOCUMENT ME!

labelCost

javax.swing.JLabel labelCost

DOCUMENT ME!

labelImage

javax.swing.JLabel labelImage

DOCUMENT ME!

leftPad

int leftPad

DOCUMENT ME!

mask

java.util.BitSet mask

DOCUMENT ME!

maxB

double maxB

DOCUMENT ME!

maxBV

double maxBV

DOCUMENT ME!

maxG

double maxG

DOCUMENT ME!

maxGV

double maxGV

DOCUMENT ME!

maxR

double maxR

DOCUMENT ME!

maxRV

double maxRV

DOCUMENT ME!

maxV

double maxV

DOCUMENT ME!

minB

double minB

DOCUMENT ME!

minBV

double minBV

DOCUMENT ME!

minG

double minG

DOCUMENT ME!

minGV

double minGV

DOCUMENT ME!

minR

double minR

DOCUMENT ME!

minRV

double minRV

DOCUMENT ME!

minV

double minV

DOCUMENT ME!

nBoundingVOIs

int nBoundingVOIs

DOCUMENT ME!

orButton

javax.swing.JRadioButton orButton

DOCUMENT ME!

possibleInt2Values

double possibleInt2Values

DOCUMENT ME!

possibleIntValues

double possibleIntValues

DOCUMENT ME!

redCheckBox

javax.swing.JCheckBox redCheckBox

DOCUMENT ME!

regCheckBox

javax.swing.JCheckBox regCheckBox

DOCUMENT ME!

register

boolean register

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

rightPad

int rightPad

DOCUMENT ME!

secondImage

ModelImage secondImage

DOCUMENT ME!

secondMaxV

double secondMaxV

DOCUMENT ME!

secondMinV

double secondMinV

DOCUMENT ME!

secondName

java.lang.String secondName

DOCUMENT ME!

segImage

ModelImage segImage

Class segmentation shown.

threshold1

float threshold1

DOCUMENT ME!

threshold1Label

javax.swing.JLabel threshold1Label

DOCUMENT ME!

threshold1Text

javax.swing.JTextField threshold1Text

DOCUMENT ME!

threshold2

float threshold2

DOCUMENT ME!

threshold2Label

javax.swing.JLabel threshold2Label

DOCUMENT ME!

threshold2Text

javax.swing.JTextField threshold2Text

DOCUMENT ME!

topPad

int topPad

DOCUMENT ME!

UI

ViewUserInterface UI

DOCUMENT ME!

useBlue

boolean useBlue

DOCUMENT ME!

useGreen

boolean useGreen

DOCUMENT ME!

useRed

boolean useRed

DOCUMENT ME!

VOIRegions

javax.swing.JRadioButton VOIRegions

DOCUMENT ME!

wholeImage

javax.swing.JRadioButton wholeImage

DOCUMENT ME!

xDim

int xDim

DOCUMENT ME!

yDim

int yDim

DOCUMENT ME!

zDim

int zDim

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogColocalizationRegression extends JDialogScriptableBase implements Serializable

serialVersionUID:

2982353729666791012L

Serialized Fields

background1

float background1

DOCUMENT ME!

background2

float background2

DOCUMENT ME!

bin1

int bin1

DOCUMENT ME!

bin1Label

javax.swing.JLabel bin1Label

DOCUMENT ME!

bin1Text

javax.swing.JTextField bin1Text

DOCUMENT ME!

bin2

int bin2

DOCUMENT ME!

bin2Label

javax.swing.JLabel bin2Label

DOCUMENT ME!

bin2Text

javax.swing.JTextField bin2Text

DOCUMENT ME!

blueCheckBox

javax.swing.JCheckBox blueCheckBox

DOCUMENT ME!

bottomPad

int bottomPad

DOCUMENT ME!

buffer

float[] buffer

DOCUMENT ME!

colocalizationAlgo

AlgorithmColocalizationRegression colocalizationAlgo

DOCUMENT ME!

colocCheckBox

javax.swing.JCheckBox colocCheckBox

DOCUMENT ME!

colorsPresent

int colorsPresent

DOCUMENT ME!

comboBoxCostFunct

javax.swing.JComboBox comboBoxCostFunct

DOCUMENT ME!

componentImage1

ViewJComponentEditImage componentImage1

DOCUMENT ME!

componentImage2

ViewJComponentEditImage componentImage2

DOCUMENT ME!

cost

int cost

DOCUMENT ME!

doColocWithThresholds

boolean doColocWithThresholds

DOCUMENT ME!

doSecondIteration

boolean doSecondIteration

DOCUMENT ME!

doVOISubtraction

boolean doVOISubtraction

DOCUMENT ME!

entireImage

boolean entireImage

DOCUMENT ME!

firstImage

ModelImage firstImage

DOCUMENT ME!

firstName

java.lang.String firstName

DOCUMENT ME!

greenCheckBox

javax.swing.JCheckBox greenCheckBox

DOCUMENT ME!

imageComboBox

javax.swing.JComboBox imageComboBox

DOCUMENT ME!

imageLength

int imageLength

DOCUMENT ME!

labelCost

javax.swing.JLabel labelCost

DOCUMENT ME!

labelImage

javax.swing.JLabel labelImage

DOCUMENT ME!

leftPad

int leftPad

DOCUMENT ME!

mask

java.util.BitSet mask

DOCUMENT ME!

maskButton

javax.swing.JButton maskButton

DOCUMENT ME!

maskFileDir

java.lang.String maskFileDir

DOCUMENT ME!

maskFileName

java.lang.String maskFileName

DOCUMENT ME!

maskImage

ModelImage maskImage

DOCUMENT ME!

maskRadio

javax.swing.JRadioButton maskRadio

DOCUMENT ME!

maskText

javax.swing.JTextField maskText

DOCUMENT ME!

maxB

double maxB

DOCUMENT ME!

maxG

double maxG

DOCUMENT ME!

maxR

double maxR

DOCUMENT ME!

minB

double minB

DOCUMENT ME!

minG

double minG

DOCUMENT ME!

minR

double minR

DOCUMENT ME!

nBoundingVOIs

int nBoundingVOIs

DOCUMENT ME!

point1

float point1

DOCUMENT ME!

point1Label

javax.swing.JLabel point1Label

DOCUMENT ME!

point1Text

javax.swing.JTextField point1Text

DOCUMENT ME!

point2

float point2

DOCUMENT ME!

point2Label

javax.swing.JLabel point2Label

DOCUMENT ME!

point2Text

javax.swing.JTextField point2Text

DOCUMENT ME!

pointCalculation

boolean pointCalculation

DOCUMENT ME!

pointCheckBox

javax.swing.JCheckBox pointCheckBox

DOCUMENT ME!

possibleInt2Values

double possibleInt2Values

DOCUMENT ME!

possibleIntValues

double possibleIntValues

DOCUMENT ME!

redCheckBox

javax.swing.JCheckBox redCheckBox

DOCUMENT ME!

regCheckBox

javax.swing.JCheckBox regCheckBox

DOCUMENT ME!

register

boolean register

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

rightPad

int rightPad

DOCUMENT ME!

secondImage

ModelImage secondImage

DOCUMENT ME!

secondIterationCheckBox

javax.swing.JCheckBox secondIterationCheckBox

DOCUMENT ME!

secondName

java.lang.String secondName

DOCUMENT ME!

topPad

int topPad

DOCUMENT ME!

UI

ViewUserInterface UI

DOCUMENT ME!

useBlue

boolean useBlue

DOCUMENT ME!

useGreen

boolean useGreen

DOCUMENT ME!

useRed

boolean useRed

DOCUMENT ME!

VOICheckBox

javax.swing.JCheckBox VOICheckBox

DOCUMENT ME!

VOIRegions

javax.swing.JRadioButton VOIRegions

DOCUMENT ME!

wholeImage

javax.swing.JRadioButton wholeImage

DOCUMENT ME!

xDim

int xDim

DOCUMENT ME!

yDim

int yDim

DOCUMENT ME!

zDim

int zDim

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogColorEdge extends JDialogScriptableBase implements Serializable

serialVersionUID:

-5364017650931720063L

Serialized Fields

algoColorEdge

AlgorithmColorEdge algoColorEdge

DOCUMENT ME!

blue1

long blue1

DOCUMENT ME!

blue1Text

javax.swing.JTextField blue1Text

DOCUMENT ME!

blue2

long blue2

DOCUMENT ME!

blue2Text

javax.swing.JTextField blue2Text

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

green1

long green1

DOCUMENT ME!

green1Text

javax.swing.JTextField green1Text

DOCUMENT ME!

green2

long green2

DOCUMENT ME!

green2Text

javax.swing.JTextField green2Text

DOCUMENT ME!

red1

long red1

DOCUMENT ME!

red1Text

javax.swing.JTextField red1Text

DOCUMENT ME!

red2

long red2

DOCUMENT ME!

red2Text

javax.swing.JTextField red2Text

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

sourceImage

ModelImage sourceImage

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogColorSaturation extends JDialogScriptableBase implements Serializable

Serialized Fields

a

float a

aLabel

javax.swing.JLabel aLabel

aText

javax.swing.JTextField aText

csAlgo

AlgorithmColorSaturation csAlgo

DOCUMENT ME!

image

ModelImage image

Source image.

mainLabel

javax.swing.JLabel mainLabel

mainLabel2

javax.swing.JLabel mainLabel2

mainLabel3

javax.swing.JLabel mainLabel3

mainLabel4

javax.swing.JLabel mainLabel4

mainLabel5

javax.swing.JLabel mainLabel5

paramsPanel

javax.swing.JPanel paramsPanel

DOCUMENT ME!

resultImage

ModelImage resultImage

Result image.

Class gov.nih.mipav.view.dialogs.JDialogConcat extends JDialogScriptableBase implements Serializable

serialVersionUID:

3284724231720657011L

Serialized Fields

comboBoxImage

javax.swing.JComboBox comboBoxImage

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

do3D

boolean do3D

DOCUMENT ME!

imageA

ModelImage imageA

DOCUMENT ME!

imageB

ModelImage imageB

DOCUMENT ME!

mathAlgo

AlgorithmConcat mathAlgo

DOCUMENT ME!

radio3D

javax.swing.JRadioButton radio3D

DOCUMENT ME!

radio4D

javax.swing.JRadioButton radio4D

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

selectedName

java.lang.String selectedName

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogConcatMult2Dto3D extends JDialogScriptableBase implements Serializable

Serialized Fields

additionalImagesToConcat

java.util.ArrayList<ModelImage> additionalImagesToConcat

additional images to concat...the ones you add later on

alg

AlgorithmConcatMult2Dto3D alg

algorithm

availableImagesToConcat

java.util.ArrayList<ModelImage> availableImagesToConcat

available images to concat...the ones that are open in mipav

copyAllInfo

boolean copyAllInfo

Whether all info in the image's FileInfo is copied

copyAllInfoBox

javax.swing.JCheckBox copyAllInfoBox

Checkbox for representing whether FileInfo is copied

destImage

ModelImage destImage

destination image

destImagesTable

javax.swing.JTable destImagesTable

table

destTableModel

ViewTableModel destTableModel

table model

imagesToConcat

java.util.ArrayList<ModelImage> imagesToConcat

images to concat

selectedRow

int selectedRow

indices of selcted rows to remove

srcImagesTable

javax.swing.JTable srcImagesTable

table

srcTableModel

ViewTableModel srcTableModel

table model

Class gov.nih.mipav.view.dialogs.JDialogConcatMult3Dto3D extends JDialogScriptableBase implements Serializable

Serialized Fields

additionalImagesToConcat

java.util.ArrayList<ModelImage> additionalImagesToConcat

additional images to concat...the ones you add later on

alg

AlgorithmConcatMult3Dto3D alg

algorithm

availableImagesToConcat

java.util.ArrayList<ModelImage> availableImagesToConcat

available images to concat...the ones that are open in mipav

copyAllInfo

boolean copyAllInfo

Whether all info in the image's FileInfo is copied

copyAllInfoBox

javax.swing.JCheckBox copyAllInfoBox

Checkbox for representing whether FileInfo is copied

destImage

ModelImage destImage

destination image

destImagesTable

javax.swing.JTable destImagesTable

table

destTableModel

ViewTableModel destTableModel

table model

imagesToConcat

java.util.ArrayList<ModelImage> imagesToConcat

images to concat

selectedRow

int selectedRow

indices of selcted rows to remove

srcImagesTable

javax.swing.JTable srcImagesTable

table

srcTableModel

ViewTableModel srcTableModel

table model

Class gov.nih.mipav.view.dialogs.JDialogConcatMult3Dto4D extends JDialogScriptableBase implements Serializable

Serialized Fields

additionalImagesToConcat

java.util.ArrayList<ModelImage> additionalImagesToConcat

additional images to concat...the ones you add later on

alg

AlgorithmConcatMult3Dto4D alg

algorithm

availableImagesToConcat

java.util.ArrayList<ModelImage> availableImagesToConcat

available images to concat...the ones that are open in mipav

copyAllInfo

boolean copyAllInfo

Whether all info in the image's FileInfo is copied

copyAllInfoBox

javax.swing.JCheckBox copyAllInfoBox

Checkbox for representing whether FileInfo is copied

destImage

ModelImage destImage

destination image

destImagesTable

javax.swing.JTable destImagesTable

table

destTableModel

ViewTableModel destTableModel

table model

imagesToConcat

java.util.ArrayList<ModelImage> imagesToConcat

images to concat

selectedRow

int selectedRow

indices of selcted rows to remove

srcImagesTable

javax.swing.JTable srcImagesTable

table

srcTableModel

ViewTableModel srcTableModel

table model

Class gov.nih.mipav.view.dialogs.JDialogConstrainedOAR3D extends JDialogScriptableBase implements Serializable

serialVersionUID:

-5867077647353095805L

Serialized Fields

advancedDialog

javax.swing.JDialog advancedDialog

Variables for Advanced Settings dialog.

bracketBound

int bracketBound

DOCUMENT ME!

bracketBound_def

int bracketBound_def

DOCUMENT ME!

bracketBoundText

javax.swing.JTextField bracketBoundText

DOCUMENT ME!

buttonWeightInput

javax.swing.JButton buttonWeightInput

DOCUMENT ME!

buttonWeightRef

javax.swing.JButton buttonWeightRef

DOCUMENT ME!

calcCOG

boolean calcCOG

DOCUMENT ME!

calcCOGCheckbox

javax.swing.JCheckBox calcCOGCheckbox

DOCUMENT ME!

coarsePanelX

javax.swing.JPanel coarsePanelX

DOCUMENT ME!

coarsePanelY

javax.swing.JPanel coarsePanelY

DOCUMENT ME!

coarsePanelZ

javax.swing.JPanel coarsePanelZ

DOCUMENT ME!

comboBoxCostFunct

javax.swing.JComboBox comboBoxCostFunct

DOCUMENT ME!

comboBoxDOF

javax.swing.JComboBox comboBoxDOF

DOCUMENT ME!

comboBoxImage

javax.swing.JComboBox comboBoxImage

DOCUMENT ME!

comboBoxInterp

javax.swing.JComboBox comboBoxInterp

DOCUMENT ME!

comboBoxInterp2

javax.swing.JComboBox comboBoxInterp2

DOCUMENT ME!

comboBoxSearchAlgo

javax.swing.JComboBox comboBoxSearchAlgo

cost

int cost

DOCUMENT ME!

costName

java.lang.String costName

DOCUMENT ME!

dataType

int dataType

directoryWInput

java.lang.String directoryWInput

DOCUMENT ME!

directoryWRef

java.lang.String directoryWRef

DOCUMENT ME!

displayTransform

boolean displayTransform

DOCUMENT ME!

doColor

boolean doColor

DOCUMENT ME!

DOF

int DOF

DOCUMENT ME!

doSubsample

boolean doSubsample

DOCUMENT ME!

fastMode

boolean fastMode

DOCUMENT ME!

fastModeCheckbox

javax.swing.JCheckBox fastModeCheckbox

DOCUMENT ME!

fileNameWInput

java.lang.String fileNameWInput

DOCUMENT ME!

fileNameWRef

java.lang.String fileNameWRef

DOCUMENT ME!

fillValue

float fillValue

gbc

java.awt.GridBagConstraints gbc

DOCUMENT ME!

imageMax

double imageMax

imageMin

double imageMin

inputWeightImage

ModelImage inputWeightImage

DOCUMENT ME!

interp

int interp

DOCUMENT ME!

interp2

int interp2

DOCUMENT ME!

labelInterp2

javax.swing.JLabel labelInterp2

DOCUMENT ME!

labelTranslateRangeX

javax.swing.JLabel labelTranslateRangeX

DOCUMENT ME!

labelTranslateRangeY

javax.swing.JLabel labelTranslateRangeY

DOCUMENT ME!

labelTranslateRangeZ

javax.swing.JLabel labelTranslateRangeZ

DOCUMENT ME!

limitTranslation

boolean limitTranslation

DOCUMENT ME!

limitTranslationCheckbox

javax.swing.JCheckBox limitTranslationCheckbox

DOCUMENT ME!

matchImage

ModelImage matchImage

DOCUMENT ME!

matrixComboBox

javax.swing.JComboBox matrixComboBox

matrixDirectory

java.lang.String matrixDirectory

matrixLabel

javax.swing.JLabel matrixLabel

maxIterations

int maxIterations

DOCUMENT ME!

maxIterations_def

int maxIterations_def

DOCUMENT ME!

maxIterationsText

javax.swing.JTextField maxIterationsText

DOCUMENT ME!

maxLimits

float[][] maxLimits

when done debugging: private boolean limitTranslation = false, oneTransLimit = false;.

maxOfMinResol

boolean maxOfMinResol

DOCUMENT ME!

maxTransTextX

javax.swing.JTextField maxTransTextX

DOCUMENT ME!

maxTransTextY

javax.swing.JTextField maxTransTextY

DOCUMENT ME!

maxTransTextZ

javax.swing.JTextField maxTransTextZ

DOCUMENT ME!

minMaxCheckbox

javax.swing.JCheckBox minMaxCheckbox

DOCUMENT ME!

minTransTextX

javax.swing.JTextField minTransTextX

DOCUMENT ME!

minTransTextY

javax.swing.JTextField minTransTextY

DOCUMENT ME!

minTransTextZ

javax.swing.JTextField minTransTextZ

DOCUMENT ME!

mmLabelX

javax.swing.JLabel mmLabelX

DOCUMENT ME!

mmLabelY

javax.swing.JLabel mmLabelY

DOCUMENT ME!

mmLabelZ

javax.swing.JLabel mmLabelZ

DOCUMENT ME!

noneRadio

javax.swing.JRadioButton noneRadio

DOCUMENT ME!

numberCoarseTextX

javax.swing.JTextField numberCoarseTextX

DOCUMENT ME!

numberCoarseTextY

javax.swing.JTextField numberCoarseTextY

DOCUMENT ME!

numberCoarseTextZ

javax.swing.JTextField numberCoarseTextZ

DOCUMENT ME!

numCoarseX

int numCoarseX

DOCUMENT ME!

numCoarseY

int numCoarseY

DOCUMENT ME!

numCoarseZ

int numCoarseZ

DOCUMENT ME!

numMinima

int numMinima

DOCUMENT ME!

numMinima_def

int numMinima_def

DOCUMENT ME!

numMinText

javax.swing.JTextField numMinText

DOCUMENT ME!

oneTransLimit

boolean oneTransLimit

DOCUMENT ME!

outOfBoundsComboBox

javax.swing.JComboBox outOfBoundsComboBox

outOfBoundsIndex

int outOfBoundsIndex

Tells how to select fill value for out of bounds data 0 for image minimum 1 for NaN for float, zero otherwise. 2 for user defined 3 for image maximum

outOfBoundsLabel

javax.swing.JLabel outOfBoundsLabel

refImage

ModelImage refImage

DOCUMENT ME!

refWeightImage

ModelImage refWeightImage

DOCUMENT ME!

reg3

AlgorithmConstrainedOAR3D reg3

reg3E

AlgorithmConstrainedELSUNCOAR3D reg3E

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

rotateBeginTextX

javax.swing.JTextField rotateBeginTextX

DOCUMENT ME!

rotateBeginTextY

javax.swing.JTextField rotateBeginTextY

DOCUMENT ME!

rotateBeginTextZ

javax.swing.JTextField rotateBeginTextZ

DOCUMENT ME!

rotateBeginX

float rotateBeginX

private JTextField fineRateTextX, fineRateTextY, fineRateTextZ;.

rotateBeginY

float rotateBeginY

DOCUMENT ME!

rotateBeginZ

float rotateBeginZ

DOCUMENT ME!

rotateEndTextX

javax.swing.JTextField rotateEndTextX

DOCUMENT ME!

rotateEndTextY

javax.swing.JTextField rotateEndTextY

DOCUMENT ME!

rotateEndTextZ

javax.swing.JTextField rotateEndTextZ

DOCUMENT ME!

rotateEndX

float rotateEndX

private JTextField fineRateTextX, fineRateTextY, fineRateTextZ;.

rotateEndY

float rotateEndY

DOCUMENT ME!

rotateEndZ

float rotateEndZ

DOCUMENT ME!

rotatePanel

javax.swing.JPanel rotatePanel

Variables for Rotation and Translation bounds.

rotateRangePanelX

javax.swing.JPanel rotateRangePanelX

DOCUMENT ME!

rotateRangePanelY

javax.swing.JPanel rotateRangePanelY

DOCUMENT ME!

rotateRangePanelZ

javax.swing.JPanel rotateRangePanelZ

DOCUMENT ME!

rotateRangeX

float rotateRangeX

private JTextField fineRateTextX, fineRateTextY, fineRateTextZ;.

rotateRangeY

float rotateRangeY

DOCUMENT ME!

rotateRangeZ

float rotateRangeZ

DOCUMENT ME!

sampleCheckbox

javax.swing.JCheckBox sampleCheckbox

DOCUMENT ME!

textInput

javax.swing.JTextField textInput

DOCUMENT ME!

textRef

javax.swing.JTextField textRef

DOCUMENT ME!

toLabelX

javax.swing.JLabel toLabelX

DOCUMENT ME!

toLabelY

javax.swing.JLabel toLabelY

DOCUMENT ME!

toLabelZ

javax.swing.JLabel toLabelZ

DOCUMENT ME!

transformCheckbox

javax.swing.JCheckBox transformCheckbox

DOCUMENT ME!

translatePanel

javax.swing.JPanel translatePanel

DOCUMENT ME!

translateRangePanelX

javax.swing.JPanel translateRangePanelX

private JPanel finePanelX, finePanelY, finePanelZ;.

translateRangePanelY

javax.swing.JPanel translateRangePanelY

private JPanel finePanelX, finePanelY, finePanelZ;.

translateRangePanelZ

javax.swing.JPanel translateRangePanelZ

private JPanel finePanelX, finePanelY, finePanelZ;.

transLimits

float[][] transLimits

DOCUMENT ME!

UI

ViewUserInterface UI

DOCUMENT ME!

universalRotationCheckbox

javax.swing.JCheckBox universalRotationCheckbox

DOCUMENT ME!

universalTranslationCheckbox

javax.swing.JCheckBox universalTranslationCheckbox

DOCUMENT ME!

useELSUNC

boolean useELSUNC

userDirectoryLabel

javax.swing.JLabel userDirectoryLabel

userDirectoryText

javax.swing.JTextField userDirectoryText

valueLabel

javax.swing.JLabel valueLabel

valueText

javax.swing.JTextField valueText

voiRadio

javax.swing.JRadioButton voiRadio

DOCUMENT ME!

voisOnly

boolean voisOnly

DOCUMENT ME!

weighted

boolean weighted

DOCUMENT ME!

weightRadio

javax.swing.JRadioButton weightRadio

DOCUMENT ME!

xRRadio

javax.swing.JRadioButton xRRadio

DOCUMENT ME!

xRSelected

boolean xRSelected

DOCUMENT ME!

yRRadio

javax.swing.JRadioButton yRRadio

DOCUMENT ME!

yRSelected

boolean yRSelected

DOCUMENT ME!

zRRadio

javax.swing.JRadioButton zRRadio

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogContrastEnhancementUsingExposureFusion extends JDialogScriptableBase implements Serializable

Serialized Fields

a

double a

b

double b

contrastAlgo

AlgorithmContrastEnhancementUsingExposureFusion contrastAlgo

image

ModelImage image

DOCUMENT ME!

k

double k

kCheckBox

javax.swing.JCheckBox kCheckBox

labelK

javax.swing.JLabel labelK

mu

double mu

resultImage

ModelImage resultImage

DOCUMENT ME!

textA

javax.swing.JTextField textA

textB

javax.swing.JTextField textB

textK

javax.swing.JTextField textK

textMu

javax.swing.JTextField textMu

Class gov.nih.mipav.view.dialogs.JDialogConvergenceField extends JDialogScriptableBase implements Serializable

Serialized Fields

convergenceAlgo

AlgorithmConvergenceField convergenceAlgo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogConvert3Dto4D extends JDialogScriptableBase implements Serializable

serialVersionUID:

5353653644655035651L

Serialized Fields

comboBoxUnitOfMeasure3

javax.swing.JComboBox comboBoxUnitOfMeasure3

DOCUMENT ME!

comboBoxUnitOfMeasure4

javax.swing.JComboBox comboBoxUnitOfMeasure4

DOCUMENT ME!

convert3Dto4DAlgo

AlgorithmConvert3Dto4D convert3Dto4DAlgo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

imageName

java.lang.String imageName

DOCUMENT ME!

labelVolumeLength

javax.swing.JLabel labelVolumeLength

DOCUMENT ME!

measure3

int measure3

DOCUMENT ME!

measure4

int measure4

DOCUMENT ME!

res3

float res3

DOCUMENT ME!

res4

float res4

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textRes3

javax.swing.JTextField textRes3

DOCUMENT ME!

textRes4

javax.swing.JTextField textRes4

DOCUMENT ME!

textVolumeLength

javax.swing.JTextField textVolumeLength

DOCUMENT ME!

volumeLength

int volumeLength

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogConvert4Dto3D extends JDialogScriptableBase implements Serializable

serialVersionUID:

-4079283618961189766L

Serialized Fields

convert4Dto3DAlgo

AlgorithmConvert4Dto3D convert4Dto3DAlgo

DOCUMENT ME!

copyAllInfo

boolean copyAllInfo

Whether all info in the image's FileInfo is copied

copyAllInfoBox

javax.swing.JCheckBox copyAllInfoBox

Checkbox for representing whether to copy all file info

image

ModelImage image

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogConvert4DtoMultiple3D extends JDialogScriptableBase implements Serializable

Serialized Fields

image

ModelImage image

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogConvert4DtoRGB extends JDialogScriptableBase implements Serializable

Serialized Fields

blank

ModelImage blank

blank image

channelColorsComboBoxes

javax.swing.JComboBox[] channelColorsComboBoxes

corresponding dropdown for each channel image

channelImages

ModelImage[] channelImages

extraced 3D Model Images from src image

colorGroup

javax.swing.ButtonGroup colorGroup

commonMapping

boolean commonMapping

copyAllInfo

boolean copyAllInfo

Whether all info in the image's FileInfo is copied

copyAllInfoBox

javax.swing.JCheckBox copyAllInfoBox

Checkbox for representing whether to copy all file info

dataType

int dataType

ARGB, ARGB_USHORT, ARGB_UINTEGER, or ARGB_FLOAT for color image

destExtents

int[] destExtents

extents for extracted 3D subset

image

ModelImage image

src image

imageB

ModelImage imageB

blue channel image

imageG

ModelImage imageG

green channel image

imageR

ModelImage imageR

red channel image

inputPanel

javax.swing.JPanel inputPanel

input panel of dialog

mainPanel

javax.swing.JPanel mainPanel

main panel of dialog

mathAlgo

AlgorithmRGBConcat mathAlgo

ref to AlgorithmRGBConcat

OKCancelPanel

javax.swing.JPanel OKCancelPanel

ok/cancel panel of dialog

radioARGB

javax.swing.JRadioButton radioARGB

radioARGB_FLOAT

javax.swing.JRadioButton radioARGB_FLOAT

DOCUMENT ME!

radioARGB_UINTEGER

javax.swing.JRadioButton radioARGB_UINTEGER

radioARGB_USHORT

javax.swing.JRadioButton radioARGB_USHORT

DOCUMENT ME!

radioCommon

javax.swing.JRadioButton radioCommon

radioSeparate

javax.swing.JRadioButton radioSeparate

remapCheckBox

javax.swing.JCheckBox remapCheckBox

re-map checkbox

remapGroup

javax.swing.ButtonGroup remapGroup

remapHighestValue

float remapHighestValue

remapMode

boolean remapMode

boolean for remap

resultImage

ModelImage resultImage

result image

subsetAlgo

AlgorithmSubset subsetAlgo

ref to AlgorithmSubset

textRemap

javax.swing.JTextField textRemap

vol1Channel

java.lang.String vol1Channel

vol 1 channel for scripting

vol2Channel

java.lang.String vol2Channel

vol 2 channel for scripting

vol3Channel

java.lang.String vol3Channel

vol 3 channel for scriptin

xSlices

int xSlices

num x slices of src image

ySlices

int ySlices

num y slices of src image

zSlices

int zSlices

num z slices for src image

Class gov.nih.mipav.view.dialogs.JDialogConvertType extends JDialogScriptableBase implements Serializable

serialVersionUID:

-6815107682654273857L

Serialized Fields

bigEnd

javax.swing.JRadioButton bigEnd

DOCUMENT ME!

changeTypeAlgo

AlgorithmChangeType changeTypeAlgo

DOCUMENT ME!

dataType

int dataType

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

endianess

boolean endianess

DOCUMENT ME!

fullRangeRadio

javax.swing.JRadioButton fullRangeRadio

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

inEnd

javax.swing.JLabel inEnd

DOCUMENT ME!

inMax

double inMax

DOCUMENT ME!

inMin

double inMin

DOCUMENT ME!

inputRangeGroup

javax.swing.ButtonGroup inputRangeGroup

DOCUMENT ME!

inStart

javax.swing.JLabel inStart

DOCUMENT ME!

inTempMax

double inTempMax

DOCUMENT ME!

inTempMin

double inTempMin

DOCUMENT ME!

littleEnd

javax.swing.JRadioButton littleEnd

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

outEnd

javax.swing.JLabel outEnd

DOCUMENT ME!

outMax

double outMax

DOCUMENT ME!

outMin

double outMin

DOCUMENT ME!

outStart

javax.swing.JLabel outStart

DOCUMENT ME!

outTempMax

double outTempMax

DOCUMENT ME!

outTempMin

double outTempMin

DOCUMENT ME!

processIndep

boolean processIndep

DOCUMENT ME!

processIndepBox

javax.swing.JCheckBox processIndepBox

DOCUMENT ME!

radioARGB

javax.swing.JRadioButton radioARGB

DOCUMENT ME!

radioARGB_FLOAT

javax.swing.JRadioButton radioARGB_FLOAT

DOCUMENT ME!

radioARGB_UINTEGER

javax.swing.JRadioButton radioARGB_UINTEGER

radioARGB_USHORT

javax.swing.JRadioButton radioARGB_USHORT

DOCUMENT ME!

radioBool

javax.swing.JRadioButton radioBool

DOCUMENT ME!

radioByte

javax.swing.JRadioButton radioByte

DOCUMENT ME!

radioComplex

javax.swing.JRadioButton radioComplex

radioDComplex

javax.swing.JRadioButton radioDComplex

radioDouble

javax.swing.JRadioButton radioDouble

DOCUMENT ME!

radioFloat

javax.swing.JRadioButton radioFloat

DOCUMENT ME!

radioInt

javax.swing.JRadioButton radioInt

DOCUMENT ME!

radioLong

javax.swing.JRadioButton radioLong

DOCUMENT ME!

radioShort

javax.swing.JRadioButton radioShort

DOCUMENT ME!

radioUByte

javax.swing.JRadioButton radioUByte

DOCUMENT ME!

radioUInt

javax.swing.JRadioButton radioUInt

DOCUMENT ME!

radioUShort

javax.swing.JRadioButton radioUShort

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textInEnd

javax.swing.JTextField textInEnd

DOCUMENT ME!

textInStart

javax.swing.JTextField textInStart

DOCUMENT ME!

textOutEnd

javax.swing.JTextField textOutEnd

DOCUMENT ME!

textOutStart

javax.swing.JTextField textOutStart

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

useDefaultRanges

boolean useDefaultRanges

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

userRangeRadio

javax.swing.JRadioButton userRangeRadio

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogConvexHull2D extends JDialogBase implements Serializable

Serialized Fields

defaultPts

int defaultPts

DOCUMENT ME!

elementNum

int elementNum

groupNum

int groupNum

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

nPts

int nPts

DOCUMENT ME!

removeOriginal

boolean removeOriginal

DOCUMENT ME!

removeOriginalCheckBox

javax.swing.JCheckBox removeOriginalCheckBox

DOCUMENT ME!

smoothAlgo

AlgorithmBSmooth smoothAlgo

DOCUMENT ME!

textInterpNPts

javax.swing.JTextField textInterpNPts

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

trim

boolean trim

DOCUMENT ME!

trimCheckBox

javax.swing.JCheckBox trimCheckBox

DOCUMENT ME!

voiColor

java.awt.Color voiColor

DOCUMENT ME!

voiManager

VOIManagerInterface voiManager

VOIs

ViewVOIVector VOIs

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogCorrectSpacing extends JDialogScriptableBase implements Serializable

serialVersionUID:

6267255098982835652L

Serialized Fields

correctSpaceAlgo

AlgorithmCorrectSpacing correctSpaceAlgo

DOCUMENT ME!

extents

int[] extents

DOCUMENT ME!

fileInfoBuffer

FileInfoBase fileInfoBuffer

DOCUMENT ME!

gap

float gap

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

newNumIm

int newNumIm

DOCUMENT ME!

newThick

float newThick

DOCUMENT ME!

newZStart

float newZStart

DOCUMENT ME!

numBlank

int numBlank

DOCUMENT ME!

numIm

int numIm

DOCUMENT ME!

numRepIm

int numRepIm

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

space

float space

DOCUMENT ME!

thick

float thick

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

zStart

float zStart

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogCrop extends JDialogScriptableBase implements Serializable

serialVersionUID:

9000755868801202116L

Serialized Fields

borderSize

int borderSize

DOCUMENT ME!

cropAlgo

AlgorithmAddMargins cropAlgo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

imgRes

float[] imgRes

DOCUMENT ME!

lowXmm

float lowXmm

DOCUMENT ME!

lowYmm

float lowYmm

DOCUMENT ME!

lowZmm

float lowZmm

DOCUMENT ME!

nDims

int nDims

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

resXUnit

int resXUnit

DOCUMENT ME!

resYUnit

int resYUnit

DOCUMENT ME!

startPos

float[] startPos

DOCUMENT ME!

textBorderSize

javax.swing.JTextField textBorderSize

DOCUMENT ME!

textDepth

javax.swing.JTextField textDepth

DOCUMENT ME!

textHeight

javax.swing.JTextField textHeight

DOCUMENT ME!

textLowerXmm

javax.swing.JTextField textLowerXmm

DOCUMENT ME!

textLowerYmm

javax.swing.JTextField textLowerYmm

DOCUMENT ME!

textLowerZmm

javax.swing.JTextField textLowerZmm

DOCUMENT ME!

textWidth

javax.swing.JTextField textWidth

DOCUMENT ME!

textXmin

javax.swing.JTextField textXmin

DOCUMENT ME!

textYmin

javax.swing.JTextField textYmin

DOCUMENT ME!

textZmin

javax.swing.JTextField textZmin

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

xBounds

int[] xBounds

DOCUMENT ME!

yBounds

int[] yBounds

DOCUMENT ME!

zBounds

int[] zBounds

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogCropBoundaryParam extends JDialogScriptableBase implements Serializable

serialVersionUID:

-2434000521271688512L

Serialized Fields

back

int back

DOCUMENT ME!

backInput

javax.swing.JTextField backInput

DOCUMENT ME!

bottomInput

javax.swing.JTextField bottomInput

DOCUMENT ME!

bottomSide

int bottomSide

DOCUMENT ME!

cropAlgo

AlgorithmAddMargins cropAlgo

DOCUMENT ME!

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

front

int front

DOCUMENT ME!

frontInput

javax.swing.JTextField frontInput

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

leftSide

int leftSide

DOCUMENT ME!

leftSideInput

javax.swing.JTextField leftSideInput

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

rightSide

int rightSide

DOCUMENT ME!

rightSideInput

javax.swing.JTextField rightSideInput

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

topInput

javax.swing.JTextField topInput

DOCUMENT ME!

topSide

int topSide

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

xBounds

int[] xBounds

DOCUMENT ME!

yBounds

int[] yBounds

DOCUMENT ME!

zBounds

int[] zBounds

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogCropPointParam extends JDialogScriptableBase implements Serializable

Serialized Fields

back

int back

DOCUMENT ME!

backInput

javax.swing.JTextField backInput

DOCUMENT ME!

bottomInput

javax.swing.JTextField bottomInput

DOCUMENT ME!

bottomSide

int bottomSide

DOCUMENT ME!

cropAlgo

AlgorithmAddMargins cropAlgo

DOCUMENT ME!

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

front

int front

DOCUMENT ME!

frontInput

javax.swing.JTextField frontInput

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

leftSide

int leftSide

DOCUMENT ME!

leftSideInput

javax.swing.JTextField leftSideInput

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

rightSide

int rightSide

DOCUMENT ME!

rightSideInput

javax.swing.JTextField rightSideInput

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

topInput

javax.swing.JTextField topInput

DOCUMENT ME!

topSide

int topSide

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

xBounds

int[] xBounds

DOCUMENT ME!

xPoint

int xPoint

xPointInput

javax.swing.JTextField xPointInput

yBounds

int[] yBounds

DOCUMENT ME!

yPoint

int yPoint

yPointInput

javax.swing.JTextField yPointInput

zBounds

int[] zBounds

DOCUMENT ME!

zPoint

int zPoint

zPointInput

javax.swing.JTextField zPointInput

Class gov.nih.mipav.view.dialogs.JDialogCropTiltedCuboid extends JDialogScriptableBase implements Serializable

Serialized Fields

cropAlgo

AlgorithmCropTilted cropAlgo

image

ModelImage image

DOCUMENT ME!

MASK_METHOD

int MASK_METHOD

maskButton

javax.swing.JRadioButton maskButton

method

int method

methodGroup

javax.swing.ButtonGroup methodGroup

resultImage

ModelImage resultImage

DOCUMENT ME!

VERTICES_METHOD

int VERTICES_METHOD

verticesButton

javax.swing.JRadioButton verticesButton

VOI_METHOD

int VOI_METHOD

x1

double x1

x2

double x2

x3

double x3

x4

double x4

x5

double x5

x6

double x6

x7

double x7

x8

double x8

y1

double y1

y2

double y2

y3

double y3

y4

double y4

y5

double y5

y6

double y6

y7

double y7

y8

double y8

z1

double z1

z2

double z2

z3

double z3

z4

double z4

z5

double z5

z6

double z6

z7

double z7

z8

double z8

Class gov.nih.mipav.view.dialogs.JDialogCropTiltedRectangle extends JDialogScriptableBase implements Serializable

Serialized Fields

cropAlgo

AlgorithmCropTilted cropAlgo

image

ModelImage image

DOCUMENT ME!

MASK_METHOD

int MASK_METHOD

maskButton

javax.swing.JRadioButton maskButton

method

int method

methodGroup

javax.swing.ButtonGroup methodGroup

resultImage

ModelImage resultImage

DOCUMENT ME!

VERTICES_METHOD

int VERTICES_METHOD

verticesButton

javax.swing.JRadioButton verticesButton

VOI_METHOD

int VOI_METHOD

VOIButton

javax.swing.JRadioButton VOIButton

x1

double x1

x2

double x2

x3

double x3

x4

double x4

y1

double y1

y2

double y2

y3

double y3

y4

double y4

Class gov.nih.mipav.view.dialogs.JDialogCT extends JDialogBase implements Serializable

serialVersionUID:

8061222665925432857L

Serialized Fields

abdomenLabel

javax.swing.JLabel abdomenLabel

Preset labels.

abdomenMax

int abdomenMax

Preset min, max values. Min presents the min window value. Max presents the max window value.

abdomenMin

int abdomenMin

Preset min, max values. Min presents the min window value. Max presents the max window value.

headLabel

javax.swing.JLabel headLabel

DOCUMENT ME!

headMax

int headMax

DOCUMENT ME!

headMin

int headMin

DOCUMENT ME!

histoPanel

ViewJPanelHistoLUT histoPanel

lungLabel

javax.swing.JLabel lungLabel

DOCUMENT ME!

lungMax

int lungMax

DOCUMENT ME!

lungMin

int lungMin

DOCUMENT ME!

LUT

ModelLUT LUT

maxLabel

javax.swing.JLabel maxLabel

DOCUMENT ME!

maxText

javax.swing.JTextField maxText

Min, max text fields.

mediastinumLabel

javax.swing.JLabel mediastinumLabel

DOCUMENT ME!

mediastinumMax

int mediastinumMax

DOCUMENT ME!

mediastinumMin

int mediastinumMin

DOCUMENT ME!

minLabel

javax.swing.JLabel minLabel

DOCUMENT ME!

minText

javax.swing.JTextField minText

Min, max text fields.

origNPts

int origNPts

Single Transfer Line size.

origX

float[] origX

x, y, z arrays of the LUT transfer function.

origY

float[] origY

x, y, z arrays of the LUT transfer function.

radioAbdomen

javax.swing.JRadioButton radioAbdomen

Preset radio buttons.

radioHead

javax.swing.JRadioButton radioHead

DOCUMENT ME!

radioLung

javax.swing.JRadioButton radioLung

DOCUMENT ME!

radioMediastinum

javax.swing.JRadioButton radioMediastinum

DOCUMENT ME!

radioSpine

javax.swing.JRadioButton radioSpine

DOCUMENT ME!

radioVertebrae

javax.swing.JRadioButton radioVertebrae

DOCUMENT ME!

resetButton

javax.swing.JButton resetButton

Reset button to reset the default preset values.

setButton

javax.swing.JButton setButton

When user change the window, level values, setButton sets the min, max of the window values.

spineLabel

javax.swing.JLabel spineLabel

DOCUMENT ME!

spineMax

int spineMax

DOCUMENT ME!

spineMin

int spineMin

DOCUMENT ME!

vertebraeLabel

javax.swing.JLabel vertebraeLabel

DOCUMENT ME!

vertebraeMax

int vertebraeMax

DOCUMENT ME!

vertebraeMin

int vertebraeMin

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogCTHistoLUT extends JDialogBase implements Serializable

serialVersionUID:

8061222665925432857L

Serialized Fields

abdomenLabel

javax.swing.JLabel abdomenLabel

Preset labels.

abdomenMax

int abdomenMax

Preset min, max values. Min presents the min window value. Max presents the max window value.

abdomenMin

int abdomenMin

Preset min, max values. Min presents the min window value. Max presents the max window value.

componentHistogram

ViewJComponentHistoLUT componentHistogram

Histogram component reference inside the JPanelHistoLUT.

headLabel

javax.swing.JLabel headLabel

DOCUMENT ME!

headMax

int headMax

DOCUMENT ME!

headMin

int headMin

DOCUMENT ME!

lungLabel

javax.swing.JLabel lungLabel

DOCUMENT ME!

lungMax

int lungMax

DOCUMENT ME!

lungMin

int lungMin

DOCUMENT ME!

maxLabel

javax.swing.JLabel maxLabel

DOCUMENT ME!

maxText

javax.swing.JTextField maxText

Min, max text fields.

mediastinumLabel

javax.swing.JLabel mediastinumLabel

DOCUMENT ME!

mediastinumMax

int mediastinumMax

DOCUMENT ME!

mediastinumMin

int mediastinumMin

DOCUMENT ME!

minLabel

javax.swing.JLabel minLabel

DOCUMENT ME!

minText

javax.swing.JTextField minText

Min, max text fields.

origNPts

int origNPts

Single Transfer Line size.

origX

float[] origX

x, y, z arrays of the LUT transfer function.

origY

float[] origY

x, y, z arrays of the LUT transfer function.

radioAbdomen

javax.swing.JRadioButton radioAbdomen

Preset radio buttons.

radioHead

javax.swing.JRadioButton radioHead

DOCUMENT ME!

radioLung

javax.swing.JRadioButton radioLung

DOCUMENT ME!

radioMediastinum

javax.swing.JRadioButton radioMediastinum

DOCUMENT ME!

radioSpine

javax.swing.JRadioButton radioSpine

DOCUMENT ME!

radioVertebrae

javax.swing.JRadioButton radioVertebrae

DOCUMENT ME!

resetButton

javax.swing.JButton resetButton

Reset button to reset the default preset values.

setButton

javax.swing.JButton setButton

When user change the window, level values, setButton sets the min, max of the window values.

spineLabel

javax.swing.JLabel spineLabel

DOCUMENT ME!

spineMax

int spineMax

DOCUMENT ME!

spineMin

int spineMin

DOCUMENT ME!

vertebraeLabel

javax.swing.JLabel vertebraeLabel

DOCUMENT ME!

vertebraeMax

int vertebraeMax

DOCUMENT ME!

vertebraeMin

int vertebraeMin

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogCTPreset extends JDialogBase implements Serializable

serialVersionUID:

3709628941183114805L

Serialized Fields

abdomenLabel

javax.swing.JLabel abdomenLabel

Preset labels.

abdomenMax

int abdomenMax

Preset min, max values. Min presents the min window value. Max presents the max window value.

abdomenMin

int abdomenMin

Preset min, max values. Min presents the min window value. Max presents the max window value.

dataSlice

float[] dataSlice

Reference to the image data of the slice presently displayed. Needed to calculate the max/min of the slice used to adjust the transfer function.

dim

java.awt.Dimension dim

DOCUMENT ME!

headLabel

javax.swing.JLabel headLabel

DOCUMENT ME!

headMax

int headMax

DOCUMENT ME!

headMin

int headMin

DOCUMENT ME!

image

ModelImage image

Reference to the image that will be affected by the adjust of the window and level.

lungLabel

javax.swing.JLabel lungLabel

DOCUMENT ME!

lungMax

int lungMax

DOCUMENT ME!

lungMin

int lungMin

DOCUMENT ME!

LUT

ModelLUT LUT

Reference to the LUT used to display the image.

maxImage

float maxImage

Image's maximum intensity.

maxLabel

javax.swing.JLabel maxLabel

DOCUMENT ME!

maxText

javax.swing.JTextField maxText

Min, max text fields.

mediastinumLabel

javax.swing.JLabel mediastinumLabel

DOCUMENT ME!

mediastinumMax

int mediastinumMax

DOCUMENT ME!

mediastinumMin

int mediastinumMin

DOCUMENT ME!

minImage

float minImage

Image's minimum intensity.

minLabel

javax.swing.JLabel minLabel

DOCUMENT ME!

minText

javax.swing.JTextField minText

Min, max text fields.

radioAbdomen

javax.swing.JRadioButton radioAbdomen

Preset radio buttons.

radioHead

javax.swing.JRadioButton radioHead

DOCUMENT ME!

radioLung

javax.swing.JRadioButton radioLung

DOCUMENT ME!

radioMediastinum

javax.swing.JRadioButton radioMediastinum

DOCUMENT ME!

radioSpine

javax.swing.JRadioButton radioSpine

DOCUMENT ME!

radioVertebrae

javax.swing.JRadioButton radioVertebrae

DOCUMENT ME!

resetButton

javax.swing.JButton resetButton

Reset button to reset the default preset values.

setButton

javax.swing.JButton setButton

When user change the window, level values, setButton sets the min, max of the window values.

spineLabel

javax.swing.JLabel spineLabel

DOCUMENT ME!

spineMax

int spineMax

DOCUMENT ME!

spineMin

int spineMin

DOCUMENT ME!

vertebraeLabel

javax.swing.JLabel vertebraeLabel

DOCUMENT ME!

vertebraeMax

int vertebraeMax

DOCUMENT ME!

vertebraeMin

int vertebraeMin

DOCUMENT ME!

x

float[] x

Three arrays to save the coordinates of the LUT's transfer fucntion. z[] not used.

y

float[] y

DOCUMENT ME!

z

float[] z

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogCumulativeHistogram extends JDialogBase implements Serializable

serialVersionUID:

-2835835380784019616L

Serialized Fields

hist

ModelHistogram hist

MoelHistogram object.*

histoBuffer

int[] histoBuffer

int array of histogram values.

image

ModelImage image

Source Image.

RGBValue

int RGBValue

int vlaue indicating RGB channel.

Class gov.nih.mipav.view.dialogs.JDialogCyclicPermutation extends JDialogScriptableBase implements Serializable

Serialized Fields

cpAlgo

AlgorithmCyclicPermutation cpAlgo

DOCUMENT ME!

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

shiftT

int shiftT

DOCUMENT ME!

shiftTInput

javax.swing.JTextField shiftTInput

DOCUMENT ME!

shiftX

int shiftX

DOCUMENT ME!

shiftXInput

javax.swing.JTextField shiftXInput

DOCUMENT ME!

shiftY

int shiftY

DOCUMENT ME!

shiftYInput

javax.swing.JTextField shiftYInput

DOCUMENT ME!

shiftZ

int shiftZ

DOCUMENT ME!

shiftZInput

javax.swing.JTextField shiftZInput

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogDataProvenance extends JDialogBase implements Serializable

serialVersionUID:

3861014709972568409L

Serialized Fields

buttonPanel

javax.swing.JPanel buttonPanel

DOCUMENT ME!

DEFAULT_SIZE

java.awt.Dimension DEFAULT_SIZE

Describes the initial size of the textual display area when the dialog is created. The value is given in pixel size rather than the number of characters since the display area has no characters to display.

dpModel

ViewTableModel dpModel

The table model

isSystem

boolean isSystem

boolean determining if this is the system's data provenance, or an open image's

path

java.lang.String path

The path to the provenance file

pHolder

ProvenanceHolder pHolder

The provenance holder to display (or inject provenance data for "open provenance")

scrollPane

javax.swing.JScrollPane scrollPane

DOCUMENT ME!

textArea

javax.swing.JTextArea textArea

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogDBSCANClusteringSegment extends JDialogScriptableBase implements Serializable

Serialized Fields

center

int center

centerGroup

javax.swing.ButtonGroup centerGroup

dbAlgo

DBSCANClusteringSegment dbAlgo

DOCUMENT ME!

Ec

double Ec

enableseCheckBox

javax.swing.JCheckBox enableseCheckBox

image

ModelImage image

DOCUMENT ME!

k

int k

labelEc

javax.swing.JLabel labelEc

labelIter

javax.swing.JLabel labelIter

labelk

javax.swing.JLabel labelk

DOCUMENT ME!

labelm

javax.swing.JLabel labelm

DOCUMENT ME!

labelmw1

javax.swing.JLabel labelmw1

labelmw2

javax.swing.JLabel labelmw2

labelse

javax.swing.JLabel labelse

m

double m

MEAN_CENTER

int MEAN_CENTER

Use serialVersionUID for interoperability.

meanButton

javax.swing.JRadioButton meanButton

MEDIAN_CENTER

int MEDIAN_CENTER

medianButton

javax.swing.JRadioButton medianButton

mw1

int mw1

mw2

int mw2

nItr

int nItr

noSpatialCheckBox

javax.swing.JCheckBox noSpatialCheckBox

optionsPanel

javax.swing.JPanel optionsPanel

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

seRadius

double seRadius

textEc

javax.swing.JTextField textEc

textIter

javax.swing.JTextField textIter

textk

javax.swing.JTextField textk

DOCUMENT ME!

textm

javax.swing.JTextField textm

textmw1

javax.swing.JTextField textmw1

textmw2

javax.swing.JTextField textmw2

textse

javax.swing.JTextField textse

Class gov.nih.mipav.view.dialogs.JDialogDeconvolution extends JDialogScriptableBase implements Serializable

serialVersionUID:

-5074546334694615886L

Serialized Fields

colorChannelPanel

JPanelColorChannels colorChannelPanel

for processing color images

conversionFactorCheckbox

javax.swing.JCheckBox conversionFactorCheckbox

sigma conversion factor is by 1.0 / (2*Math.sqrt(2*Math.log(2)))

image

ModelImage image

Source image.

imageB

ModelImage imageB

Source image.

method

int method

outputOptionsPanel

JPanelAlgorithmOutputOptions outputOptionsPanel

output to a new image or overwite the current image

resultImage

ModelImage resultImage

Result image.

textGaussX

javax.swing.JTextField[] textGaussX

gui, sigma value

textGaussY

javax.swing.JTextField[] textGaussY

gui, sigma value

textGaussZ

javax.swing.JTextField[] textGaussZ

gui, sigma value

textIterations

javax.swing.JTextField textIterations

titles

java.lang.String[] titles

locks the frame title

userInterface

ViewUserInterface userInterface

locking the image

Class gov.nih.mipav.view.dialogs.JDialogDeleteObjects extends JDialogScriptableBase implements Serializable

serialVersionUID:

-5905410727732570098L

Serialized Fields

deleteAlgo2D

AlgorithmMorphology2D deleteAlgo2D

DOCUMENT ME!

deleteAlgo3D

AlgorithmMorphology3D deleteAlgo3D

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

labelMax

javax.swing.JLabel labelMax

DOCUMENT ME!

labelMin

javax.swing.JLabel labelMin

DOCUMENT ME!

max

int max

or if the source image is to be replaced.

min

int min

or if the source image is to be replaced.

outputPanel

JPanelAlgorithmOutputOptions outputPanel

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textMax

javax.swing.JTextField textMax

DOCUMENT ME!

textMin

javax.swing.JTextField textMin

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogDemonsLite extends JDialogScriptableBase implements Serializable

Serialized Fields

algo

AlgorithmDemonsLite algo

comboOutput

javax.swing.JComboBox comboOutput

comboRegType

javax.swing.JComboBox comboRegType

comboTarget

javax.swing.JComboBox comboTarget

image

ModelImage image

iter

int iter

labelImage

javax.swing.JLabel labelImage

labelOutput

javax.swing.JLabel labelOutput

labelRegIter

javax.swing.JLabel labelRegIter

labelRegLevels

javax.swing.JLabel labelRegLevels

labelRegType

javax.swing.JLabel labelRegType

labelScale

javax.swing.JLabel labelScale

labelSmoothing

javax.swing.JLabel labelSmoothing

labelTarget

javax.swing.JLabel labelTarget

levels

int levels

mainPanel

javax.swing.JPanel mainPanel

outputType

java.lang.String outputType

outputTypes

java.lang.String[] outputTypes

regType

java.lang.String regType

regTypes

java.lang.String[] regTypes

resultImage

ModelImage[] resultImage

scale

float scale

smoothing

float smoothing

targetImage

ModelImage targetImage

textRegIter

javax.swing.JTextField textRegIter

textRegLevels

javax.swing.JTextField textRegLevels

textScale

javax.swing.JTextField textScale

textSmoothing

javax.swing.JTextField textSmoothing

userInterface

ViewUserInterface userInterface

Class gov.nih.mipav.view.dialogs.JDialogDEMRI3 extends JDialogScriptableBase implements Serializable

Serialized Fields

bloodGroup

javax.swing.ButtonGroup bloodGroup

buttonMpFile

javax.swing.JButton buttonMpFile

buttonTissueFile

javax.swing.JButton buttonTissueFile

CONSTANT_TISSUE

int CONSTANT_TISSUE

constantTissueRadioButton

javax.swing.JRadioButton constantTissueRadioButton

demri3Algo

AlgorithmDEMRI3 demri3Algo

DOCUMENT ME!

directoryMp

java.lang.String directoryMp

directoryTissue

java.lang.String directoryTissue

fileNameMp

java.lang.String fileNameMp

fileNameTissue

java.lang.String fileNameTissue

FIRST_VOLUME_TISSUE

int FIRST_VOLUME_TISSUE

firstVolumeTissueRadioButton

javax.swing.JRadioButton firstVolumeTissueRadioButton

image

ModelImage image

DOCUMENT ME!

kepButton

javax.swing.JRadioButton kepButton

labelBloodIntrinsicRelaxivityRate

javax.swing.JLabel labelBloodIntrinsicRelaxivityRate

labelBloodIntrinsicRelaxivityRate2

javax.swing.JLabel labelBloodIntrinsicRelaxivityRate2

labelContrastRelaxivityRate

javax.swing.JLabel labelContrastRelaxivityRate

DOCUMENT ME!

labelFlipAngle

javax.swing.JLabel labelFlipAngle

labelMaxConstr0

javax.swing.JLabel labelMaxConstr0

labelMaxConstr1

javax.swing.JLabel labelMaxConstr1

labelMaxConstr2

javax.swing.JLabel labelMaxConstr2

labelMinConstr0

javax.swing.JLabel labelMinConstr0

labelMinConstr1

javax.swing.JLabel labelMinConstr1

labelMinConstr2

javax.swing.JLabel labelMinConstr2

labelMp

javax.swing.JLabel labelMp

labelNFirst

javax.swing.JLabel labelNFirst

labelParamsToFit

javax.swing.JLabel labelParamsToFit

Use serialVersionUID for interoperability.

labelTimeBetweenShots

javax.swing.JLabel labelTimeBetweenShots

labelTissueIntrinsicRelaxivityRate

javax.swing.JLabel labelTissueIntrinsicRelaxivityRate

labelTissueIntrinsicRelaxivityRate2

javax.swing.JLabel labelTissueIntrinsicRelaxivityRate2

max_constr

double[] max_constr

min_constr

double[] min_constr

minuteButton

javax.swing.JRadioButton minuteButton

nFirst

int nFirst

nFirstMax

int nFirstMax

nFirstMin

int nFirstMin

perMin

boolean perMin

r1

double r1

r1i

double[] r1i

r1Max

double r1Max

r1Min

double r1Min

rateGroup

javax.swing.ButtonGroup rateGroup

resultImage

ModelImage resultImage

rib

double rib

ribMax

double ribMax

ribMin

double ribMin

rit

double rit

ritMax

double ritMax

ritMin

double ritMin

secondButton

javax.swing.JRadioButton secondButton

secondParamGroup

javax.swing.ButtonGroup secondParamGroup

SEPARATE_VOLUME_TISSUE

int SEPARATE_VOLUME_TISSUE

separateVolumeTissueRadioButton

javax.swing.JRadioButton separateVolumeTissueRadioButton

textBloodIntrinsicRelaxivityRate

javax.swing.JTextField textBloodIntrinsicRelaxivityRate

textContrastRelaxivityRate

javax.swing.JTextField textContrastRelaxivityRate

textFlipAngle

javax.swing.JTextField textFlipAngle

textMaxConstr0

javax.swing.JTextField textMaxConstr0

textMaxConstr1

javax.swing.JTextField textMaxConstr1

textMaxConstr2

javax.swing.JTextField textMaxConstr2

textMinConstr0

javax.swing.JTextField textMinConstr0

textMinConstr1

javax.swing.JTextField textMinConstr1

textMinConstr2

javax.swing.JTextField textMinConstr2

textNFirst

javax.swing.JTextField textNFirst

textTimeBetweenShots

javax.swing.JTextField textTimeBetweenShots

textTissueFile

javax.swing.JTextField textTissueFile

textTissueIntrinsicRelaxivityRate

javax.swing.JTextField textTissueIntrinsicRelaxivityRate

theta

double theta

thetaMax

double thetaMax

thetaMin

double thetaMin

tissueGroup

javax.swing.ButtonGroup tissueGroup

tissueImage

ModelImage tissueImage

tissueSource

int tissueSource

tr

double tr

trMax

double trMax

trMin

double trMin

UI

ViewUserInterface UI

DOCUMENT ME!

userBloodRadioButton

javax.swing.JRadioButton userBloodRadioButton

userSpecifiedBlood

boolean userSpecifiedBlood

useVe

boolean useVe

veButton

javax.swing.JRadioButton veButton

voiBloodRadioButton

javax.swing.JRadioButton voiBloodRadioButton

VOIs

ViewVOIVector VOIs

Class gov.nih.mipav.view.dialogs.JDialogDicom2XMLSelection extends JDialogListSaveSelection implements Serializable

serialVersionUID:

-1864581773877529737L

Serialized Fields

destFormatStr

java.lang.String destFormatStr

sourceInfo

FileInfoDicom sourceInfo

FileInfoDicom for source image

wasOkay

boolean wasOkay

Boolean that determines if the window was closed (hitting the X) wasOkay = true means the [x] was not clicked.

Class gov.nih.mipav.view.dialogs.JDialogDICOMDeleteTagEditor extends JDialogBase implements Serializable

Serialized Fields

applyToAllSlicesCheckBox

javax.swing.JCheckBox applyToAllSlicesCheckBox

DOCUMENT ME!

mainBox

javax.swing.Box mainBox

The main panel that is accessed.

originalTextField

javax.swing.JTextField originalTextField

DOCUMENT ME!

struckOkayButton

boolean struckOkayButton

DOCUMENT ME!

tagKey

java.lang.String tagKey

DOCUMENT ME!

tagTable

FileDicomTagTable tagTable

A reference to the tag table containing the tag we will be editing.

Class gov.nih.mipav.view.dialogs.JDialogDicomDir extends JDialogBase implements Serializable

serialVersionUID:

3861014709972568409L

Serialized Fields

base

javax.swing.tree.DefaultMutableTreeNode base

brightness

int brightness

DOCUMENT ME!

brightPanel

javax.swing.JPanel brightPanel

DOCUMENT ME!

brightSlider

javax.swing.JSlider brightSlider

DOCUMENT ME!

buttonPanel

javax.swing.JPanel buttonPanel

DOCUMENT ME!

contrast

float contrast

DOCUMENT ME!

contSlider

javax.swing.JSlider contSlider

DOCUMENT ME!

current

javax.swing.JLabel current

DOCUMENT ME!

current2

javax.swing.JLabel current2

DOCUMENT ME!

DEFAULT_SIZE

java.awt.Dimension DEFAULT_SIZE

Describes the initial size of the textual display area when the dialog is created. The value is given in pixel size rather than the number of characters since the display area has no characters to display.

defaultImageSize

java.awt.Dimension defaultImageSize

DOCUMENT ME!

dicomInfo

FileInfoDicom dicomInfo

dirInfo

FileDicomSQ dirInfo

file

java.io.File file

ifSuccess

boolean ifSuccess

imagePanel

javax.swing.JPanel imagePanel

imageSliderPane

javax.swing.JSplitPane imageSliderPane

DOCUMENT ME!

img

ViewJComponentPreviewImage img

nfc

java.text.NumberFormat nfc

DOCUMENT ME!

opener

FileDicom opener

origBrightness

int origBrightness

DOCUMENT ME!

origContrast

float origContrast

DOCUMENT ME!

scrollPane

javax.swing.JScrollPane scrollPane

DOCUMENT ME!

serif12

java.awt.Font serif12

DOCUMENT ME!

serif12B

java.awt.Font serif12B

DOCUMENT ME!

sliderPanel

javax.swing.JPanel sliderPanel

DOCUMENT ME!

tagViewer

ViewTableModel tagViewer

The table model

thumbnail

FileImageXML.Thumbnail thumbnail

DOCUMENT ME!

tree

JTreeDICOM tree

Class gov.nih.mipav.view.dialogs.JDialogDICOMNewTagEditor extends JDialogBase implements Serializable

Serialized Fields

applyToAllSlicesCheckBox

javax.swing.JCheckBox applyToAllSlicesCheckBox

DOCUMENT ME!

elementString

java.lang.String elementString

groupString

java.lang.String groupString

struckOkayButton

boolean struckOkayButton

DOCUMENT ME!

tagKey

java.lang.String tagKey

DOCUMENT ME!

tagName

java.lang.String tagName

tagTable

FileDicomTagTable tagTable

A reference to the tag table containing the tag we will be editing.

tagValue

java.lang.String tagValue

textTagElement

javax.swing.JTextField textTagElement

textTagGroup

javax.swing.JTextField textTagGroup

DOCUMENT ME!

textTagName

javax.swing.JTextField textTagName

textTagValue

javax.swing.JTextField textTagValue

Class gov.nih.mipav.view.dialogs.JDialogDICOMTagEditor extends JDialogBase implements Serializable

serialVersionUID:

8765963102638731411L

Serialized Fields

applyToAllSlicesCheckBox

javax.swing.JCheckBox applyToAllSlicesCheckBox

DOCUMENT ME!

mainBox

javax.swing.Box mainBox

The main panel that is accessed.

newInputPanel

JPanelEdit[] newInputPanel

DOCUMENT ME!

originalTextField

javax.swing.JTextField originalTextField

DOCUMENT ME!

struckOkayButton

boolean struckOkayButton

DOCUMENT ME!

tagKey

java.lang.String tagKey

DOCUMENT ME!

tagTable

FileDicomTagTable tagTable

A reference to the tag table containing the tag we will be editing.

Class gov.nih.mipav.view.dialogs.JDialogDicomTagMultiEditor extends JDialogDicomTagSelector implements Serializable

Serialized Fields

fileInfo

FileInfoDicom fileInfo

files

java.io.File[] files

keyArray

FileDicomKey[] keyArray

processed

boolean processed

tagArray

FileDicomTag[] tagArray

Class gov.nih.mipav.view.dialogs.JDialogDicomTagSelector extends JDialogScriptableBase implements Serializable

Serialized Fields

addButton

javax.swing.JButton addButton

Buttons used by this dialog

addButtonSeq

javax.swing.JButton addButtonSeq

Buttons used by this dialog

addListener

java.awt.event.FocusListener addListener

clearButton

javax.swing.JButton clearButton

Buttons used by this dialog

closeButton

javax.swing.JButton closeButton

Buttons used by this dialog

elementCombo

javax.swing.JComboBox elementCombo

Combo boxes used for sequence tags

elementFocus

javax.swing.JComponent elementFocus

elementList

javax.swing.JList elementList

Lists used to display available DICOM tags

elementSeqText

javax.swing.JTextField elementSeqText

Text fields for displaying/entering a group/element tag

elementText

javax.swing.JTextField elementText

Text fields for displaying/entering a group/element tag

embeddedPanel

javax.swing.JPanel embeddedPanel

When this object exists as an embedded panel, this variable contains all necessary data elements.

groupCombo

javax.swing.JComboBox groupCombo

Combo boxes used for sequence tags

groupList

javax.swing.JList groupList

Lists used to display available DICOM tags

groupSeqText

javax.swing.JTextField groupSeqText

Text fields for displaying/entering a group/element tag

groupText

javax.swing.JTextField groupText

Text fields for displaying/entering a group/element tag

groupToElement

java.util.TreeMap<java.lang.String,java.util.ArrayList<java.lang.String>> groupToElement

List of all file's elements for each group of a FileDicomKey set

groupToElementSeq

java.util.TreeMap<java.lang.String,java.util.ArrayList<java.lang.String>> groupToElementSeq

List of all file's elements for each group of a FileDicomKey set

isStandalone

boolean isStandalone

k1

JDialogDicomTagSelector.TagInputListener k1

k2

JDialogDicomTagSelector.TagInputListener k2

keyToName

java.util.TreeMap<java.lang.String,java.lang.String> keyToName

FileDicomTag to its name in the Dicom dictionary

keyToNameSeq

java.util.TreeMap<java.lang.String,java.lang.String> keyToNameSeq

FileDicomTag to its name in the Dicom dictionary

keyToValue

java.util.TreeMap<java.lang.String,java.lang.String> keyToValue

FileDicomTag to its value in the file

keyToValueSeq

java.util.TreeMap<java.lang.String,java.lang.String> keyToValueSeq

FileDicomTag to its value in the file

nameValue

javax.swing.JLabel nameValue

Name and property labels that describe a DICOM tag for a particular file

nameValueSeq

javax.swing.JLabel nameValueSeq

Name and property labels that describe a DICOM tag for a particular file

parentDialog

DicomTagSelectorImpl parentDialog

The parent dialog which receives text from this dicom tag editor

propertyLabel

javax.swing.JLabel propertyLabel

When a tag value exists, this label displays the text "Tag value:"

propertyValue

javax.swing.JTextField propertyValue

propertyValueSeq

javax.swing.JLabel propertyValueSeq

Name and property labels that describe a DICOM tag for a particular file

propPane

javax.swing.JScrollPane propPane

When a tag value exists, this panel displays the value

SCROLL_PANE_SIZE

java.awt.Dimension SCROLL_PANE_SIZE

Min/max size of all text boxes contained in scroll panes.

sequenceInformationPanel

javax.swing.JPanel sequenceInformationPanel

Panels used by this dialog box

tablePanel

javax.swing.JPanel tablePanel

Panel contains JTable for storing dicom tags.

tagInformationPanel

javax.swing.JPanel tagInformationPanel

Panels used by this dialog box

tagList

java.util.Hashtable<FileDicomKey,FileDicomTag> tagList

Original list of available DICOM tags

tagSelectorPanel

javax.swing.JPanel tagSelectorPanel

Panels used by this dialog box

tagsTable

javax.swing.JTable tagsTable

Option table where dicom tags are reported to.

Class gov.nih.mipav.view.dialogs.JDialogDicomTagSelector.DicomTableModel extends javax.swing.table.DefaultTableModel implements Serializable

Class gov.nih.mipav.view.dialogs.JDialogDICOMtoAVI extends JDialogBase implements Serializable

serialVersionUID:

4954811111242576089L

Serialized Fields

aviField

javax.swing.JTextField aviField

DOCUMENT ME!

browseButton

javax.swing.JButton browseButton

DOCUMENT ME!

browseOutputButton

javax.swing.JButton browseOutputButton

DOCUMENT ME!

compression

int compression

DOCUMENT ME!

compressionBox

javax.swing.JComboBox compressionBox

DOCUMENT ME!

dirField

javax.swing.JTextField dirField

DOCUMENT ME!

qualityField

javax.swing.JTextField qualityField

DOCUMENT ME!

qualityLabel

javax.swing.JLabel qualityLabel

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogDilate extends JDialogScriptableBase implements Serializable

serialVersionUID:

-2780388883449887106L

Serialized Fields

binaryButton

javax.swing.JRadioButton binaryButton

binaryMorphology

boolean binaryMorphology

comboBoxKernel

javax.swing.JComboBox comboBoxKernel

DOCUMENT ME!

dilateAlgo25D

AlgorithmMorphology25D dilateAlgo25D

DOCUMENT ME!

dilateAlgo2D

AlgorithmMorphology2D dilateAlgo2D

DOCUMENT ME!

dilateAlgo3D

AlgorithmMorphology3D dilateAlgo3D

DOCUMENT ME!

do25D

boolean do25D

DOCUMENT ME!

grayScaleButton

javax.swing.JRadioButton grayScaleButton

gsDilateAlgo25D

AlgorithmGrayScaleMorphology25D gsDilateAlgo25D

gsDilateAlgo2D

AlgorithmGrayScaleMorphology2D gsDilateAlgo2D

gsDilateAlgo3D

AlgorithmGrayScaleMorphology3D gsDilateAlgo3D

image

ModelImage image

DOCUMENT ME!

image25D

javax.swing.JCheckBox image25D

DOCUMENT ME!

iters

int iters

or if the source image is to be replaced.

kernel

int kernel

DOCUMENT ME!

kernelSize

float kernelSize

DOCUMENT ME!

labelKernel

javax.swing.JLabel labelKernel

DOCUMENT ME!

labelKernelSize

javax.swing.JLabel labelKernelSize

DOCUMENT ME!

labelNIter

javax.swing.JLabel labelNIter

DOCUMENT ME!

maskPanel

javax.swing.JPanel maskPanel

DOCUMENT ME!

morphologyGroup

javax.swing.ButtonGroup morphologyGroup

outputPanel

JPanelAlgorithmOutputOptions outputPanel

resultImage

ModelImage resultImage

DOCUMENT ME!

textKernelSize

javax.swing.JTextField textKernelSize

DOCUMENT ME!

textNIter

javax.swing.JTextField textNIter

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogDirectResample extends JDialogScriptableBase implements Serializable

serialVersionUID:

2885627426314170051L

Serialized Fields

algoTransform

AlgorithmTransform algoTransform

The algorithm.

comboBoxInterp

javax.swing.JComboBox comboBoxInterp

DOCUMENT ME!

dim

int dim

Number of available dimension.

enableVolRender

boolean enableVolRender

Boolean flag to enable volume render button.

extents

int[] extents

Original dimensions extents value array.

extXInput

javax.swing.JTextField extXInput

Original X, Y, Z dimension extents values.

extXOutput

javax.swing.JTextField extXOutput

Power of 2 X, Y, Z dimension extents values.

extYInput

javax.swing.JTextField extYInput

Original X, Y, Z dimension extents values.

extYOutput

javax.swing.JTextField extYOutput

Power of 2 X, Y, Z dimension extents values.

extZInput

javax.swing.JTextField extZInput

Original X, Y, Z dimension extents values.

extZOutput

javax.swing.JTextField extZOutput

Power of 2 X, Y, Z dimension extents values.

forceResample

boolean forceResample

Boolean flag to do resample images.

image

ModelImage image

Model images A and B.

imageB

ModelImage imageB

Model images A and B.

interp

int interp

DOCUMENT ME!

leftPanel

javax.swing.JPanel leftPanel

Left panel and right panels corresponding to original and expected extents.

newRes

float[] newRes

Resample resolutioin corresponding to Power of 2.

originalVolPowerOfTwo

boolean originalVolPowerOfTwo

Boolean flag to indicate the original image is in Power of 2.

res

float[] res

Original resolutioin arrray.

resampledImageFrame

ViewJFrameImage resampledImageFrame

DOCUMENT ME!

resultImage

ModelImage resultImage

Temp Model image.

resultImageB

ModelImage resultImageB

DOCUMENT ME!

rightPanel

javax.swing.JPanel rightPanel

Left panel and right panels corresponding to original and expected extents.

userInterface

ViewUserInterface userInterface

Parent ui.

volExtents

int[] volExtents

Resampled dimension value in Power of 2.

volSize

int volSize

Volume size X*Y*Z.

Class gov.nih.mipav.view.dialogs.JDialogDiscreteCosineTransform extends JDialogScriptableBase implements Serializable

Serialized Fields

bandPass

javax.swing.JRadioButton bandPass

bandStop

javax.swing.JRadioButton bandStop

butterworthFilter

javax.swing.JRadioButton butterworthFilter

chebyshevIFilter

javax.swing.JRadioButton chebyshevIFilter

chebyshevIIFilter

javax.swing.JRadioButton chebyshevIIFilter

constructionGroup

javax.swing.ButtonGroup constructionGroup

constructionMethod

int constructionMethod

constructionPanel

javax.swing.JPanel constructionPanel

dcAlgo

DiscreteCosineTransform dcAlgo

ellipticFilter

javax.swing.JRadioButton ellipticFilter

epsilon

double epsilon

f1

double f1

f2

double f2

filterOrder

int filterOrder

filterPanel

javax.swing.JPanel filterPanel

filterType

int filterType

filterTypeGroup

javax.swing.ButtonGroup filterTypeGroup

gaussianFilter

javax.swing.JRadioButton gaussianFilter

highPass

javax.swing.JRadioButton highPass

inverseImage

ModelImage inverseImage

labelEpsilon

javax.swing.JLabel labelEpsilon

labelF1

javax.swing.JLabel labelF1

labelF2

javax.swing.JLabel labelF2

labelOrder

javax.swing.JLabel labelOrder

labelRs

javax.swing.JLabel labelRs

lowPass

javax.swing.JRadioButton lowPass

mainPanel

javax.swing.JPanel mainPanel

noneButton

javax.swing.JRadioButton noneButton

rs

double rs

srcImage

ModelImage srcImage

Use serialVersionUID for interoperability.

textEpsilon

javax.swing.JTextField textEpsilon

textF1

javax.swing.JTextField textF1

textF2

javax.swing.JTextField textF2

textOrder

javax.swing.JTextField textOrder

textRs

javax.swing.JTextField textRs

transformImage

ModelImage transformImage

Class gov.nih.mipav.view.dialogs.JDialogDiscreteSineTransform extends JDialogScriptableBase implements Serializable

Serialized Fields

bandPass

javax.swing.JRadioButton bandPass

bandStop

javax.swing.JRadioButton bandStop

butterworthFilter

javax.swing.JRadioButton butterworthFilter

chebyshevIFilter

javax.swing.JRadioButton chebyshevIFilter

chebyshevIIFilter

javax.swing.JRadioButton chebyshevIIFilter

constructionGroup

javax.swing.ButtonGroup constructionGroup

constructionMethod

int constructionMethod

constructionPanel

javax.swing.JPanel constructionPanel

dsAlgo

DiscreteSineTransform dsAlgo

ellipticFilter

javax.swing.JRadioButton ellipticFilter

epsilon

double epsilon

f1

double f1

f2

double f2

filterOrder

int filterOrder

filterPanel

javax.swing.JPanel filterPanel

filterType

int filterType

filterTypeGroup

javax.swing.ButtonGroup filterTypeGroup

gaussianFilter

javax.swing.JRadioButton gaussianFilter

highPass

javax.swing.JRadioButton highPass

inverseImage

ModelImage inverseImage

labelEpsilon

javax.swing.JLabel labelEpsilon

labelF1

javax.swing.JLabel labelF1

labelF2

javax.swing.JLabel labelF2

labelOrder

javax.swing.JLabel labelOrder

labelRs

javax.swing.JLabel labelRs

lowPass

javax.swing.JRadioButton lowPass

mainPanel

javax.swing.JPanel mainPanel

multiButton

javax.swing.JRadioButton multiButton

multiProcessor

boolean multiProcessor

Use serialVersionUID for interoperability.

noneButton

javax.swing.JRadioButton noneButton

processorGroup

javax.swing.ButtonGroup processorGroup

rs

double rs

singleButton

javax.swing.JRadioButton singleButton

srcImage

ModelImage srcImage

textEpsilon

javax.swing.JTextField textEpsilon

textF1

javax.swing.JTextField textF1

textF2

javax.swing.JTextField textF2

textOrder

javax.swing.JTextField textOrder

textRs

javax.swing.JTextField textRs

transformImage

ModelImage transformImage

Class gov.nih.mipav.view.dialogs.JDialogDistanceMap extends JDialogScriptableBase implements Serializable

serialVersionUID:

-5952815004874741476L

Serialized Fields

distanceMapAlgo2D

AlgorithmMorphology2D distanceMapAlgo2D

DOCUMENT ME!

distanceMapAlgo3D

AlgorithmMorphology3D distanceMapAlgo3D

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

outputPanel

JPanelAlgorithmOutputOptions outputPanel

resultImage

ModelImage resultImage

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogDoublyConnectedSC extends JDialogBase implements Serializable

serialVersionUID:

0L

Serialized Fields

circularButton

javax.swing.JRadioButton circularButton

componentImage

ViewJComponentEditImage componentImage

dcscAlgo

DoublyConnectedSC dcscAlgo

displayCheckBox

javax.swing.JCheckBox displayCheckBox

equalButton

javax.swing.JRadioButton equalButton

extents

int[] extents

guessGroup

javax.swing.ButtonGroup guessGroup

IGUESS

int IGUESS

image

ModelImage image

innerButton

javax.swing.JRadioButton innerButton

integrationGroup

javax.swing.ButtonGroup integrationGroup

ISPRT

int ISPRT

LINEARC

int LINEARC

lineButton

javax.swing.JRadioButton lineButton

nonequalButton

javax.swing.JRadioButton nonequalButton

NPTQ

int NPTQ

nptqText

javax.swing.JTextField nptqText

outerButton

javax.swing.JRadioButton outerButton

preverticesButton

javax.swing.JRadioButton preverticesButton

resultImage

ModelImage resultImage

TOL

double TOL

tolText

javax.swing.JTextField tolText

VOIGroup

javax.swing.ButtonGroup VOIGroup

VOIs

ViewVOIVector VOIs

xDim

int xDim

xText

javax.swing.JTextField xText

Z0

double[][] Z0

Z1

double[][] Z1

Class gov.nih.mipav.view.dialogs.JDialogDSC_MRI_toolbox extends JDialogScriptableBase implements Serializable

Serialized Fields

aif_nSlice

int aif_nSlice

aif_nSliceLabel

javax.swing.JLabel aif_nSliceLabel

aif_nSliceText

javax.swing.JTextField aif_nSliceText

csvdCheckBox

javax.swing.JCheckBox csvdCheckBox

deconv_method

java.lang.String[] deconv_method

do_csvd

boolean do_csvd

do_osvd

boolean do_osvd

do_svd

boolean do_svd

dsc

DSC_MRI_toolbox dsc

DOCUMENT ME!

image

ModelImage image

Source image.

nS

int nS

osvdCheckBox

javax.swing.JCheckBox osvdCheckBox

outputFileDirectory

java.lang.String outputFileDirectory

outputFileDirectoryText

javax.swing.JTextField outputFileDirectoryText

svdCheckBox

javax.swing.JCheckBox svdCheckBox

svdLabel

javax.swing.JLabel svdLabel

svdMethodsSelected

int svdMethodsSelected

te

double te

teLabel

javax.swing.JLabel teLabel

TEString

java.lang.String TEString

teText

javax.swing.JTextField teText

tr

double tr

trLabel

javax.swing.JLabel trLabel

TRString

java.lang.String TRString

trText

javax.swing.JTextField trText

userInterface

ViewUserInterface userInterface

Class gov.nih.mipav.view.dialogs.JDialogDTICreateListFile extends JDialogBase implements Serializable

Serialized Fields

alg

AlgorithmDTICreateListFile alg

handle to the algorithm

bmatrixPath

java.lang.String bmatrixPath

bmatrix path

bmtxtFileBrowseButton

javax.swing.JButton bmtxtFileBrowseButton

browse button

bmtxtFilePathTextField

javax.swing.JTextField bmtxtFilePathTextField

path to bmatrix file

bmtxtFileRadio

javax.swing.JRadioButton bmtxtFileRadio

b-matrix file option

currDir

java.lang.String currDir

current directory

dicomB0VolumeBrowseButton

javax.swing.JButton dicomB0VolumeBrowseButton

browse button to locate the dicom b0 volume if doing registration

dicomB0VolumeLabel

javax.swing.JLabel dicomB0VolumeLabel

label for dicom b0 volume if doing registration

dicomB0VolumePath

java.lang.String dicomB0VolumePath

dicomB0VolumeTextField

javax.swing.JTextField dicomB0VolumeTextField

path to dicom b0 volume if doing registration

dwiLabel

javax.swing.JLabel dwiLabel

dwi data label

dwiPathBrowseButton

javax.swing.JButton dwiPathBrowseButton

browse button for dwi file/folder

dwiPathTextField

javax.swing.JTextField dwiPathTextField

path to dwi file/dir

gradFileRadio

javax.swing.JRadioButton gradFileRadio

gradient file option

gradientFileBrowseButton

javax.swing.JButton gradientFileBrowseButton

browse button

gradientFilePathTextField

javax.swing.JTextField gradientFilePathTextField

path to gradient file

gradientPath

java.lang.String gradientPath

gradient path

isDICOM

boolean isDICOM

boolean indicating if we are dealing with dicom or par/rec

isInterleaved

boolean isInterleaved

boolean if interleaved

optionsGroup

javax.swing.ButtonGroup optionsGroup

button group for radio buttons

outputTextArea

javax.swing.JTextArea outputTextArea

output text area

performRegistrationCheckbox

javax.swing.JCheckBox performRegistrationCheckbox

checkbox for performing registration

prFileDir

java.lang.String prFileDir

par/rec file directory

prFileName

java.lang.String prFileName

par/rec file name

registrationSettingsButton

javax.swing.JButton registrationSettingsButton

button to launch the registration settings

regOptions

JDialogDTICreateListFileRegOAR35DOptions regOptions

handle to JDialogDTICreateListFileRegOAR35DOptions

scrollPane

javax.swing.JScrollPane scrollPane

Scroll Pane for the Text Area

studyName

java.lang.String studyName

study name string

studyPath

java.lang.String studyPath

study path

Class gov.nih.mipav.view.dialogs.JDialogDTICreateListFileRegOAR35DOptions extends JDialogBase implements Serializable

serialVersionUID:

-4309868934393418962L

Serialized Fields

advancedDialog

javax.swing.JDialog advancedDialog

Variables for Advanced Settings dialog.

bracketBound

int bracketBound

DOCUMENT ME!

bracketBound_def

int bracketBound_def

DOCUMENT ME!

bracketBoundText

javax.swing.JTextField bracketBoundText

DOCUMENT ME!

coarsePanelX

javax.swing.JPanel coarsePanelX

DOCUMENT ME!

coarsePanelY

javax.swing.JPanel coarsePanelY

DOCUMENT ME!

coarsePanelZ

javax.swing.JPanel coarsePanelZ

DOCUMENT ME!

coarseRate

float coarseRate

DOCUMENT ME!

coarseRateText

javax.swing.JTextField coarseRateText

DOCUMENT ME!

coarseRateTextX

javax.swing.JTextField coarseRateTextX

DOCUMENT ME!

coarseRateTextY

javax.swing.JTextField coarseRateTextY

DOCUMENT ME!

coarseRateTextZ

javax.swing.JTextField coarseRateTextZ

DOCUMENT ME!

coarseRateX

float coarseRateX

DOCUMENT ME!

coarseRateY

float coarseRateY

DOCUMENT ME!

coarseRateZ

float coarseRateZ

DOCUMENT ME!

comboBoxCostFunct

javax.swing.JComboBox comboBoxCostFunct

DOCUMENT ME!

comboBoxDOF

javax.swing.JComboBox comboBoxDOF

DOCUMENT ME!

comboBoxInterp

javax.swing.JComboBox comboBoxInterp

DOCUMENT ME!

comboBoxInterp2

javax.swing.JComboBox comboBoxInterp2

DOCUMENT ME!

cost

int cost

DOCUMENT ME!

DOF

int DOF

DOCUMENT ME!

doMultiThread

boolean doMultiThread

doSubsample

boolean doSubsample

DOCUMENT ME!

fastMode

boolean fastMode

DOCUMENT ME!

fastModeCheckbox

javax.swing.JCheckBox fastModeCheckbox

DOCUMENT ME!

finePanelX

javax.swing.JPanel finePanelX

DOCUMENT ME!

finePanelY

javax.swing.JPanel finePanelY

DOCUMENT ME!

finePanelZ

javax.swing.JPanel finePanelZ

DOCUMENT ME!

fineRate

float fineRate

DOCUMENT ME!

fineRateText

javax.swing.JTextField fineRateText

DOCUMENT ME!

fineRateTextX

javax.swing.JTextField fineRateTextX

DOCUMENT ME!

fineRateTextY

javax.swing.JTextField fineRateTextY

DOCUMENT ME!

fineRateTextZ

javax.swing.JTextField fineRateTextZ

DOCUMENT ME!

fineRateX

float fineRateX

DOCUMENT ME!

fineRateY

float fineRateY

DOCUMENT ME!

fineRateZ

float fineRateZ

DOCUMENT ME!

gbc

java.awt.GridBagConstraints gbc

DOCUMENT ME!

interp

int interp

DOCUMENT ME!

interp2

int interp2

DOCUMENT ME!

isDICOM

boolean isDICOM

labelInterp2

javax.swing.JLabel labelInterp2

DOCUMENT ME!

maxIterations

int maxIterations

DOCUMENT ME!

maxIterations_def

int maxIterations_def

DOCUMENT ME!

maxIterationsText

javax.swing.JTextField maxIterationsText

DOCUMENT ME!

maxOfMinResol

boolean maxOfMinResol

DOCUMENT ME!

minMaxCheckbox

javax.swing.JCheckBox minMaxCheckbox

DOCUMENT ME!

multiThreadCheckBox

javax.swing.JCheckBox multiThreadCheckBox

numMinima

int numMinima

DOCUMENT ME!

numMinima_def

int numMinima_def

DOCUMENT ME!

numMinText

javax.swing.JTextField numMinText

DOCUMENT ME!

registerTo

int registerTo

rotateBegin

float rotateBegin

DOCUMENT ME!

rotateBeginText

javax.swing.JTextField rotateBeginText

DOCUMENT ME!

rotateBeginTextX

javax.swing.JTextField rotateBeginTextX

DOCUMENT ME!

rotateBeginTextY

javax.swing.JTextField rotateBeginTextY

DOCUMENT ME!

rotateBeginTextZ

javax.swing.JTextField rotateBeginTextZ

DOCUMENT ME!

rotateBeginX

float rotateBeginX

DOCUMENT ME!

rotateBeginY

float rotateBeginY

DOCUMENT ME!

rotateBeginZ

float rotateBeginZ

DOCUMENT ME!

rotateEnd

float rotateEnd

DOCUMENT ME!

rotateEndText

javax.swing.JTextField rotateEndText

DOCUMENT ME!

rotateEndTextX

javax.swing.JTextField rotateEndTextX

DOCUMENT ME!

rotateEndTextY

javax.swing.JTextField rotateEndTextY

DOCUMENT ME!

rotateEndTextZ

javax.swing.JTextField rotateEndTextZ

DOCUMENT ME!

rotateEndX

float rotateEndX

DOCUMENT ME!

rotateEndY

float rotateEndY

DOCUMENT ME!

rotateEndZ

float rotateEndZ

DOCUMENT ME!

rotatePanel

javax.swing.JPanel rotatePanel

rotateRangePanelX

javax.swing.JPanel rotateRangePanelX

DOCUMENT ME!

rotateRangePanelY

javax.swing.JPanel rotateRangePanelY

DOCUMENT ME!

rotateRangePanelZ

javax.swing.JPanel rotateRangePanelZ

DOCUMENT ME!

sampleCheckBox

javax.swing.JCheckBox sampleCheckBox

DOCUMENT ME!

universalCheckbox

javax.swing.JCheckBox universalCheckbox

DOCUMENT ME!

xRadio

javax.swing.JRadioButton xRadio

DOCUMENT ME!

xSelected

boolean xSelected

DOCUMENT ME!

yRadio

javax.swing.JRadioButton yRadio

DOCUMENT ME!

ySelected

boolean ySelected

DOCUMENT ME!

zRadio

javax.swing.JRadioButton zRadio

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogDTIEstimateTensor extends JDialogBase implements Serializable

Serialized Fields

bValueTextField

javax.swing.JTextField bValueTextField

textfields *

currDir

java.lang.String currDir

current directory *

DTI

ModelImage DTI

Diffusion Tensor image.

formatTextField

javax.swing.JTextField formatTextField

textfields *

gapTextField

javax.swing.JTextField gapTextField

textfields *

gbc

java.awt.GridBagConstraints gbc

grid bag constraints *

gbc2

java.awt.GridBagConstraints gbc2

grid bag constraints *

gbc3

java.awt.GridBagConstraints gbc3

grid bag constraints *

hFOVTextField

javax.swing.JTextField hFOVTextField

textfields *

imagePlaneTextField

javax.swing.JTextField imagePlaneTextField

textfields *

kAlgorithm

AlgorithmDWI2DTI kAlgorithm

handle to algorithm *

listFile

java.io.File listFile

list file *

loadMaskButton

javax.swing.JButton loadMaskButton

button *

m_aakDWIList

java.lang.String[][] m_aakDWIList

List of file names for the Diffusion Weighted Images, from the .path *

m_aiMatrixEntries

int[] m_aiMatrixEntries

keeps track of unique entries in the BMatrix

m_fMeanNoise

float m_fMeanNoise

Mean noise vale read from the .list file

m_fResX

float m_fResX

Slice thickness read from .list file

m_fResY

float m_fResY

Slice thickness read from .list file

m_fResZ

float m_fResZ

Slice thickness read from .list file

m_iBOrig

int m_iBOrig

Number of different BMatrix rows:

m_iDimX

int m_iDimX

X-dimensions for Diffusion Weighted Images.

m_iDimY

int m_iDimY

Y-dimensions for Diffusion Weighted Images.

m_iSlices

int m_iSlices

Number of slices in the Diffusion Weighted Images series.

m_iWeights

int m_iWeights

Number of weights in the Diffusion Weighted Images series.

m_kBMatrix

WildMagic.LibFoundation.Mathematics.GMatrixd m_kBMatrix

General matrix storing BMatrix values.

m_kParentDir

java.lang.String m_kParentDir

paren tdir *

m_kRawFormat

java.lang.String m_kRawFormat

raw image format read from the .list file:

mainPanel

javax.swing.JPanel mainPanel

main panel *

maskImage

ModelImage maskImage

mask Image *

maskImageTextField

javax.swing.JTextField maskImageTextField

textfields *

numSlicesTextField

javax.swing.JTextField numSlicesTextField

textfields *

numVolumesTextField

javax.swing.JTextField numVolumesTextField

textfields *

outputDirTextField

javax.swing.JTextField outputDirTextField

textfields *

phaseEncodingTextField

javax.swing.JTextField phaseEncodingTextField

textfields *

slicesVector

java.util.Vector<java.util.ArrayList<java.lang.String>> slicesVector

slices *

sliceThicknessTextField

javax.swing.JTextField sliceThicknessTextField

textfields *

srcImage

ModelImage srcImage

src image *

srcImagesTable

javax.swing.JTable srcImagesTable

table to display the src image names.

srcTableModel

javax.swing.table.DefaultTableModel srcTableModel

table model for the srcimages.

vFOVTextField

javax.swing.JTextField vFOVTextField

textfields *

xdimTextField

javax.swing.JTextField xdimTextField

textfields *

ydimTextField

javax.swing.JTextField ydimTextField

textfields *

Class gov.nih.mipav.view.dialogs.JDialogDualContourSearch extends JDialogBase implements Serializable

Serialized Fields

componentImage

ViewJComponentEditImage componentImage

DOCUMENT ME!

contourPoints

int contourPoints

dualAlgo

AlgorithmDualContourSearch dualAlgo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

innerButton

javax.swing.JRadioButton innerButton

DOCUMENT ME!

innerIndex

int innerIndex

DOCUMENT ME!

linePoints

int linePoints

outerButton

javax.swing.JRadioButton outerButton

DOCUMENT ME!

outerIndex

int outerIndex

DOCUMENT ME!

pixelsContract

int pixelsContract

pixelsExpand

int pixelsExpand

regularization

double regularization

removeOriginal

boolean removeOriginal

DOCUMENT ME!

removeOriginalCheckBox

javax.swing.JCheckBox removeOriginalCheckBox

DOCUMENT ME!

sigmas

double[] sigmas

textContourPoints

javax.swing.JTextField textContourPoints

textContract

javax.swing.JTextField textContract

textExpand

javax.swing.JTextField textExpand

textGaussX

javax.swing.JTextField textGaussX

textGaussY

javax.swing.JTextField textGaussY

textLinePoints

javax.swing.JTextField textLinePoints

textRegularization

javax.swing.JTextField textRegularization

titles

java.lang.String[] titles

VOIGroup

javax.swing.ButtonGroup VOIGroup

DOCUMENT ME!

VOIs

ViewVOIVector VOIs

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogEdgeDetection3D extends JDialogScriptableBase implements Serializable

Serialized Fields

anglesRequired

boolean anglesRequired

componentsRequired

boolean componentsRequired

dx

double dx

dy

double dy

dz

double dz

edgeAlgo

AlgorithmEdgeDetection3D edgeAlgo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

L

double L

magnitudeRequired

boolean magnitudeRequired

nx

int nx

ny

int ny

nz

int nz

resultImage

ModelImage resultImage

DOCUMENT ME!

textdx

javax.swing.JTextField textdx

textdy

javax.swing.JTextField textdy

textdz

javax.swing.JTextField textdz

textL

javax.swing.JTextField textL

DOCUMENT ME!

textnx

javax.swing.JTextField textnx

textny

javax.swing.JTextField textny

textnz

javax.swing.JTextField textnz

textThreshold

javax.swing.JTextField textThreshold

threshold

double threshold

Class gov.nih.mipav.view.dialogs.JDialogEdgeLaplacian extends JDialogScriptableBase implements Serializable

serialVersionUID:

-4875093981299828397L

Serialized Fields

clearInflectionPoints

boolean clearInflectionPoints

clearPointsBox

javax.swing.JCheckBox clearPointsBox

edgeImage

ModelImage edgeImage

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

image25D

boolean image25D

false = apply algorithm only to VOI regions.

image25DCheckbox

javax.swing.JCheckBox image25DCheckbox

DOCUMENT ME!

laplacianAlgo

AlgorithmEdgeLaplacian laplacianAlgo

DOCUMENT ME!

laplacianSepAlgo

AlgorithmEdgeLaplacianSep laplacianSepAlgo

DOCUMENT ME!

outputPanel

JPanelAlgorithmOutputOptions outputPanel

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

separable

boolean separable

DOCUMENT ME!

sepCheckBox

javax.swing.JCheckBox sepCheckBox

DOCUMENT ME!

sigmaPanel

JPanelSigmas sigmaPanel

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogEdgeNMSuppression extends JDialogScriptableBase implements Serializable

serialVersionUID:

-7682705151759726551L

Serialized Fields

edgeImage

ModelImage edgeImage

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

image25D

boolean image25D

false = apply algorithm only to VOI regions.

image25DCheckbox

javax.swing.JCheckBox image25DCheckbox

DOCUMENT ME!

nmSupAlgo

AlgorithmEdgeNMSuppression nmSupAlgo

DOCUMENT ME!

outputPanel

JPanelAlgorithmOutputOptions outputPanel

DOCUMENT ME!

sigmaPanel

JPanelSigmas sigmaPanel

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogEdgePreservingSmoothing extends JDialogScriptableBase implements Serializable

Serialized Fields

epsAlgo

AlgorithmEdgePreservingSmoothing epsAlgo

extendedButton

javax.swing.JRadioButton extendedButton

image

ModelImage image

Source image.

iterations

int iterations

outputOptionsPanel

JPanelAlgorithmOutputOptions outputOptionsPanel

output to a new image or overwite the current image

resultImage

ModelImage resultImage

Result image.

standard

boolean standard

standardButton

javax.swing.JRadioButton standardButton

standardGroup

javax.swing.ButtonGroup standardGroup

textIterations

javax.swing.JTextField textIterations

titles

java.lang.String[] titles

locks the frame title

userInterface

ViewUserInterface userInterface

locking the image

Class gov.nih.mipav.view.dialogs.JDialogEditCircleDiameter extends JDialogScriptableBase implements Serializable

Serialized Fields

measuredWidthString

java.lang.String measuredWidthString

optionsGroup

javax.swing.ButtonGroup optionsGroup

button group for radio buttons

parentComponent

java.awt.Component parentComponent

pixelField

javax.swing.JTextField pixelField

pixelLabel

javax.swing.JLabel pixelLabel

pixelRadio

javax.swing.JRadioButton pixelRadio

res

float[] res

spaceField

javax.swing.JTextField spaceField

spaceLabel

javax.swing.JLabel spaceLabel

spaceRadio

javax.swing.JRadioButton spaceRadio

unitsString

java.lang.String unitsString

voi

VOIBase voi

voiManager

VOIManager voiManager

widthString

java.lang.String widthString

Class gov.nih.mipav.view.dialogs.JDialogEditor extends JDialogBase implements Serializable

serialVersionUID:

1979336171963042575L

Serialized Fields

closedOkay

boolean closedOkay

DOCUMENT ME!

imageFileName

java.lang.String imageFileName

DOCUMENT ME!

key

java.lang.Object key

the representative key of this object; must be unique.

newValue

JPanelEdit[] newValue

DOCUMENT ME!

oldValue

javax.swing.JTextField oldValue

DOCUMENT ME!

psetDesc

java.lang.String psetDesc

DOCUMENT ME!

row

int row

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogEditSquareLength extends JDialogScriptableBase implements Serializable

Serialized Fields

measuredWidthString

java.lang.String measuredWidthString

optionsGroup

javax.swing.ButtonGroup optionsGroup

button group for radio buttons

parentComponent

java.awt.Component parentComponent

pixelField

javax.swing.JTextField pixelField

pixelLabel

javax.swing.JLabel pixelLabel

pixelRadio

javax.swing.JRadioButton pixelRadio

res

float[] res

spaceField

javax.swing.JTextField spaceField

spaceLabel

javax.swing.JLabel spaceLabel

spaceRadio

javax.swing.JRadioButton spaceRadio

unitsString

java.lang.String unitsString

voi

VOIBase voi

voiManager

VOIManager voiManager

widthString

java.lang.String widthString

Class gov.nih.mipav.view.dialogs.JDialogEditUserDefinedFileTypes extends JDialogBase implements Serializable

Serialized Fields

applyClosePanel

javax.swing.JPanel applyClosePanel

The panels that make up this Dialog

checkBoxArrList

java.util.ArrayList<javax.swing.JCheckBox> checkBoxArrList

This is the ArrayList of JCheckBoxes

checkboxNames

java.util.ArrayList<java.lang.String> checkboxNames

This is a list of the checkbox names that is used for validation of user input to make sure there are no duplicates

checkedFileTypes

java.util.ArrayList<java.lang.String> checkedFileTypes

This a list is the list of checked check boxes that is populated when user hits apply

displayPanel

javax.swing.JPanel displayPanel

The panels that make up this Dialog

fileExtensionsTS

java.util.TreeSet<java.lang.String> fileExtensionsTS

This is the alphabetically sorted collection of supported file extension names

preferencesFileTypes

java.lang.String[] preferencesFileTypes

This array is the list of file extensions that is pulled from the Preferences. We need this in order to check the appropriate check boxes and the user input text field when the user opens up this dialog initailly

userInput

javax.swing.JTextField userInput

This is the user input for additional file extensions

userInputFileTypes

java.lang.String[] userInputFileTypes

This array is the list of additional file extensions that user typed in that is populated when user hits apply

Class gov.nih.mipav.view.dialogs.JDialogEfficientWatershed extends JDialogScriptableBase implements Serializable

Serialized Fields

binCheckBox

javax.swing.JCheckBox binCheckBox

binNumber

int binNumber

eightButton

javax.swing.JRadioButton eightButton

eighteenButton

javax.swing.JRadioButton eighteenButton

fourButton

javax.swing.JRadioButton fourButton

image

ModelImage image

DOCUMENT ME!

labelBins

javax.swing.JLabel labelBins

labelThreshold

javax.swing.JLabel labelThreshold

limitBins

boolean limitBins

merge

boolean merge

mergeCheckBox

javax.swing.JCheckBox mergeCheckBox

mergeThreshold

double mergeThreshold

neighborGroup

javax.swing.ButtonGroup neighborGroup

neighborPanel

javax.swing.JPanel neighborPanel

DOCUMENT ME!

numNeighbor

int numNeighbor

resultImage

ModelImage resultImage

DOCUMENT ME!

sixButton

javax.swing.JRadioButton sixButton

textBins

javax.swing.JTextField textBins

textThreshold

javax.swing.JTextField textThreshold

twentySixButton

javax.swing.JRadioButton twentySixButton

watershedAlgo

AlgorithmEfficientWatershed watershedAlgo

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogEllipseGeneration extends JDialogBase implements Serializable

serialVersionUID:

0L

Serialized Fields

aggregatedButton

javax.swing.JRadioButton aggregatedButton

constrainedButton

javax.swing.JRadioButton constrainedButton

eAlgo

AlgorithmEllipseGeneration eAlgo

DOCUMENT ME!

extents

int[] extents

highestForbiddenLabel

javax.swing.JLabel highestForbiddenLabel

highestForbiddenNNDistance

double highestForbiddenNNDistance

highestForbiddenText

javax.swing.JTextField highestForbiddenText

highestRegenerationLabel

javax.swing.JLabel highestRegenerationLabel

highestRegenerationNNDistance

double highestRegenerationNNDistance

highestRegenerationText

javax.swing.JTextField highestRegenerationText

initialEllipsesLabel

javax.swing.JLabel initialEllipsesLabel

initialEllipsesText

javax.swing.JTextField initialEllipsesText

initialRandomEllipses

int initialRandomEllipses

lowestForbiddenLabel

javax.swing.JLabel lowestForbiddenLabel

lowestForbiddenNNDistance

double lowestForbiddenNNDistance

lowestForbiddenText

javax.swing.JTextField lowestForbiddenText

maximumDistanceLabel

javax.swing.JLabel maximumDistanceLabel

maximumDistanceText

javax.swing.JTextField maximumDistanceText

maximumNearestNeighborDistance

double maximumNearestNeighborDistance

minimumDistanceLabel

javax.swing.JLabel minimumDistanceLabel

minimumDistanceText

javax.swing.JTextField minimumDistanceText

minimumNearestNeighborDistance

double minimumNearestNeighborDistance

numEllipses

int numEllipses

numEllipsesText

javax.swing.JTextField numEllipsesText

pattern

int pattern

patternGroup

javax.swing.ButtonGroup patternGroup

phi

double phi

phiText

javax.swing.JTextField phiText

randomButton

javax.swing.JRadioButton randomButton

regularButton

javax.swing.JRadioButton regularButton

resultImage

ModelImage resultImage

DOCUMENT ME!

semiMajorAxis

int semiMajorAxis

semiMajorAxisText

javax.swing.JTextField semiMajorAxisText

DOCUMENT ME!

semiMinorAxis

int semiMinorAxis

semiMinorAxisText

javax.swing.JTextField semiMinorAxisText

xDim

int xDim

DOCUMENT ME!

xDimText

javax.swing.JTextField xDimText

DOCUMENT ME!

yDim

int yDim

DOCUMENT ME!

yDimText

javax.swing.JTextField yDimText

Class gov.nih.mipav.view.dialogs.JDialogEllipseToCircle extends JDialogBase implements Serializable

serialVersionUID:

0L

Serialized Fields

ecAlgo

AlgorithmEllipseToCircle ecAlgo

DOCUMENT ME!

extents

int[] extents

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

UI

ViewUserInterface UI

DOCUMENT ME!

xDim

int xDim

DOCUMENT ME!

xText

javax.swing.JTextField xText

DOCUMENT ME!

yDim

int yDim

DOCUMENT ME!

yText

javax.swing.JTextField yText

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogEllipseToRectangle extends JDialogBase implements Serializable

serialVersionUID:

0L

Serialized Fields

erAlgo

AlgorithmEllipseToRectangle erAlgo

DOCUMENT ME!

extents

int[] extents

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

xDim

int xDim

DOCUMENT ME!

xText

javax.swing.JTextField xText

DOCUMENT ME!

yDim

int yDim

DOCUMENT ME!

yText

javax.swing.JTextField yText

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogEmbeddedConfidenceEdgeDetection extends JDialogScriptableBase implements Serializable

Serialized Fields

ch

double ch

cl

double cl

comboBoxHigh

javax.swing.JComboBox comboBoxHigh

comboBoxLow

javax.swing.JComboBox comboBoxLow

comboBoxSuppression

javax.swing.JComboBox comboBoxSuppression

displayLoc

int displayLoc

edgeDetectionAlgo

AlgorithmEmbeddedConfidenceEdgeDetection edgeDetectionAlgo

hysteresisHighConfidenceText

javax.swing.JTextField hysteresisHighConfidenceText

hysteresisHighRankText

javax.swing.JTextField hysteresisHighRankText

hysteresisLowConfidenceText

javax.swing.JTextField hysteresisLowConfidenceText

hysteresisLowRankText

javax.swing.JTextField hysteresisLowRankText

hystTypeHigh

int hystTypeHigh

hystTypeLow

int hystTypeLow

image

ModelImage image

kernelSize

int kernelSize

newImage

javax.swing.JRadioButton newImage

nMin

int nMin

nMinText

javax.swing.JTextField nMinText

nmxc

double nmxc

nmxr

double nmxr

nmxType

int nmxType

replaceImage

javax.swing.JRadioButton replaceImage

resultImage

ModelImage resultImage

rh

double rh

rl

double rl

suppressionConfidenceText

javax.swing.JTextField suppressionConfidenceText

suppressionRankText

javax.swing.JTextField suppressionRankText

titles

java.lang.String[] titles

userInterface

ViewUserInterface userInterface

windowSizeText

javax.swing.JTextField windowSizeText

Class gov.nih.mipav.view.dialogs.JDialogEnhancedDicomChoice extends JDialogBase implements Serializable

Serialized Fields

enhancedCT

javax.swing.JRadioButton enhancedCT

Radio button to indicate that an enhanced CT file should be written out.

enhancedMR

javax.swing.JRadioButton enhancedMR

Radio button to indicate that an enhanced MR file should be written out.

enhancedOther

javax.swing.JRadioButton enhancedOther

enhancedXA

javax.swing.JRadioButton enhancedXA

Radio button to indicate that an enhanced XA file should be written out.

okayPressed

boolean okayPressed

Whether the window was closed through the user clicking the OK button (and not just killing the dialog).

Class gov.nih.mipav.view.dialogs.JDialogEntropicEdgeDetection extends JDialogScriptableBase implements Serializable

Serialized Fields

entropicAlgo

AlgorithmEntropicEdgeDetection entropicAlgo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogEntropyMinimization extends JDialogScriptableBase implements Serializable

serialVersionUID:

-417774372547972740L

Serialized Fields

displayLoc

int displayLoc

DOCUMENT ME!

emAlgo

AlgorithmEntropyMinimization emAlgo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

m2Button

javax.swing.JRadioButton m2Button

DOCUMENT ME!

m3Button

javax.swing.JRadioButton m3Button

DOCUMENT ME!

ma2Button

javax.swing.JRadioButton ma2Button

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

noiseGroup

javax.swing.ButtonGroup noiseGroup

DOCUMENT ME!

noiseType

int noiseType

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

subsample

boolean subsample

DOCUMENT ME!

subsampleCheckbox

javax.swing.JCheckBox subsampleCheckbox

DOCUMENT ME!

thresholdCheckbox

javax.swing.JCheckBox thresholdCheckbox

DOCUMENT ME!

thresholdLabel

javax.swing.JLabel thresholdLabel

DOCUMENT ME!

thresholdLevel

float thresholdLevel

DOCUMENT ME!

thresholdSelected

boolean thresholdSelected

DOCUMENT ME!

thresholdText

javax.swing.JTextField thresholdText

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogErode extends JDialogScriptableBase implements Serializable

serialVersionUID:

-3069882376396094338L

Serialized Fields

binaryButton

javax.swing.JRadioButton binaryButton

binaryMorphology

boolean binaryMorphology

comboBoxKernelErode

javax.swing.JComboBox comboBoxKernelErode

DOCUMENT ME!

do25D

boolean do25D

DOCUMENT ME!

erodeAlgo25D

AlgorithmMorphology25D erodeAlgo25D

DOCUMENT ME!

erodeAlgo2D

AlgorithmMorphology2D erodeAlgo2D

DOCUMENT ME!

erodeAlgo3D

AlgorithmMorphology3D erodeAlgo3D

DOCUMENT ME!

grayScaleButton

javax.swing.JRadioButton grayScaleButton

gsErodeAlgo25D

AlgorithmGrayScaleMorphology25D gsErodeAlgo25D

gsErodeAlgo2D

AlgorithmGrayScaleMorphology2D gsErodeAlgo2D

gsErodeAlgo3D

AlgorithmGrayScaleMorphology3D gsErodeAlgo3D

image

ModelImage image

DOCUMENT ME!

image25D

javax.swing.JCheckBox image25D

DOCUMENT ME!

iters

int iters

or if the source image is to be replaced.

kernelErode

int kernelErode

DOCUMENT ME!

kernelSizeErode

float kernelSizeErode

DOCUMENT ME!

labelKernelErode

javax.swing.JLabel labelKernelErode

DOCUMENT ME!

labelKernelSizeErode

javax.swing.JLabel labelKernelSizeErode

DOCUMENT ME!

labelNIterErode

javax.swing.JLabel labelNIterErode

DOCUMENT ME!

maskPanelErode

javax.swing.JPanel maskPanelErode

DOCUMENT ME!

morphologyGroup

javax.swing.ButtonGroup morphologyGroup

outputPanel

JPanelAlgorithmOutputOptions outputPanel

resultImage

ModelImage resultImage

DOCUMENT ME!

textKernelSizeErode

javax.swing.JTextField textKernelSizeErode

DOCUMENT ME!

textNIterErode

javax.swing.JTextField textNIterErode

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogEvaluateMaskSegmentation extends JDialogScriptableBase implements Serializable

serialVersionUID:

-1381945839499712050L

Serialized Fields

comboBoxImage

javax.swing.JComboBox comboBoxImage

Combo box with image names for choosing test image.

evalSeg

AlgorithmEvaluateMaskSegmentation evalSeg

Algorithm to run from this dialog.

testImage

ModelImage testImage

DOCUMENT ME!

titles

java.lang.String[] titles

Used to lock and unlock images.

trueImage

ModelImage trueImage

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

Reference to userface.

Class gov.nih.mipav.view.dialogs.JDialogEvaluateSegmentation extends JDialogScriptableBase implements Serializable

serialVersionUID:

-6446476110592386369L

Serialized Fields

comboBoxImage

javax.swing.JComboBox comboBoxImage

Combo box with image names for choosing test image.

evalSeg

AlgorithmEvaluateSegmentation evalSeg

Algorithm to run from this dialog.

imagesFound

int imagesFound

DOCUMENT ME!

testImage

ModelImage testImage

DOCUMENT ME!

titles

java.lang.String[] titles

Used to lock and unlock images.

trueBoundingVOIs

int trueBoundingVOIs

DOCUMENT ME!

trueID

int[] trueID

DOCUMENT ME!

trueImage

ModelImage trueImage

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

Reference to userface.

Class gov.nih.mipav.view.dialogs.JDialogEvolveBoundaryManual extends JDialogBase implements Serializable

serialVersionUID:

-2170631279185094655L

Serialized Fields

boundaryDir

int boundaryDir

DOCUMENT ME!

boundaryDirBox

javax.swing.JComboBox boundaryDirBox

DOCUMENT ME!

groupNum

int groupNum

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

removeOriginal

boolean removeOriginal

DOCUMENT ME!

removeOriginalCheckBox

javax.swing.JCheckBox removeOriginalCheckBox

DOCUMENT ME!

scaleX

float scaleX

DOCUMENT ME!

srcVOI

VOI srcVOI

DOCUMENT ME!

textChangeX

javax.swing.JTextField textChangeX

voiColor

java.awt.Color voiColor

DOCUMENT ME!

VOIs

ViewVOIVector VOIs

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogExtractBrain extends JDialogScriptableBase implements Serializable

serialVersionUID:

7723410343739118755L

Serialized Fields

aboveMedian

float aboveMedian

The factor above which second stage edge erosion occurs.

centerOfMass

WildMagic.LibFoundation.Mathematics.Vector3f centerOfMass

The volume's center of mass computed from computeCenter(ModelImage, int, boolean)

depth

int depth

The maximum depth within the brain's surface to sample image intensities, by default set to 5.

depthTF

javax.swing.JTextField depthTF

Field for entering the maximum depth. The dialog box suggests a value between 3 - 19 and requires a value from 3 - 33.

erosionLabel

javax.swing.JLabel erosionLabel

Label for the percentage entered for second stage edge erosion.

erosionTF

javax.swing.JTextField erosionTF

Defines the allowable percentage for edge intensity values ub second stage edge erosion, default is 50 percent.

extractBrainAlgo

AlgorithmBrainExtractor extractBrainAlgo

Algorithm used for brain extraction.

extractToPaint

boolean extractToPaint

When true, mask of extracted brain is painted over the source image.

extractToPaintCheckBox

javax.swing.JCheckBox extractToPaintCheckBox

When checked, mask of extracted brain is painted over the source image.

image

ModelImage image

Source image for extracting brain, default image is null.

imageRatio

float imageRatio

Image influence ratio for controlling the sampling depth used to calculate intensity extrema, by default set to .1.

imageRatioTF

javax.swing.JTextField imageRatioTF

Field for entering the image influence ratio. The dialog box requires that a value from .01 - .51 be entered.

initCenterPoint

WildMagic.LibFoundation.Mathematics.Vector3f initCenterPoint

Either the volume's center of mass or a user indicated point depending on the value of useCenterOfMass.

initCenterX

float initCenterX

Used to denote the brain's center of mass y-coordinate. By default set to zero.

initCenterXLabel

javax.swing.JLabel initCenterXLabel

Label for the x-coordinate of the user-defined center.

initCenterXTF

javax.swing.JTextField initCenterXTF

An optional field for denoting a desired initial x-corrdinate for the mesh. Editable if and only if useCenterOfMass is set to false

initCenterY

float initCenterY

Used to denote the brain's center of mass y-coordinate. By default set to zero.

initCenterYLabel

javax.swing.JLabel initCenterYLabel

Label for the y-coordinate of the user-defined center.

initCenterYTF

javax.swing.JTextField initCenterYTF

An optional field for denoting a desired initial y-corrdinate for the mesh. Editable if and only if useCenterOfMass is set to false

initCenterZ

float initCenterZ

Used to denote the brain's center of mass y-coordinate. By default set to zero.

initCenterZLabel

javax.swing.JLabel initCenterZLabel

Label for the z-coordinate of the user-defined center.

initCenterZTF

javax.swing.JTextField initCenterZTF

An optional field for denoting a desired initial z-corrdinate for the mesh. Editable if and only if useCenterOfMass is set to false

justEllipse

boolean justEllipse

When true, image mask is set to the initial ellipsoid approximation of the brain calculated from the volume's center of mass.

justInitEllipsoidCheckbox

javax.swing.JCheckBox justInitEllipsoidCheckbox

When checked, justEllipse is set to true.

nIterations

int nIterations

Number of surface evolutions to perform, by default set to 500.

nIterationsTF

javax.swing.JTextField nIterationsTF

Field for inputting the number of surface evolutions to perform. This requests, but does not require, a value from 100 - 2000

orientation

int orientation

Orientation value corresponding to not the value of AlgorithmBrainExtractor.SAT_COR

orientCheckbox

javax.swing.JCheckBox orientCheckbox

When checked, denotes that the images orientation does not correspond to AlgorithmBrainExtractor.SAT_COR

secondStageCheckBox

javax.swing.JCheckBox secondStageCheckBox

Initially unchecked, determined whether this algorithm performs secondStageErosion

secondStageErosion

boolean secondStageErosion

When true, sets edge values which are greater than the median intensity by a user-defined factor of aboveMedian to zero.

stiffness

float stiffness

Allows for variable motion of the mesh in the surface normal direction, default value of .15

stiffnessTF

javax.swing.JTextField stiffnessTF

Field for specifing stiffness of the mesh. The dialog box suggests, but does not require that a value between .01 and .5 entered.

titles

java.lang.String[] titles

DOCUMENT ME!

useCenterOfMass

boolean useCenterOfMass

By default true, parameter indicates that the center position of the brain should be calculated using JDialogExtractBrain.computeCenter(ModelImage, int, boolean)

useCenterOfMassCheckBox

javax.swing.JCheckBox useCenterOfMassCheckBox

By default checked, yields a true value for useCenterOfMass

userInterface

ViewUserInterface userInterface

The user interface for this dialog box.

useSphere

boolean useSphere

When true estimates that boundary of the VOI by a sphere.

useSphereCheckbox

javax.swing.JCheckBox useSphereCheckbox

Initially not checked, estimates the boundary by a sphere rather than an ellipse.

Class gov.nih.mipav.view.dialogs.JDialogExtractObject extends JDialogBase implements Serializable

serialVersionUID:

-4587834627195392398L

Serialized Fields

chooserButton

javax.swing.JButton chooserButton

DOCUMENT ME!

chooserButton2

javax.swing.JButton chooserButton2

DOCUMENT ME!

extractObjectAlgo

AlgorithmObjectExtractor extractObjectAlgo

DOCUMENT ME!

groupNum

int groupNum

DOCUMENT ME!

gvfImage

ModelImage[] gvfImage

DOCUMENT ME!

gvfModel

javax.swing.DefaultListModel gvfModel

DOCUMENT ME!

gvfName

java.lang.String gvfName

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

justInit

boolean justInit

DOCUMENT ME!

justInitCheckbox

javax.swing.JCheckBox justInitCheckbox

DOCUMENT ME!

model

javax.swing.DefaultListModel model

DOCUMENT ME!

removeButton

javax.swing.JButton removeButton

DOCUMENT ME!

removeButton2

javax.swing.JButton removeButton2

DOCUMENT ME!

saveGVF

boolean saveGVF

DOCUMENT ME!

saveGVFCheckBox

javax.swing.JCheckBox saveGVFCheckBox

DOCUMENT ME!

srcVOI

VOI srcVOI

DOCUMENT ME!

surName

java.lang.String surName

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

triMesh

WildMagic.LibGraphics.SceneGraph.TriMesh triMesh

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogExtractSlices extends JDialogScriptableBase implements Serializable

serialVersionUID:

5258936423490848172L

Serialized Fields

convert4Dto3D

boolean convert4Dto3D

DOCUMENT ME!

extractList

java.util.Vector<java.lang.String> extractList

DOCUMENT ME!

extractSlicesAlgo

AlgorithmExtractSlices extractSlicesAlgo

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

srcImage

ModelImage srcImage

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogExtractSlicesVolumes extends JDialogScriptableBase implements Serializable

serialVersionUID:

-2217089541745539442L

Serialized Fields

checkboxList

javax.swing.JCheckBox[] checkboxList

DOCUMENT ME!

checkboxPanel

javax.swing.JPanel checkboxPanel

DOCUMENT ME!

checkButton

javax.swing.JButton checkButton

DOCUMENT ME!

checkEvenButton

javax.swing.JButton checkEvenButton

DOCUMENT ME!

checkListExtract

boolean[] checkListExtract

DOCUMENT ME!

checkOddButton

javax.swing.JButton checkOddButton

DOCUMENT ME!

exampleLabel

javax.swing.JLabel exampleLabel

DOCUMENT ME!

exampleLabel2

javax.swing.JLabel exampleLabel2

DOCUMENT ME!

extractedImages

ModelImage[] extractedImages

DOCUMENT ME!

extractSlicesAlgo

AlgorithmExtractSlicesVolumes extractSlicesAlgo

DOCUMENT ME!

nSlices

int nSlices

DOCUMENT ME!

numChecked

int numChecked

DOCUMENT ME!

rangeField

javax.swing.JTextField rangeField

DOCUMENT ME!

scrollPane

javax.swing.JScrollPane scrollPane

DOCUMENT ME!

srcImage

ModelImage srcImage

DOCUMENT ME!

unCheckButton

javax.swing.JButton unCheckButton

DOCUMENT ME!

useRange

javax.swing.JCheckBox useRange

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogExtractSurfaceCubes extends JDialogScriptableBase implements Serializable

serialVersionUID:

7919553320035488503L

Serialized Fields

blurCheck

javax.swing.JCheckBox blurCheck

DOCUMENT ME!

blurFlag

boolean blurFlag

DOCUMENT ME!

blurTF

javax.swing.JTextField blurTF

DOCUMENT ME!

blurValue

float blurValue

DOCUMENT ME!

decimateFlag

boolean decimateFlag

DOCUMENT ME!

decimateSurfaceCB

javax.swing.JCheckBox decimateSurfaceCB

DOCUMENT ME!

disposeImage

boolean disposeImage

Flag indicates if this object should dispose the input image.

extractSurAlgo

AlgorithmExtractSurfaceCubes extractSurAlgo

DOCUMENT ME!

fileButton

javax.swing.JButton fileButton

DOCUMENT ME!

fileName

java.lang.String fileName

DOCUMENT ME!

fileTF

javax.swing.JTextField fileTF

DOCUMENT ME!

fileTypeList

javax.swing.JComboBox fileTypeList

surface file format list.

fileTypes

java.lang.String[] fileTypes

surface file formats.

image

ModelImage image

DOCUMENT ME!

intensityLevelRB

javax.swing.JRadioButton intensityLevelRB

DOCUMENT ME!

intensityTF

javax.swing.JTextField intensityTF

DOCUMENT ME!

level

int level

DOCUMENT ME!

maskImageRB

javax.swing.JRadioButton maskImageRB

DOCUMENT ME!

mode

int mode

DOCUMENT ME!

useOCL

boolean useOCL

DOCUMENT ME!

useOCLCheckbox

javax.swing.JCheckBox useOCLCheckbox

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

VOIRegionsRB

javax.swing.JRadioButton VOIRegionsRB

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogFaceAnonymize extends JDialogScriptableBase implements Serializable

serialVersionUID:

4849596386051779471L

Serialized Fields

atlasImage

ModelImage atlasImage

blur

boolean blur

blurAllRadio

javax.swing.JRadioButton blurAllRadio

Button for blurring the face / skull.

blurFaceRadio

javax.swing.JRadioButton blurFaceRadio

Button for blurring just the face.

defaceAlgo

AlgorithmSkullRemoval defaceAlgo

The algorithm corresponding to this dialog box.

extraBrainPaddingField

javax.swing.JTextField extraBrainPaddingField

Text field corresponding to brain padding parameter.

extraMMsToPad

int extraMMsToPad

FaceAnonymizer parameter. Guarantees that the extracted brain will be avoided by the specified number of millimeters. Initially set to 20.

face

boolean face

faceOrientation

int faceOrientation

Indicates face orientation of the image.

facingDownRadio

javax.swing.JRadioButton facingDownRadio

Button for facing down image.

facingIntoRadio

javax.swing.JRadioButton facingIntoRadio

Button for facing into the screen image.

facingLeftRadio

javax.swing.JRadioButton facingLeftRadio

Button for facing left image.

facingOutRadio

javax.swing.JRadioButton facingOutRadio

Button for facing out image.

facingRightRadio

javax.swing.JRadioButton facingRightRadio

Button for facing right image.

facingUpRadio

javax.swing.JRadioButton facingUpRadio

Button for facing up image.

imageTextField

javax.swing.JTextField imageTextField

remove

boolean remove

removeAllRadio

javax.swing.JRadioButton removeAllRadio

Button for removing the face / skull.

removeFaceRadio

javax.swing.JRadioButton removeFaceRadio

Button for removing just the face.

showAllSegmentationRadio

javax.swing.JRadioButton showAllSegmentationRadio

Button for displaying the full segmentation.

showFaceSegmentation

boolean showFaceSegmentation

showFaceSegmentationRadio

javax.swing.JRadioButton showFaceSegmentationRadio

Button for displaying the face segmentation.

showSkullSegmentation

boolean showSkullSegmentation

srcImage

ModelImage srcImage

The image that face anonymization will be performed on.

Class gov.nih.mipav.view.dialogs.JDialogFaceAnonymizerBET extends JDialogScriptableBase implements Serializable

serialVersionUID:

-1027127665518969757L

Serialized Fields

defaceAlgo

AlgorithmFaceAnonymizerBET defaceAlgo

The algorithm corresponding to this dialog box.

estimateWithSphereBET

boolean estimateWithSphereBET

Flag indicates BET should approximate initial brain by sphere. Initially set to false.

estimateWithSphereCheckbox

javax.swing.JCheckBox estimateWithSphereCheckbox

Check box corresponding to estimateSphereBET.

extraBrainPaddingField

javax.swing.JTextField extraBrainPaddingField

Text field corresponding to brain padding parameter.

extraMMsToPad

int extraMMsToPad

FaceAnonymizer parameter. Guarantees that the extracted brain will be avoided by the specified number of millimeters. Initially set to 20.

faceOrientation

int faceOrientation

Indicates face orientation of the image.

facingDownRadio

javax.swing.JRadioButton facingDownRadio

Button for facing down image.

facingIntoRadio

javax.swing.JRadioButton facingIntoRadio

Button for facing into the screen image.

facingLeftRadio

javax.swing.JRadioButton facingLeftRadio

Button for facing left image.

facingOutRadio

javax.swing.JRadioButton facingOutRadio

Button for facing out image.

facingRightRadio

javax.swing.JRadioButton facingRightRadio

Button for facing right image.

facingUpRadio

javax.swing.JRadioButton facingUpRadio

Button for facing up image.

imageInfluenceBET

float imageInfluenceBET

the depth to calculate in approximating brain maximum and minimum intensities. Initially set to .1

imageInfluenceField

javax.swing.JTextField imageInfluenceField

The text field corresponding to imageInfluenceField.

srcImage

ModelImage srcImage

The image that face anonymization will be performed on.

stiffnessBET

float stiffnessBET

Controls the stiffness of the brain approximation mesh. Initially set to 0.15.

stiffnessField

javax.swing.JTextField stiffnessField

The text field corresponding to stiffnessBET.

Class gov.nih.mipav.view.dialogs.JDialogFacetModel extends JDialogScriptableBase implements Serializable

Serialized Fields

algoGroup

javax.swing.ButtonGroup algoGroup

DOCUMENT ME!

algoPanel

javax.swing.JPanel algoPanel

DOCUMENT ME!

alpha

double alpha

blockSide

int blockSide

cornerDetector

javax.swing.JRadioButton cornerDetector

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

facetAlgo

AlgorithmFacetModel facetAlgo

DOCUMENT ME!

gradientDirectionThreshold

double gradientDirectionThreshold

gradientEdge

javax.swing.JRadioButton gradientEdge

image

ModelImage image

DOCUMENT ME!

integratedAngle

javax.swing.JRadioButton integratedAngle

DOCUMENT ME!

integratedMagnitude

javax.swing.JRadioButton integratedMagnitude

iteratedModel

javax.swing.JRadioButton iteratedModel

DOCUMENT ME!

labelAlpha

javax.swing.JLabel labelAlpha

labelThreshold

javax.swing.JLabel labelThreshold

mainPanel

javax.swing.JPanel mainPanel

DOCUMENT ME!

mask11

javax.swing.JRadioButton mask11

mask13

javax.swing.JRadioButton mask13

mask3

javax.swing.JRadioButton mask3

mask5

javax.swing.JRadioButton mask5

mask7

javax.swing.JRadioButton mask7

mask9

javax.swing.JRadioButton mask9

maskGroup

javax.swing.ButtonGroup maskGroup

DOCUMENT ME!

maskPanel

javax.swing.JPanel maskPanel

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

noiseRemoval

javax.swing.JRadioButton noiseRemoval

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

routine

int routine

textAlpha

javax.swing.JTextField textAlpha

textThreshold

javax.swing.JTextField textThreshold

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

zeroDetector

javax.swing.JRadioButton zeroDetector

Class gov.nih.mipav.view.dialogs.JDialogFastMarching extends JDialogScriptableBase implements Serializable

serialVersionUID:

-2307387171411648198L

Serialized Fields

image

ModelImage image

Source Image

image25DCheckbox

javax.swing.JCheckBox image25DCheckbox

Process each slice independently, or as a 3D image.

m_bImage25D

boolean m_bImage25D

m_fAdvectionWeight

float m_fAdvectionWeight

m_fCurvatureWeight

float m_fCurvatureWeight

m_fGMScale

float m_fGMScale

m_fLaplacianWeight

float m_fLaplacianWeight

m_fMaxDistance

float m_fMaxDistance

m_fPropagationWeight

float m_fPropagationWeight

m_fSAlpha

float m_fSAlpha

m_fSBeta

float m_fSBeta

m_fSMax

float m_fSMax

m_fSMin

float m_fSMin

m_iCoarseMax

int m_iCoarseMax

m_iEvolveMax

int m_iEvolveMax

m_iFilterType

int m_iFilterType

m_iIters

int m_iIters

textAdvectionWeight

javax.swing.JTextField textAdvectionWeight

Advection weight parameter

textCoarseMax

javax.swing.JTextField textCoarseMax

Max coarse iterations.

textCurvatureWeight

javax.swing.JTextField textCurvatureWeight

Curvature weight parameter

textGMScale

javax.swing.JTextField textGMScale

Gradient Magnitude Scale factor

textIters

javax.swing.JTextField textIters

Number of Iterations

textLaplacianWeight

javax.swing.JTextField textLaplacianWeight

Laplacian weight parameter

textMaxDistance

javax.swing.JTextField textMaxDistance

Max Distance parameter

textMaxEvolution

javax.swing.JTextField textMaxEvolution

Maximum Evolution steps

textPropagationWeight

javax.swing.JTextField textPropagationWeight

Propagation weight parameter

textSigmoiBeta

javax.swing.JTextField textSigmoiBeta

Sigmoid Beta parameter

textSigmoidAlpha

javax.swing.JTextField textSigmoidAlpha

Sigmoid Alpha parameter

textSigmoidMax

javax.swing.JTextField textSigmoidMax

Sigmoid Max parameter

textSigmoidMin

javax.swing.JTextField textSigmoidMin

Sigmoid Min parameter

Class gov.nih.mipav.view.dialogs.JDialogFFT extends JDialogScriptableBase implements Serializable

serialVersionUID:

-7969114857894881595L

Serialized Fields

bandPass

javax.swing.JRadioButton bandPass

DOCUMENT ME!

bandStop

javax.swing.JRadioButton bandStop

DOCUMENT ME!

butterworthFilter

javax.swing.JRadioButton butterworthFilter

DOCUMENT ME!

buttonPanel

javax.swing.JPanel buttonPanel

DOCUMENT ME!

chebyshevIFilter

javax.swing.JRadioButton chebyshevIFilter

chebyshevIIFilter

javax.swing.JRadioButton chebyshevIIFilter

complexInverse

boolean complexInverse

Whether a complex inverse FFT should be computed

complexInverseCheckbox

javax.swing.JCheckBox complexInverseCheckbox

Whether the inverse FFT should return a complex image (appropriate when only when source image is complex)

constructionGroup

javax.swing.ButtonGroup constructionGroup

DOCUMENT ME!

constructionMethod

int constructionMethod

DOCUMENT ME!

constructionPanel

javax.swing.JPanel constructionPanel

DOCUMENT ME!

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

directionGroup

javax.swing.ButtonGroup directionGroup

DOCUMENT ME!

directionPanel

javax.swing.JPanel directionPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

ellipticFilter

javax.swing.JRadioButton ellipticFilter

epsilon

double epsilon

FFTAlgo

AlgorithmFFT FFTAlgo

Float precision default, openCL enabled FFT algorithm

FFTAlgo2

AlgorithmFFT2 FFTAlgo2

Double precision, openCL enabled FFT algroithm

filterOrder

int filterOrder

DOCUMENT ME!

filterPanel

javax.swing.JPanel filterPanel

DOCUMENT ME!

filterType

int filterType

DOCUMENT ME!

filterTypeGroup

javax.swing.ButtonGroup filterTypeGroup

DOCUMENT ME!

fltFmt

java.text.DecimalFormat fltFmt

forwardFFT

javax.swing.JRadioButton forwardFFT

User selects to indicate forward FFT processing should occur, resulting in frequency image

freq1

double freq1

DOCUMENT ME!

freq2

double freq2

DOCUMENT ME!

frequencyFilter

javax.swing.JRadioButton frequencyFilter

DOCUMENT ME!

FrequencyFilterAlgo

AlgorithmFrequencyFilter FrequencyFilterAlgo

gaussianFilter

javax.swing.JRadioButton gaussianFilter

DOCUMENT ME!

highPass

javax.swing.JRadioButton highPass

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

image25D

boolean image25D

Whether algorithm should run seperately on each slice of a 3D image

image25DCheckbox

javax.swing.JCheckBox image25DCheckbox

User can indicate whether the FFT of each slice of a 3D image is computed seperately

imageCrop

boolean imageCrop

DOCUMENT ME!

imageCropCheckbox

javax.swing.JCheckBox imageCropCheckbox

DOCUMENT ME!

inverseFFT

javax.swing.JRadioButton inverseFFT

DOCUMENT ME!

kernelDiameter

int kernelDiameter

DOCUMENT ME!

labelEpsilon

javax.swing.JLabel labelEpsilon

labelF1

javax.swing.JLabel labelF1

DOCUMENT ME!

labelF2

javax.swing.JLabel labelF2

DOCUMENT ME!

labelKernelDiameter

javax.swing.JLabel labelKernelDiameter

DOCUMENT ME!

labelOrder

javax.swing.JLabel labelOrder

DOCUMENT ME!

labelRs

javax.swing.JLabel labelRs

logDisplayCheckbox

javax.swing.JCheckBox logDisplayCheckbox

private JPanel optionsPanel;.

logMagDisplay

boolean logMagDisplay

DOCUMENT ME!

lowPass

javax.swing.JRadioButton lowPass

DOCUMENT ME!

mainPanel

javax.swing.JPanel mainPanel

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

onlyFrequencyFilter

boolean onlyFrequencyFilter

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

rs

double rs

testDouble

boolean testDouble

True when double precision testing should be performed, default is float.

textEpsilon

javax.swing.JTextField textEpsilon

textF1

javax.swing.JTextField textF1

DOCUMENT ME!

textF2

javax.swing.JTextField textF2

DOCUMENT ME!

textKernelDiameter

javax.swing.JTextField textKernelDiameter

DOCUMENT ME!

textOrder

javax.swing.JTextField textOrder

DOCUMENT ME!

textRs

javax.swing.JTextField textRs

titles

java.lang.String[] titles

DOCUMENT ME!

transformDir

int transformDir

DOCUMENT ME!

unequalDim

boolean unequalDim

Whether FFT algorithm can return non-equal x,y dimensions

unequalDimCheckbox

javax.swing.JCheckBox unequalDimCheckbox

Indicates whether user wants FFT to return non-equal x,y dimensions

useOCL

boolean useOCL

Flag indicating whether to use OpenCL processing.

useOCLCheckbox

javax.swing.JCheckBox useOCLCheckbox

Indicates whether user wants openCL for processing.

windowFilter

javax.swing.JRadioButton windowFilter

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogFileInfo extends JDialogBase implements Serializable

serialVersionUID:

1629395651992086059L

Serialized Fields

edit

javax.swing.JButton edit

DOCUMENT ME!

editorDialogTable

java.util.Hashtable editorDialogTable

DOCUMENT ME!

fileinfo

FileInfoBase fileinfo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

primaryEditorHolder

java.util.Hashtable<java.lang.Integer,JDialogEditor> primaryEditorHolder

primaryModel

ViewTableModel primaryModel

DOCUMENT ME!

primaryTable

javax.swing.JTable primaryTable

DOCUMENT ME!

primaryTypeHolder

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Integer>> primaryTypeHolder

tpe holds the type of editor to be used; editor holds the editor dialog.

scrollPane

javax.swing.JScrollPane scrollPane

DOCUMENT ME!

secondaryEditorHolder

java.util.Hashtable<java.lang.Integer,JDialogEditor> secondaryEditorHolder

secondaryModel

ViewTableModel secondaryModel

DOCUMENT ME!

secondaryTable

javax.swing.JTable secondaryTable

DOCUMENT ME!

secondaryTypeHolder

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Integer>> secondaryTypeHolder

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogFileInfoDICOM extends JDialogScriptableBase implements Serializable

serialVersionUID:

7337962386655472087L

Serialized Fields

anchorPane

javax.swing.JScrollPane anchorPane

DOCUMENT ME!

anonymizeButton

javax.swing.JButton anonymizeButton

buttons for toolbar *

bogusShowPrivateButton

javax.swing.JToggleButton bogusShowPrivateButton

breakDownArea

javax.swing.JTextArea breakDownArea

checkAllButton

javax.swing.JButton checkAllButton

buttons for toolbar *

columnNames

java.util.ArrayList<java.lang.String> columnNames

deleteTagButton

javax.swing.JButton deleteTagButton

buttons for toolbar *

DicomInfo

FileInfoDicom DicomInfo

DOCUMENT ME!

directory

java.lang.String directory

directory of where dicom tags are save to *

editorDeleteTag

JDialogDICOMDeleteTagEditor editorDeleteTag

editorDialogDicom

JDialogDICOMTagEditor editorDialogDicom

DOCUMENT ME!

editorDialogDicomList

java.util.Vector<JDialogDICOMTagEditor> editorDialogDicomList

DOCUMENT ME!

editorNewTag

JDialogDICOMNewTagEditor editorNewTag

editTagButton

javax.swing.JButton editTagButton

buttons for toolbar *

fileName

java.lang.String fileName

fileName of where dicom tags are save to *

groupColorMap

java.util.TreeMap<java.lang.String,java.awt.Color> groupColorMap

Maps the group word to a displayed color, private tags are not specified. *

imageA

ModelImage imageA

DOCUMENT ME!

isAppend

boolean isAppend

DOCUMENT ME!

launchFileChooser

boolean launchFileChooser

listSelectorDicom

javax.swing.ListSelectionModel listSelectorDicom

DOCUMENT ME!

newTagButton

javax.swing.JButton newTagButton

Button for inserting new tags

overlayButton

javax.swing.JButton overlayButton

buttons for toolbar *

saveCheckedAppendButton

javax.swing.JButton saveCheckedAppendButton

buttons for toolbar *

saveCheckedButton

javax.swing.JButton saveCheckedButton

buttons for toolbar *

selectedRowDicom

int selectedRowDicom

DOCUMENT ME!

showPrivate

boolean showPrivate

DOCUMENT ME!

showPrivateButton

javax.swing.JToggleButton showPrivateButton

sliceIndex

int sliceIndex

slice index for which fileInfo is saved *

splitPane

javax.swing.JSplitPane splitPane

tablePane

javax.swing.JScrollPane tablePane

DOCUMENT ME!

tagsModel

ViewTableModel tagsModel

DOCUMENT ME!

tagsTable

javax.swing.JTable tagsTable

DOCUMENT ME!

toolBar

javax.swing.JToolBar toolBar

tool bar *

toolbarBuilder

ViewToolBarBuilder toolbarBuilder

DOCUMENT ME !

toolbarPanel

javax.swing.JPanel toolbarPanel

DOCUMENT ME!

uncheckAllButton

javax.swing.JButton uncheckAllButton

buttons for toolbar *

Class gov.nih.mipav.view.dialogs.JDialogFileInfoMinc extends JDialogText implements Serializable

serialVersionUID:

-966963254580510543L

Class gov.nih.mipav.view.dialogs.JDialogFileInfoMincHDF extends JDialogBase implements Serializable

Serialized Fields

imageA

ModelImage imageA

DOCUMENT ME!

mincInfo

FileInfoMincHDF mincInfo

DOCUMENT ME!

scrollPaneDicom

javax.swing.JScrollPane scrollPaneDicom

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogFileInfoXML extends JDialogBase implements Serializable

serialVersionUID:

-8790820691884630599L

Serialized Fields

addParam

javax.swing.JMenuItem addParam

menu item for adding parameter.

addSet

javax.swing.JButton addSet

button for adding sets.

addSurface

javax.swing.JButton addSurface

button for adding surfaces.

edit

javax.swing.JButton edit

edit button.

editorDialogTable

java.util.Hashtable<?,JDialogEditor> editorDialogTable

hashtable to store editor dialogs associated with the table.

expandTags

javax.swing.JButton expandTags

expand dicom tags button.

fileinfo

FileInfoImageXML fileinfo

file info xml to be displayed.

image

ModelImage image

model image associated with the FileInfo.

investigatorEditorHolder

java.util.Hashtable<java.lang.Integer,JDialogEditor> investigatorEditorHolder

investigatorModel

ViewTableModel investigatorModel

model associated with investigator information.

investigatorTable

javax.swing.JTable investigatorTable

investigator information table.

investigatorTypeHolder

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Integer>> investigatorTypeHolder

isExpanded

boolean isExpanded

are the dicom tags expanded *

masterScrollPane

javax.swing.JScrollPane masterScrollPane

master scroll pane in which to display all information.

numSets

int numSets

counter for number of sets within file info.

parameterColumnNames

java.lang.String[] parameterColumnNames

array of strings for parameter column names.

primaryEditorHolder

java.util.Hashtable<java.lang.Integer,JDialogEditor> primaryEditorHolder

primaryModel

ViewTableModel primaryModel

model associated with primary image information.

primaryTable

javax.swing.JTable primaryTable

primary image information table.

primaryTypeHolder

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Integer>> primaryTypeHolder

Type holds the type of editor, editor holds the actual editor dialog.

removeParam

javax.swing.JButton removeParam

button for removing parameters.

removeSurface

javax.swing.JButton removeSurface

button for removing surfaces.

scanEditorHolder

java.util.Hashtable<java.lang.Integer,JDialogEditor> scanEditorHolder

scanModel

ViewTableModel scanModel

model associated with scan information.

scanTable

javax.swing.JTable scanTable

scan infomation table.

scanTypeHolder

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Integer>> scanTypeHolder

scrollingBox

javax.swing.Box scrollingBox

Box to hold table information.

setDescforAddParam

java.lang.String setDescforAddParam

string holding set description when adding a parameter.

setHashtable

java.util.Hashtable<java.lang.String,JDialogFileInfoXML.PSetDisplay> setHashtable

hash table holding set information.

sorter

TableSorter sorter

subjectEditorHolder

java.util.Hashtable<java.lang.Integer,JDialogEditor> subjectEditorHolder

subjectModel

ViewTableModel subjectModel

model associated with subject information.

subjectTable

javax.swing.JTable subjectTable

subject information table.

subjectTypeHolder

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Integer>> subjectTypeHolder

surfaceColumnNames

java.lang.String[] surfaceColumnNames

array of strings for surface column names.

surfaces

JDialogFileInfoXML.SurfaceDisplay surfaces

for displaying surfaces.

tagLabel

javax.swing.JLabel tagLabel

tagModel

ViewTableModel tagModel

model associated with tag information.

tagTable

javax.swing.JTable tagTable

tagTypeHolder

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.Integer>> tagTypeHolder

Class gov.nih.mipav.view.dialogs.JDialogFillObjects extends JDialogScriptableBase implements Serializable

serialVersionUID:

3464349858386521845L

Serialized Fields

destinationGroup

javax.swing.ButtonGroup destinationGroup

use later.

destinationPanel

javax.swing.JPanel destinationPanel

panel that hold the new image radio button.

displayLoc

int displayLoc

Flag indicating if a new image is to be generated.

do25D

boolean do25D

DOCUMENT ME!

idObjectsAlgo25D

AlgorithmMorphology25D idObjectsAlgo25D

Morphology25D algorithm reference.

idObjectsAlgo2D

AlgorithmMorphology2D idObjectsAlgo2D

Morphology2D algorithm reference.

idObjectsAlgo3D

AlgorithmMorphology3D idObjectsAlgo3D

Morphology3D algorithm reference.

image

ModelImage image

source image.

image25D

javax.swing.JCheckBox image25D

DOCUMENT ME!

imageVOIGroup

javax.swing.ButtonGroup imageVOIGroup

DOCUMENT ME!

imageVOIPanel

javax.swing.JPanel imageVOIPanel

used later.

newImage

javax.swing.JRadioButton newImage

new image radio button.

regionFlag

boolean regionFlag

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

use later.

titles

java.lang.String[] titles

DOCUMENT ME!

ubyteImage

ModelImage ubyteImage

Usigned byte image, the actual image to do the morphology calculation.

userInterface

ViewUserInterface userInterface

user interface renference.

VOIRegions

javax.swing.JRadioButton VOIRegions

DOCUMENT ME!

wholeImage

javax.swing.JRadioButton wholeImage

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogFilterChoice extends JDialogBase implements Serializable

serialVersionUID:

3198970819287117617L

Serialized Fields

allFiles

javax.swing.JCheckBox allFiles

checkImages

javax.swing.JCheckBox[] checkImages

DOCUMENT ME!

fileTypeDescriptions

java.lang.String[] fileTypeDescriptions

fileTypeExtensions

java.lang.String[] fileTypeExtensions

fileTypeInts

int[] fileTypeInts

imageFilter

ViewImageFileFilter imageFilter

DOCUMENT ME!

noExt

javax.swing.JCheckBox noExt

Class gov.nih.mipav.view.dialogs.JDialogFindEdges extends JDialogScriptableBase implements Serializable

serialVersionUID:

8141787725573550699L

Serialized Fields

edgingType

int edgingType

DOCUMENT ME!

edgingTypeGroup

javax.swing.ButtonGroup edgingTypeGroup

DOCUMENT ME!

edgingTypePanel

javax.swing.JPanel edgingTypePanel

DOCUMENT ME!

findEdgesAlgo2D

AlgorithmMorphology2D findEdgesAlgo2D

DOCUMENT ME!

findEdgesAlgo3D

AlgorithmMorphology3D findEdgesAlgo3D

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

innerEdging

javax.swing.JRadioButton innerEdging

DOCUMENT ME!

outerEdging

javax.swing.JRadioButton outerEdging

DOCUMENT ME!

outputPanel

JPanelAlgorithmOutputOptions outputPanel

Contains radio buttons used to indicate whether the whole image/just VOI regions should be processed, and whether a new image should be produced.

resultImage

ModelImage resultImage

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogFIREEdgeExtraction extends JDialogScriptableBase implements Serializable

Serialized Fields

blackEnd

double blackEnd

displayLoc

int displayLoc

DOCUMENT ME!

feeAlgo

AlgorithmFIREEdgeExtraction feeAlgo

DOCUMENT ME!

gaussianStdDev

double gaussianStdDev

image

ModelImage image

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textBlackEnd

javax.swing.JTextField textBlackEnd

textGaussianStdDev

javax.swing.JTextField textGaussianStdDev

textWhiteStart

javax.swing.JTextField textWhiteStart

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

whiteStart

double whiteStart

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogFlip extends JDialogScriptableBase implements Serializable

serialVersionUID:

-5672670158596197276L

Serialized Fields

changeOrientationOrigin

boolean changeOrientationOrigin

flipAlgo

AlgorithmFlip flipAlgo

Algorithm used by the dialog.

flipAxis

int flipAxis

Axis to flip around.

flipAxisXRadioButton

javax.swing.JRadioButton flipAxisXRadioButton

Image is flipped vertically when selected

flipAxisYRadioButton

javax.swing.JRadioButton flipAxisYRadioButton

Image is flipped horizontally when selected

flipAxisZRadioButton

javax.swing.JRadioButton flipAxisZRadioButton

Image is flipped by depth when selected

flipObject

int flipObject

The object to be flipped

flipVoiCheckbox

javax.swing.JCheckBox flipVoiCheckbox

When checked, VOIs are flipped when image is flipped.

image

ModelImage image

Source image.

loadAxisDefaults

boolean loadAxisDefaults

optionsPanel

javax.swing.JPanel optionsPanel

orientationOriginCheckBox

javax.swing.JCheckBox orientationOriginCheckBox

When checked, change orientation and origin upon flipping. When unchecked, orienation and origin remain the same.

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogFrameLinker extends JDialogBase implements Serializable

serialVersionUID:

8115834657630127291L

Serialized Fields

comboBoxImage

javax.swing.JComboBox comboBoxImage

DOCUMENT ME!

frameB

ViewJFrameImage frameB

DOCUMENT ME!

imageA

ModelImage imageA

DOCUMENT ME!

imageB

ModelImage imageB

DOCUMENT ME!

linkButton

javax.swing.JButton linkButton

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogFRAP extends JDialogBase implements Serializable

serialVersionUID:

6390017817188485094L

Serialized Fields

analysisGroup

javax.swing.ButtonGroup analysisGroup

DOCUMENT ME!

backgroundButton

javax.swing.JRadioButton backgroundButton

DOCUMENT ME!

backgroundIndex

int backgroundIndex

DOCUMENT ME!

bandButton

javax.swing.JRadioButton bandButton

DOCUMENT ME!

bleachedROIShape

int bleachedROIShape

DOCUMENT ME!

blueButton

javax.swing.JRadioButton blueButton

DOCUMENT ME!

circleButton

javax.swing.JRadioButton circleButton

DOCUMENT ME!

colorGroup

javax.swing.ButtonGroup colorGroup

DOCUMENT ME!

colorsPresent

int colorsPresent

DOCUMENT ME!

comboBoxCostFunct

javax.swing.JComboBox comboBoxCostFunct

DOCUMENT ME!

componentImage

ViewJComponentEditImage componentImage

DOCUMENT ME!

cost

int cost

DOCUMENT ME!

createRegCheckBox

javax.swing.JCheckBox createRegCheckBox

DOCUMENT ME!

createRegImage

boolean createRegImage

DOCUMENT ME!

diffusion

double diffusion

DOCUMENT ME!

fileInfo

FileInfoLSM fileInfo

DOCUMENT ME!

fileInfoImageXML

FileInfoImageXML fileInfoImageXML

DOCUMENT ME!

findDiffusion

boolean findDiffusion

findDiffusionCheckBox

javax.swing.JCheckBox findDiffusionCheckBox

firstSliceAfterBleach

int firstSliceAfterBleach

DOCUMENT ME!

firstSliceNum

int firstSliceNum

DOCUMENT ME!

firstSliceNumText

javax.swing.JTextField firstSliceNumText

DOCUMENT ME!

frapAlgo

AlgorithmFRAP frapAlgo

DOCUMENT ME!

greenButton

javax.swing.JRadioButton greenButton

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

knotX

double[] knotX

DOCUMENT ME!

labelCost

javax.swing.JLabel labelCost

DOCUMENT ME!

labelDiffusion

javax.swing.JLabel labelDiffusion

DOCUMENT ME!

labelFirstSlice

javax.swing.JLabel labelFirstSlice

DOCUMENT ME!

labelImage

javax.swing.JLabel labelImage

DOCUMENT ME!

labelRef

javax.swing.JLabel labelRef

DOCUMENT ME!

labelShape

javax.swing.JLabel labelShape

DOCUMENT ME!

maxB

double maxB

DOCUMENT ME!

maxG

double maxG

DOCUMENT ME!

maxR

double maxR

DOCUMENT ME!

minB

double minB

DOCUMENT ME!

minG

double minG

DOCUMENT ME!

minR

double minR

DOCUMENT ME!

model

int model

DOCUMENT ME!

nBoundingVOIs

int nBoundingVOIs

DOCUMENT ME!

oneDButton

javax.swing.JRadioButton oneDButton

DOCUMENT ME!

paramVary

boolean paramVary

DOCUMENT ME!

paramVaryCheckBox

javax.swing.JCheckBox paramVaryCheckBox

DOCUMENT ME!

photoBleachedButton

javax.swing.JRadioButton photoBleachedButton

DOCUMENT ME!

photoBleachedIndex

int photoBleachedIndex

DOCUMENT ME!

redButton

javax.swing.JRadioButton redButton

DOCUMENT ME!

regCheckBox

javax.swing.JCheckBox regCheckBox

DOCUMENT ME!

register

boolean register

DOCUMENT ME!

singleExpButton

javax.swing.JRadioButton singleExpButton

DOCUMENT ME!

textDiffusion

javax.swing.JTextField textDiffusion

DOCUMENT ME!

useBlue

boolean useBlue

DOCUMENT ME!

useGreen

boolean useGreen

DOCUMENT ME!

useRed

boolean useRed

DOCUMENT ME!

VOIGroup

javax.swing.ButtonGroup VOIGroup

DOCUMENT ME!

VOIs

ViewVOIVector VOIs

DOCUMENT ME!

wholeOrganButton

javax.swing.JRadioButton wholeOrganButton

DOCUMENT ME!

wholeOrganCheckBox

javax.swing.JCheckBox wholeOrganCheckBox

DOCUMENT ME!

wholeOrganIndex

int wholeOrganIndex

DOCUMENT ME!

wholeOrganNormalize

boolean wholeOrganNormalize

DOCUMENT ME!

xPos

int xPos

DOCUMENT ME!

yPos

int yPos

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogFrequencyFilter extends JDialogScriptableBase implements Serializable

serialVersionUID:

4979580288393418858L

Serialized Fields

bandPass

javax.swing.JRadioButton bandPass

DOCUMENT ME!

bandStop

javax.swing.JRadioButton bandStop

DOCUMENT ME!

butterworthFilter

javax.swing.JRadioButton butterworthFilter

DOCUMENT ME!

chebyshevIFilter

javax.swing.JRadioButton chebyshevIFilter

chebyshevIIFilter

javax.swing.JRadioButton chebyshevIIFilter

constructionGroup

javax.swing.ButtonGroup constructionGroup

DOCUMENT ME!

constructionMethod

int constructionMethod

DOCUMENT ME!

constructionPanel

javax.swing.JPanel constructionPanel

DOCUMENT ME!

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

ellipticFilter

javax.swing.JRadioButton ellipticFilter

epsilon

double epsilon

filterOrder

int filterOrder

DOCUMENT ME!

filterPanel

javax.swing.JPanel filterPanel

DOCUMENT ME!

filterType

int filterType

DOCUMENT ME!

filterTypeGroup

javax.swing.ButtonGroup filterTypeGroup

DOCUMENT ME!

fltFmt

java.text.DecimalFormat fltFmt

freq1

double freq1

DOCUMENT ME!

freq2

double freq2

DOCUMENT ME!

FrequencyFilterAlgo

AlgorithmFrequencyFilter FrequencyFilterAlgo

DOCUMENT ME!

FrequencyFilterColorAlgo

AlgorithmFrequencyFilterColor FrequencyFilterColorAlgo

gaussianFilter

javax.swing.JRadioButton gaussianFilter

DOCUMENT ME!

highPass

javax.swing.JRadioButton highPass

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

image25D

boolean image25D

DOCUMENT ME!

image25DCheckbox

javax.swing.JCheckBox image25DCheckbox

DOCUMENT ME!

imageCrop

boolean imageCrop

DOCUMENT ME!

imageCropCheckbox

javax.swing.JCheckBox imageCropCheckbox

DOCUMENT ME!

kernelDiameter

int kernelDiameter

DOCUMENT ME!

labelEpsilon

javax.swing.JLabel labelEpsilon

labelF1

javax.swing.JLabel labelF1

DOCUMENT ME!

labelF2

javax.swing.JLabel labelF2

DOCUMENT ME!

labelKernelDiameter

javax.swing.JLabel labelKernelDiameter

DOCUMENT ME!

labelOrder

javax.swing.JLabel labelOrder

DOCUMENT ME!

labelRs

javax.swing.JLabel labelRs

lowPass

javax.swing.JRadioButton lowPass

DOCUMENT ME!

mainPanel

javax.swing.JPanel mainPanel

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

onlyFrequencyFilter

boolean onlyFrequencyFilter

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

rs

double rs

textEpsilon

javax.swing.JTextField textEpsilon

textF1

javax.swing.JTextField textF1

DOCUMENT ME!

textF2

javax.swing.JTextField textF2

DOCUMENT ME!

textKernelDiameter

javax.swing.JTextField textKernelDiameter

DOCUMENT ME!

textOrder

javax.swing.JTextField textOrder

DOCUMENT ME!

textRs

javax.swing.JTextField textRs

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

windowFilter

javax.swing.JRadioButton windowFilter

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogFRET extends JDialogBase implements Serializable

serialVersionUID:

1026032715678640392L

Serialized Fields

backgroundButton

javax.swing.JRadioButton backgroundButton

DOCUMENT ME!

backgroundIndex

int backgroundIndex

DOCUMENT ME!

blueButton

javax.swing.JRadioButton blueButton

DOCUMENT ME!

colorGroup

javax.swing.ButtonGroup colorGroup

DOCUMENT ME!

colorsPresent

int colorsPresent

DOCUMENT ME!

comboBoxCostFunct

javax.swing.JComboBox comboBoxCostFunct

DOCUMENT ME!

componentImage

ViewJComponentEditImage componentImage

DOCUMENT ME!

componentPostImage

ViewJComponentEditImage componentPostImage

DOCUMENT ME!

cost

int cost

DOCUMENT ME!

createRegCheckBox

javax.swing.JCheckBox createRegCheckBox

DOCUMENT ME!

createRegImage

boolean createRegImage

DOCUMENT ME!

donorButton

javax.swing.JRadioButton donorButton

DOCUMENT ME!

donorIndex

int donorIndex

DOCUMENT ME!

fretAlgo

AlgorithmFRETAcceptorPhotobleach fretAlgo

DOCUMENT ME!

greenButton

javax.swing.JRadioButton greenButton

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

imageComboBox

javax.swing.JComboBox imageComboBox

DOCUMENT ME!

labelCost

javax.swing.JLabel labelCost

DOCUMENT ME!

maxB

double maxB

DOCUMENT ME!

maxG

double maxG

DOCUMENT ME!

maxR

double maxR

DOCUMENT ME!

minB

double minB

DOCUMENT ME!

minG

double minG

DOCUMENT ME!

minR

double minR

DOCUMENT ME!

nBoundingVOIs

int nBoundingVOIs

DOCUMENT ME!

postImage

ModelImage postImage

DOCUMENT ME!

redButton

javax.swing.JRadioButton redButton

DOCUMENT ME!

regCheckBox

javax.swing.JCheckBox regCheckBox

DOCUMENT ME!

register

boolean register

DOCUMENT ME!

signalButton

javax.swing.JRadioButton signalButton

DOCUMENT ME!

signalIndex

int signalIndex

DOCUMENT ME!

UI

ViewUserInterface UI

DOCUMENT ME!

useBlue

boolean useBlue

DOCUMENT ME!

useGreen

boolean useGreen

DOCUMENT ME!

useRed

boolean useRed

DOCUMENT ME!

VOIGroup

javax.swing.ButtonGroup VOIGroup

DOCUMENT ME!

VOIs

ViewVOIVector VOIs

DOCUMENT ME!

yPos

int yPos

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogFRETBleedThrough extends JDialogScriptableBase implements Serializable

serialVersionUID:

8726771970079234501L

Serialized Fields

acceptorButton

javax.swing.JRadioButton acceptorButton

DOCUMENT ME!

acceptorRun

boolean acceptorRun

DOCUMENT ME!

activeButton

javax.swing.JRadioButton activeButton

DOCUMENT ME!

activeIndex

int activeIndex

DOCUMENT ME!

backgroundButton

javax.swing.JRadioButton backgroundButton

DOCUMENT ME!

backgroundIndex

int backgroundIndex

DOCUMENT ME!

blueButton

javax.swing.JRadioButton blueButton

DOCUMENT ME!

chooserButton

javax.swing.JButton chooserButton

DOCUMENT ME!

chooserButton2

javax.swing.JButton chooserButton2

DOCUMENT ME!

colorGroup

javax.swing.ButtonGroup colorGroup

DOCUMENT ME!

colorPanel

javax.swing.JPanel colorPanel

DOCUMENT ME!

componentImage

ViewJComponentEditImage componentImage

DOCUMENT ME!

doColor

boolean doColor

DOCUMENT ME!

donorButton

javax.swing.JRadioButton donorButton

DOCUMENT ME!

dyeGroup

javax.swing.ButtonGroup dyeGroup

DOCUMENT ME!

fbtAlgo

AlgorithmFRETBleedThrough fbtAlgo

DOCUMENT ME!

FP2Image

ModelImage FP2Image

DOCUMENT ME!

FRETImage

ModelImage FRETImage

DOCUMENT ME!

greenButton

javax.swing.JRadioButton greenButton

DOCUMENT ME!

imageList

javax.swing.JList imageList

DOCUMENT ME!

imageList2

javax.swing.JList imageList2

DOCUMENT ME!

imagePanel

javax.swing.JPanel imagePanel

DOCUMENT ME!

imagePanel2

javax.swing.JPanel imagePanel2

DOCUMENT ME!

model

javax.swing.DefaultListModel model

DOCUMENT ME!

model2

javax.swing.DefaultListModel model2

DOCUMENT ME!

nBoundingVOIs

int nBoundingVOIs

DOCUMENT ME!

paramPanel

javax.swing.JPanel paramPanel

DOCUMENT ME!

redButton

javax.swing.JRadioButton redButton

DOCUMENT ME!

removeButton

javax.swing.JButton removeButton

DOCUMENT ME!

removeButton2

javax.swing.JButton removeButton2

DOCUMENT ME!

srcImage

ModelImage srcImage

The source image must be either an image with donor dye only taken with a donor fluorescent peak filter or an image with acceptor dye only taken with a acceptor fluorescent peak filter.

useBlue

boolean useBlue

DOCUMENT ME!

useGreen

boolean useGreen

DOCUMENT ME!

useRed

boolean useRed

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

VOIGroup

javax.swing.ButtonGroup VOIGroup

DOCUMENT ME!

VOIs

ViewVOIVector VOIs

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogFRETEfficiency extends JDialogScriptableBase implements Serializable

serialVersionUID:

156910291527442369L

Serialized Fields

acceptorImage

ModelImage acceptorImage

DOCUMENT ME!

activeButton

javax.swing.JRadioButton activeButton

DOCUMENT ME!

activeIndex

int activeIndex

DOCUMENT ME!

AFPintoDFP

float AFPintoDFP

DOCUMENT ME!

AFPintoFRET

float AFPintoFRET

DOCUMENT ME!

backgroundButton

javax.swing.JRadioButton backgroundButton

DOCUMENT ME!

backgroundIndex

int backgroundIndex

DOCUMENT ME!

blueButton

javax.swing.JRadioButton blueButton

DOCUMENT ME!

chooserButton

javax.swing.JButton chooserButton

DOCUMENT ME!

chooserButton2

javax.swing.JButton chooserButton2

DOCUMENT ME!

colorGroup

javax.swing.ButtonGroup colorGroup

DOCUMENT ME!

colorPanel

javax.swing.JPanel colorPanel

DOCUMENT ME!

componentImage

ViewJComponentEditImage componentImage

DOCUMENT ME!

createEfficiencyImage

boolean createEfficiencyImage

DOCUMENT ME!

createFDivAImage

boolean createFDivAImage

DOCUMENT ME!

createFDivDImage

boolean createFDivDImage

DOCUMENT ME!

DFPintoAFP

float DFPintoAFP

DOCUMENT ME!

DFPintoFRET

float DFPintoFRET

DOCUMENT ME!

doColor

boolean doColor

DOCUMENT ME!

efficiencyImage

ModelImage efficiencyImage

DOCUMENT ME!

effImageCheckBox

javax.swing.JCheckBox effImageCheckBox

DOCUMENT ME!

fDivACheckBox

javax.swing.JCheckBox fDivACheckBox

DOCUMENT ME!

fDivAImage

ModelImage fDivAImage

DOCUMENT ME!

fDivDCheckBox

javax.swing.JCheckBox fDivDCheckBox

DOCUMENT ME!

fDivDImage

ModelImage fDivDImage

DOCUMENT ME!

feffAlgo

AlgorithmFRETEfficiency feffAlgo

DOCUMENT ME!

FRETImage

ModelImage FRETImage

DOCUMENT ME!

greenButton

javax.swing.JRadioButton greenButton

DOCUMENT ME!

imageList

javax.swing.JList imageList

DOCUMENT ME!

imageList2

javax.swing.JList imageList2

DOCUMENT ME!

imagePanel

javax.swing.JPanel imagePanel

DOCUMENT ME!

imagePanel2

javax.swing.JPanel imagePanel2

DOCUMENT ME!

model

javax.swing.DefaultListModel model

DOCUMENT ME!

model2

javax.swing.DefaultListModel model2

DOCUMENT ME!

nBoundingVOIs

int nBoundingVOIs

DOCUMENT ME!

paramPanel

javax.swing.JPanel paramPanel

DOCUMENT ME!

redButton

javax.swing.JRadioButton redButton

DOCUMENT ME!

removeButton

javax.swing.JButton removeButton

DOCUMENT ME!

removeButton2

javax.swing.JButton removeButton2

DOCUMENT ME!

srcImage

ModelImage srcImage

The source image must be the image taken with the donor fluorescent peak filter.

textAFPintoDFP

javax.swing.JTextField textAFPintoDFP

DOCUMENT ME!

textAFPintoFRET

javax.swing.JTextField textAFPintoFRET

DOCUMENT ME!

textDFPintoAFP

javax.swing.JTextField textDFPintoAFP

DOCUMENT ME!

textDFPintoFRET

javax.swing.JTextField textDFPintoFRET

DOCUMENT ME!

useBlue

boolean useBlue

DOCUMENT ME!

useGreen

boolean useGreen

DOCUMENT ME!

useRed

boolean useRed

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

VOIGroup

javax.swing.ButtonGroup VOIGroup

DOCUMENT ME!

VOIs

ViewVOIVector VOIs

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogFuzzMinDeAndChatterji extends JDialogScriptableBase implements Serializable

Serialized Fields

autoCheckBox

javax.swing.JCheckBox autoCheckBox

autoThreshold

boolean autoThreshold

If true, ignore srcThreshold input and calculate best value

crossVal

double crossVal

enhancedThreshold

double enhancedThreshold

Enhanced image threshold

fuzzMinAlgo

AlgorithmFuzzMinDeAndChatterji fuzzMinAlgo

gmax

double gmax

gmin

double gmin

image

ModelImage image

DOCUMENT ME!

labelEnhancedThreshold

javax.swing.JLabel labelEnhancedThreshold

labelgmax

javax.swing.JLabel labelgmax

labelgmin

javax.swing.JLabel labelgmin

labelP1

javax.swing.JLabel labelP1

labelP2

javax.swing.JLabel labelP2

labelSrcThreshold

javax.swing.JLabel labelSrcThreshold

labelTheta1

javax.swing.JLabel labelTheta1

labelTheta2

javax.swing.JLabel labelTheta2

maxVal

double maxVal

minVal

double minVal

outputPanel

JPanelAlgorithmOutputOptions outputPanel

DOCUMENT ME!

p1

double p1

Black region exponent, 0 <= p1 <= 1.0

p2

double p2

White region exponent, 0 <= p2 <= 1.0

resultImage

ModelImage resultImage

DOCUMENT ME!

srcThreshold

double srcThreshold

Original image threshold

textEnhancedThreshold

javax.swing.JTextField textEnhancedThreshold

textgmax

javax.swing.JTextField textgmax

textgmin

javax.swing.JTextField textgmin

textP1

javax.swing.JTextField textP1

textP2

javax.swing.JTextField textP2

textSrcThreshold

javax.swing.JTextField textSrcThreshold

textTheta1

javax.swing.JTextField textTheta1

textTheta2

javax.swing.JTextField textTheta2

theta1

double theta1

Angular equivalence of black band, 0 <= theta1 <= PI/2

theta2

double theta2

Angular equivalence of white band, 0 <= theta2 <= PI/2

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogFuzzyCMeans extends JDialogScriptableBase implements Serializable

serialVersionUID:

7191124209694457297L

Serialized Fields

centroids

float[] centroids

DOCUMENT ME!

cropBackground

boolean cropBackground

DOCUMENT ME!

cropCheckbox

javax.swing.JCheckBox cropCheckbox

DOCUMENT ME!

destExtents

int[] destExtents

DOCUMENT ME!

endTol

float endTol

DOCUMENT ME!

fcmAlgo

AlgorithmFuzzyCMeans fcmAlgo

DOCUMENT ME!

fuzzyOnly

javax.swing.JRadioButton fuzzyOnly

DOCUMENT ME!

hardFuzzyBoth

javax.swing.JRadioButton hardFuzzyBoth

DOCUMENT ME!

hardOnly

javax.swing.JRadioButton hardOnly

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

imageVOIGroup

javax.swing.ButtonGroup imageVOIGroup

DOCUMENT ME!

imageVOIPanel

javax.swing.JPanel imageVOIPanel

DOCUMENT ME!

labelEndTol

javax.swing.JLabel labelEndTol

DOCUMENT ME!

labelExpo

javax.swing.JLabel labelExpo

DOCUMENT ME!

labelMaxIter

javax.swing.JLabel labelMaxIter

DOCUMENT ME!

labelNClasses

javax.swing.JLabel labelNClasses

DOCUMENT ME!

labelSignal

javax.swing.JLabel labelSignal

DOCUMENT ME!

maxIter

int maxIter

DOCUMENT ME!

nClasses

int nClasses

DOCUMENT ME!

nPyramid

int nPyramid

DOCUMENT ME!

oneJacobiIter

int oneJacobiIter

DOCUMENT ME!

oneSmooth

float oneSmooth

DOCUMENT ME!

outputGainField

boolean outputGainField

private JCheckBox calcGainFieldCheckbox;.

paramPanel

javax.swing.JPanel paramPanel

DOCUMENT ME!

presentNumber

int presentNumber

DOCUMENT ME!

q

float q

DOCUMENT ME!

regionFlag

boolean regionFlag

DOCUMENT ME!

resultImage

ModelImage[] resultImage

DOCUMENT ME!

resultNumber

int resultNumber

DOCUMENT ME!

segmentation

int segmentation

DOCUMENT ME!

segmentationGroup

javax.swing.ButtonGroup segmentationGroup

DOCUMENT ME!

segmentationPanel

javax.swing.JPanel segmentationPanel

DOCUMENT ME!

textEndTol

javax.swing.JTextField textEndTol

DOCUMENT ME!

textExpo

javax.swing.JTextField textExpo

DOCUMENT ME!

textMaxIter

javax.swing.JTextField textMaxIter

DOCUMENT ME!

textNClasses

javax.swing.JTextField textNClasses

DOCUMENT ME!

textSignal

javax.swing.JTextField textSignal

DOCUMENT ME!

threshold

float threshold

DOCUMENT ME!

twoJacobiIter

int twoJacobiIter

DOCUMENT ME!

twoSmooth

float twoSmooth

DOCUMENT ME!

VOIRegions

javax.swing.JRadioButton VOIRegions

DOCUMENT ME!

wholeImage

javax.swing.JRadioButton wholeImage

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogFuzzyConnectednessSegmentation extends JDialogScriptableBase implements Serializable

Serialized Fields

algo

int algo

Use serialVersionUID for interoperability.

algoGroup

javax.swing.ButtonGroup algoGroup

componentImage

ViewJComponentEditImage componentImage

distanceDecline

double distanceDecline

distanceDeclineText

javax.swing.JTextField distanceDeclineText

fcsAlgo

AlgorithmFuzzyConnectednessSegmentation fcsAlgo

DOCUMENT ME!

fuzzyOnlyButton

javax.swing.JRadioButton fuzzyOnlyButton

gradientWeight

double gradientWeight

gradientWeightText

javax.swing.JTextField gradientWeightText

hardFuzzyButton

javax.swing.JRadioButton hardFuzzyButton

hardOnlyButton

javax.swing.JRadioButton hardOnlyButton

haveOne

boolean haveOne

haveTwo

boolean haveTwo

image

ModelImage image

DOCUMENT ME!

imageComboBox

javax.swing.JComboBox imageComboBox

index_labels

java.util.Vector<java.lang.Short> index_labels

index_seeds

java.util.Vector<java.lang.Integer> index_seeds

L1Distance

int L1Distance

L1DistanceText

javax.swing.JTextField L1DistanceText

maskButton

javax.swing.JButton maskButton

maskImage

ModelImage maskImage

maskName

java.lang.String maskName

pointList

java.util.ArrayList<JDialogFuzzyConnectednessSegmentation.labelIndexItem> pointList

pointNum

short pointNum

pointsButton

javax.swing.JButton pointsButton

presentvoiIndex

int presentvoiIndex

resultImage

ModelImage[] resultImage

DOCUMENT ME!

resultNumber

int resultNumber

DOCUMENT ME!

UI

ViewUserInterface UI

Class gov.nih.mipav.view.dialogs.JDialogFuzzyMinimization extends JDialogScriptableBase implements Serializable

Serialized Fields

crossVal

double crossVal

expFuzzifier

double expFuzzifier

DOCUMENT ME!

fuzzyMinAlgo

AlgorithmFuzzyMinimization fuzzyMinAlgo

gmax

double gmax

gmin

double gmin

image

ModelImage image

DOCUMENT ME!

iters

int iters

DOCUMENT ME!

labelCross

javax.swing.JLabel labelCross

labelExpFuzzifier

javax.swing.JLabel labelExpFuzzifier

DOCUMENT ME!

labelgmax

javax.swing.JLabel labelgmax

labelgmin

javax.swing.JLabel labelgmin

maxVal

double maxVal

minVal

double minVal

outputPanel

JPanelAlgorithmOutputOptions outputPanel

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textCross

javax.swing.JTextField textCross

textExpFuzzifier

javax.swing.JTextField textExpFuzzifier

DOCUMENT ME!

textgmax

javax.swing.JTextField textgmax

textgmin

javax.swing.JTextField textgmin

textNIter

javax.swing.JTextField textNIter

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogGaborFilter extends JDialogScriptableBase implements Serializable

serialVersionUID:

-7693130193527088045L

Serialized Fields

createGabor

boolean createGabor

DOCUMENT ME!

createGaborCheckBox

javax.swing.JCheckBox createGaborCheckBox

DOCUMENT ME!

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

filterPanel

javax.swing.JPanel filterPanel

DOCUMENT ME!

freqU

float freqU

DOCUMENT ME!

FrequencyFilterAlgo

AlgorithmFrequencyFilter FrequencyFilterAlgo

DOCUMENT ME!

FrequencyFilterColorAlgo

AlgorithmFrequencyFilterColor FrequencyFilterColorAlgo

freqV

float freqV

DOCUMENT ME!

gaborImage

ModelImage gaborImage

image

ModelImage image

DOCUMENT ME!

labelFU

javax.swing.JLabel labelFU

DOCUMENT ME!

labelFV

javax.swing.JLabel labelFV

DOCUMENT ME!

labelSU

javax.swing.JLabel labelSU

DOCUMENT ME!

labelSV

javax.swing.JLabel labelSV

DOCUMENT ME!

labelTheta

javax.swing.JLabel labelTheta

DOCUMENT ME!

mainPanel

javax.swing.JPanel mainPanel

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

sigmaU

float sigmaU

DOCUMENT ME!

sigmaV

float sigmaV

DOCUMENT ME!

textFU

javax.swing.JTextField textFU

DOCUMENT ME!

textFV

javax.swing.JTextField textFV

DOCUMENT ME!

textSU

javax.swing.JTextField textSU

DOCUMENT ME!

textSV

javax.swing.JTextField textSV

DOCUMENT ME!

textTheta

javax.swing.JTextField textTheta

DOCUMENT ME!

theta

float theta

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogGaussianBlur extends JDialogScriptableBase implements Serializable

serialVersionUID:

-5074546334694615886L

Serialized Fields

colorChannelPanel

JPanelColorChannels colorChannelPanel

DOCUMENT ME!

gaussianBlurAlgo

AlgorithmGaussianBlur gaussianBlurAlgo

DOCUMENT ME!

gaussianBlurSepAlgo

AlgorithmGaussianBlurSep gaussianBlurSepAlgo

DOCUMENT ME!

image

ModelImage image

Source image.

image25D

boolean image25D

Flag indicating if slices should be blurred independently.

image25DCheckbox

javax.swing.JCheckBox image25DCheckbox

DOCUMENT ME!

outputOptionsPanel

JPanelAlgorithmOutputOptions outputOptionsPanel

DOCUMENT ME!

resultImage

ModelImage resultImage

Result image.

separable

boolean separable

DOCUMENT ME!

sepCheckbox

javax.swing.JCheckBox sepCheckbox

DOCUMENT ME!

sigmaPanel

JPanelSigmas sigmaPanel

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

useOCL

boolean useOCL

Flag indicating whether to use OpenCL processing.

useOCLCheckbox

javax.swing.JCheckBox useOCLCheckbox

Indicates whether user wants openCL for processing.

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogGenerateGrid extends JDialogScriptableBase implements Serializable

Serialized Fields

colorChooser

ViewJColorChooser colorChooser

componentImage

ViewJComponentEditImage componentImage

gridColor

java.awt.Color gridColor

gridColorButton

javax.swing.JButton gridColorButton

height

float height

heightField

javax.swing.JTextField heightField

horizontalSpacing

int horizontalSpacing

image

ModelImage image

intensity

float intensity

intensityB

float intensityB

intensityField

javax.swing.JTextField intensityField

intensityG

float intensityG

intensityR

float intensityR

isColor

boolean isColor

newImage

ModelImage newImage

numHorizontal

float numHorizontal

numVertical

float numVertical

resX

float resX

resY

float resY

type

int type

unitsStr

java.lang.String unitsStr

verticalSpacing

int verticalSpacing

width

float width

widthField

javax.swing.JTextField widthField

xDim

int xDim

yDim

int yDim

zDim

int zDim

Class gov.nih.mipav.view.dialogs.JDialogGenerateIsolines extends JDialogScriptableBase implements Serializable

Serialized Fields

colorButton

javax.swing.JButton colorButton

colorChooser

ViewJColorChooser colorChooser

contourColor

java.awt.Color contourColor

defaultThreshold

double defaultThreshold

image

ModelImage image

DOCUMENT ME!

imageMax

double imageMax

imageMin

double imageMin

intensityB

float intensityB

intensityG

float intensityG

intensityR

float intensityR

isoAlgo

AlgorithmGenerateIsolines isoAlgo

resultImage

ModelImage resultImage

DOCUMENT ME!

textThreshold

javax.swing.JTextField textThreshold

threshold

double threshold

Class gov.nih.mipav.view.dialogs.JDialogGradientInverseWeightedSmoothing extends JDialogScriptableBase implements Serializable

Serialized Fields

displayLoc

int displayLoc

DOCUMENT ME!

gradAlgo

AlgorithmGradientInverseWeightedSmoothing gradAlgo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

iterations

int iterations

DOCUMENT ME!

iterationsLabel

javax.swing.JLabel iterationsLabel

DOCUMENT ME!

iterationsText

javax.swing.JTextField iterationsText

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogGradientMagnitude extends JDialogScriptableBase implements Serializable

serialVersionUID:

2890654165880748219L

Serialized Fields

colorChannelPanel

JPanelColorChannels colorChannelPanel

DOCUMENT ME!

displayProgressBar

boolean displayProgressBar

display progress bar or not.

gradientMagAlgo

AlgorithmGradientMagnitude gradientMagAlgo

DOCUMENT ME!

gradientMagSepAlgo

AlgorithmGradientMagnitudeSep gradientMagSepAlgo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

image25D

boolean image25D

DOCUMENT ME!

image25DCheckbox

javax.swing.JCheckBox image25DCheckbox

DOCUMENT ME!

outputImageType

int outputImageType

outputOptionsPanel

JPanelAlgorithmOutputOptions outputOptionsPanel

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

separable

boolean separable

DOCUMENT ME!

sepCheckbox

javax.swing.JCheckBox sepCheckbox

DOCUMENT ME!

sigmaPanel

JPanelSigmas sigmaPanel

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

useOCL

boolean useOCL

Flag indicating whether to use OpenCL processing.

useOCLCheckbox

javax.swing.JCheckBox useOCLCheckbox

Indicates whether user wants openCL for processing.

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogGraphBasedSegmentation extends JDialogScriptableBase implements Serializable

Serialized Fields

image

ModelImage image

DOCUMENT ME!

minSize

int minSize

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

segAlgo

AlgorithmGraphBasedSegmentation segAlgo

DOCUMENT ME!

sigma

float sigma

textMinSize

javax.swing.JTextField textMinSize

DOCUMENT ME!

textSigma

javax.swing.JTextField textSigma

textThreshold

javax.swing.JTextField textThreshold

threshold

float threshold

Class gov.nih.mipav.view.dialogs.JDialogGridOptions extends JDialogBase implements Serializable

serialVersionUID:

1869680780124245552L

Serialized Fields

chooser

ViewJColorChooser chooser

DOCUMENT ME!

color

java.awt.Color color

DOCUMENT ME!

colorButton

javax.swing.JButton colorButton

DOCUMENT ME!

comp

ViewJComponentEditImage comp

DOCUMENT ME!

height

float height

DOCUMENT ME!

heightField

javax.swing.JTextField heightField

DOCUMENT ME!

labelBox

javax.swing.JCheckBox labelBox

DOCUMENT ME!

labelXAlphaButton

javax.swing.JRadioButton labelXAlphaButton

DOCUMENT ME!

labelXNumButton

javax.swing.JRadioButton labelXNumButton

DOCUMENT ME!

showGridBox

javax.swing.JCheckBox showGridBox

DOCUMENT ME!

unitsStr

java.lang.String unitsStr

DOCUMENT ME!

width

float width

DOCUMENT ME!

widthField

javax.swing.JTextField widthField

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogGUIDClient extends javax.swing.JDialog implements Serializable

Serialized Fields

cancelButton

javax.swing.JButton cancelButton

doubleEntryBox

javax.swing.JCheckBox doubleEntryBox

fieldNames

java.lang.String[] fieldNames

gbc

java.awt.GridBagConstraints gbc

guidField

javax.swing.JTextField guidField

helpButton

javax.swing.JButton helpButton

mainFields

javax.swing.JTextField[] mainFields

mainPanel

javax.swing.JPanel mainPanel

OKButton

javax.swing.JButton OKButton

secondaryFields

javax.swing.JTextField[] secondaryFields

Class gov.nih.mipav.view.dialogs.JDialogGuidedFilter extends JDialogScriptableBase implements Serializable

Serialized Fields

comboBoxImage

javax.swing.JComboBox<java.lang.String> comboBoxImage

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

differentButton

javax.swing.JRadioButton differentButton

displayLoc

int displayLoc

DOCUMENT ME!

eps

double eps

gbc2

java.awt.GridBagConstraints gbc2

guidedFilterAlgo

AlgorithmGuidedFilter guidedFilterAlgo

DOCUMENT ME!

guidedGroup

javax.swing.ButtonGroup guidedGroup

guidedImage

ModelImage guidedImage

image

ModelImage image

DOCUMENT ME!

labelGuided

javax.swing.JLabel labelGuided

newImage

javax.swing.JRadioButton newImage

paramPanel

javax.swing.JPanel paramPanel

radius

int radius

replaceImage

javax.swing.JRadioButton replaceImage

resultImage

ModelImage resultImage

sameButton

javax.swing.JRadioButton sameButton

sameImage

boolean sameImage

textEps

javax.swing.JTextField textEps

textRadius

javax.swing.JTextField textRadius

titles

java.lang.String[] titles

userInterface

ViewUserInterface userInterface

Class gov.nih.mipav.view.dialogs.JDialogGVF extends JDialogBase implements Serializable

serialVersionUID:

-7812609363025907144L

Serialized Fields

boundaryIterations

int boundaryIterations

DOCUMENT ME!

checkboxDisplay

javax.swing.JCheckBox checkboxDisplay

DOCUMENT ME!

do25D

boolean do25D

DOCUMENT ME!

do25DCheckBox

javax.swing.JCheckBox do25DCheckBox

DOCUMENT ME!

extents

int[] extents

DOCUMENT ME!

groupNum

int groupNum

DOCUMENT ME!

gvfAlgo

AlgorithmGVF gvfAlgo

DOCUMENT ME!

gvfIterations

int gvfIterations

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

kValue

float kValue

DOCUMENT ME!

labelGaussZ

javax.swing.JLabel labelGaussZ

DOCUMENT ME!

propagate

javax.swing.JRadioButton propagate

DOCUMENT ME!

propagationFlag

boolean propagationFlag

DOCUMENT ME!

removeOriginal

boolean removeOriginal

DOCUMENT ME!

removeOriginalCheckBox

javax.swing.JCheckBox removeOriginalCheckBox

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

scaleX

float scaleX

DOCUMENT ME!

scaleY

float scaleY

DOCUMENT ME!

scaleZ

float scaleZ

DOCUMENT ME!

singleSlice

javax.swing.JRadioButton singleSlice

DOCUMENT ME!

srcVOI

VOI srcVOI

DOCUMENT ME!

textBoundaryIterations

javax.swing.JTextField textBoundaryIterations

DOCUMENT ME!

textGaussX

javax.swing.JTextField textGaussX

DOCUMENT ME!

textGaussY

javax.swing.JTextField textGaussY

DOCUMENT ME!

textGaussZ

javax.swing.JTextField textGaussZ

DOCUMENT ME!

textGVFIterations

javax.swing.JTextField textGVFIterations

DOCUMENT ME!

textK

javax.swing.JTextField textK

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

voiColor

java.awt.Color voiColor

DOCUMENT ME!

VOIs

ViewVOIVector VOIs

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogHaarTransform extends JDialogScriptableBase implements Serializable

Serialized Fields

comboBoxFilterType

javax.swing.JComboBox<java.lang.String> comboBoxFilterType

FILTER_GREATER

int FILTER_GREATER

FILTER_HARD

int FILTER_HARD

FILTER_LESS

int FILTER_LESS

FILTER_NN_GARROTE

int FILTER_NN_GARROTE

FILTER_NONE

int FILTER_NONE

FILTER_SOFT

int FILTER_SOFT

FILTER_THRESHOLD_FIRM

int FILTER_THRESHOLD_FIRM

filterType

int filterType

filterVal1

double filterVal1

filterVal2

double filterVal2

htAlgo

HaarTransform htAlgo

inverseImage

ModelImage inverseImage

labelVal1

javax.swing.JLabel labelVal1

labelVal2

javax.swing.JLabel labelVal2

srcImage

ModelImage srcImage

Use serialVersionUID for interoperability.

textVal1

javax.swing.JTextField textVal1

textVal2

javax.swing.JTextField textVal2

transformImage

ModelImage transformImage

Class gov.nih.mipav.view.dialogs.JDialogHaralickTexture extends JDialogScriptableBase implements Serializable

serialVersionUID:

2408406330754526954L

Serialized Fields

asm

boolean asm

DOCUMENT ME!

asmCheckBox

javax.swing.JCheckBox asmCheckBox

DOCUMENT ME!

blueButton

javax.swing.JRadioButton blueButton

DOCUMENT ME!

colorGroup

javax.swing.ButtonGroup colorGroup

DOCUMENT ME!

colorPanel

javax.swing.JPanel colorPanel

DOCUMENT ME!

concatenate

boolean concatenate

If true, only one result image with the original source concatenated with the calculated features.

concatenateCheckBox

javax.swing.JCheckBox concatenateCheckBox

contrast

boolean contrast

DOCUMENT ME!

contrastCheckBox

javax.swing.JCheckBox contrastCheckBox

DOCUMENT ME!

correlation

boolean correlation

DOCUMENT ME!

correlationCheckBox

javax.swing.JCheckBox correlationCheckBox

DOCUMENT ME!

dissimilarity

boolean dissimilarity

DOCUMENT ME!

dissimilarityCheckBox

javax.swing.JCheckBox dissimilarityCheckBox

DOCUMENT ME!

energy

boolean energy

DOCUMENT ME!

energyCheckBox

javax.swing.JCheckBox energyCheckBox

DOCUMENT ME!

entropy

boolean entropy

DOCUMENT ME!

entropyCheckBox

javax.swing.JCheckBox entropyCheckBox

DOCUMENT ME!

ew

boolean ew

DOCUMENT ME!

ewCheckBox

javax.swing.JCheckBox ewCheckBox

DOCUMENT ME!

greenButton

javax.swing.JRadioButton greenButton

DOCUMENT ME!

greyLevels

int greyLevels

Number of grey levels used if data must be rescaled

homogeneity

boolean homogeneity

DOCUMENT ME!

homogeneityCheckBox

javax.swing.JCheckBox homogeneityCheckBox

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

invariantCheckBox

javax.swing.JCheckBox invariantCheckBox

DOCUMENT ME!

invariantDir

boolean invariantDir

DOCUMENT ME!

inverseOrder1

boolean inverseOrder1

DOCUMENT ME!

inverseOrder1CheckBox

javax.swing.JCheckBox inverseOrder1CheckBox

DOCUMENT ME!

labelOffsetDistance

javax.swing.JLabel labelOffsetDistance

DOCUMENT ME!

labelRescaling

javax.swing.JLabel labelRescaling

labelWindowSize

javax.swing.JLabel labelWindowSize

DOCUMENT ME!

maxProbability

boolean maxProbability

DOCUMENT ME!

maxProbabilityCheckBox

javax.swing.JCheckBox maxProbabilityCheckBox

DOCUMENT ME!

mean

boolean mean

DOCUMENT ME!

meanCheckBox

javax.swing.JCheckBox meanCheckBox

DOCUMENT ME!

nesw

boolean nesw

DOCUMENT ME!

neswCheckBox

javax.swing.JCheckBox neswCheckBox

DOCUMENT ME!

ns

boolean ns

DOCUMENT ME!

nsCheckBox

javax.swing.JCheckBox nsCheckBox

DOCUMENT ME!

numDirections

int numDirections

DOCUMENT ME!

numOperators

int numOperators

DOCUMENT ME!

offsetDistance

int offsetDistance

DOCUMENT ME!

promenance

boolean promenance

promenanceCheckBox

javax.swing.JCheckBox promenanceCheckBox

redButton

javax.swing.JRadioButton redButton

DOCUMENT ME!

resultImage

ModelImage[] resultImage

DOCUMENT ME!

resultNumber

int resultNumber

DOCUMENT ME!

RGBOffset

int RGBOffset

DOCUMENT ME!

scalePanel

javax.swing.JPanel scalePanel

DOCUMENT ME!

senw

boolean senw

DOCUMENT ME!

senwCheckBox

javax.swing.JCheckBox senwCheckBox

DOCUMENT ME!

shade

boolean shade

shadeCheckBox

javax.swing.JCheckBox shadeCheckBox

standardDeviation

boolean standardDeviation

DOCUMENT ME!

standardDeviationCheckBox

javax.swing.JCheckBox standardDeviationCheckBox

DOCUMENT ME!

textOffsetDistance

javax.swing.JTextField textOffsetDistance

DOCUMENT ME!

textRescaling

javax.swing.JTextField textRescaling

textureAlgo

AlgorithmHaralickTexture textureAlgo

DOCUMENT ME!

textWindowSize

javax.swing.JTextField textWindowSize

DOCUMENT ME!

variance

boolean variance

DOCUMENT ME!

varianceCheckBox

javax.swing.JCheckBox varianceCheckBox

DOCUMENT ME!

windowSize

int windowSize

DOCUMENT ME!

zscore

boolean zscore

If true, produce z score = (value - mean)/(standard deviation) output of Haralick features

zscoreCheckBox

javax.swing.JCheckBox zscoreCheckBox

Class gov.nih.mipav.view.dialogs.JDialogHarrisCornerDetector extends JDialogScriptableBase implements Serializable

Serialized Fields

HarrisAlgo

AlgorithmHarrisCornerDetector HarrisAlgo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

pointThreshold

double pointThreshold

radius

int radius

resultImage

ModelImage resultImage

DOCUMENT ME!

sigma

float sigma

textPointThreshold

javax.swing.JTextField textPointThreshold

DOCUMENT ME!

textRadius

javax.swing.JTextField textRadius

textSigma

javax.swing.JTextField textSigma

Class gov.nih.mipav.view.dialogs.JDialogHarrisLaplace extends JDialogScriptableBase implements Serializable

Serialized Fields

hAlgo

AlgorithmHarrisLaplace hAlgo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogHartleyTransform extends JDialogScriptableBase implements Serializable

Serialized Fields

bandPass

javax.swing.JRadioButton bandPass

bandStop

javax.swing.JRadioButton bandStop

butterworthFilter

javax.swing.JRadioButton butterworthFilter

chebyshevIFilter

javax.swing.JRadioButton chebyshevIFilter

chebyshevIIFilter

javax.swing.JRadioButton chebyshevIIFilter

constructionGroup

javax.swing.ButtonGroup constructionGroup

constructionMethod

int constructionMethod

constructionPanel

javax.swing.JPanel constructionPanel

ellipticFilter

javax.swing.JRadioButton ellipticFilter

epsilon

double epsilon

f1

double f1

f2

double f2

filterOrder

int filterOrder

filterPanel

javax.swing.JPanel filterPanel

filterType

int filterType

filterTypeGroup

javax.swing.ButtonGroup filterTypeGroup

gaussianFilter

javax.swing.JRadioButton gaussianFilter

highPass

javax.swing.JRadioButton highPass

htAlgo

HartleyTransform2 htAlgo

inverseImage

ModelImage inverseImage

labelEpsilon

javax.swing.JLabel labelEpsilon

labelF1

javax.swing.JLabel labelF1

labelF2

javax.swing.JLabel labelF2

labelOrder

javax.swing.JLabel labelOrder

labelRs

javax.swing.JLabel labelRs

lowPass

javax.swing.JRadioButton lowPass

mainPanel

javax.swing.JPanel mainPanel

multiProcessor

boolean multiProcessor

Use serialVersionUID for interoperability.

noneButton

javax.swing.JRadioButton noneButton

rs

double rs

srcImage

ModelImage srcImage

textEpsilon

javax.swing.JTextField textEpsilon

textF1

javax.swing.JTextField textF1

textF2

javax.swing.JTextField textF2

textOrder

javax.swing.JTextField textOrder

textRs

javax.swing.JTextField textRs

transformImage

ModelImage transformImage

Class gov.nih.mipav.view.dialogs.JDialogHessian extends JDialogBase implements Serializable

serialVersionUID:

-8129223463637379259L

Serialized Fields

eigenSystemAlgo

WildMagic.LibFoundation.NumericalAnalysis.Eigenf eigenSystemAlgo

DOCUMENT ME!

gaussianScale

float gaussianScale

DOCUMENT ME!

hess00

javax.swing.JLabel hess00

DOCUMENT ME!

hess01

javax.swing.JLabel hess01

DOCUMENT ME!

hess02

javax.swing.JLabel hess02

DOCUMENT ME!

hess10

javax.swing.JLabel hess10

DOCUMENT ME!

hess11

javax.swing.JLabel hess11

DOCUMENT ME!

hess12

javax.swing.JLabel hess12

DOCUMENT ME!

hess20

javax.swing.JLabel hess20

DOCUMENT ME!

hess21

javax.swing.JLabel hess21

DOCUMENT ME!

hess22

javax.swing.JLabel hess22

DOCUMENT ME!

hessianAlgo

AlgorithmHessian hessianAlgo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

imgHessianAlgor

AlgorithmImageHessian imgHessianAlgor

DOCUMENT ME!

locationX

int locationX

DOCUMENT ME!

locationY

int locationY

DOCUMENT ME!

locationZ

int locationZ

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

runBatchButton

javax.swing.JButton runBatchButton

DOCUMENT ME!

runItAllButton

javax.swing.JButton runItAllButton

DOCUMENT ME!

runItButton

javax.swing.JButton runItButton

DOCUMENT ME!

runMethod

int runMethod

DOCUMENT ME!

textGaussScale

javax.swing.JTextField textGaussScale

DOCUMENT ME!

textLocX

javax.swing.JTextField textLocX

DOCUMENT ME!

textLocY

javax.swing.JTextField textLocY

DOCUMENT ME!

textLocZ

javax.swing.JTextField textLocZ

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogHillClimbingWatershed extends JDialogScriptableBase implements Serializable

Serialized Fields

binCheckBox

javax.swing.JCheckBox binCheckBox

binNumber

int binNumber

eightButton

javax.swing.JRadioButton eightButton

eighteenButton

javax.swing.JRadioButton eighteenButton

fourButton

javax.swing.JRadioButton fourButton

image

ModelImage image

DOCUMENT ME!

labelBins

javax.swing.JLabel labelBins

labelThreshold

javax.swing.JLabel labelThreshold

limitBins

boolean limitBins

merge

boolean merge

mergeCheckBox

javax.swing.JCheckBox mergeCheckBox

mergeThreshold

double mergeThreshold

neighborGroup

javax.swing.ButtonGroup neighborGroup

neighborPanel

javax.swing.JPanel neighborPanel

DOCUMENT ME!

numNeighbor

int numNeighbor

resultImage

ModelImage resultImage

DOCUMENT ME!

sixButton

javax.swing.JRadioButton sixButton

textBins

javax.swing.JTextField textBins

textThreshold

javax.swing.JTextField textThreshold

twentySixButton

javax.swing.JRadioButton twentySixButton

watershedAlgo

AlgorithmHillClimbingWatershed watershedAlgo

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogHistogram2Dim extends JDialogScriptableBase implements Serializable

serialVersionUID:

-2641827384253148080L

Serialized Fields

bin1

int bin1

Number of bins for first image.

bin1Default

boolean bin1Default

Default number of bins for first image. Default is 256.

bin1Label

javax.swing.JLabel bin1Label

Label description for bin1.

bin1Text

javax.swing.JTextField bin1Text

Textfield for bin1.

bin2

int bin2

Number of bins for second image.

bin2Default

boolean bin2Default

Default number of bins for first image. Default is 256.

bin2Label

javax.swing.JLabel bin2Label

Label description for bin1.

bin2Text

javax.swing.JTextField bin2Text

Textfield for bin2.

blueCheckBox

javax.swing.JCheckBox blueCheckBox

Checkbox to select blue image.

colorsPresent

int colorsPresent

Number of colors present.

doLinearRescale

boolean doLinearRescale

If true, the range of second image is same as the range of the first image.

doLogResult

boolean doLogResult

If true, calculates the log of the result image for better visualization.

firstImage

ModelImage firstImage

First image (Source image).

greenCheckBox

javax.swing.JCheckBox greenCheckBox

Checkbox to select green image.

histogram2DimAlgo

AlgorithmHistogram2Dim histogram2DimAlgo

Instance of AlgorithmHistogram2Dim.

imageComboBox

javax.swing.JComboBox imageComboBox

Combobox to select the second image.

labelImage

javax.swing.JLabel labelImage

Image label.

linearCheckbox

javax.swing.JCheckBox linearCheckbox

Checkbox to select linear rescaling of second image.

maxB

double maxB

Max intensity values in Red, Green and Blue images respectively.

maxG

double maxG

Max intensity values in Red, Green and Blue images respectively.

maxR

double maxR

Max intensity values in Red, Green and Blue images respectively.

minB

double minB

Min. intensity values in Red, Green and Blue images respectively

minG

double minG

Min. intensity values in Red, Green and Blue images respectively

minR

double minR

Min. intensity values in Red, Green and Blue images respectively

possibleInt2Values

double possibleInt2Values

Possible intensity values for second image.

possibleIntValues

double possibleIntValues

Possible intensity values for first image.

redCheckBox

javax.swing.JCheckBox redCheckBox

Checkbox to select Red image.

resultCheckbox

javax.swing.JCheckBox resultCheckbox

Checkbox to display the log of result image.

resultImage

ModelImage resultImage

Image where the result is stored.

secondImage

ModelImage secondImage

Second image (Base image).

titles

java.lang.String[] titles

String titles for the new windows.

useBlue

boolean useBlue

If true, blue image is selected as of the two images for calculating histogram.

useGreen

boolean useGreen

If true, green image is selected as of the two images for calculating histogram.

useRed

boolean useRed

If true, red image is selected as of the two images for calculating histogram.

userInterface

ViewUserInterface userInterface

Keeps record of the present structure of the application.

Class gov.nih.mipav.view.dialogs.JDialogHistogramLUT extends JDialogBase implements Serializable

serialVersionUID:

1863683975229524849L

Serialized Fields

colocalizationEMFrame

boolean colocalizationEMFrame

Deprecated.

DOCUMENT ME!

colocalizationRegFrame

boolean colocalizationRegFrame

Deprecated.

DOCUMENT ME!

imageA

ModelImage imageA

Deprecated.

DOCUMENT ME!

imageB

ModelImage imageB

Deprecated.

DOCUMENT ME!

LUTa

ModelLUT LUTa

Deprecated.

DOCUMENT ME!

LUTb

ModelLUT LUTb

Deprecated.

DOCUMENT ME!

regComponent

ViewJComponentRegistration regComponent

Deprecated.

false = apply algorithm only to VOI regions.

regionFlag

boolean regionFlag

Deprecated.

DOCUMENT ME!

RGBa

ModelRGB RGBa

Deprecated.

DOCUMENT ME!

RGBb

ModelRGB RGBb

Deprecated.

DOCUMENT ME!

VOIRegions

javax.swing.JRadioButton VOIRegions

Deprecated.

DOCUMENT ME!

wholeImage

javax.swing.JRadioButton wholeImage

Deprecated.

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogHistogramMatch extends JDialogScriptableBase implements Serializable

serialVersionUID:

-4835888925289199854L

Serialized Fields

baseImage

ModelImage baseImage

DOCUMENT ME!

comboBoxImage

javax.swing.JComboBox comboBoxImage

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

matchHistogramAlgo

AlgorithmHistogramMatch matchHistogramAlgo

DOCUMENT ME!

matchImage

ModelImage matchImage

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

titles

java.lang.String[] titles

or if the source image is to be replaced.

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogHistogramSliceMatch extends JDialogScriptableBase implements Serializable

Serialized Fields

displayLoc

int displayLoc

DOCUMENT ME!

matchHistogramSliceAlgo

AlgorithmHistogramSliceMatch matchHistogramSliceAlgo

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

nSlices

int nSlices

referenceSlice

int referenceSlice

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

srcImage

ModelImage srcImage

DOCUMENT ME!

textSlice

javax.swing.JTextField textSlice

titles

java.lang.String[] titles

or if the source image is to be replaced.

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogHistogramSummary extends JDialogScriptableBase implements Serializable

serialVersionUID:

-1570864449910121911L

Serialized Fields

bins

int bins

DOCUMENT ME!

binText

javax.swing.JTextField binText

DOCUMENT ME!

blueButton

javax.swing.JRadioButton blueButton

DOCUMENT ME!

colorGroup

javax.swing.ButtonGroup colorGroup

DOCUMENT ME!

colorPanel

javax.swing.JPanel colorPanel

DOCUMENT ME!

displayGraph

boolean displayGraph

error

java.lang.String error

DOCUMENT ME!

greenButton

javax.swing.JRadioButton greenButton

DOCUMENT ME!

histAlgo

AlgorithmHistogram histAlgo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

imageMax

double imageMax

DOCUMENT ME!

imageMin

double imageMin

DOCUMENT ME!

processMode

int processMode

radSeparateVOIs

javax.swing.JRadioButton radSeparateVOIs

radTotalVOIs

javax.swing.JRadioButton radTotalVOIs

DOCUMENT ME!

radWholeImage

javax.swing.JRadioButton radWholeImage

DOCUMENT ME!

redButton

javax.swing.JRadioButton redButton

DOCUMENT ME!

RGBOffset

int RGBOffset

DOCUMENT ME!

userLimits

boolean userLimits

userLimitsCheckBox

javax.swing.JCheckBox userLimitsCheckBox

userMax

float userMax

userMaxLabel

javax.swing.JLabel userMaxLabel

userMaxText

javax.swing.JTextField userMaxText

userMin

float userMin

userMinLabel

javax.swing.JLabel userMinLabel

userMinText

javax.swing.JTextField userMinText

Class gov.nih.mipav.view.dialogs.JDialogHMRF_EM extends JDialogScriptableBase implements Serializable

Serialized Fields

alg

AlgorithmHMRF_EM alg

colorWeighting

int colorWeighting

equalButton

javax.swing.JRadioButton equalButton

fileNameBase

java.lang.String fileNameBase

gaussianSigma

float gaussianSigma

graphicsButton

javax.swing.JRadioButton graphicsButton

image

ModelImage image

Source image.

maxEMIterations

int maxEMIterations

maxMAPIterations

int maxMAPIterations

numberClusters

int numberClusters

resultImage

ModelImage resultImage

result image

resultsFileName

java.lang.String resultsFileName

resultsFileNameLabel

javax.swing.JLabel resultsFileNameLabel

resultsFileNameText

javax.swing.JTextField resultsFileNameText

showMAPplot

boolean showMAPplot

showMAPplotCheckBox

javax.swing.JCheckBox showMAPplotCheckBox

textClusters

javax.swing.JTextField textClusters

textGauss

javax.swing.JTextField textGauss

textMaxEMIterations

javax.swing.JTextField textMaxEMIterations

textMaxMAPIterations

javax.swing.JTextField textMaxMAPIterations

Class gov.nih.mipav.view.dialogs.JDialogHomomorphicFilter extends JDialogScriptableBase implements Serializable

serialVersionUID:

1061706659841470806L

Serialized Fields

butterworthOrder

int butterworthOrder

DOCUMENT ME!

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

filterPanel

javax.swing.JPanel filterPanel

DOCUMENT ME!

freq1

float freq1

DOCUMENT ME!

FrequencyFilterAlgo

AlgorithmFrequencyFilter FrequencyFilterAlgo

DOCUMENT ME!

highGain

float highGain

DOCUMENT ME!

highTruncated

float highTruncated

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

image25D

boolean image25D

DOCUMENT ME!

image25DCheckbox

javax.swing.JCheckBox image25DCheckbox

DOCUMENT ME!

labelF1

javax.swing.JLabel labelF1

DOCUMENT ME!

labelHighGain

javax.swing.JLabel labelHighGain

DOCUMENT ME!

labelHighTruncated

javax.swing.JLabel labelHighTruncated

DOCUMENT ME!

labelLowGain

javax.swing.JLabel labelLowGain

DOCUMENT ME!

labelLowTruncated

javax.swing.JLabel labelLowTruncated

DOCUMENT ME!

labelOrder

javax.swing.JLabel labelOrder

DOCUMENT ME!

lowGain

float lowGain

DOCUMENT ME!

lowTruncated

float lowTruncated

DOCUMENT ME!

mainPanel

javax.swing.JPanel mainPanel

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

nf

java.text.DecimalFormat nf

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textF1

javax.swing.JTextField textF1

DOCUMENT ME!

textHighGain

javax.swing.JTextField textHighGain

DOCUMENT ME!

textHighTruncated

javax.swing.JTextField textHighTruncated

DOCUMENT ME!

textLowGain

javax.swing.JTextField textLowGain

DOCUMENT ME!

textLowTruncated

javax.swing.JTextField textLowTruncated

DOCUMENT ME!

textOrder

javax.swing.JTextField textOrder

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogHoughCardioid extends JDialogBase implements Serializable

serialVersionUID:

0L

Serialized Fields

a0Num

int a0Num

aText

javax.swing.JTextField aText

DOCUMENT ME!

hAlgo

AlgorithmHoughCardioid hAlgo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

numCardioids

int numCardioids

numCardioidsText

javax.swing.JTextField numCardioidsText

resultImage

ModelImage resultImage

DOCUMENT ME!

sidePointsForCurvature

int sidePointsForCurvature

Maximum number of points to take from each side of a point on a curve in determining a curvature

sideText

javax.swing.JTextField sideText

theta0Num

int theta0Num

DOCUMENT ME!

theta0Text

javax.swing.JTextField theta0Text

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogHoughCardioidChoice extends JDialogBase implements Serializable

serialVersionUID:

0L

Serialized Fields

a0Array

double[] a0Array

countArray

int[] countArray

maxA

double maxA

numCardioidsFound

int numCardioidsFound

okayPressed

boolean okayPressed

DOCUMENT ME!

selectedArray

javax.swing.JCheckBox[] selectedArray

selectedCardioid

boolean[] selectedCardioid

theta0Array

double[] theta0Array

x0Array

double[] x0Array

xDim

int xDim

y0Array

double[] y0Array

yDim

int yDim

Class gov.nih.mipav.view.dialogs.JDialogHoughCircle extends JDialogBase implements Serializable

serialVersionUID:

0L

Serialized Fields

hAlgo

AlgorithmHoughCircle hAlgo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

numCircles

int numCircles

numCirclesText

javax.swing.JTextField numCirclesText

rad

int rad

radText

javax.swing.JTextField radText

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

x0

int x0

DOCUMENT ME!

x0Text

javax.swing.JTextField x0Text

DOCUMENT ME!

y0

int y0

DOCUMENT ME!

y0Text

javax.swing.JTextField y0Text

Class gov.nih.mipav.view.dialogs.JDialogHoughCircleChoice extends JDialogBase implements Serializable

serialVersionUID:

0L

Serialized Fields

countArray

int[] countArray

maxRad

double maxRad

numCirclesFound

int numCirclesFound

okayPressed

boolean okayPressed

DOCUMENT ME!

radArray

double[] radArray

selectedArray

javax.swing.JCheckBox[] selectedArray

selectedCircle

boolean[] selectedCircle

x0Array

double[] x0Array

xDimSource

int xDimSource

y0Array

double[] y0Array

yDimSource

int yDimSource

Class gov.nih.mipav.view.dialogs.JDialogHoughEllipse extends JDialogBase implements Serializable

serialVersionUID:

0L

Serialized Fields

countText

javax.swing.JTextField countText

countThreshold

int countThreshold

Number of counts required to find an ellipse

degreesWidthText

javax.swing.JTextField degreesWidthText

ellipseRangeTolerance

double ellipseRangeTolerance

Maximum percent by which perimiter pixels can deviate from the ellipse equation

hAlgo

AlgorithmHoughEllipse hAlgo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

maxBufferSize

int maxBufferSize

The maximum Hough transform size in megabytes - default is currently 256

maxBufferText

javax.swing.JTextField maxBufferText

maxCyclesText

javax.swing.JTextField maxCyclesText

maxDegreesBinWidth

double maxDegreesBinWidth

For theta must have bin width <= maxDegreesBinWidth

maxEllipseFindCycles

int maxEllipseFindCycles

Maximum number of pointSetsRequired triplet point acqusitions that is allowed to occur

maxPixelBinWidth

double maxPixelBinWidth

For xCenter, yCenter, r1, and r2 must bin width <= maxPixelBinWidth

maxPointDistance

double maxPointDistance

Largest allowable distance between 2 of 3 picked points

maxPointText

javax.swing.JTextField maxPointText

minCoverage

double minCoverage

Minimum percentage of the perimiter of a found ellipse that must be covered by points for it to be valid.

minCoverageText

javax.swing.JTextField minCoverageText

DOCUMENT ME!

minPointDistance

double minPointDistance

Smallest allowable distance between 2 of 3 picked points

minPointText

javax.swing.JTextField minPointText

numEllipses

int numEllipses

number of ellipses to be found

numEllipsesText

javax.swing.JTextField numEllipsesText

pixelWidthText

javax.swing.JTextField pixelWidthText

pointSetsRequired

int pointSetsRequired

Number of point triplets required before each ellipse find is performed

pointSetsText

javax.swing.JTextField pointSetsText

resultImage

ModelImage resultImage

DOCUMENT ME!

sidePointsForTangent

int sidePointsForTangent

Maximum number of points to take from each side of a point on a curve in determining a tangent

sideText

javax.swing.JTextField sideText

toleranceText

javax.swing.JTextField toleranceText

Class gov.nih.mipav.view.dialogs.JDialogHoughEllipseChoice extends JDialogBase implements Serializable

serialVersionUID:

0L

Serialized Fields

count

short[] count

maxR1

double maxR1

maxR2

double maxR2

minR1

double minR1

minR2

double minR2

numEllipsesFound

int numEllipsesFound

okayPressed

boolean okayPressed

DOCUMENT ME!

r1

float[] r1

r2

float[] r2

selectedArray

javax.swing.JCheckBox[] selectedArray

selectedEllipse

boolean[] selectedEllipse

theta

float[] theta

xCenter

float[] xCenter

xDimSource

int xDimSource

yCenter

float[] yCenter

yDimSource

int yDimSource

Class gov.nih.mipav.view.dialogs.JDialogHoughHyperbola extends JDialogBase implements Serializable

serialVersionUID:

0L

Serialized Fields

countText

javax.swing.JTextField countText

countThreshold

int countThreshold

Number of counts required to find a hyperbola

degreesWidthText

javax.swing.JTextField degreesWidthText

hAlgo

AlgorithmHoughHyperbola hAlgo

DOCUMENT ME!

hyperbolaRangeTolerance

double hyperbolaRangeTolerance

Maximum percent by which perimiter pixels can deviate from the hyperbola equation

image

ModelImage image

DOCUMENT ME!

maxBufferSize

int maxBufferSize

The maximum Hough transform size in megabytes - default is currently 256

maxBufferText

javax.swing.JTextField maxBufferText

maxCyclesText

javax.swing.JTextField maxCyclesText

maxDegreesBinWidth

double maxDegreesBinWidth

For theta must have bin width <= maxDegreesBinWidth

maxHyperbolaFindCycles

int maxHyperbolaFindCycles

Maximum number of pointSetsRequired triplet point acquisitions that is allowed to occur

maxPixelBinWidth

double maxPixelBinWidth

For xCenter, yCenter, r1, and r2 must bin width <= maxPixelBinWidth

maxPointDistance

double maxPointDistance

Largest allowable distance between 2 of 3 picked points

maxPointText

javax.swing.JTextField maxPointText

minPixels

int minPixels

Minimum number of points found on a hyperbola for it to be valid.

minPixelsText

javax.swing.JTextField minPixelsText

DOCUMENT ME!

minPointDistance

double minPointDistance

Smallest allowable distance between 2 of 3 picked points

minPointText

javax.swing.JTextField minPointText

numHyperbolas

int numHyperbolas

number of hyperbolas to be found

numHyperbolasText

javax.swing.JTextField numHyperbolasText

pixelWidthText

javax.swing.JTextField pixelWidthText

pointSetsRequired

int pointSetsRequired

Number of point triplets required before each hyperbola find is performed

pointSetsText

javax.swing.JTextField pointSetsText

resultImage

ModelImage resultImage

DOCUMENT ME!

sidePointsForTangent

int sidePointsForTangent

Maximum number of points to take from each side of a point on a curve in determining a tangent

sideText

javax.swing.JTextField sideText

toleranceText

javax.swing.JTextField toleranceText

Class gov.nih.mipav.view.dialogs.JDialogHoughHyperbolaChoice extends JDialogBase implements Serializable

serialVersionUID:

0L

Serialized Fields

count

short[] count

maxR1

double maxR1

maxR2

double maxR2

minR1

double minR1

minR2

double minR2

numHyperbolasFound

int numHyperbolasFound

okayPressed

boolean okayPressed

DOCUMENT ME!

r1

float[] r1

r2

float[] r2

selectedArray

javax.swing.JCheckBox[] selectedArray

selectedHyperbola

boolean[] selectedHyperbola

theta

float[] theta

xCenter

float[] xCenter

xDimSource

int xDimSource

yCenter

float[] yCenter

yDimSource

int yDimSource

Class gov.nih.mipav.view.dialogs.JDialogHoughLine extends JDialogBase implements Serializable

serialVersionUID:

0L

Serialized Fields

hAlgo

AlgorithmHoughLine hAlgo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

n1

int n1

Number of rho cells

n2

int n2

Number of theta cells

resultImage

ModelImage resultImage

DOCUMENT ME!

xText

javax.swing.JTextField xText

DOCUMENT ME!

yText

javax.swing.JTextField yText

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogHoughLineChoice extends JDialogBase implements Serializable

serialVersionUID:

0L

Serialized Fields

countArray

int[] countArray

distanceArray

javax.swing.JTextField[] distanceArray

maxDistance

float[] maxDistance

n1

int n1

n2

int n2

numLinesFound

int numLinesFound

okayPressed

boolean okayPressed

DOCUMENT ME!

rhoArray

int[] rhoArray

selectedArray

javax.swing.JCheckBox[] selectedArray

selectedLine

boolean[] selectedLine

thetaArray

int[] thetaArray

Class gov.nih.mipav.view.dialogs.JDialogHoughParabola extends JDialogBase implements Serializable

serialVersionUID:

0L

Serialized Fields

hAlgo

AlgorithmHoughParabola hAlgo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

maxBufferSize

int maxBufferSize

The maximum Hough transform size in megabytes - default is currently 256

maxBufferText

javax.swing.JTextField maxBufferText

numParabolas

int numParabolas

numParabolasText

javax.swing.JTextField numParabolasText

pBins

int pBins

phiBins

int phiBins

phiConstant

double phiConstant

phiConstantText

javax.swing.JTextField phiConstantText

phiText

javax.swing.JTextField phiText

DOCUMENT ME!

pMax

float pMax

pMaxText

javax.swing.JTextField pMaxText

pMin

float pMin

pMinText

javax.swing.JTextField pMinText

pText

javax.swing.JTextField pText

resultImage

ModelImage resultImage

DOCUMENT ME!

sidePointsForTangent

int sidePointsForTangent

Maximum number of points to take from each side of a point on a curve in determining a tangent

sideText

javax.swing.JTextField sideText

xvBins

int xvBins

DOCUMENT ME!

xvText

javax.swing.JTextField xvText

DOCUMENT ME!

yvBins

int yvBins

DOCUMENT ME!

yvText

javax.swing.JTextField yvText

Class gov.nih.mipav.view.dialogs.JDialogHoughParabolaChoice extends JDialogBase implements Serializable

serialVersionUID:

0L

Serialized Fields

countTable

int[] countTable

numParabolasFound

int numParabolasFound

okayPressed

boolean okayPressed

DOCUMENT ME!

phiBins

int phiBins

phiTable

double[] phiTable

pMax

float pMax

pMin

float pMin

pTable

float[] pTable

selectedArray

javax.swing.JCheckBox[] selectedArray

selectedParabola

boolean[] selectedParabola

xDim

int xDim

xvTable

float[] xvTable

yDim

int yDim

yvTable

float[] yvTable

Class gov.nih.mipav.view.dialogs.JDialogHurstIndex extends JDialogScriptableBase implements Serializable

Serialized Fields

blueButton

javax.swing.JRadioButton blueButton

DOCUMENT ME!

colorGroup

javax.swing.ButtonGroup colorGroup

DOCUMENT ME!

colorPanel

javax.swing.JPanel colorPanel

DOCUMENT ME!

distancePanel

javax.swing.JPanel distancePanel

DOCUMENT ME!

greenButton

javax.swing.JRadioButton greenButton

DOCUMENT ME!

grouping

int grouping

hurstAlgo

AlgorithmHurstIndex hurstAlgo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

integerDistanceRound

boolean integerDistanceRound

If true, take rounding of Euclidean distance as distance If false, take Euclidean distance as distance

integerDistanceRoundCheckBox

javax.swing.JCheckBox integerDistanceRoundCheckBox

labelDimensionality

javax.swing.JLabel labelDimensionality

labelMaxDistance

javax.swing.JLabel labelMaxDistance

labelMinDistance

javax.swing.JLabel labelMinDistance

maxDistance

double maxDistance

minDistance

double minDistance

pixelButton

javax.swing.JRadioButton pixelButton

pixelOrVOIGroup

javax.swing.ButtonGroup pixelOrVOIGroup

redButton

javax.swing.JRadioButton redButton

DOCUMENT ME!

resultImage

ModelImage resultImage

RGBOffset

int RGBOffset

DOCUMENT ME!

sliceButton

javax.swing.JRadioButton sliceButton

textMaxDistance

javax.swing.JTextField textMaxDistance

textMinDistance

javax.swing.JTextField textMinDistance

voiButton

javax.swing.JRadioButton voiButton

Class gov.nih.mipav.view.dialogs.JDialogIAGCWD extends JDialogScriptableBase implements Serializable

Serialized Fields

alphaBright

double alphaBright

alphaDim

double alphaDim

expectedFmt

java.text.DecimalFormat expectedFmt

iagcwdAlgo

AlgorithmIAGCWD iagcwdAlgo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

Tau

double Tau

Taut

double Taut

textAlphaBright

javax.swing.JTextField textAlphaBright

textAlphaDim

javax.swing.JTextField textAlphaDim

textcdfTruncation

javax.swing.JTextField textcdfTruncation

textDistortionThreshold

javax.swing.JTextField textDistortionThreshold

DOCUMENT ME!

textExpected

javax.swing.JTextField textExpected

Tt

double Tt

Class gov.nih.mipav.view.dialogs.JDialogIDObjects extends JDialogScriptableBase implements Serializable

serialVersionUID:

-6478138973143988561L

Serialized Fields

idObjectsAlgo2D

AlgorithmMorphology2D idObjectsAlgo2D

DOCUMENT ME!

idObjectsAlgo3D

AlgorithmMorphology3D idObjectsAlgo3D

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

labelMax

javax.swing.JLabel labelMax

DOCUMENT ME!

labelMin

javax.swing.JLabel labelMin

DOCUMENT ME!

max

int max

DOCUMENT ME!

min

int min

DOCUMENT ME!

outputPanel

JPanelAlgorithmOutputOptions outputPanel

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textMax

javax.swing.JTextField textMax

DOCUMENT ME!

textMin

javax.swing.JTextField textMin

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogIHN3Correction extends JDialogScriptableBase implements Serializable

serialVersionUID:

9210373092056571003L

Serialized Fields

autoThreshold

boolean autoThreshold

DOCUMENT ME!

autoThresholdCheckbox

javax.swing.JCheckBox autoThresholdCheckbox

DOCUMENT ME!

convertTomm

float convertTomm

DOCUMENT ME!

createField

boolean createField

DOCUMENT ME!

createFieldCheckbox

javax.swing.JCheckBox createFieldCheckbox

DOCUMENT ME!

destExtents

int[] destExtents

DOCUMENT ME!

endTol

float endTol

DOCUMENT ME!

fieldDistance

float fieldDistance

DOCUMENT ME!

fieldImage

ModelImage fieldImage

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

kernelfwhm

float kernelfwhm

DOCUMENT ME!

labelDistance

javax.swing.JLabel labelDistance

DOCUMENT ME!

labelEndTol

javax.swing.JLabel labelEndTol

DOCUMENT ME!

labelKernel

javax.swing.JLabel labelKernel

DOCUMENT ME!

labelMaxIter

javax.swing.JLabel labelMaxIter

DOCUMENT ME!

labelNoise

javax.swing.JLabel labelNoise

DOCUMENT ME!

labelShrink

javax.swing.JLabel labelShrink

DOCUMENT ME!

labelSignal

javax.swing.JLabel labelSignal

DOCUMENT ME!

maxIter

int maxIter

DOCUMENT ME!

N3Algo

AlgorithmIHN3Correction N3Algo

DOCUMENT ME!

noise

float noise

DOCUMENT ME!

orgResol

float[] orgResol

DOCUMENT ME!

regionFlag

boolean regionFlag

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

resXUnit

int resXUnit

DOCUMENT ME!

resYUnit

int resYUnit

DOCUMENT ME!

resZUnit

int resZUnit

DOCUMENT ME!

shrink

float shrink

DOCUMENT ME!

textDistance

javax.swing.JTextField textDistance

DOCUMENT ME!

textEndTol

javax.swing.JTextField textEndTol

DOCUMENT ME!

textKernel

javax.swing.JTextField textKernel

DOCUMENT ME!

textMaxIter

javax.swing.JTextField textMaxIter

DOCUMENT ME!

textNoise

javax.swing.JTextField textNoise

DOCUMENT ME!

textShrink

javax.swing.JTextField textShrink

DOCUMENT ME!

textSignal

javax.swing.JTextField textSignal

DOCUMENT ME!

threshold

float threshold

DOCUMENT ME!

useScript

boolean useScript

DOCUMENT ME!

VOIRegions

javax.swing.JRadioButton VOIRegions

DOCUMENT ME!

wholeImage

javax.swing.JRadioButton wholeImage

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogImageCalculator extends JDialogScriptableBase implements Serializable

serialVersionUID:

-7373755862535613674L

Serialized Fields

adOpString

java.lang.String adOpString

Advanced function string.

advancedButton

javax.swing.JButton advancedButton

DOCUMENT ME!

clipMode

int clipMode

DOCUMENT ME!

comboBoxImage

javax.swing.JComboBox comboBoxImage

DOCUMENT ME!

comboBoxOperator

javax.swing.JComboBox comboBoxOperator

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

imageA

ModelImage imageA

source image.

imageB

ModelImage imageB

DOCUMENT ME!

isColor

boolean isColor

DOCUMENT ME!

mathAlgo

AlgorithmImageCalculator mathAlgo

DOCUMENT ME!

opType

int opType

DOCUMENT ME!

radioClip

javax.swing.JRadioButton radioClip

DOCUMENT ME!

radioNew

javax.swing.JRadioButton radioNew

DOCUMENT ME!

radioPromote

javax.swing.JRadioButton radioPromote

DOCUMENT ME!

radioReplace

javax.swing.JRadioButton radioReplace

DOCUMENT ME!

resultImage

ModelImage resultImage

result image.

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogImageInfo extends JDialogBase implements Serializable

serialVersionUID:

-3239665202530115877L

Serialized Fields

acpcACFields

javax.swing.JTextField[] acpcACFields

DOCUMENT ME!

acpcDimFields

javax.swing.JTextField[] acpcDimFields

DOCUMENT ME!

acpcMaxFields

javax.swing.JTextField[] acpcMaxFields

DOCUMENT ME!

acpcMinFields

javax.swing.JTextField[] acpcMinFields

TLRC Specific info.

acpcPCFields

javax.swing.JTextField[] acpcPCFields

DOCUMENT ME!

acpcResField

javax.swing.JTextField acpcResField

DOCUMENT ME!

addReplaceMatrix

javax.swing.JButton addReplaceMatrix

Add as New/Replace button (depending on selected matrix type).

applyButton

javax.swing.JButton applyButton

DOCUMENT ME!

bigEnd

javax.swing.JRadioButton bigEnd

Radio button to denote image is big endian.

buttonPanel

javax.swing.JPanel buttonPanel

DOCUMENT ME!

changeTypeAlgo

AlgorithmChangeType changeTypeAlgo

DOCUMENT ME!!

comboBoxUnitOfMeasure1

javax.swing.JComboBox comboBoxUnitOfMeasure1

DOCUMENT ME!

comboBoxUnitOfMeasure3

javax.swing.JComboBox comboBoxUnitOfMeasure3

DOCUMENT ME!

comboBoxUnitOfMeasure4

javax.swing.JComboBox comboBoxUnitOfMeasure4

DOCUMENT ME!

comboBoxUnitOfMeasure5

javax.swing.JComboBox comboBoxUnitOfMeasure5

DOCUMENT ME!

DIM

int DIM

DOCUMENT ME!

endianess

boolean endianess

Indicates the endianess of the image.

fileTransMatrix

TransMatrix fileTransMatrix

DOCUMENT ME!

font12B

java.awt.Font font12B

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

isTLRCBox

javax.swing.JCheckBox isTLRCBox

DOCUMENT ME!

leftHandSystem

boolean leftHandSystem

If true change matrix to the left-hand coordinate system.

linkedImageButton

javax.swing.JButton linkedImageButton

DOCUMENT ME!

linkedImageField

javax.swing.JTextField linkedImageField

DOCUMENT ME!

littleEnd

javax.swing.JRadioButton littleEnd

Radio button to denote image is little endian.

loadButton

javax.swing.JButton loadButton

DOCUMENT ME!

matrix

double[][] matrix

DOCUMENT ME!

matrixBox

javax.swing.JComboBox matrixBox

Box to hold the matrices parsed from the MatrixHolder.

matrixFile

java.lang.String matrixFile

DOCUMENT ME!

measure1

int measure1

DOCUMENT ME!

measure3

int measure3

DOCUMENT ME!

measure4

int measure4

DOCUMENT ME!

measure5

int measure5

DOCUMENT ME!

modality

int modality

DOCUMENT ME!

modalityBox

javax.swing.JComboBox modalityBox

DOCUMENT ME!

modalityStr

java.lang.String[] modalityStr

DOCUMENT ME!

nameText

javax.swing.JTextField nameText

DOCUMENT ME!

newImageName

java.lang.String newImageName

DOCUMENT ME!

orient

int orient

DOCUMENT ME!

orientationBox1

javax.swing.JComboBox orientationBox1

DOCUMENT ME!

orientationBox2

javax.swing.JComboBox orientationBox2

DOCUMENT ME!

orientationBox3

javax.swing.JComboBox orientationBox3

DOCUMENT ME!

orientAxis

int[] orientAxis

DOCUMENT ME!

orientBox

javax.swing.JComboBox orientBox

DOCUMENT ME!

orientFields

javax.swing.JTextField[] orientFields

DOCUMENT ME!

origACFields

javax.swing.JTextField[] origACFields

ACPC Specific info.

origDimFields

javax.swing.JTextField[] origDimFields

DOCUMENT ME!

origin

float[] origin

DOCUMENT ME!

origOriginFields

javax.swing.JTextField[] origOriginFields

origPCFields

javax.swing.JTextField[] origPCFields

DOCUMENT ME!

origResFields

javax.swing.JTextField[] origResFields

DOCUMENT ME!

resampleImage

ModelImage resampleImage

DOCUMENT ME!

resIndex

int resIndex

DOCUMENT ME!

resizeOnClose

boolean resizeOnClose

resolutionBox

javax.swing.JCheckBox resolutionBox

DOCUMENT ME!

resolutions

float[] resolutions

DOCUMENT ME!

saveButton

javax.swing.JButton saveButton

DOCUMENT ME!

sliceThickness

float sliceThickness

DOCUMENT ME!

tabbedPane

javax.swing.JTabbedPane tabbedPane

DOCUMENT ME!

textMatrix

javax.swing.JTextField[][] textMatrix

DOCUMENT ME!

textRes1

javax.swing.JTextField textRes1

DOCUMENT ME!

textRes2

javax.swing.JTextField textRes2

DOCUMENT ME!

textRes3

javax.swing.JTextField textRes3

DOCUMENT ME!

textRes4

javax.swing.JTextField textRes4

DOCUMENT ME!

textRes5

javax.swing.JTextField textRes5

DOCUMENT ME!

textSliceThickness

javax.swing.JTextField textSliceThickness

DOCUMENT ME!

textSt1

javax.swing.JTextField textSt1

DOCUMENT ME!

textSt2

javax.swing.JTextField textSt2

DOCUMENT ME!

textSt3

javax.swing.JTextField textSt3

DOCUMENT ME!

textSt4

javax.swing.JTextField textSt4

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

tlrcACFields

javax.swing.JTextField[] tlrcACFields

DOCUMENT ME!

tlrcDimFields

javax.swing.JTextField[] tlrcDimFields

DOCUMENT ME!

tlrcPCFields

javax.swing.JTextField[] tlrcPCFields

DOCUMENT ME!

tlrcResFields

javax.swing.JTextField[] tlrcResFields

DOCUMENT ME!

transformIDBox

javax.swing.JComboBox transformIDBox

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

wcSystem

boolean wcSystem

If true change matrix to the world coordinate system.

Class gov.nih.mipav.view.dialogs.JDialogImageMath extends JDialogScriptableBase implements Serializable

serialVersionUID:

-2720105824431405427L

Serialized Fields

blueValue

double blueValue

clipMode

int clipMode

DOCUMENT ME!

comboBoxOperator

javax.swing.JComboBox comboBoxOperator

DOCUMENT ME!

group

javax.swing.ButtonGroup group

DOCUMENT ME!

image

ModelImage image

source image.

imaginaryValue

double imaginaryValue

Used as both imaginary value and blue value

inputPanel

javax.swing.JPanel inputPanel

DOCUMENT ME!

labelOperator

javax.swing.JLabel labelOperator

DOCUMENT ME!

labelValue

javax.swing.JLabel labelValue

Used for single value, real part of complex, and red part of color

labelValueB

javax.swing.JLabel labelValueB

Used for blue part of color

labelValueI

javax.swing.JLabel labelValueI

Used for imaginary part of complex and green part of color

mathAlgo

AlgorithmImageMath mathAlgo

DOCUMENT ME!

opType

AlgorithmImageMath.Operator opType

DOCUMENT ME!

outputPanel

JPanelAlgorithmOutputOptions outputPanel

DOCUMENT ME!

radioClip

javax.swing.JRadioButton radioClip

DOCUMENT ME!

radioFloat

javax.swing.JRadioButton radioFloat

DOCUMENT ME!

radioPromote

javax.swing.JRadioButton radioPromote

DOCUMENT ME!

realValue

double realValue

DOCUMENT ME!

resultImage

ModelImage resultImage

result image.

textValue

javax.swing.JTextField textValue

Used for single value, real part of complex, and red part of color

textValueB

javax.swing.JTextField textValueB

Used for blue part of color

textValueI

javax.swing.JTextField textValueI

Use for imaginary part of complex and green part of color

titles

java.lang.String[] titles

DOCUMENT ME!

useComplex

boolean useComplex

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogImRegPOC extends JDialogScriptableBase implements Serializable

Serialized Fields

alpha

double alpha

beta

double beta

comboBoxImage

javax.swing.JComboBox<java.lang.String> comboBoxImage

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

imRegPOCAlgo

ImRegPOC imRegPOCAlgo

DOCUMENT ME!

labelReference

javax.swing.JLabel labelReference

matchImage

ModelImage matchImage

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

paramPanel

javax.swing.JPanel paramPanel

refImage

ModelImage refImage

replaceImage

javax.swing.JRadioButton replaceImage

resultImage

ModelImage resultImage

textAlpha

javax.swing.JTextField textAlpha

textBeta

javax.swing.JTextField textBeta

titles

java.lang.String[] titles

userInterface

ViewUserInterface userInterface

Class gov.nih.mipav.view.dialogs.JDialogIndependentComponents extends JDialogScriptableBase implements Serializable

Serialized Fields

a1

double a1

aicAlgo

AlgorithmIndependentComponents aicAlgo

DOCUMENT ME!

changeRemoveIndex

boolean changeRemoveIndex

DOCUMENT ME!

chooserButton

javax.swing.JButton chooserButton

DOCUMENT ME!

colorPanel

JPanelColorChannels colorPanel

DOCUMENT ME!

cubicButton

javax.swing.JRadioButton cubicButton

deflationaryOrthogonalization

javax.swing.JRadioButton deflationaryOrthogonalization

DOCUMENT ME!

destExtents

int[] destExtents

DOCUMENT ME!

endTol

double endTol

DOCUMENT ME!

expButton

javax.swing.JRadioButton expButton

icAlgorithm

int icAlgorithm

DOCUMENT ME!

icAlgorithmGroup

javax.swing.ButtonGroup icAlgorithmGroup

DOCUMENT ME!

icAlgorithmPanel

javax.swing.JPanel icAlgorithmPanel

DOCUMENT ME!

icNumber

int icNumber

Number of independent components

imageList

javax.swing.JList imageList

DOCUMENT ME!

imagePanel

javax.swing.JPanel imagePanel

DOCUMENT ME!

labela1

javax.swing.JLabel labela1

labelEndTol

javax.swing.JLabel labelEndTol

DOCUMENT ME!

labelICNumber

javax.swing.JLabel labelICNumber

DOCUMENT ME!

labelMaxIter

javax.swing.JLabel labelMaxIter

DOCUMENT ME!

maximumLikelihoodEstimation

javax.swing.JRadioButton maximumLikelihoodEstimation

DOCUMENT ME!

maxIter

int maxIter

DOCUMENT ME!

model

javax.swing.DefaultListModel model

DOCUMENT ME!

nonlinearFunction

int nonlinearFunction

nonlinearFunctionGroup

javax.swing.ButtonGroup nonlinearFunctionGroup

DOCUMENT ME!

nonlinearFunctionPanel

javax.swing.JPanel nonlinearFunctionPanel

DOCUMENT ME!

paramPanel

javax.swing.JPanel paramPanel

DOCUMENT ME!

removeButton

javax.swing.JButton removeButton

DOCUMENT ME!

removeIndex

int removeIndex

DOCUMENT ME!

resultImage

ModelImage[] resultImage

DOCUMENT ME!

srcImage

ModelImage[] srcImage

DOCUMENT ME!

srcNumber

int srcNumber

DOCUMENT ME!

symmetricOrthogonalization

javax.swing.JRadioButton symmetricOrthogonalization

DOCUMENT ME!

tanhButton

javax.swing.JRadioButton tanhButton

tempImage

ModelImage[] tempImage

DOCUMENT ME!

texta1

javax.swing.JTextField texta1

textEndTol

javax.swing.JTextField textEndTol

DOCUMENT ME!

textICNumber

javax.swing.JTextField textICNumber

DOCUMENT ME!

textMaxIter

javax.swing.JTextField textMaxIter

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogInitialCentroids extends JDialogBase implements Serializable

serialVersionUID:

-7070007899490674843L

Serialized Fields

centroids

float[] centroids

DOCUMENT ME!

defaultValueInput

javax.swing.JTextField[] defaultValueInput

DOCUMENT ME!

gbc

java.awt.GridBagConstraints gbc

DOCUMENT ME!

gbl

java.awt.GridBagLayout gbl

DOCUMENT ME!

i

int i

DOCUMENT ME!

maximum

float maximum

DOCUMENT ME!

minimum

float minimum

DOCUMENT ME!

nClasses

int nClasses

DOCUMENT ME!

tmpStr

java.lang.String tmpStr

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogInsertMissingSlices extends JDialogScriptableBase implements Serializable

serialVersionUID:

-5205189127854148892L

Serialized Fields

allPresent

boolean allPresent

true if no slices are missing.

average

javax.swing.JRadioButton average

Radio button selected if inserted slices are a weighted average of surrounding slices.

blank

javax.swing.JRadioButton blank

Radio button selected if inserted slices are blank.

checkListInsert

boolean[] checkListInsert

Array of length totalSlices, false where slice is already present, true where slice must be inserted.

destFlag

boolean destFlag

DOCUMENT ME!

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

displayLoc

int displayLoc

Flag indicating if a new image is to be generated.

image

ModelImage image

source image.

insertBlank

boolean insertBlank

If true insert blank slices, if false insert weighted average slices.

missingNumberArray

int[] missingNumberArray

DOCUMENT ME!

missingPositions

int missingPositions

DOCUMENT ME!

missingSliceArray

int[] missingSliceArray

DOCUMENT ME!

missingSlices

int missingSlices

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

nSlices

int nSlices

Number of slices in original 3D image.

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

image create if new image button is selected.

rSliceAlgo

AlgorithmReplaceRemovedSlices rSliceAlgo

DOCUMENT ME!

totalSlices

int totalSlices

Number of slices that will be present in the 3D image after the missing slices have been inserted.

Class gov.nih.mipav.view.dialogs.JDialogInsertSlice extends JDialogScriptableBase implements Serializable

serialVersionUID:

7157371462824445245L

Serialized Fields

adjacentDown

javax.swing.JRadioButton adjacentDown

DOCUMENT ME!

adjacentUp

javax.swing.JRadioButton adjacentUp

DOCUMENT ME!

average

javax.swing.JRadioButton average

DOCUMENT ME!

blank

javax.swing.JRadioButton blank

DOCUMENT ME!

comboBoxImage

javax.swing.JComboBox comboBoxImage

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

insertedImage

ModelImage insertedImage

DOCUMENT ME!

insertSlice

int insertSlice

DOCUMENT ME!

insertSliceAlgo

AlgorithmInsertSlice insertSliceAlgo

DOCUMENT ME!

nSlices

int nSlices

DOCUMENT ME!

original

javax.swing.JRadioButton original

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

sliceType

int sliceType

DOCUMENT ME!

textSlice

javax.swing.JTextField textSlice

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogInsertVolume extends JDialogScriptableBase implements Serializable

serialVersionUID:

7157371462824445245L

Serialized Fields

average

javax.swing.JRadioButton average

DOCUMENT ME!

blank

javax.swing.JRadioButton blank

DOCUMENT ME!

comboBoxImage

javax.swing.JComboBox comboBoxImage

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

insertedImage

ModelImage insertedImage

DOCUMENT ME!

insertedImgButton

javax.swing.JRadioButton insertedImgButton

DOCUMENT ME!

insertVolume

int insertVolume

DOCUMENT ME!

insertVolumeAlgo

AlgorithmInsertVolume insertVolumeAlgo

DOCUMENT ME!

nVolumes

int nVolumes

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textVolume

javax.swing.JTextField textVolume

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

volumeType

int volumeType

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogInstallPlugin extends JDialogBase implements Serializable

serialVersionUID:

-8736744495208652866L

Serialized Fields

checkShow

javax.swing.JCheckBox checkShow

Check box for whether to display files that are not likely sources of MIPAV plugins.*

checkUnpack

javax.swing.JCheckBox checkUnpack

Check box for unpacking container files

files

java.util.Vector<java.io.File> files

The class, zip, jar etc files that were selected before they were unzipped

filesColor

java.util.Vector<java.awt.Color> filesColor

The results of working with the files in a temporary class environment

selectorPanel

JDialogInstallPlugin.ClassSelectorPanel selectorPanel

The sub-gui *

ui

ViewUserInterface ui

The default user interface

Class gov.nih.mipav.view.dialogs.JDialogInstallPlugin.JFileTreePanel extends javax.swing.JPanel implements Serializable

Serialized Fields

tree

javax.swing.JTree tree

The file tree.

Class gov.nih.mipav.view.dialogs.JDialogIntensityHistogram extends JDialogBase implements Serializable

Serialized Fields

binsField

javax.swing.JTextField binsField

blueButton

javax.swing.JRadioButton blueButton

colorGroup

javax.swing.ButtonGroup colorGroup

greenButton

javax.swing.JRadioButton greenButton

image

ModelImage image

imageMax

double imageMax

imageMin

double imageMin

maxBins

int maxBins

maxField

javax.swing.JTextField maxField

maxValue

double maxValue

minField

javax.swing.JTextField minField

DOCUMENT ME!

minValue

double minValue

numBins

int numBins

redButton

javax.swing.JRadioButton redButton

Class gov.nih.mipav.view.dialogs.JDialogIntensityPaint extends JDialogBase implements Serializable

serialVersionUID:

-736880761566398344L

Serialized Fields

inputLabel

javax.swing.JLabel inputLabel

DOCUMENT ME!

inputText

javax.swing.JTextField inputText

DOCUMENT ME!

intensityDouble

double intensityDouble

DOCUMENT ME!

intensityStringValue

java.lang.String intensityStringValue

DOCUMENT ME!

outMax

double outMax

DOCUMENT ME!

outMin

double outMin

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogIntensityThreshold extends JDialogBase implements Serializable

serialVersionUID:

988706874933899996L

Serialized Fields

component

ViewJComponentEditImage component

DOCUMENT ME!

doAverage

boolean doAverage

DOCUMENT ME!

threshField

javax.swing.JTextField threshField

DOCUMENT ME!

voiHandler

VOIHandlerInterface voiHandler

Class gov.nih.mipav.view.dialogs.JDialogInvert extends JDialogScriptableBase implements Serializable

serialVersionUID:

6770504320836953902L

Serialized Fields

changeTypeAlgo

AlgorithmChangeType changeTypeAlgo

DOCUMENT ME!

dataType

int dataType

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

endianess

boolean endianess

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

imageMathAlgo

AlgorithmImageMath imageMathAlgo

inTempMax

double inTempMax

DOCUMENT ME!

inTempMin

double inTempMin

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

outTempMax

double outTempMax

DOCUMENT ME!

outTempMin

double outTempMin

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogIsophoteCurvature extends JDialogScriptableBase implements Serializable

Serialized Fields

displayProgressBar

boolean displayProgressBar

display progress bar or not.

image

ModelImage image

DOCUMENT ME!

image25D

boolean image25D

DOCUMENT ME!

image25DCheckbox

javax.swing.JCheckBox image25DCheckbox

DOCUMENT ME!

isoCurvAlgo

AlgorithmIsophoteCurvature isoCurvAlgo

DOCUMENT ME!

outputPanel

JPanelAlgorithmOutputOptions outputPanel

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

sigmasPanel

JPanelSigmas sigmasPanel

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogKernelRegression extends JDialogScriptableBase implements Serializable

Serialized Fields

alpha

float alpha

Structure sensitive parameter

classicStepSize

float classicStepSize

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

equalCheckBox

javax.swing.JCheckBox equalCheckBox

equalValue

double equalValue

greaterEqualCheckBox

javax.swing.JCheckBox greaterEqualCheckBox

greaterEqualValue

double greaterEqualValue

hasEqual

boolean hasEqual

hasGreaterEqual

boolean hasGreaterEqual

hasInfinity

boolean hasInfinity

hasLesserEqual

boolean hasLesserEqual

hasNaN

boolean hasNaN

image

ModelImage image

DOCUMENT ME!

image25D

boolean image25D

DOCUMENT ME!

image25DCheckBox

javax.swing.JCheckBox image25DCheckBox

DOCUMENT ME!

infinityCheckBox

javax.swing.JCheckBox infinityCheckBox

initialGlobalSmoothing

float initialGlobalSmoothing

0.8 for STEERING_KERNEL_SECOND_ORDER_L1_NORM

initialKernelSize

int initialKernelSize

iterations

int iterations

Total number of iterations

iterations2

int iterations2

Iterations in skr2L1_regular for steepest descent method in L1 steering kernel regression in STEERING_KERNEL_SECOND_ORDER_L1_NORM.

iterativeGlobalSmoothing

float iterativeGlobalSmoothing

1.5 for STEERING_KERNEL_SECOND_ORDER_L1_NORM

iterativeGlobalSmoothing2

float iterativeGlobalSmoothing2

iterativeKernelSize

int iterativeKernelSize

iterIrregular

javax.swing.JRadioButton iterIrregular

iterSteering2

javax.swing.JRadioButton iterSteering2

kernelRegressionAlgo

AlgorithmKernelRegression kernelRegressionAlgo

DOCUMENT ME!

labelAlpha

javax.swing.JLabel labelAlpha

labelClassicStep

javax.swing.JLabel labelClassicStep

labelInitialGlobal

javax.swing.JLabel labelInitialGlobal

labelInitialKernel

javax.swing.JLabel labelInitialKernel

labelIterations

javax.swing.JLabel labelIterations

labelIterations2

javax.swing.JLabel labelIterations2

labelIterativeGlobal

javax.swing.JLabel labelIterativeGlobal

labelIterativeGlobal2

javax.swing.JLabel labelIterativeGlobal2

labelIterativeKernel

javax.swing.JLabel labelIterativeKernel

labelLambda

javax.swing.JLabel labelLambda

labelSteeringStep

javax.swing.JLabel labelSteeringStep

labelUpscale

javax.swing.JLabel labelUpscale

labelWindowSize

javax.swing.JLabel labelWindowSize

lambda

float lambda

Regularization for the elongation parameter

lesserEqualCheckBox

javax.swing.JCheckBox lesserEqualCheckBox

lesserEqualValue

double lesserEqualValue

method

int method

methodGroup

javax.swing.ButtonGroup methodGroup

NaNCheckBox

javax.swing.JCheckBox NaNCheckBox

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

paramPanel

javax.swing.JPanel paramPanel

DOCUMENT ME!

regSampled2Classic

javax.swing.JRadioButton regSampled2Classic

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

steering2L1Norm

javax.swing.JRadioButton steering2L1Norm

steeringStepSize

float steeringStepSize

textAlpha

javax.swing.JTextField textAlpha

textClassicStep

javax.swing.JTextField textClassicStep

textEqual

javax.swing.JTextField textEqual

textGreaterEqual

javax.swing.JTextField textGreaterEqual

textInitialGlobal

javax.swing.JTextField textInitialGlobal

textInitialKernel

javax.swing.JTextField textInitialKernel

textIterations

javax.swing.JTextField textIterations

textIterations2

javax.swing.JTextField textIterations2

textIterativeGlobal

javax.swing.JTextField textIterativeGlobal

textIterativeGlobal2

javax.swing.JTextField textIterativeGlobal2

textIterativeKernel

javax.swing.JTextField textIterativeKernel

textLambda

javax.swing.JTextField textLambda

textLesserEqual

javax.swing.JTextField textLesserEqual

textSteeringStep

javax.swing.JTextField textSteeringStep

textUpscale

javax.swing.JTextField textUpscale

textWindowSize

javax.swing.JTextField textWindowSize

titles

java.lang.String[] titles

DOCUMENT ME!

upscale

int upscale

Upscaling factor

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

windowSize

int windowSize

Size of local orientation analysis window

Class gov.nih.mipav.view.dialogs.JDialogKMeans extends JDialogScriptableBase implements Serializable

Serialized Fields

alg

AlgorithmKMeans alg

handle to algorithm

algorithmGroup

javax.swing.ButtonGroup algorithmGroup

algoSelection

int algoSelection

axesRatio

double[] axesRatio

axesRatioLabel

javax.swing.JLabel axesRatioLabel

axesRatioText

javax.swing.JTextField axesRatioText

blueBuffer

float[] blueBuffer

br

java.io.BufferedReader br

BradleyInit

javax.swing.JRadioButton BradleyInit

buttonImage

javax.swing.JButton buttonImage

buttonPointsFile

javax.swing.JButton buttonPointsFile

bwImageGroup

javax.swing.ButtonGroup bwImageGroup

bwSegmentedImage

boolean bwSegmentedImage

centroidPos

double[][] centroidPos

CIELABSpace

javax.swing.JRadioButton CIELABSpace

cityBlock

javax.swing.JRadioButton cityBlock

clusterImage

javax.swing.JRadioButton clusterImage

colorHistogramBox

javax.swing.JCheckBox colorHistogramBox

colorSegmentInRGB

boolean colorSegmentInRGB

colorSpaceGroup

javax.swing.ButtonGroup colorSpaceGroup

differentSpheresButton

javax.swing.JRadioButton differentSpheresButton

directoryPoints

java.lang.String directoryPoints

distanceGroup

javax.swing.ButtonGroup distanceGroup

distanceMeasure

int distanceMeasure

doubleBuffer

double[] doubleBuffer

euclideanSquared

javax.swing.JRadioButton euclideanSquared

extents

int[] extents

fastGlobalAlgo

javax.swing.JRadioButton fastGlobalAlgo

fileNamePoints

java.lang.String fileNamePoints

filePoints

java.io.File filePoints

followBatchBox

javax.swing.JCheckBox followBatchBox

followBatchWithIncremental

boolean followBatchWithIncremental

globalAlgo

javax.swing.JRadioButton globalAlgo

greenBuffer

float[] greenBuffer

groupNum

int[] groupNum

havePoints

boolean havePoints

hierarchicalInit

javax.swing.JRadioButton hierarchicalInit

image

ModelImage image

source image.

imageList

javax.swing.JComboBox imageList

initGroup

javax.swing.ButtonGroup initGroup

initLabel

javax.swing.JLabel initLabel

initSelection

int initSelection

isMultifile

boolean isMultifile

boolean isMultifile

kMeansAlgo

javax.swing.JRadioButton kMeansAlgo

mahalanobis

javax.swing.JRadioButton mahalanobis

maxMinInit

javax.swing.JRadioButton maxMinInit

nDims

int nDims

nPoints

int nPoints

numberClusters

int numberClusters

pos

double[][] pos

randomInit

javax.swing.JRadioButton randomInit

redBuffer

float[] redBuffer

resultImage

ModelImage resultImage

result image

resultsFileName

java.lang.String resultsFileName

resultsFileNameLabel

javax.swing.JLabel resultsFileNameLabel

resultsFileNameText

javax.swing.JTextField resultsFileNameText

RGBSpace

javax.swing.JRadioButton RGBSpace

SButton

javax.swing.JRadioButton SButton

scale

double[] scale

scaleMax

double scaleMax

scaleVariablesToUnitVariance

boolean scaleVariablesToUnitVariance

segmentedImage

javax.swing.JRadioButton segmentedImage

showSegmentedImage

boolean showSegmentedImage

textClusters

javax.swing.JTextField textClusters

textImage

javax.swing.JTextField textImage

textPointsFile

javax.swing.JTextField textPointsFile

unitVarianceCheckBox

javax.swing.JCheckBox unitVarianceCheckBox

useColorHistogram

boolean useColorHistogram

weight

double[] weight

Class gov.nih.mipav.view.dialogs.JDialogLaplacian extends JDialogScriptableBase implements Serializable

serialVersionUID:

2631054897246586311L

Serialized Fields

ampFactor

float ampFactor

DOCUMENT ME!

comboBoxKernelSize

javax.swing.JComboBox comboBoxKernelSize

displayProgressBar

boolean displayProgressBar

display progress bar or not.

image

ModelImage image

DOCUMENT ME!

image25D

boolean image25D

DOCUMENT ME!

image25DCheckbox

javax.swing.JCheckBox image25DCheckbox

DOCUMENT ME!

kernelSize

int kernelSize

labelAmpFact

javax.swing.JLabel labelAmpFact

DOCUMENT ME!

labelKernelSize

javax.swing.JLabel labelKernelSize

laplacianAlgo

AlgorithmLaplacian laplacianAlgo

DOCUMENT ME!

nonLinear

boolean nonLinear

nonLinearCheckBox

javax.swing.JCheckBox nonLinearCheckBox

outputPanel

JPanelAlgorithmOutputOptions outputPanel

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

separable

boolean separable

DOCUMENT ME!

sepCheckbox

javax.swing.JCheckBox sepCheckbox

DOCUMENT ME!

sigmasPanel

JPanelSigmas sigmasPanel

DOCUMENT ME!

textAmpFact

javax.swing.JTextField textAmpFact

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

useOCL

boolean useOCL

Flag indicating whether to use OpenCL processing.

useOCLCheckbox

javax.swing.JCheckBox useOCLCheckbox

Indicates whether user wants openCL for processing.

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogLawsTexture extends JDialogScriptableBase implements Serializable

Serialized Fields

blueButton

javax.swing.JRadioButton blueButton

DOCUMENT ME!

colorGroup

javax.swing.ButtonGroup colorGroup

DOCUMENT ME!

colorPanel

javax.swing.JPanel colorPanel

DOCUMENT ME!

fiveButton

javax.swing.JRadioButton fiveButton

greenButton

javax.swing.JRadioButton greenButton

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

labelWindowSize

javax.swing.JLabel labelWindowSize

DOCUMENT ME!

redButton

javax.swing.JRadioButton redButton

DOCUMENT ME!

resultImage

ModelImage[] resultImage

DOCUMENT ME!

resultNumber

int resultNumber

DOCUMENT ME!

RGBOffset

int RGBOffset

DOCUMENT ME!

scalePanel

javax.swing.JPanel scalePanel

DOCUMENT ME!

sevenButton

javax.swing.JRadioButton sevenButton

sizeGroup

javax.swing.ButtonGroup sizeGroup

textureAlgo

AlgorithmLawsTexture textureAlgo

DOCUMENT ME!

threeButton

javax.swing.JRadioButton threeButton

windowSize

int windowSize

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogLevelSet extends JDialogBase implements Serializable

serialVersionUID:

-1593443884995027289L

Serialized Fields

contractButton

javax.swing.JRadioButton contractButton

DOCUMENT ME!

deltaT

float deltaT

DOCUMENT ME!

edgeAttract

float edgeAttract

DOCUMENT ME!

epsilon

float epsilon

DOCUMENT ME!

expandButton

javax.swing.JRadioButton expandButton

DOCUMENT ME!

expandContractButton

javax.swing.JRadioButton expandContractButton

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

image25D

boolean image25D

Flag indicating if slices should be blurred independently.

image25DCheckbox

javax.swing.JCheckBox image25DCheckbox

DOCUMENT ME!

iters

int iters

DOCUMENT ME!

itersCheckBox

javax.swing.JCheckBox itersCheckBox

DOCUMENT ME!

label3D

javax.swing.JLabel label3D

difference between x,y resolutions (in plane) and z resolution (between planes).

labelCorrected

javax.swing.JLabel labelCorrected

DOCUMENT ME!

labelDeltaT

javax.swing.JLabel labelDeltaT

DOCUMENT ME!

labelEdgeAttract

javax.swing.JLabel labelEdgeAttract

DOCUMENT ME!

labelEpsilon

javax.swing.JLabel labelEpsilon

DOCUMENT ME!

labelGaussX

javax.swing.JLabel labelGaussX

DOCUMENT ME!

labelGaussY

javax.swing.JLabel labelGaussY

DOCUMENT ME!

labelGaussZ

javax.swing.JLabel labelGaussZ

DOCUMENT ME!

labelIters

javax.swing.JLabel labelIters

DOCUMENT ME!

labelTestIters

javax.swing.JLabel labelTestIters

DOCUMENT ME!

levelSetAlgo

AlgorithmLevelSet levelSetAlgo

DOCUMENT ME!

movement

int movement

DOCUMENT ME!

movementGroup

javax.swing.ButtonGroup movementGroup

DOCUMENT ME!

normFactor

float normFactor

DOCUMENT ME!

paintMask

java.util.BitSet paintMask

DOCUMENT ME!

resolutionCheckbox

javax.swing.JCheckBox resolutionCheckbox

DOCUMENT ME!

scaleX

float scaleX

DOCUMENT ME!

scaleY

float scaleY

DOCUMENT ME!

scaleZ

float scaleZ

DOCUMENT ME!

testIters

int testIters

DOCUMENT ME!

textDeltaT

javax.swing.JTextField textDeltaT

DOCUMENT ME!

textEdgeAttract

javax.swing.JTextField textEdgeAttract

DOCUMENT ME!

textEpsilon

javax.swing.JTextField textEpsilon

DOCUMENT ME!

textGaussX

javax.swing.JTextField textGaussX

DOCUMENT ME!

textGaussY

javax.swing.JTextField textGaussY

DOCUMENT ME!

textGaussZ

javax.swing.JTextField textGaussZ

DOCUMENT ME!

textIters

javax.swing.JTextField textIters

DOCUMENT ME!

textTestIters

javax.swing.JTextField textTestIters

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogLevelSetDiffusion extends JDialogBase implements Serializable

serialVersionUID:

-6530047904436344937L

Serialized Fields

image

ModelImage image

DOCUMENT ME!

image25D

boolean image25D

Flag indicating if slices should be blurred independently.

image25DCheckbox

javax.swing.JCheckBox image25DCheckbox

DOCUMENT ME!

iters

int iters

DOCUMENT ME!

kValue

float kValue

DOCUMENT ME!

labelCorrected

javax.swing.JLabel labelCorrected

DOCUMENT ME!

labelGaussX

javax.swing.JLabel labelGaussX

DOCUMENT ME!

labelGaussY

javax.swing.JLabel labelGaussY

DOCUMENT ME!

labelGaussZ

javax.swing.JLabel labelGaussZ

DOCUMENT ME!

labelIters

javax.swing.JLabel labelIters

DOCUMENT ME!

labelK

javax.swing.JLabel labelK

DOCUMENT ME!

levelSetAlgo

AlgorithmLevelSetDiffusion levelSetAlgo

DOCUMENT ME!

normFactor

float normFactor

DOCUMENT ME!

paintMask

java.util.BitSet paintMask

DOCUMENT ME!

resolutionCheckbox

javax.swing.JCheckBox resolutionCheckbox

DOCUMENT ME!

scaleX

float scaleX

DOCUMENT ME!

scaleY

float scaleY

DOCUMENT ME!

scaleZ

float scaleZ

DOCUMENT ME!

textGaussX

javax.swing.JTextField textGaussX

DOCUMENT ME!

textGaussY

javax.swing.JTextField textGaussY

DOCUMENT ME!

textGaussZ

javax.swing.JTextField textGaussZ

DOCUMENT ME!

textIters

javax.swing.JTextField textIters

difference between x,y resolutions (in plane) and z resolution (between planes).

textK

javax.swing.JTextField textK

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogLightBox extends JDialogBase implements Serializable

serialVersionUID:

-4983517621211045288L

Serialized Fields

backgroundB

javax.swing.JButton backgroundB

DOCUMENT ME!

bgColor

java.awt.Color bgColor

DOCUMENT ME!

borderB

javax.swing.JButton borderB

DOCUMENT ME!

borderColor

java.awt.Color borderColor

DOCUMENT ME!

borderSize

int borderSize

DOCUMENT ME!

bordersizeL

javax.swing.JLabel bordersizeL

DOCUMENT ME!

bordersizeText

javax.swing.JTextField bordersizeText

DOCUMENT ME!

col

int col

DOCUMENT ME!

colLabel

javax.swing.JLabel colLabel

DOCUMENT ME!

colorChooser

ViewJColorChooser colorChooser

DOCUMENT ME!

colorPanel

javax.swing.JPanel colorPanel

DOCUMENT ME!

colPanel

javax.swing.JPanel colPanel

DOCUMENT ME!

colText

javax.swing.JTextField colText

DOCUMENT ME!

font12

java.awt.Font font12

DOCUMENT ME!

font12B

java.awt.Font font12B

DOCUMENT ME!

frame

ViewJFrameLightBox frame

DOCUMENT ME!

gridSize

int gridSize

DOCUMENT ME!

gridsizeL

javax.swing.JLabel gridsizeL

DOCUMENT ME!

gridsizeText

javax.swing.JTextField gridsizeText

DOCUMENT ME!

increment

int increment

incrementLabel

javax.swing.JLabel incrementLabel

incrementText

javax.swing.JTextField incrementText

lastBorderSize

int lastBorderSize

DOCUMENT ME!

lastCol

int lastCol

DOCUMENT ME!

lastGridSize

int lastGridSize

DOCUMENT ME!

lastIncrement

int lastIncrement

lastRow

int lastRow

DOCUMENT ME!

lastRowBFlag

boolean lastRowBFlag

DOCUMENT ME!

magnification

float magnification

DOCUMENT ME!

magniWindow

javax.swing.JWindow magniWindow

DOCUMENT ME!

magSlider

javax.swing.JSlider magSlider

DOCUMENT ME!

magSliderDictionary

java.util.Hashtable<java.lang.Integer,javax.swing.JLabel> magSliderDictionary

DOCUMENT ME!

magSliderPanel

javax.swing.JPanel magSliderPanel

DOCUMENT ME!

panelRowColumn

javax.swing.JPanel panelRowColumn

DOCUMENT ME!

radioColumn

javax.swing.JRadioButton radioColumn

DOCUMENT ME!

radioRow

javax.swing.JRadioButton radioRow

DOCUMENT ME!

resetButton

javax.swing.JButton resetButton

DOCUMENT ME!

row

int row

DOCUMENT ME!

row_dependent

boolean row_dependent

DOCUMENT ME!

rowBFlag

boolean rowBFlag

values obtained from settings.

rowLabel

javax.swing.JLabel rowLabel

DOCUMENT ME!

rowPanel

javax.swing.JPanel rowPanel

DOCUMENT ME!

rowText

javax.swing.JTextField rowText

DOCUMENT ME!

toolTip

javax.swing.JLabel toolTip

DOCUMENT ME!

tSlider

javax.swing.JSlider tSlider

DOCUMENT ME!

tSliderDictionary

java.util.Hashtable<java.lang.Integer,javax.swing.JLabel> tSliderDictionary

DOCUMENT ME!

tSliderPanel

javax.swing.JPanel tSliderPanel

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogLightboxGen extends JDialogScriptableBase implements Serializable

serialVersionUID:

-4508090288311270016L

Serialized Fields

columns

int columns

endSlice

int endSlice

image

ModelImage image

DOCUMENT ME!

lightGen

LightboxGenerator lightGen

DOCUMENT ME!

percent

int percent

resultImage

ModelImage resultImage

DOCUMENT ME!

row

int row

startSlice

int startSlice

textBoxB

javax.swing.JTextField textBoxB

textBoxG

javax.swing.JTextField textBoxG

textBoxR

javax.swing.JTextField textBoxR

textColumns

javax.swing.JTextField textColumns

textEnd

javax.swing.JTextField textEnd

textPercent

javax.swing.JTextField textPercent

textRows

javax.swing.JTextField textRows

textStart

javax.swing.JTextField textStart

textThickness

javax.swing.JTextField textThickness

thickness

int thickness

valueB

int valueB

valueG

int valueG

valueR

int valueR

Class gov.nih.mipav.view.dialogs.JDialogListSaveSelection extends JDialogBase implements Serializable

serialVersionUID:

-5740263457469223226L

Serialized Fields

selectedList

javax.swing.JList selectedList

List of selected VOIs.

selectFileA

JPanelFileSelection selectFileA

Indicates the source file for list A. The Default property name given to this file selector is "SelectFileA"

selectFileB

JPanelFileSelection selectFileB

Indicates the source file for list B. The Default property name given to this file selector is "SelectFileB"

selector

JDialogListSaveSelection.JPanelListSelection selector

Allows the user to modify listB based on either the file provided in selectFileA or selectFileB.

sourceList

javax.swing.JList sourceList

List of available VOIs.

Class gov.nih.mipav.view.dialogs.JDialogListSaveSelection.JPanelListSelection extends JPanelListController implements Serializable

serialVersionUID:

-4660560256657187754L

Serialized Fields

comp

JDialogListSaveSelection.TagComparator comp

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogLivewire extends JDialogBase implements Serializable

serialVersionUID:

-5986380794955471822L

Serialized Fields

radioGradient

javax.swing.JRadioButton radioGradient

Radio button for Gradient magnitude and direction

radioGradientAll

javax.swing.JRadioButton radioGradientAll

Radio button for Gradient, Medialness and Intensity

radioGradientInt

javax.swing.JRadioButton radioGradientInt

Radio button for Gradient and Intensity

radioGradientMed

javax.swing.JRadioButton radioGradientMed

Radio button for Gradient and Medialness

radioIntensity

javax.swing.JRadioButton radioIntensity

Radio button for Intensity

radioMedial

javax.swing.JRadioButton radioMedial

Radio button for Laplacian medialness

selection

int selection

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogLLE extends JDialogScriptableBase implements Serializable

Serialized Fields

destImage

ModelImage destImage

DOCUMENT ME!

embeddedDimensions

int embeddedDimensions

Use serialVersionUID for interoperability.

image

ModelImage image

DOCUMENT ME!

lleAlgo

AlgorithmLLE lleAlgo

DOCUMENT ME!

numberOfNeighbors

int numberOfNeighbors

textEmbeddedDimensions

javax.swing.JTextField textEmbeddedDimensions

DOCUMENT ME!

textNeighbors

javax.swing.JTextField textNeighbors

textTol

javax.swing.JTextField textTol

tol

double tol

Class gov.nih.mipav.view.dialogs.JDialogLoadImage extends JDialogScriptableBase implements Serializable

serialVersionUID:

-8455082719816268161L

Serialized Fields

browseButton

javax.swing.JButton browseButton

DOCUMENT ME!

dataType

int dataType

If blank image is to be loaded...need the type (for non-color images).

defaultBlueInput

javax.swing.JTextField defaultBlueInput

DOCUMENT ME!

defaultGreenInput

javax.swing.JTextField defaultGreenInput

DOCUMENT ME!

defaultRedInput

javax.swing.JTextField defaultRedInput

DOCUMENT ME!

doOrients

boolean doOrients

DOCUMENT ME!

doOrigins

boolean doOrigins

DOCUMENT ME!

image

ModelImage image

Source image.

imageChooser

javax.swing.JComboBox imageChooser

DOCUMENT ME!

importImage

ModelImage importImage

image taken from the frame to be imported:.

importLUT

ModelLUT importLUT

importRGB

ModelRGB importRGB

loadType

int loadType

are we loading from frame, file, or blank.

matchOrients

javax.swing.JCheckBox matchOrients

DOCUMENT ME!

matchOrigins

javax.swing.JCheckBox matchOrigins

DOCUMENT ME!

picListingPanel

javax.swing.JPanel picListingPanel

DOCUMENT ME!

radioBool

javax.swing.JRadioButton radioBool

DOCUMENT ME!

radioByte

javax.swing.JRadioButton radioByte

DOCUMENT ME!

radioDouble

javax.swing.JRadioButton radioDouble

DOCUMENT ME!

radioFloat

javax.swing.JRadioButton radioFloat

DOCUMENT ME!

radioInt

javax.swing.JRadioButton radioInt

DOCUMENT ME!

radioLong

javax.swing.JRadioButton radioLong

DOCUMENT ME!

radioShort

javax.swing.JRadioButton radioShort

DOCUMENT ME!

radioUByte

javax.swing.JRadioButton radioUByte

DOCUMENT ME!

radioUInt

javax.swing.JRadioButton radioUInt

DOCUMENT ME!

radioUShort

javax.swing.JRadioButton radioUShort

DOCUMENT ME!

resultImage

ModelImage resultImage

a cloned version of importImage that will be inserted into the source images's B slot.

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogLoadImageForRegistration extends JDialogBase implements Serializable

serialVersionUID:

3843075015237096037L

Serialized Fields

browseButton

javax.swing.JButton browseButton

DOCUMENT ME!

directory

java.lang.String directory

DOCUMENT ME!

fileButton

javax.swing.JRadioButton fileButton

DOCUMENT ME!

fileName

java.lang.String fileName

DOCUMENT ME!

fileTFld

javax.swing.JTextField fileTFld

DOCUMENT ME!

frameButton

javax.swing.JRadioButton frameButton

DOCUMENT ME!

imageA

ModelImage imageA

DOCUMENT ME!

imageChooser

javax.swing.JComboBox imageChooser

DOCUMENT ME!

importImage

ModelImage importImage

image taken from the frame to be imported:.

isFrame

boolean isFrame

DOCUMENT ME!

LUTb

ModelLUT LUTb

DOCUMENT ME!

masterImage

ViewJFrameImage masterImage

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogLoadLeica extends JDialogBase implements Serializable

serialVersionUID:

5662541302525039992L

Serialized Fields

headerFile

java.io.File headerFile

DOCUMENT ME!

scrollPane

javax.swing.JScrollPane scrollPane

DOCUMENT ME!

seriesList

javax.swing.JList seriesList

DOCUMENT ME!

successful

boolean successful

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogLoadLeica.LeicaSeries extends javax.swing.JComponent implements Serializable

serialVersionUID:

1101169071873919736L

Serialized Fields

channels

int[] channels

DOCUMENT ME!

description

java.lang.String description

DOCUMENT ME!

extents

int[] extents

DOCUMENT ME!

fileNames

java.util.Vector<java.lang.String> fileNames

DOCUMENT ME!

numImages

int numImages

DOCUMENT ME!

resolutions

float[] resolutions

DOCUMENT ME!

seriesName

java.lang.String seriesName

DOCUMENT ME!

units

int[] units

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogLocalNormalization extends JDialogScriptableBase implements Serializable

serialVersionUID:

4460969182116331919L

Serialized Fields

algoLocal

AlgorithmLocalNormalization algoLocal

DOCUMENT ME!

blurringDiameter

int blurringDiameter

DOCUMENT ME!

blurringDiameterText

javax.swing.JTextField blurringDiameterText

DOCUMENT ME!

blurringFreq

float blurringFreq

user-selectable variables used in the FFT-blurring operation used as interim variables in starting the algorithm op.

blurringFreqText

javax.swing.JTextField blurringFreqText

DOCUMENT ME!

colorPanel

JPanelColorChannels colorPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

errorComponent

javax.swing.JTextField errorComponent

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

sourceImage

ModelImage sourceImage

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

unsharp

float[] unsharp

user-selectable variables used in the unsharping operation. used as interim variables in starting the algorithm op.

unsharpWeight

double unsharpWeight

DOCUMENT ME!

unsharpWeightText

javax.swing.JTextField unsharpWeightText

DOCUMENT ME!

unsharpXtext

javax.swing.JTextField unsharpXtext

DOCUMENT ME!

unsharpYtext

javax.swing.JTextField unsharpYtext

DOCUMENT ME!

unsharpZtext

javax.swing.JTextField unsharpZtext

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogLocalVariance extends JDialogScriptableBase implements Serializable

Serialized Fields

bySlice

javax.swing.JRadioButton bySlice

DOCUMENT ME!

comboBoxKernelSize

javax.swing.JComboBox comboBoxKernelSize

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

image25D

boolean image25D

false = apply algorithm only to VOI regions.

kernelSize

int kernelSize

DOCUMENT ME!

outputPanel

JPanelAlgorithmOutputOptions outputPanel

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

varAlgo

AlgorithmLocalVariance varAlgo

DOCUMENT ME!

wholeVolume

javax.swing.JRadioButton wholeVolume

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogLogSlopeMapping extends JDialogScriptableBase implements Serializable

Serialized Fields

addImageBrowseButton

javax.swing.JButton addImageBrowseButton

browse button

additionalImagesLabel

javax.swing.JLabel additionalImagesLabel

label for browsing for additional images

alg

AlgorithmLogSlopeMapping alg

handle to algorithm

displayLoc

int displayLoc

result image in new frame

imageA

ModelImage imageA

source image.

imagesAdded

int imagesAdded

isColor

boolean isColor

is color boolean

isMultifile

boolean isMultifile

boolean isMultifile

removeSelectedButton

javax.swing.JButton removeSelectedButton

remove button

removeSelectedImagesLabel

javax.swing.JLabel removeSelectedImagesLabel

label for removing selected images

resultImage

ModelImage resultImage

result image

selectedRows

int[] selectedRows

indices of selcted rows to remove

srcImagesList

java.util.ArrayList<ModelImage> srcImagesList

list of images to send to algorithm

srcImagesTable

javax.swing.JTable srcImagesTable

table to display the src image names.

srcTableModel

ViewTableModel srcTableModel

table model for the srcimages.

xValue

double xValue

xValueButton

javax.swing.JButton xValueButton

xValuesAdded

int xValuesAdded

xValuesList

java.util.ArrayList<java.lang.Double> xValuesList

list of x values to send to algorithm

xValueText

javax.swing.JTextField xValueText

Class gov.nih.mipav.view.dialogs.JDialogLowerCompletion extends JDialogScriptableBase implements Serializable

Serialized Fields

binCheckBox

javax.swing.JCheckBox binCheckBox

binNumber

int binNumber

eightButton

javax.swing.JRadioButton eightButton

eighteenButton

javax.swing.JRadioButton eighteenButton

fourButton

javax.swing.JRadioButton fourButton

image

ModelImage image

DOCUMENT ME!

labelBins

javax.swing.JLabel labelBins

lcAlgo

AlgorithmLowerCompletion lcAlgo

DOCUMENT ME!

limitBins

boolean limitBins

neighborGroup

javax.swing.ButtonGroup neighborGroup

neighborPanel

javax.swing.JPanel neighborPanel

DOCUMENT ME!

numNeighbor

int numNeighbor

resultImage

ModelImage resultImage

DOCUMENT ME!

sixButton

javax.swing.JRadioButton sixButton

textBins

javax.swing.JTextField textBins

twentySixButton

javax.swing.JRadioButton twentySixButton

Class gov.nih.mipav.view.dialogs.JDialogLuminanceAdaptation extends JDialogScriptableBase implements Serializable

Serialized Fields

alpha

double alpha

image

ModelImage image

DOCUMENT ME!

luminanceAdaptationAlgo

AlgorithmLuminanceAdaptation luminanceAdaptationAlgo

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

sigma1

double sigma1

sigma2

double sigma2

DOCUMENT ME!

sigma3

double sigma3

textAlpha

javax.swing.JTextField textAlpha

textScale1

javax.swing.JTextField textScale1

textScale2

javax.swing.JTextField textScale2

DOCUMENT ME!

textScale3

javax.swing.JTextField textScale3

Class gov.nih.mipav.view.dialogs.JDialogMagnificationControls extends JDialogZoom implements Serializable

serialVersionUID:

2838490243455666340L

Serialized Fields

boxHeight

int boxHeight

Width and height of zoom box

boxWidth

int boxWidth

Width and height of zoom box

circleButton

javax.swing.JRadioButton circleButton

Buttons for selecting magnifying shape.

heightButton

javax.swing.JButton heightButton

Buttons for width, height values

heightText

javax.swing.JTextField heightText

Text fields for zoom box

radius

int radius

Radius of zoom circle

radiusButton

javax.swing.JButton radiusButton

Button for setting radius value.

radiusText

javax.swing.JTextField radiusText

Text fields for zoom circle.

squareButton

javax.swing.JRadioButton squareButton

Buttons for selecting magnifying shape.

widthButton

javax.swing.JButton widthButton

Buttons for width, height values

widthText

javax.swing.JTextField widthText

Text fields for zoom box

Class gov.nih.mipav.view.dialogs.JDialogMarkovSegment extends JDialogScriptableBase implements Serializable

Serialized Fields

class_number

int class_number

Use serialVersionUID for interoperability.

image

ModelImage image

DOCUMENT ME!

iterations

int iterations

labelClassNumber

javax.swing.JLabel labelClassNumber

DOCUMENT ME!

labelIterations

javax.swing.JLabel labelIterations

labelPotential

javax.swing.JLabel labelPotential

DOCUMENT ME!

msAlgo

AlgorithmMarkovSegment msAlgo

DOCUMENT ME!

optionsPanel

javax.swing.JPanel optionsPanel

DOCUMENT ME!

potential

double potential

resultImage

ModelImage resultImage

DOCUMENT ME!

textClassNumber

javax.swing.JTextField textClassNumber

DOCUMENT ME!

textIterations

javax.swing.JTextField textIterations

textPotential

javax.swing.JTextField textPotential

Class gov.nih.mipav.view.dialogs.JDialogMarkovSmooth extends JDialogScriptableBase implements Serializable

Serialized Fields

covariance

double covariance

The known covariance of the Gaussian noise

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

iterations

int iterations

The number of iterations to perform

labelCovariance

javax.swing.JLabel labelCovariance

DOCUMENT ME!

labelIterations

javax.swing.JLabel labelIterations

labelMaxDiff

javax.swing.JLabel labelMaxDiff

DOCUMENT ME!

labelWeightDiff

javax.swing.JLabel labelWeightDiff

max_diff

double max_diff

The maximum contribution to the potential of the difference between two neighboring pixel values.

msAlgo

AlgorithmMarkovSmooth msAlgo

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

optionsPanel

javax.swing.JPanel optionsPanel

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textCovariance

javax.swing.JTextField textCovariance

DOCUMENT ME!

textIterations

javax.swing.JTextField textIterations

textMaxDiff

javax.swing.JTextField textMaxDiff

textWeightDiff

javax.swing.JTextField textWeightDiff

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

weight_diff

double weight_diff

The weighting attached to the component of the potential due to the difference between two neighboring pixel values.

Class gov.nih.mipav.view.dialogs.JDialogMask extends JDialogScriptableBase implements Serializable

serialVersionUID:

7339956453691640420L

Serialized Fields

displayLoc

int displayLoc

DOCUMENT ME!

exteriorFill

javax.swing.JRadioButton exteriorFill

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

interiorFill

javax.swing.JRadioButton interiorFill

DOCUMENT ME!

maskAlgo

AlgorithmMask maskAlgo

DOCUMENT ME!

max

double max

DOCUMENT ME!

min

double min

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

polarity

boolean polarity

or if the source image is to be replaced.

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textValue

javax.swing.JTextField textValue

DOCUMENT ME!

textValueB

javax.swing.JTextField textValueB

DOCUMENT ME!

textValueG

javax.swing.JTextField textValueG

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

useVOI

boolean useVOI

value

float value

DOCUMENT ME!

valueB

float valueB

DOCUMENT ME!

valueG

float valueG

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogMask3D4D extends JDialogBase implements Serializable

serialVersionUID:

7339956453691640420L

Serialized Fields

fourD

javax.swing.JRadioButton fourD

Radio button indicating that the image should be masked in 4D

saveMasksAs4D

boolean saveMasksAs4D

threeD

javax.swing.JRadioButton threeD

Radio button indicating that the image should only be masked in 3D

Class gov.nih.mipav.view.dialogs.JDialogMatchImages extends JDialogScriptableBase implements Serializable

serialVersionUID:

-4508090288311270016L

Serialized Fields

checkDimensions

javax.swing.JCheckBox checkDimensions

DOCUMENT ME!

checkOrigins

javax.swing.JCheckBox checkOrigins

DOCUMENT ME!

comboBoxImageA

javax.swing.JComboBox comboBoxImageA

DOCUMENT ME!

comboBoxImageB

javax.swing.JComboBox comboBoxImageB

DOCUMENT ME!

doDimensions

boolean doDimensions

DOCUMENT ME!

doOrigins

boolean doOrigins

DOCUMENT ME!

imageA

ModelImage imageA

DOCUMENT ME!

imageB

ModelImage imageB

DOCUMENT ME!

matchAlgo

AlgorithmMatchImages matchAlgo

DOCUMENT ME!

padValTxt

javax.swing.JTextField padValTxt

DOCUMENT ME!

padValue

int padValue

DOCUMENT ME!

resultImageA

ModelImage resultImageA

DOCUMENT ME!

resultImageB

ModelImage resultImageB

DOCUMENT ME!

selectedNameA

java.lang.String selectedNameA

DOCUMENT ME!

selectedNameB

java.lang.String selectedNameB

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogMaximumIntensityProjection extends JDialogScriptableBase implements Serializable

serialVersionUID:

-586175799570928868L

Serialized Fields

cachedTab

int cachedTab

Cached value of selected tab

cFactor

int cFactor

Used for construction of the preview.

dim

int dim

Used for construction of the preview.

doPreview

boolean doPreview

Whether preview mode is turned on.

endSlice

int[] endSlice

Value of the end slice for the calculation (X,Y,Z).

extents

int[] extents

Image extents.

image

ModelImage image

Source Image.

index

int index

Used for construction of the preview.

maximum

boolean[] maximum

When true, calculate the maximum (X,Y,Z) slices.

maximumCheck

javax.swing.JCheckBox[] maximumCheck

CheckBox turns on/off calculating the maximum projection.

maxInput

javax.swing.JTextField[] maxInput

JTextfield for maximum value of threshold.

maxInputB

javax.swing.JTextField[] maxInputB

JTextfield for maximum Blue value of threshold.

maxInputG

javax.swing.JTextField[] maxInputG

JTextfield for maximum Green value of threshold.

maxInputR

javax.swing.JTextField[] maxInputR

JTextfield for maximum Red value of threshold.

maxIntensity

float[] maxIntensity

Maximum intensity threshold.

maxIntensityB

float[] maxIntensityB

Maximum Blue intensity threshold.

maxIntensityG

float[] maxIntensityG

Maximum Green intensity threshold.

maxIntensityR

float[] maxIntensityR

Maximum Red intensity threshold.

maxSlicePreview

ModelImage maxSlicePreview

Single slice preview images

maxSliceWindow

ViewJFrameImage maxSliceWindow

Windows containing preview images

minimum

boolean[] minimum

When true, calculate the minimum (X,Y,Z) slices.

minimumCheck

javax.swing.JCheckBox[] minimumCheck

CheckBox turns on/off calculating the minimum projection.

minInput

javax.swing.JTextField[] minInput

JTextfield for minimum value of threshold.

minInputB

javax.swing.JTextField[] minInputB

JTextfield for minimum Blue value of threshold.

minInputG

javax.swing.JTextField[] minInputG

JTextfield for minimum Green value of threshold.

minInputR

javax.swing.JTextField[] minInputR

JTextfield for minimum Red value of threshold.

minIntensity

float[] minIntensity

Minimum intensity threshold.

minIntensityB

float[] minIntensityB

Minimum Blue intensity threshold.

minIntensityG

float[] minIntensityG

Minimum Green intensity threshold.

minIntensityR

float[] minIntensityR

Minimum Red intensity threshold.

minSlicePreview

ModelImage minSlicePreview

Single slice preview images

minSliceWindow

ViewJFrameImage minSliceWindow

Windows containing preview images

nDims

int nDims

Image dimension, must be 3.

projection

boolean[] projection

When true output the X,Y,Z projections.

slice

int slice

Current slice of image

sliceLoc

int sliceLoc

Used for construction of the preview.

sliceSize

int sliceSize

Used for construction of the preview.

startInput

javax.swing.JTextField[] startInput

JTextfield for start slice of the computation.

startSlice

int[] startSlice

Value of the start slice for the calculation (X,Y,Z).

stopInput

javax.swing.JTextField[] stopInput

JTextfield for end slice of the computation.

tabbedPane

javax.swing.JTabbedPane tabbedPane

The tabbed pane that holds each dimension

window

int[] window

Value of the window size for the calculation (X,Y,Z).

windowLabel

javax.swing.JLabel[] windowLabel

Label displays the number of slices in the sliding window.

windowSlider

ViewJSlider[] windowSlider

Slider enables user to change the size of the sliding window.

Class gov.nih.mipav.view.dialogs.JDialogMaximumLikelihoodIteratedBlindDeconvolution extends JDialogScriptableBase implements Serializable

serialVersionUID:

7390265931793649147L

Serialized Fields

dim

int dim

Number of dimensions in an image e.g 2D, 3D

doResample

boolean doResample

The boolean value to determine whether to resample the original image or not.

extents

int[] extents

The extents of original image

ibdAlgor

AlgorithmMaximumLikelihoodIteratedBlindDeconvolution ibdAlgor

The MaximumLikelihood Blind Deconvolution algorithm:

newExtents

int[] newExtents

The extents of transformed (to the power of 2) image

numberIterations

int numberIterations

The number of iterations for calculating the deconvolution:

objectiveNumericalAperature

float objectiveNumericalAperature

The object numerical aperature, a property of the lens used to image the sample:

originalImage

ModelImage originalImage

The original data image to be reconstructed:

refractiveIndex

float refractiveIndex

The index of refraction of the sample:

showProgress

int showProgress

Display the deconvolved image every X images to show progress:

textExpectedExtentX

javax.swing.JTextField textExpectedExtentX

User-Interface for entering the expected extent X

textExpectedExtentY

javax.swing.JTextField textExpectedExtentY

User-Interface for entering the expected extent Y

textExpectedExtentZ

javax.swing.JTextField textExpectedExtentZ

User-Interface for entering the expected extent Z

textNumberIterations

javax.swing.JTextField textNumberIterations

User-Interface for entering the number of deconvolution iterations:

textObjectiveNumericalAperature

javax.swing.JTextField textObjectiveNumericalAperature

User-Interface for entering the objective numerical aperature:

textOriginalExtentX

javax.swing.JTextField textOriginalExtentX

User-Interface for displaying the original extent X

textOriginalExtentY

javax.swing.JTextField textOriginalExtentY

User-Interface for displaying the original extent Y

textOriginalExtentZ

javax.swing.JTextField textOriginalExtentZ

User-Interface for displaying the original extent Z

textRefractiveIndex

javax.swing.JTextField textRefractiveIndex

User-Interface for entering the index of refraction:

textShowProgress

javax.swing.JTextField textShowProgress

User-Interface for entering the number of intermediate images to show:

textWavelength

javax.swing.JTextField textWavelength

User-Interface for entering the sample wavelength:

useMicroscopeSettings

boolean useMicroscopeSettings

When true the lens NA, wavelength, and refractive index are used in the deconvolution process

wavelength

float wavelength

The reflected or fluorescence wavelength of the sample:

Class gov.nih.mipav.view.dialogs.JDialogMean extends JDialogScriptableBase implements Serializable

serialVersionUID:

-5373013772234532691L

Serialized Fields

adaptiveVectorButton

javax.swing.JRadioButton adaptiveVectorButton

DOCUMENT ME!

blue

boolean blue

DOCUMENT ME!

blueChannel

javax.swing.JCheckBox blueChannel

DOCUMENT ME!

blueLabel

javax.swing.JLabel blueLabel

DOCUMENT ME!

blueText

javax.swing.JTextField blueText

DOCUMENT ME!

blueVector

long blueVector

DOCUMENT ME!

bySlice

javax.swing.JRadioButton bySlice

DOCUMENT ME!

comboBoxKernelSize

javax.swing.JComboBox comboBoxKernelSize

DOCUMENT ME!

filterType

int filterType

DOCUMENT ME!

green

boolean green

DOCUMENT ME!

greenChannel

javax.swing.JCheckBox greenChannel

DOCUMENT ME!

greenLabel

javax.swing.JLabel greenLabel

DOCUMENT ME!

greenText

javax.swing.JTextField greenText

DOCUMENT ME!

greenVector

long greenVector

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

image25D

boolean image25D

false = apply algorithm only to VOI regions.

kernelSize

int kernelSize

DOCUMENT ME!

meanAlgo

AlgorithmMean meanAlgo

DOCUMENT ME!

outputPanel

JPanelAlgorithmOutputOptions outputPanel

DOCUMENT ME!

parallelVectorButton

javax.swing.JRadioButton parallelVectorButton

DOCUMENT ME!

red

boolean red

DOCUMENT ME!

redChannel

javax.swing.JCheckBox redChannel

DOCUMENT ME!

redLabel

javax.swing.JLabel redLabel

DOCUMENT ME!

redText

javax.swing.JTextField redText

DOCUMENT ME!

redVector

long redVector

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

separateButton

javax.swing.JRadioButton separateButton

DOCUMENT ME!

separateVectorGroup

javax.swing.ButtonGroup separateVectorGroup

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

wholeVolume

javax.swing.JRadioButton wholeVolume

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogMeanShiftClustering extends JDialogScriptableBase implements Serializable

Serialized Fields

alg

AlgorithmMeanShiftClustering alg

handle to algorithm

buttonImage

javax.swing.JButton buttonImage

buttonPointsFile

javax.swing.JButton buttonPointsFile

chooseGroup

javax.swing.ButtonGroup chooseGroup

choosePoints

int choosePoints

data_file_name

java.lang.String data_file_name

epsilon

float epsilon

epsilonLabel

javax.swing.JLabel epsilonLabel

epsilonText

javax.swing.JTextField epsilonText

everyButton

javax.swing.JRadioButton everyButton

FAMS_DO_SPEEDUP

boolean FAMS_DO_SPEEDUP

filePoints

java.io.File filePoints

findOptimalKL

boolean findOptimalKL

fixedCheckBox

javax.swing.JCheckBox fixedCheckBox

fixedWidth

boolean fixedWidth

havePoints

boolean havePoints

image

ModelImage image

source image.

imageList

javax.swing.JComboBox imageList

input_directory

java.lang.String input_directory

jump

int jump

jumpButton

javax.swing.JRadioButton jumpButton

jumpLabel

javax.swing.JLabel jumpLabel

jumpText

javax.swing.JTextField jumpText

K

int K

k_neigh

int k_neigh

Kjump

int Kjump

KjumpLabel

javax.swing.JLabel KjumpLabel

KjumpText

javax.swing.JTextField KjumpText

Kmin

int Kmin

KminLabel

javax.swing.JLabel KminLabel

KminText

javax.swing.JTextField KminText

KText

javax.swing.JTextField KText

L

int L

LText

javax.swing.JTextField LText

modesImage

ModelImage modesImage

nDims

int nDims

neighborText

javax.swing.JTextField neighborText

nPoints

int nPoints

optimal1Label

javax.swing.JLabel optimal1Label

optimal2Label

javax.swing.JLabel optimal2Label

optimalCheckBox

javax.swing.JCheckBox optimalCheckBox

percent

double percent

percentButton

javax.swing.JRadioButton percentButton

percentLabel

javax.swing.JLabel percentLabel

percentText

javax.swing.JTextField percentText

prunedModesImage

ModelImage prunedModesImage

pttemp

float[] pttemp

resultImage

ModelImage resultImage

result image

speedupCheckBox

javax.swing.JCheckBox speedupCheckBox

textImage

javax.swing.JTextField textImage

textPointsFile

javax.swing.JTextField textPointsFile

width

float width

widthLabel

javax.swing.JLabel widthLabel

widthText

javax.swing.JTextField widthText

Class gov.nih.mipav.view.dialogs.JDialogMeanShiftSegmentation extends JDialogScriptableBase implements Serializable

Serialized Fields

boundariesCheckBox

javax.swing.JCheckBox boundariesCheckBox

boundariesImage

ModelImage boundariesImage

createBoundariesImage

boolean createBoundariesImage

createFilteredImage

boolean createFilteredImage

displayLoc

int displayLoc

filterCheckBox

javax.swing.JCheckBox filterCheckBox

filteredImage

ModelImage filteredImage

highSpeedUpButton

javax.swing.JRadioButton highSpeedUpButton

image

ModelImage image

isRangeUniform

boolean isRangeUniform

isSpatialUniform

boolean isSpatialUniform

measureTime

boolean measureTime

measureTimeCheckBox

javax.swing.JCheckBox measureTimeCheckBox

mediumSpeedUpButton

javax.swing.JRadioButton mediumSpeedUpButton

minRegion

int minRegion

minRegionText

javax.swing.JTextField minRegionText

msAlgo

AlgorithmMeanShiftSegmentation msAlgo

newImage

javax.swing.JRadioButton newImage

noSpeedUpButton

javax.swing.JRadioButton noSpeedUpButton

rangeBandwidth

float rangeBandwidth

rangeGaussianButton

javax.swing.JRadioButton rangeGaussianButton

rangeGroup

javax.swing.ButtonGroup rangeGroup

rangeKernelType

AlgorithmMeanShiftSegmentation.kernelType rangeKernelType

rangeText

javax.swing.JTextField rangeText

rangeUniformButton

javax.swing.JRadioButton rangeUniformButton

replaceImage

javax.swing.JRadioButton replaceImage

resultImage

ModelImage resultImage

spatialBandwidth

float spatialBandwidth

spatialGaussianButton

javax.swing.JRadioButton spatialGaussianButton

spatialGroup

javax.swing.ButtonGroup spatialGroup

spatialKernelType

AlgorithmMeanShiftSegmentation.kernelType spatialKernelType

spatialText

javax.swing.JTextField spatialText

spatialUniformButton

javax.swing.JRadioButton spatialUniformButton

speedInt

int speedInt

speedThreshold

double speedThreshold

speedThresholdLabel

javax.swing.JLabel speedThresholdLabel

speedThresholdText

javax.swing.JTextField speedThresholdText

speedUpGroup

javax.swing.ButtonGroup speedUpGroup

speedUpLevel

AlgorithmMeanShiftSegmentation.SpeedUpLevel speedUpLevel

titles

java.lang.String[] titles

userInterface

ViewUserInterface userInterface

weightMap

double[] weightMap

weightMapDefined

boolean weightMapDefined

Class gov.nih.mipav.view.dialogs.JDialogMedian extends JDialogScriptableBase implements Serializable

serialVersionUID:

-7749097890204237664L

Serialized Fields

adaptiveButton

javax.swing.JRadioButton adaptiveButton

ATVMFButton

javax.swing.JRadioButton ATVMFButton

blue

boolean blue

DOCUMENT ME!

blueChannel

javax.swing.JCheckBox blueChannel

DOCUMENT ME!

bySlice

javax.swing.JRadioButton bySlice

DOCUMENT ME!

colorFilterType

int colorFilterType

DOCUMENT ME!

comboBoxKernelShape

javax.swing.JComboBox comboBoxKernelShape

DOCUMENT ME!

comboBoxKernelSize

javax.swing.JComboBox comboBoxKernelSize

DOCUMENT ME!

comboBoxMaximumSize

javax.swing.JComboBox comboBoxMaximumSize

DOCUMENT ME!

componentButton

javax.swing.JRadioButton componentButton

DOCUMENT ME!

delta

float delta

filterType

int filterType

fuzzyTruncatedButton

javax.swing.JRadioButton fuzzyTruncatedButton

green

boolean green

DOCUMENT ME!

greenChannel

javax.swing.JCheckBox greenChannel

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

image25D

boolean image25D

false = apply algorithm only to VOI regions.

iters

int iters

DOCUMENT ME!

kernelShape

int kernelShape

DOCUMENT ME!

kernelSize

int kernelSize

DOCUMENT ME!

labelDelta

javax.swing.JLabel labelDelta

labelMaximumSize

javax.swing.JLabel labelMaximumSize

DOCUMENT ME!

labelSTDDeviation

javax.swing.JLabel labelSTDDeviation

DOCUMENT ME!

maximumSize

int maximumSize

DOCUMENT ME!

medianAlgo

AlgorithmMedian medianAlgo

DOCUMENT ME!

outputPanel

JPanelAlgorithmOutputOptions outputPanel

DOCUMENT ME!

red

boolean red

DOCUMENT ME!

redChannel

javax.swing.JCheckBox redChannel

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

standardButton

javax.swing.JRadioButton standardButton

stdDev

float stdDev

DOCUMENT ME!

textDelta

javax.swing.JTextField textDelta

textNIter

javax.swing.JTextField textNIter

DOCUMENT ME!

textSTDDeviation

javax.swing.JTextField textSTDDeviation

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

truncatedButton

javax.swing.JRadioButton truncatedButton

typeGroup

javax.swing.ButtonGroup typeGroup

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

vectorDirectionButton

javax.swing.JRadioButton vectorDirectionButton

DOCUMENT ME!

vectorGroup

javax.swing.ButtonGroup vectorGroup

DOCUMENT ME!

vectorMagnitudeButton

javax.swing.JRadioButton vectorMagnitudeButton

DOCUMENT ME!

wholeVolume

javax.swing.JRadioButton wholeVolume

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogMemoryAllocation extends JDialogBase implements Serializable

serialVersionUID:

-1470759041555523857L

Serialized Fields

maxHeapText

javax.swing.JTextField maxHeapText

DOCUMENT ME!

startupFile

java.io.File startupFile

Contains all java properties of the MIPAV app (used at least when loading!)

usePreferencesButton

javax.swing.JButton usePreferencesButton

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogMetaImageChoice extends JDialogBase implements Serializable

Serialized Fields

okayPressed

boolean okayPressed

DOCUMENT ME!

oneFile

javax.swing.JRadioButton oneFile

DOCUMENT ME!

twoFiles

javax.swing.JRadioButton twoFiles

DOCUMENT ME!

writeGroup

javax.swing.ButtonGroup writeGroup

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogMidsagittal extends JDialogScriptableBase implements Serializable

serialVersionUID:

-2594860465921132823L

Serialized Fields

alignAlgo

AlgorithmMidsagittal alignAlgo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogMipavOptions extends JDialogBase implements Serializable

serialVersionUID:

6756915900242085699L

Serialized Fields

absoluteWindowLevelButton

javax.swing.JRadioButton absoluteWindowLevelButton

activeColor

javax.swing.JButton activeColor

DOCUMENT ME!

activeImageColorBorderSize

javax.swing.JComboBox activeImageColorBorderSize

border size for active image color

checkOnFrameClose

javax.swing.JCheckBox checkOnFrameClose

DOCUMENT ME!

colorChooser

javax.swing.JColorChooser colorChooser

DOCUMENT ME!

comboBoxSaveImgMethod

javax.swing.JComboBox comboBoxSaveImgMethod

Whether to save .img files as selected by dialog or always as analyze, interfile, or nifti.

comboBoxSaveMncMethod

javax.swing.JComboBox comboBoxSaveMncMethod

Whether to save .mnc files as selected by dialog or always as minc1 or minc2.

complexDisplayChoices

javax.swing.JComboBox complexDisplayChoices

The available choices for displaying the numerical values of complex data

continuousVOIBox

javax.swing.JCheckBox continuousVOIBox

crosshairChoices

javax.swing.JComboBox crosshairChoices

DOCUMENT ME!

crosshairNames

java.lang.String[] crosshairNames

DOCUMENT ME!

debugAlgorithmBox

javax.swing.JComboBox debugAlgorithmBox

Box to select logging level for Algorithm category

debugCommsBox

javax.swing.JComboBox debugCommsBox

Box to select logging level for Comms category

debugFileIOBox

javax.swing.JComboBox debugFileIOBox

Box to select logging level for FileIO category

debugMinorBox

javax.swing.JComboBox debugMinorBox

Box to select logging level for Minor category

debugScriptingBox

javax.swing.JComboBox debugScriptingBox

Box to select logging level for Scripting category

defaultDisplayChoices

javax.swing.JComboBox defaultDisplayChoices

Available choices for displaying brightness/color display correlations for pixel values.

dicomCatcher

javax.swing.JCheckBox dicomCatcher

DOCUMENT ME!

dicomReceiverOnStart

javax.swing.JCheckBox dicomReceiverOnStart

Dicom Receiver check box

displayColorPanel

javax.swing.JPanel displayColorPanel

DOCUMENT ME!

displayHistogram

javax.swing.JCheckBox displayHistogram

Whether images are updated in real-time based on histogram changes.

displayImagePanel

javax.swing.JPanel displayImagePanel

Gives user choices for displaying complex images.

displayLogMag

javax.swing.JCheckBox displayLogMag

The check box to indicate whether images are displayed using the log of their magnitude

displayLUT

javax.swing.JCheckBox displayLUT

Whether to auto-display lut associated with file.

displayPanel

javax.swing.JPanel displayPanel

MIPAV global options private JPanel globalChangesPanel;.

displaySplash

javax.swing.JCheckBox displaySplash

DOCUMENT ME!

displayUserInterfacePanel

javax.swing.JPanel displayUserInterfacePanel

DOCUMENT ME!

doIntensityOnLeftBox

javax.swing.JCheckBox doIntensityOnLeftBox

Check boxes for whether right and left mouse clicks produce default actions.

doWinLevOnRightBox

javax.swing.JCheckBox doWinLevOnRightBox

Check boxes for whether right and left mouse clicks produce default actions.

editUserDefButton

javax.swing.JButton editUserDefButton

Button to lasunch the Edit User Defined File Types Dialog

enableLoggingBox

javax.swing.JCheckBox enableLoggingBox

DOCUMENT ME!

fileFilter

int fileFilter

DOCUMENT ME!

fileMiscPanel

javax.swing.JPanel fileMiscPanel

DOCUMENT ME!

filePanel

javax.swing.JPanel filePanel

DOCUMENT ME!

fileSavePanel

javax.swing.JPanel fileSavePanel

DOCUMENT ME!

fileTempDirBrowseButton

javax.swing.JButton fileTempDirBrowseButton

fileTempDirField

javax.swing.JTextField fileTempDirField

filterButton

javax.swing.JButton filterButton

DOCUMENT ME!

flipNIFTIReadCheckBox

javax.swing.JCheckBox flipNIFTIReadCheckBox

fontChooser

javax.swing.JComboBox fontChooser

DOCUMENT ME!

fontNames

java.lang.String[] fontNames

DOCUMENT ME!

fontSizeField

javax.swing.JTextField fontSizeField

DOCUMENT ME!

frameRateField

javax.swing.JTextField frameRateField

DOCUMENT ME!

gpuCompEnabledCheckBox

javax.swing.JCheckBox gpuCompEnabledCheckBox

GPU computing enabled check box

gpuInfoButton

javax.swing.JButton gpuInfoButton

DOCUMENT ME!

histoForceUBYTE

javax.swing.JCheckBox histoForceUBYTE

imageChooser

javax.swing.JComboBox imageChooser

DOCUMENT ME!

intensityLabelBackgroundButton

javax.swing.JButton intensityLabelBackgroundButton

DOCUMENT ME!

intensityLabelBackgroundColor

java.awt.Color intensityLabelBackgroundColor

DOCUMENT ME!

intensityLabelColor

java.awt.Color intensityLabelColor

DOCUMENT ME!

intensityLabelColorButton

javax.swing.JButton intensityLabelColorButton

DOCUMENT ME!

interpolateDisplayChoices

javax.swing.JComboBox interpolateDisplayChoices

Available options for image interpolation

labels

javax.swing.JLabel[] labels

DOCUMENT ME!

lfDisplayChoices

javax.swing.JComboBox lfDisplayChoices

Look and feel choices.

logFileButton

javax.swing.JButton logFileButton

DOCUMENT ME!

logFilename

java.lang.String logFilename

DOCUMENT ME!

maxDebugLineField

javax.swing.JTextField maxDebugLineField

multiThreadingEnabledCheckBox

javax.swing.JCheckBox multiThreadingEnabledCheckBox

Multi-Threading Enabled Check Box

openImagesInTiledFormatBox

javax.swing.JCheckBox openImagesInTiledFormatBox

opens images in tiled format

otherPanel

javax.swing.JPanel otherPanel

DOCUMENT ME!

performHeapMaxCheck

javax.swing.JCheckBox performHeapMaxCheck

DOCUMENT ME!

pointVOIChoices

javax.swing.JComboBox pointVOIChoices

DOCUMENT ME!

preferredActiveColor

java.awt.Color preferredActiveColor

DOCUMENT ME!

preferredCrosshair

java.lang.String preferredCrosshair

DOCUMENT ME!

provenanceCheckBox

javax.swing.JCheckBox provenanceCheckBox

DOCUMENT ME!

provenanceFileButton

javax.swing.JButton provenanceFileButton

provenanceFilename

java.lang.String provenanceFilename

provenanceImageCheckBox

javax.swing.JCheckBox provenanceImageCheckBox

quickListLevel

javax.swing.JComboBox quickListLevel

DOCUMENT ME!

relativeWindowLevelButton

javax.swing.JRadioButton relativeWindowLevelButton

resetButton

javax.swing.JButton resetButton

Button used to reset all preferences to default state.

saveAllCheckBox

javax.swing.JCheckBox saveAllCheckBox

DOCUMENT ME!

saveDefaultsCheckBox

javax.swing.JCheckBox saveDefaultsCheckBox

DOCUMENT ME!

saveLabel

javax.swing.JLabel saveLabel

Label before comboBoxSaveMethod

savePromptOverwriteBox

javax.swing.JCheckBox savePromptOverwriteBox

DOCUMENT ME!

saveThumbnailCheckBox

javax.swing.JCheckBox saveThumbnailCheckBox

DOCUMENT ME!

saveVOILPSButton

javax.swing.JRadioButton saveVOILPSButton

saveVOIVoxelButton

javax.swing.JRadioButton saveVOIVoxelButton

showLineVOIAngleBox

javax.swing.JCheckBox showLineVOIAngleBox

DOCUMENT ME!

showOutputWindow

javax.swing.JCheckBox showOutputWindow

DOCUMENT ME!

tabbedPane

javax.swing.JTabbedPane tabbedPane

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

ui must be set to access the list of images to set image-specfic options (ie,. log mode)

voiColorChoices

javax.swing.JComboBox voiColorChoices

DOCUMENT ME!

voiColorNames

java.lang.String[] voiColorNames

DOCUMENT ME!

voiColors

java.awt.Color[] voiColors

DOCUMENT ME!

voiDrawButton

javax.swing.JButton voiDrawButton

DOCUMENT ME!

voiDrawColor

java.awt.Color voiDrawColor

DOCUMENT ME!

VOIGroup

javax.swing.ButtonGroup VOIGroup

WindowLevelGroup

javax.swing.ButtonGroup WindowLevelGroup

Class gov.nih.mipav.view.dialogs.JDialogMode extends JDialogScriptableBase implements Serializable

serialVersionUID:

4183545541629455949L

Serialized Fields

bySlice

javax.swing.JRadioButton bySlice

DOCUMENT ME!

comboBoxKernelShape

javax.swing.JComboBox comboBoxKernelShape

DOCUMENT ME!

comboBoxKernelSize

javax.swing.JComboBox comboBoxKernelSize

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

image25D

boolean image25D

DOCUMENT ME!

kernelShape

int kernelShape

DOCUMENT ME!

kernelSize

int kernelSize

DOCUMENT ME!

modeAlgo

AlgorithmMode modeAlgo

DOCUMENT ME!

outputPanel

JPanelAlgorithmOutputOptions outputPanel

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

wholeVolume

javax.swing.JRadioButton wholeVolume

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogMorphologicalFilter extends JDialogScriptableBase implements Serializable

serialVersionUID:

-523142924576794921L

Serialized Fields

image

ModelImage image

DOCUMENT ME!

image25D

boolean image25D

DOCUMENT ME!

image25DCheckbox

javax.swing.JCheckBox image25DCheckbox

DOCUMENT ME!

labelSizeX

javax.swing.JLabel labelSizeX

DOCUMENT ME!

labelSizeY

javax.swing.JLabel labelSizeY

DOCUMENT ME!

labelSizeZ

javax.swing.JLabel labelSizeZ

DOCUMENT ME!

mfAlgo

AlgorithmMorphologicalFilter mfAlgo

DOCUMENT ME!

outputPanel

JPanelAlgorithmOutputOptions outputPanel

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

sizePanel

javax.swing.JPanel sizePanel

DOCUMENT ME!

sizeX

int sizeX

DOCUMENT ME!

sizeY

int sizeY

DOCUMENT ME!

sizeZ

int sizeZ

DOCUMENT ME!

textSizeX

javax.swing.JTextField textSizeX

DOCUMENT ME!

textSizeY

javax.swing.JTextField textSizeY

DOCUMENT ME!

textSizeZ

javax.swing.JTextField textSizeZ

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogMorphologicalGradient extends JDialogScriptableBase implements Serializable

Serialized Fields

binaryButton

javax.swing.JRadioButton binaryButton

binaryMorphology

boolean binaryMorphology

comboBoxKernel

javax.swing.JComboBox comboBoxKernel

DOCUMENT ME!

do25D

boolean do25D

DOCUMENT ME!

grayScaleButton

javax.swing.JRadioButton grayScaleButton

gsMorphGradAlgo25D

AlgorithmGrayScaleMorphology25D gsMorphGradAlgo25D

gsMorphGradAlgo2D

AlgorithmGrayScaleMorphology2D gsMorphGradAlgo2D

gsMorphGradAlgo3D

AlgorithmGrayScaleMorphology3D gsMorphGradAlgo3D

image

ModelImage image

DOCUMENT ME!

image25D

javax.swing.JCheckBox image25D

DOCUMENT ME!

kernel

int kernel

DOCUMENT ME!

kernelSize

float kernelSize

DOCUMENT ME!

labelKernel

javax.swing.JLabel labelKernel

DOCUMENT ME!

labelKernelSize

javax.swing.JLabel labelKernelSize

DOCUMENT ME!

maskPanel

javax.swing.JPanel maskPanel

DOCUMENT ME!

morphGradAlgo25D

AlgorithmMorphology25D morphGradAlgo25D

DOCUMENT ME!

morphGradAlgo2D

AlgorithmMorphology2D morphGradAlgo2D

DOCUMENT ME!

morphGradAlgo3D

AlgorithmMorphology3D morphGradAlgo3D

DOCUMENT ME!

morphologyGroup

javax.swing.ButtonGroup morphologyGroup

outputPanel

JPanelAlgorithmOutputOptions outputPanel

resultImage

ModelImage resultImage

DOCUMENT ME!

textKernelSize

javax.swing.JTextField textKernelSize

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogMorphologicalLaplacian extends JDialogScriptableBase implements Serializable

Serialized Fields

comboBoxKernel

javax.swing.JComboBox comboBoxKernel

DOCUMENT ME!

do25D

boolean do25D

DOCUMENT ME!

gsMorphLaplacianAlgo25D

AlgorithmGrayScaleMorphology25D gsMorphLaplacianAlgo25D

gsMorphLaplacianAlgo2D

AlgorithmGrayScaleMorphology2D gsMorphLaplacianAlgo2D

gsMorphLaplacianAlgo3D

AlgorithmGrayScaleMorphology3D gsMorphLaplacianAlgo3D

image

ModelImage image

DOCUMENT ME!

image25D

javax.swing.JCheckBox image25D

DOCUMENT ME!

kernel

int kernel

DOCUMENT ME!

kernelSize

float kernelSize

DOCUMENT ME!

labelKernel

javax.swing.JLabel labelKernel

DOCUMENT ME!

labelKernelSize

javax.swing.JLabel labelKernelSize

DOCUMENT ME!

maskPanel

javax.swing.JPanel maskPanel

DOCUMENT ME!

outputPanel

JPanelAlgorithmOutputOptions outputPanel

resultImage

ModelImage resultImage

DOCUMENT ME!

textKernelSize

javax.swing.JTextField textKernelSize

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogMorphologicalReconstruction extends JDialogScriptableBase implements Serializable

Serialized Fields

algorithmGroup

javax.swing.ButtonGroup algorithmGroup

binaryButton

javax.swing.JRadioButton binaryButton

binaryMorphology

boolean binaryMorphology

closingByReconstructionButton

javax.swing.JRadioButton closingByReconstructionButton

comboBoxKernel

javax.swing.JComboBox comboBoxKernel

DOCUMENT ME!

do25D

boolean do25D

DOCUMENT ME!

geodesicDilationButton

javax.swing.JRadioButton geodesicDilationButton

geodesicErosionButton

javax.swing.JRadioButton geodesicErosionButton

geodesicSize

int geodesicSize

geodesicSizeLabel

javax.swing.JLabel geodesicSizeLabel

geodesicSizeText

javax.swing.JTextField geodesicSizeText

grayScaleButton

javax.swing.JRadioButton grayScaleButton

gsReconAlgo25D

AlgorithmGrayScaleMorphology25D gsReconAlgo25D

gsReconAlgo2D

AlgorithmGrayScaleMorphology2D gsReconAlgo2D

gsReconAlgo3D

AlgorithmGrayScaleMorphology3D gsReconAlgo3D

image

ModelImage image

DOCUMENT ME!

image25D

javax.swing.JCheckBox image25D

DOCUMENT ME!

imageComboBox

javax.swing.JComboBox imageComboBox

itersD

int itersD

or if the source image is to be replaced.

itersE

int itersE

DOCUMENT ME!

kernel

int kernel

DOCUMENT ME!

kernelSize

float kernelSize

DOCUMENT ME!

labelKernel

javax.swing.JLabel labelKernel

DOCUMENT ME!

labelKernelSize

javax.swing.JLabel labelKernelSize

DOCUMENT ME!

labelNIterD

javax.swing.JLabel labelNIterD

DOCUMENT ME!

labelNIterE

javax.swing.JLabel labelNIterE

DOCUMENT ME!

markerLabel

javax.swing.JLabel markerLabel

maskImage

ModelImage maskImage

maskLabel

javax.swing.JLabel maskLabel

maskPanel

javax.swing.JPanel maskPanel

DOCUMENT ME!

method

int method

morphologyGroup

javax.swing.ButtonGroup morphologyGroup

openingByReconstructionButton

javax.swing.JRadioButton openingByReconstructionButton

outputPanel

JPanelAlgorithmOutputOptions outputPanel

reconAlgo25D

AlgorithmMorphology25D reconAlgo25D

DOCUMENT ME!

reconAlgo2D

AlgorithmMorphology2D reconAlgo2D

DOCUMENT ME!

reconAlgo3D

AlgorithmMorphology3D reconAlgo3D

DOCUMENT ME!

reconstructionByDilationButton

javax.swing.JRadioButton reconstructionByDilationButton

reconstructionByErosionButton

javax.swing.JRadioButton reconstructionByErosionButton

resultImage

ModelImage resultImage

DOCUMENT ME!

textKernelSize

javax.swing.JTextField textKernelSize

DOCUMENT ME!

textNIterD

javax.swing.JTextField textNIterD

DOCUMENT ME!

textNIterE

javax.swing.JTextField textNIterE

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogMosaicToSlices extends JDialogScriptableBase implements Serializable

Serialized Fields

displayLoc

int displayLoc

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

mathAlgo

AlgorithmMosaicToSlices mathAlgo

DOCUMENT ME!

numberOfImagesInMosaic

int numberOfImagesInMosaic

resultImage

ModelImage resultImage

DOCUMENT ME!

subXDim

int subXDim

subYDim

int subYDim

textNumberImages

javax.swing.JTextField textNumberImages

textXDim

javax.swing.JTextField textXDim

textYDim

javax.swing.JTextField textYDim

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogMRIShadingCorrection extends JDialogScriptableBase implements Serializable

serialVersionUID:

2132712619224805730L

Serialized Fields

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

iters

int iters

DOCUMENT ME!

labelGaussX

javax.swing.JLabel labelGaussX

DOCUMENT ME!

labelGaussY

javax.swing.JLabel labelGaussY

DOCUMENT ME!

labelIters

javax.swing.JLabel labelIters

DOCUMENT ME!

labelNorm

javax.swing.JLabel labelNorm

DOCUMENT ME!

mAlgo

AlgorithmMRIShadingCorrection mAlgo

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

norm

float norm

DOCUMENT ME!

paramPanel

javax.swing.JPanel paramPanel

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

scaleX

float scaleX

DOCUMENT ME!

scaleY

float scaleY

DOCUMENT ME!

textGaussX

javax.swing.JTextField textGaussX

DOCUMENT ME!

textGaussY

javax.swing.JTextField textGaussY

DOCUMENT ME!

textIters

javax.swing.JTextField textIters

DOCUMENT ME!

textNorm

javax.swing.JTextField textNorm

DOCUMENT ME!

thresholdCheckbox

javax.swing.JCheckBox thresholdCheckbox

DOCUMENT ME!

thresholdLabel

javax.swing.JLabel thresholdLabel

DOCUMENT ME!

thresholdLevel

float thresholdLevel

DOCUMENT ME!

thresholdSelected

boolean thresholdSelected

DOCUMENT ME!

thresholdText

javax.swing.JTextField thresholdText

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogMSER extends JDialogScriptableBase implements Serializable

Serialized Fields

bright_on_dark

boolean bright_on_dark

brightOnDarkCheckBox

javax.swing.JCheckBox brightOnDarkCheckBox

dark_on_bright

boolean dark_on_bright

darkOnBrightCheckBox

javax.swing.JCheckBox darkOnBrightCheckBox

delta

double delta

ellipsesOnly

javax.swing.JRadioButton ellipsesOnly

image

ModelImage image

DOCUMENT ME!

imageVOIGroup

javax.swing.ButtonGroup imageVOIGroup

imageVOIPanel

javax.swing.JPanel imageVOIPanel

labelDelta

javax.swing.JLabel labelDelta

labelMaxArea

javax.swing.JLabel labelMaxArea

labelMaxVariation

javax.swing.JLabel labelMaxVariation

labelMinArea

javax.swing.JLabel labelMinArea

labelMinDiversity

javax.swing.JLabel labelMinDiversity

max_area

double max_area

max_variation

double max_variation

min_area

double min_area

min_diversity

double min_diversity

mserAlgo

AlgorithmMSER mserAlgo

DOCUMENT ME!

outputVOIType

int outputVOIType

paramPanel

javax.swing.JPanel paramPanel

pointsAndEllipses

javax.swing.JRadioButton pointsAndEllipses

pointsOnly

javax.swing.JRadioButton pointsOnly

textDelta

javax.swing.JTextField textDelta

textMaxArea

javax.swing.JTextField textMaxArea

textMaxVariation

javax.swing.JTextField textMaxVariation

textMinArea

javax.swing.JTextField textMinArea

textMinDiversity

javax.swing.JTextField textMinDiversity

Class gov.nih.mipav.view.dialogs.JDialogMSFuzzyCMeans extends JDialogScriptableBase implements Serializable

serialVersionUID:

5469772983205216898L

Serialized Fields

afcmAlgo

AlgorithmMSpectralFuzzyCMeans afcmAlgo

DOCUMENT ME!

centroids

float[] centroids

DOCUMENT ME!

changeRemoveIndex

boolean changeRemoveIndex

DOCUMENT ME!

chooserButton

javax.swing.JButton chooserButton

DOCUMENT ME!

colorPanel

JPanelColorChannels colorPanel

DOCUMENT ME!

cropBackground

boolean cropBackground

DOCUMENT ME!

cropCheckbox

javax.swing.JCheckBox cropCheckbox

DOCUMENT ME!

destExtents

int[] destExtents

DOCUMENT ME!

endTol

float endTol

DOCUMENT ME!

fuzzyOnly

javax.swing.JRadioButton fuzzyOnly

DOCUMENT ME!

hardFuzzyBoth

javax.swing.JRadioButton hardFuzzyBoth

DOCUMENT ME!

hardOnly

javax.swing.JRadioButton hardOnly

DOCUMENT ME!

imageList

javax.swing.JList imageList

DOCUMENT ME!

imagePanel

javax.swing.JPanel imagePanel

DOCUMENT ME!

imageVOIGroup

javax.swing.ButtonGroup imageVOIGroup

DOCUMENT ME!

imageVOIPanel

javax.swing.JPanel imageVOIPanel

DOCUMENT ME!

labelEndTol

javax.swing.JLabel labelEndTol

DOCUMENT ME!

labelExpo

javax.swing.JLabel labelExpo

DOCUMENT ME!

labelMaxIter

javax.swing.JLabel labelMaxIter

DOCUMENT ME!

labelNClasses

javax.swing.JLabel labelNClasses

DOCUMENT ME!

maxIter

int maxIter

DOCUMENT ME!

model

javax.swing.DefaultListModel model

DOCUMENT ME!

nClasses

int nClasses

DOCUMENT ME!

nPyramid

int nPyramid

DOCUMENT ME!

oneJacobiIter

int oneJacobiIter

DOCUMENT ME!

oneSmooth

float oneSmooth

DOCUMENT ME!

outputGainField

boolean outputGainField

private JCheckBox calcGainFieldCheckbox;.

paramPanel

javax.swing.JPanel paramPanel

DOCUMENT ME!

presentNumber

int presentNumber

DOCUMENT ME!

q

float q

DOCUMENT ME!

regionFlag

boolean regionFlag

DOCUMENT ME!

removeButton

javax.swing.JButton removeButton

DOCUMENT ME!

removeIndex

int removeIndex

DOCUMENT ME!

resultImage

ModelImage[] resultImage

DOCUMENT ME!

resultNumber

int resultNumber

DOCUMENT ME!

segmentation

int segmentation

DOCUMENT ME!

segmentationGroup

javax.swing.ButtonGroup segmentationGroup

DOCUMENT ME!

segmentationPanel

javax.swing.JPanel segmentationPanel

DOCUMENT ME!

srcImage

ModelImage[] srcImage

DOCUMENT ME!

srcNumber

int srcNumber

DOCUMENT ME!

tempImage

ModelImage[] tempImage

DOCUMENT ME!

textEndTol

javax.swing.JTextField textEndTol

DOCUMENT ME!

textExpo

javax.swing.JTextField textExpo

DOCUMENT ME!

textMaxIter

javax.swing.JTextField textMaxIter

DOCUMENT ME!

textNClasses

javax.swing.JTextField textNClasses

DOCUMENT ME!

threshold

float[] threshold

DOCUMENT ME!

twoJacobiIter

int twoJacobiIter

DOCUMENT ME!

twoSmooth

float twoSmooth

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

VOIRegions

javax.swing.JRadioButton VOIRegions

DOCUMENT ME!

wholeImage

javax.swing.JRadioButton wholeImage

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogMultiPaint extends JDialogBase implements Serializable

serialVersionUID:

-7497259210728078264L

Serialized Fields

alphaBlend

int alphaBlend

DOCUMENT ME!

bottomPanel

javax.swing.JPanel bottomPanel

DOCUMENT ME!

buttonShortkeys

javax.swing.JToggleButton buttonShortkeys

DOCUMENT ME!

buttonTextArrayList

java.util.ArrayList<java.lang.Integer> buttonTextArrayList

this is the array list of texts for the mask number buttons.

changeMaskNumberDialog

JDialogChangeMaskNumber changeMaskNumberDialog

Ref to JDialogChangeMaskNumber.*

checkAutosave

javax.swing.JToggleButton checkAutosave

closePanel

javax.swing.JPanel closePanel

DOCUMENT ME!

collapseButton

javax.swing.JButton collapseButton

Button that allows user to collapse masks/paint to single value.*

color

java.awt.Color[] color

array of colors to use for the labels.

currentOpacity

float currentOpacity

saved opacity parameter when hiding the paint

displayMasksButton

javax.swing.JToggleButton displayMasksButton

display masks toggle button.

displayModeButton

javax.swing.JToggleButton displayModeButton

DOCUMENT ME!

displayPaintButton

javax.swing.JToggleButton displayPaintButton

DOCUMENT ME!

editBox

javax.swing.JCheckBox editBox

DOCUMENT ME!

exportVoiButton

javax.swing.JButton exportVoiButton

button VOI export.

image

ModelImage image

source image.

imgBSize

int imgBSize

The size, in voxels, of the mask.

importVoiButton

javax.swing.JButton importVoiButton

button VOI import.

indeterminateProgressBar

javax.swing.JProgressBar indeterminateProgressBar

DOCUMENT ME!

intensityLockVector

java.util.Vector<java.lang.Integer> intensityLockVector

DOCUMENT ME!

isCompactDisplay

boolean isCompactDisplay

isVisibleMask

boolean isVisibleMask

isVisiblePaint

boolean isVisiblePaint

label

java.lang.String[] label

labels for the painted objects.

labelField

javax.swing.JTextField[] labelField

DOCUMENT ME!

leftPanel

javax.swing.JPanel leftPanel

DOCUMENT ME!

leftRightPanel

javax.swing.JPanel leftRightPanel

DOCUMENT ME!

listButton

BorderedButton[] listButton

DOCUMENT ME!

listPanel

javax.swing.JPanel listPanel

DOCUMENT ME!

loadDialog

javax.swing.JFileChooser loadDialog

DOCUMENT ME!

loadLabelsButton

javax.swing.JButton loadLabelsButton

DOCUMENT ME!

loadMaskButton

javax.swing.JButton loadMaskButton

DOCUMENT ME!

lockAllButton

javax.swing.JButton lockAllButton

lock all masks checkbox *

lockPanel

javax.swing.JPanel lockPanel

lock panel

mainPanel

javax.swing.JPanel mainPanel

dialog elements.

multiButton

BorderedButton[] multiButton

DOCUMENT ME!

multiPanel

javax.swing.JPanel multiPanel

DOCUMENT ME!

nbx

int nbx

number of paint masks initially.

nby

int nby

number of paint masks initially.

newSelection

int newSelection

This represents the button the user selects to..initally at 1.*

numberLabel

javax.swing.JLabel numberLabel

DOCUMENT ME!

numberPanel

javax.swing.JPanel numberPanel

DOCUMENT ME!

numberXField

javax.swing.JTextField numberXField

resize x value.

numberYField

javax.swing.JTextField numberYField

resize y value.

optionPanel

javax.swing.JPanel optionPanel

DOCUMENT ME!

preserveBox

javax.swing.JCheckBox[] preserveBox

DOCUMENT ME!

preserved

boolean[] preserved

check whether the mask can be affected by new paint or not.

radioGroup

javax.swing.ButtonGroup radioGroup

button group for radio buttons

resizeButton

javax.swing.JButton resizeButton

resize button.

rightPanel

javax.swing.JPanel rightPanel

DOCUMENT ME!

save

MultiPaintAutoSave save

DOCUMENT ME!

saveAs3DMaskRadio

javax.swing.JRadioButton saveAs3DMaskRadio

radio buttons for commmiting masks as 3d or 4d if image is 4d

saveAs4DMaskRadio

javax.swing.JRadioButton saveAs4DMaskRadio

radio buttons for commmiting masks as 3d or 4d if image is 4d

saveDialog

javax.swing.JFileChooser saveDialog

DOCUMENT ME!

saveLabelsButton

javax.swing.JButton saveLabelsButton

save labels button.

saveMaskButton

javax.swing.JButton saveMaskButton

save mask button.

saveMasksAs4D

boolean saveMasksAs4D

this boolean is needed for commiting masks for a 4d image

saver

java.util.Timer saver

DOCUMENT ME!

scrollPane

javax.swing.JScrollPane scrollPane

This is the scroll pane for the label list panel.*

selected

int selected

id for the selected paint mask.

threads

java.lang.ThreadGroup threads

triPlanarAlphaBlend

int triPlanarAlphaBlend

DOCUMENT ME!

unlockAllButton

javax.swing.JButton unlockAllButton

unlock all masks checkbox *

userInterface

ViewUserInterface userInterface

private int destExtents[];.

Class gov.nih.mipav.view.dialogs.JDialogMultiResolutionBilateralFilter extends JDialogScriptableBase implements Serializable

Serialized Fields

comboBoxLevels

javax.swing.JComboBox<java.lang.String> comboBoxLevels

comboBoxName

javax.swing.JComboBox<java.lang.String> comboBoxName

comboBoxOrder

javax.swing.JComboBox<java.lang.String> comboBoxOrder

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

estimateNoiseCheckBox

javax.swing.JCheckBox estimateNoiseCheckBox

estimateNoiseStandardDeviation

boolean estimateNoiseStandardDeviation

filterType

int filterType

gbc2

java.awt.GridBagConstraints gbc2

hardButton

javax.swing.JRadioButton hardButton

image

ModelImage image

DOCUMENT ME!

kernelWidth

int kernelWidth

labelColor

javax.swing.JLabel labelColor

labelKernel

javax.swing.JLabel labelKernel

labelLevels

javax.swing.JLabel labelLevels

labelName

javax.swing.JLabel labelName

labelNoiseStandardDeviation

javax.swing.JLabel labelNoiseStandardDeviation

labelOrder

javax.swing.JLabel labelOrder

labelSpace

javax.swing.JLabel labelSpace

lastNameString

java.lang.String lastNameString

mrbFilterAlgo

MultiResolutionBilateralFilter mrbFilterAlgo

DOCUMENT ME!

nameString

java.lang.String nameString

newImage

javax.swing.JRadioButton newImage

noiseStandardDeviation

double noiseStandardDeviation

paramPanel

javax.swing.JPanel paramPanel

replaceImage

javax.swing.JRadioButton replaceImage

resultImage

ModelImage resultImage

sigmaColor

double sigmaColor

sigmaSpace

double sigmaSpace

softButton

javax.swing.JRadioButton softButton

textColor

javax.swing.JTextField textColor

textKernel

javax.swing.JTextField textKernel

textNoiseStandardDeviation

javax.swing.JTextField textNoiseStandardDeviation

textSpace

javax.swing.JTextField textSpace

thresholdGroup

javax.swing.ButtonGroup thresholdGroup

titles

java.lang.String[] titles

userInterface

ViewUserInterface userInterface

wavelet_levels

int wavelet_levels

wavelet_name

PyWavelets.WAVELET_NAME wavelet_name

wavelet_order

int wavelet_order

Class gov.nih.mipav.view.dialogs.JDialogMultiResolutionGuidedFilter extends JDialogScriptableBase implements Serializable

Serialized Fields

comboBoxLevels

javax.swing.JComboBox<java.lang.String> comboBoxLevels

comboBoxName

javax.swing.JComboBox<java.lang.String> comboBoxName

comboBoxOrder

javax.swing.JComboBox<java.lang.String> comboBoxOrder

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

estimateNoiseCheckBox

javax.swing.JCheckBox estimateNoiseCheckBox

estimateNoiseStandardDeviation

boolean estimateNoiseStandardDeviation

filterType

int filterType

gbc2

java.awt.GridBagConstraints gbc2

hardButton

javax.swing.JRadioButton hardButton

image

ModelImage image

DOCUMENT ME!

kernelRadius

int kernelRadius

labelKernel

javax.swing.JLabel labelKernel

labelLevels

javax.swing.JLabel labelLevels

labelName

javax.swing.JLabel labelName

labelNoiseStandardDeviation

javax.swing.JLabel labelNoiseStandardDeviation

labelOrder

javax.swing.JLabel labelOrder

lastNameString

java.lang.String lastNameString

mrgFilterAlgo

MultiGuidedFilter mrgFilterAlgo

DOCUMENT ME!

nameString

java.lang.String nameString

newImage

javax.swing.JRadioButton newImage

noiseStandardDeviation

double noiseStandardDeviation

paramPanel

javax.swing.JPanel paramPanel

replaceImage

javax.swing.JRadioButton replaceImage

resultImage

ModelImage resultImage

softButton

javax.swing.JRadioButton softButton

textKernel

javax.swing.JTextField textKernel

textNoiseStandardDeviation

javax.swing.JTextField textNoiseStandardDeviation

thresholdGroup

javax.swing.ButtonGroup thresholdGroup

titles

java.lang.String[] titles

userInterface

ViewUserInterface userInterface

wavelet_levels

int wavelet_levels

wavelet_name

PyWavelets.WAVELET_NAME wavelet_name

wavelet_order

int wavelet_order

Class gov.nih.mipav.view.dialogs.JDialogN4MRIBiasFieldCorrection extends JDialogScriptableBase implements Serializable

Serialized Fields

autoThreshold

boolean autoThreshold

DOCUMENT ME!

autoThresholdCheckbox

javax.swing.JCheckBox autoThresholdCheckbox

DOCUMENT ME!

confidenceImage

ModelImage confidenceImage

controlPoints

int controlPoints

convertTomm

float convertTomm

DOCUMENT ME!

createField

boolean createField

DOCUMENT ME!

createFieldCheckbox

javax.swing.JCheckBox createFieldCheckbox

DOCUMENT ME!

destExtents

int[] destExtents

DOCUMENT ME!

endTol

double endTol

DOCUMENT ME!

fieldDistance

float fieldDistance

DOCUMENT ME!

fieldImage

ModelImage fieldImage

DOCUMENT ME!

fittingLevels

int fittingLevels

image

ModelImage image

DOCUMENT ME!

kernelfwhm

double kernelfwhm

DOCUMENT ME!

labelControlPoints

javax.swing.JLabel labelControlPoints

labelDistance

javax.swing.JLabel labelDistance

DOCUMENT ME!

labelEndTol

javax.swing.JLabel labelEndTol

DOCUMENT ME!

labelFittingLevels

javax.swing.JLabel labelFittingLevels

labelKernel

javax.swing.JLabel labelKernel

DOCUMENT ME!

labelMaxIter

javax.swing.JLabel labelMaxIter

DOCUMENT ME!

labelNoise

javax.swing.JLabel labelNoise

DOCUMENT ME!

labelShrink

javax.swing.JLabel labelShrink

DOCUMENT ME!

labelSignal

javax.swing.JLabel labelSignal

DOCUMENT ME!

maxIter

int maxIter

DOCUMENT ME!

N4Algo

AlgorithmN4MRIBiasFieldCorrectionFilter N4Algo

DOCUMENT ME!

noise

double noise

DOCUMENT ME!

orgResol

float[] orgResol

DOCUMENT ME!

regionFlag

boolean regionFlag

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

resXUnit

int resXUnit

DOCUMENT ME!

resYUnit

int resYUnit

DOCUMENT ME!

resZUnit

int resZUnit

DOCUMENT ME!

shrink

float shrink

DOCUMENT ME!

textControlPoints

javax.swing.JTextField textControlPoints

textDistance

javax.swing.JTextField textDistance

DOCUMENT ME!

textEndTol

javax.swing.JTextField textEndTol

DOCUMENT ME!

textFittingLevels

javax.swing.JTextField textFittingLevels

textKernel

javax.swing.JTextField textKernel

DOCUMENT ME!

textMaxIter

javax.swing.JTextField textMaxIter

DOCUMENT ME!

textNoise

javax.swing.JTextField textNoise

DOCUMENT ME!

textShrink

javax.swing.JTextField textShrink

DOCUMENT ME!

textSignal

javax.swing.JTextField textSignal

DOCUMENT ME!

threshold

float threshold

DOCUMENT ME!

useScript

boolean useScript

DOCUMENT ME!

VOIRegions

javax.swing.JRadioButton VOIRegions

DOCUMENT ME!

wholeImage

javax.swing.JRadioButton wholeImage

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogNColors extends JDialogBase implements Serializable

serialVersionUID:

-2280005601447558064L

Serialized Fields

field

javax.swing.JTextField field

DOCUMENT ME!

nColors

int nColors

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogNearlyCircleToCircle extends JDialogBase implements Serializable

serialVersionUID:

0L

Serialized Fields

extents

int[] extents

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

ncAlgo

AlgorithmNearlyCircleToCircle ncAlgo

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

xDim

int xDim

DOCUMENT ME!

xText

javax.swing.JTextField xText

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogNIFTIChoice extends JDialogBase implements Serializable

serialVersionUID:

5469246588202892297L

Serialized Fields

okayPressed

boolean okayPressed

DOCUMENT ME!

oneFile

javax.swing.JRadioButton oneFile

DOCUMENT ME!

twoFiles

javax.swing.JRadioButton twoFiles

DOCUMENT ME!

writeGroup

javax.swing.ButtonGroup writeGroup

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogNLMeans_filt2D extends JDialogScriptableBase implements Serializable

Serialized Fields

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

filterPanel

javax.swing.JPanel filterPanel

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

ksize

int ksize

Neighbor window size

labelKSize

javax.swing.JLabel labelKSize

DOCUMENT ME!

labelNoise

javax.swing.JLabel labelNoise

DOCUMENT ME!

labelSigmaX

javax.swing.JLabel labelSigmaX

DOCUMENT ME!

labelSigmaY

javax.swing.JLabel labelSigmaY

DOCUMENT ME!

labelSSize

javax.swing.JLabel labelSSize

DOCUMENT ME!

mainPanel

javax.swing.JPanel mainPanel

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

NLMeansAlgo

NLMeans_filt2D NLMeansAlgo

DOCUMENT ME!

noise_std

double noise_std

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

sigmaX

double sigmaX

DOCUMENT ME!

sigmaY

double sigmaY

DOCUMENT ME!

ssize

int ssize

DOCUMENT ME!

textKSize

javax.swing.JTextField textKSize

DOCUMENT ME!

textNoise

javax.swing.JTextField textNoise

DOCUMENT ME!

textSigmaX

javax.swing.JTextField textSigmaX

DOCUMENT ME!

textSigmaY

javax.swing.JTextField textSigmaY

DOCUMENT ME!

textSSize

javax.swing.JTextField textSSize

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogNLNoiseReduction extends JDialogScriptableBase implements Serializable

serialVersionUID:

-6988226818561396907L

Serialized Fields

bt

double bt

DOCUMENT ME!

defaultThreshold

long defaultThreshold

DOCUMENT ME!

defaultThresholdDouble

double defaultThresholdDouble

DOCUMENT ME!

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

image25D

boolean image25D

DOCUMENT ME!

image25DCheckbox

javax.swing.JCheckBox image25DCheckbox

of similar brightness voxels is empty, a local median filter is used. This allows the correction of impulse ("salt-and-pepper") noise. If false, when no neighborhood is found, the original intensity of the voxel of interest remains unchanged.

labelMaskSD

javax.swing.JLabel labelMaskSD

DOCUMENT ME!

labelThreshold

javax.swing.JLabel labelThreshold

DOCUMENT ME!

maskSD

float maskSD

DOCUMENT ME!

maximumThreshold

long maximumThreshold

DOCUMENT ME!

maximumThresholdDouble

double maximumThresholdDouble

DOCUMENT ME!

medianCheckbox

javax.swing.JCheckBox medianCheckbox

The mask is basically Gaussian with standard deviation in image units - e.g. mm set by the user. However, for a small, fast, flat response with a 3x3 or 3x3x3 voxel mask, set maskSD to 0.

minimumThreshold

long minimumThreshold

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

nlnrAlgo

AlgorithmNLNoiseReduction nlnrAlgo

DOCUMENT ME!

optionsPanel

javax.swing.JPanel optionsPanel

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textMaskSD

javax.swing.JTextField textMaskSD

discriminate between noise and the underlying image. Ideally, the value should be set greater than the noise level and less than the contrast of the underlying image. Edges of contrast smaller than this threshold will tend to be blurred whereas those of greater contrast will not be.

textThreshold

javax.swing.JTextField textThreshold

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

useMedian

boolean useMedian

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogNMSuppression extends JDialogScriptableBase implements Serializable

serialVersionUID:

3261350233947714913L

Serialized Fields

image

ModelImage image

DOCUMENT ME!

image25D

boolean image25D

DOCUMENT ME!

image25DCheckbox

javax.swing.JCheckBox image25DCheckbox

DOCUMENT ME!

nmSuppressionAlgo

AlgorithmNMSuppression nmSuppressionAlgo

DOCUMENT ME!

outputPanel

JPanelAlgorithmOutputOptions outputPanel

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

sigmaPanel

JPanelSigmas sigmaPanel

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogNoise extends JDialogScriptableBase implements Serializable

serialVersionUID:

3214808660601346651L

Serialized Fields

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

gain

double gain

gainText

javax.swing.JTextField gainText

group1

javax.swing.ButtonGroup group1

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

imageRangeLabel

javax.swing.JLabel imageRangeLabel

DOCUMENT ME!

max

double max

DOCUMENT ME!

maximumNoise

double maximumNoise

DOCUMENT ME!

maxNoiseLabel

javax.swing.JLabel maxNoiseLabel

DOCUMENT ME!

maxNoiseLabel2

javax.swing.JLabel maxNoiseLabel2

mean

double mean

meanText

javax.swing.JTextField meanText

min

double min

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

noiseType

int noiseType

DOCUMENT ME!

offset

double offset

offsetText

javax.swing.JTextField offsetText

panelGU

javax.swing.JPanel panelGU

DOCUMENT ME!

panelImageType

javax.swing.JPanel panelImageType

DOCUMENT ME!

panelPO

javax.swing.JPanel panelPO

panelRayleigh

javax.swing.JPanel panelRayleigh

panelRician

javax.swing.JPanel panelRician

radioGaussian

javax.swing.JRadioButton radioGaussian

DOCUMENT ME!

radioPoisson

javax.swing.JRadioButton radioPoisson

radioRayleigh

javax.swing.JRadioButton radioRayleigh

radioRician

javax.swing.JRadioButton radioRician

radioUniform

javax.swing.JRadioButton radioUniform

DOCUMENT ME!

randomAlgo

AlgorithmNoise randomAlgo

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

sigma

double sigma

sigmaText

javax.swing.JTextField sigmaText

textMaxNoise

javax.swing.JTextField textMaxNoise

DOCUMENT ME!

textMaxNoise2

javax.swing.JTextField textMaxNoise2

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogNoiseLevel extends JDialogScriptableBase implements Serializable

Serialized Fields

conf

double conf

createMaskImage

boolean createMaskImage

decim

int decim

image

ModelImage image

DOCUMENT ME!

itr

int itr

maskCheckBox

javax.swing.JCheckBox maskCheckBox

NLAlgo

NoiseLevel NLAlgo

DOCUMENT ME!

patchSize

int patchSize

resultImage

ModelImage resultImage

textConf

javax.swing.JTextField textConf

textDecim

javax.swing.JTextField textDecim

DOCUMENT ME!

textItr

javax.swing.JTextField textItr

textPatchSize

javax.swing.JTextField textPatchSize

Class gov.nih.mipav.view.dialogs.JDialogNonlocalMeansFilter extends JDialogScriptableBase implements Serializable

Serialized Fields

BayesCheckBox

javax.swing.JCheckBox BayesCheckBox

degreeOfFiltering

float degreeOfFiltering

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

doBayesShrinkThresholdComputation

boolean doBayesShrinkThresholdComputation

doRician

boolean doRician

doRicianCheckBox

javax.swing.JCheckBox doRicianCheckBox

estimateNoiseCheckBox

javax.swing.JCheckBox estimateNoiseCheckBox

estimateNoiseStandardDeviation

boolean estimateNoiseStandardDeviation

image

ModelImage image

DOCUMENT ME!

image25D

boolean image25D

DOCUMENT ME!

image25DCheckBox

javax.swing.JCheckBox image25DCheckBox

DOCUMENT ME!

labelDegree

javax.swing.JLabel labelDegree

labelNoiseStandardDeviation

javax.swing.JLabel labelNoiseStandardDeviation

DOCUMENT ME!

labelSearchWindowSide

javax.swing.JLabel labelSearchWindowSide

DOCUMENT ME!

labelSimilarityWindowSide

javax.swing.JLabel labelSimilarityWindowSide

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

nlMeansFilterAlgo

AlgorithmNonlocalMeansFilter nlMeansFilterAlgo

DOCUMENT ME!

noiseStandardDeviation

float noiseStandardDeviation

Should be set equal to the noise standard deviation

paramPanel

javax.swing.JPanel paramPanel

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

searchWindowSide

int searchWindowSide

DOCUMENT ME!

similarityWindowSide

int similarityWindowSide

DOCUMENT ME!

textDegree

javax.swing.JTextField textDegree

textNoiseStandardDeviation

javax.swing.JTextField textNoiseStandardDeviation

DOCUMENT ME!

textSearchWindowSide

javax.swing.JTextField textSearchWindowSide

DOCUMENT ME!

textSimilarityWindowSide

javax.swing.JTextField textSimilarityWindowSide

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogOpacityControls extends JDialogBase implements Serializable

serialVersionUID:

844490628214011726L

Serialized Fields

controls

ViewControlsImage controls

Controls affected by opacity changes.

current

javax.swing.JLabel current

Label that gives current value of slider.

opacity

float opacity

Opacity number.

opacitySlider

javax.swing.JSlider opacitySlider

Opacity slider.

surfacePaint

SurfacePaint surfacePaint

SurfacePaint reference

surfacePaint_WM

SurfacePaint_WM surfacePaint_WM

SurfacePaint reference

voiManager

VOIManagerInterface voiManager

Class gov.nih.mipav.view.dialogs.JDialogOpen extends JDialogScriptableBase implements Serializable

serialVersionUID:

-9116067564431404676L

Serialized Fields

binaryButton

javax.swing.JRadioButton binaryButton

binaryMorphology

boolean binaryMorphology

comboBoxKernel

javax.swing.JComboBox comboBoxKernel

DOCUMENT ME!

do25D

boolean do25D

DOCUMENT ME!

grayScaleButton

javax.swing.JRadioButton grayScaleButton

gsOpenAlgo25D

AlgorithmGrayScaleMorphology25D gsOpenAlgo25D

gsOpenAlgo2D

AlgorithmGrayScaleMorphology2D gsOpenAlgo2D

gsOpenAlgo3D

AlgorithmGrayScaleMorphology3D gsOpenAlgo3D

image

ModelImage image

DOCUMENT ME!

image25D

javax.swing.JCheckBox image25D

DOCUMENT ME!

itersD

int itersD

or if the source image is to be replaced.

itersE

int itersE

DOCUMENT ME!

kernel

int kernel

DOCUMENT ME!

kernelSize

float kernelSize

DOCUMENT ME!

labelKernel

javax.swing.JLabel labelKernel

DOCUMENT ME!

labelKernelSize

javax.swing.JLabel labelKernelSize

DOCUMENT ME!

labelNIterD

javax.swing.JLabel labelNIterD

DOCUMENT ME!

labelNIterE

javax.swing.JLabel labelNIterE

DOCUMENT ME!

maskPanel

javax.swing.JPanel maskPanel

DOCUMENT ME!

morphologyGroup

javax.swing.ButtonGroup morphologyGroup

openAlgo25D

AlgorithmMorphology25D openAlgo25D

DOCUMENT ME!

openAlgo2D

AlgorithmMorphology2D openAlgo2D

DOCUMENT ME!

openAlgo3D

AlgorithmMorphology3D openAlgo3D

DOCUMENT ME!

outputPanel

JPanelAlgorithmOutputOptions outputPanel

resultImage

ModelImage resultImage

DOCUMENT ME!

textKernelSize

javax.swing.JTextField textKernelSize

DOCUMENT ME!

textNIterD

javax.swing.JTextField textNIterD

DOCUMENT ME!

textNIterE

javax.swing.JTextField textNIterE

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogOrder extends JDialogBase implements Serializable

serialVersionUID:

670499188247272869L

Serialized Fields

datasetOrder

javax.swing.JRadioButton datasetOrder

Load image using dataset-specific ordering

dicomOrder

javax.swing.JRadioButton dicomOrder

Load image using dicom ordering (R-L, A-P, I-S)

dontAskAgain

javax.swing.JCheckBox dontAskAgain

Whether to ask user next time choice is available for AFNI ordering.

Class gov.nih.mipav.view.dialogs.JDialogOrientMatrix extends JDialogBase implements Serializable

serialVersionUID:

-5386555201530113228L

Serialized Fields

leftHandRuleCheckbox

javax.swing.JCheckBox leftHandRuleCheckbox

DOCUMENT ME!

matrix

TransMatrix matrix

DOCUMENT ME!

panelAxisMode

javax.swing.JPanel panelAxisMode

DOCUMENT ME!

pFrame

JDialogBase pFrame

DOCUMENT ME!

worldCoordCheckbox

javax.swing.JCheckBox worldCoordCheckbox

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogOverlay extends JDialogBase implements Serializable

serialVersionUID:

-2470981064995748425L

Serialized Fields

borderTitles

java.lang.String[] borderTitles

DOCUMENT ME!

buttonArray

javax.swing.JButton[] buttonArray

DOCUMENT ME!

comp

ViewJComponentEditImage comp

headerString

java.lang.String headerString

DOCUMENT ME!

isDicom

boolean isDicom

DOCUMENT ME!

nameArray

javax.swing.JTextField[] nameArray

DOCUMENT ME!

overlayNames

java.lang.String[] overlayNames

DOCUMENT ME!

overlayValues

java.lang.String[] overlayValues

DOCUMENT ME!

showOverlayBox

javax.swing.JCheckBox showOverlayBox

tagDialog

JDialogOverlay.JDialogChooseOverlay tagDialog

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogPadImages extends JDialogScriptableBase implements Serializable

serialVersionUID:

4451162492289524768L

Serialized Fields

displayLoc

int displayLoc

Flag indicating if a new image is to be generated or if the source image is to be replaced

image

ModelImage image

source image

newImage

javax.swing.JRadioButton newImage

generate new image

nSlices

int nSlices

number of slices in image

paddedSlices

int paddedSlices

number of slices in padded image

padMode

int padMode

Padding mode, defaults to front.

padSlicesAlgo

AlgorithmAddMargins padSlicesAlgo

Algorithm that adds slices to front/back of image.

padToBack

javax.swing.JRadioButton padToBack

Select padding to the back:

padToFront

javax.swing.JRadioButton padToFront

Select padding to the front:

padToHalf

javax.swing.JRadioButton padToHalf

Select padding to the front and back:

replaceImage

javax.swing.JRadioButton replaceImage

Select replacing the current image

resultImage

ModelImage resultImage

result image

userInterface

ViewUserInterface userInterface

Reference to the main user interface

Class gov.nih.mipav.view.dialogs.JDialogPaintGrow extends JDialogBase implements Serializable

serialVersionUID:

-165750503127683051L

Serialized Fields

constrainBoundsCheckbox

javax.swing.JCheckBox constrainBoundsCheckbox

DOCUMENT ME!

currentFuzzy

javax.swing.JLabel currentFuzzy

DOCUMENT ME!

disableSliders

boolean disableSliders

DOCUMENT ME!

disableSlidersB

boolean disableSlidersB

DOCUMENT ME!

disableSlidersG

boolean disableSlidersG

DOCUMENT ME!

disableSlidersR

boolean disableSlidersR

DOCUMENT ME!

displayFuzzy

boolean displayFuzzy

DOCUMENT ME!

distanceCheckbox

javax.swing.JCheckBox distanceCheckbox

DOCUMENT ME!

enableVariableCheckbox

boolean enableVariableCheckbox

DOCUMENT ME!

font12B

java.awt.Font font12B

DOCUMENT ME!

frame

java.awt.Frame frame

DOCUMENT ME!

fuzzyCheckbox

javax.swing.JCheckBox fuzzyCheckbox

DOCUMENT ME!

fuzzyImageCheckbox

javax.swing.JCheckBox fuzzyImageCheckbox

DOCUMENT ME!

fuzzySlider

javax.swing.JSlider fuzzySlider

DOCUMENT ME!

fuzzyThreshold

float fuzzyThreshold

DOCUMENT ME!

haveBlue

boolean haveBlue

DOCUMENT ME!

haveColor

boolean haveColor

DOCUMENT ME!

haveGreen

boolean haveGreen

DOCUMENT ME!

haveRed

boolean haveRed

DOCUMENT ME!

imageType

int imageType

DOCUMENT ME!

initialDelta

int initialDelta

DOCUMENT ME!

initialDeltaB

int initialDeltaB

DOCUMENT ME!

initialDeltaG

int initialDeltaG

DOCUMENT ME!

initialDeltaR

int initialDeltaR

DOCUMENT ME!

leadString

java.lang.String leadString

DOCUMENT ME!

less

float less

DOCUMENT ME!

lowerMid

javax.swing.JLabel lowerMid

DOCUMENT ME!

lowerMidB

javax.swing.JLabel lowerMidB

DOCUMENT ME!

lowerMidG

javax.swing.JLabel lowerMidG

DOCUMENT ME!

lowerMidR

javax.swing.JLabel lowerMidR

DOCUMENT ME!

lowSetFromField

boolean lowSetFromField

DOCUMENT ME!

lowSetFromFieldB

boolean lowSetFromFieldB

DOCUMENT ME!

lowSetFromFieldG

boolean lowSetFromFieldG

DOCUMENT ME!

lowSetFromFieldR

boolean lowSetFromFieldR

DOCUMENT ME!

lowSlider

javax.swing.JSlider lowSlider

DOCUMENT ME!

lowSliderB

javax.swing.JSlider lowSliderB

DOCUMENT ME!

lowSliderField

javax.swing.JTextField lowSliderField

DOCUMENT ME!

lowSliderFieldB

javax.swing.JTextField lowSliderFieldB

DOCUMENT ME!

lowSliderFieldG

javax.swing.JTextField lowSliderFieldG

DOCUMENT ME!

lowSliderFieldR

javax.swing.JTextField lowSliderFieldR

DOCUMENT ME!

lowSliderG

javax.swing.JSlider lowSliderG

DOCUMENT ME!

lowSliderR

javax.swing.JSlider lowSliderR

DOCUMENT ME!

max

float max

DOCUMENT ME!

maxB

float maxB

DOCUMENT ME!

maxDistLabel

javax.swing.JLabel maxDistLabel

DOCUMENT ME!

maxDistTextF

javax.swing.JTextField maxDistTextF

DOCUMENT ME!

maxG

float maxG

DOCUMENT ME!

maximumFuzzy

javax.swing.JLabel maximumFuzzy

DOCUMENT ME!

maximumL

javax.swing.JLabel maximumL

DOCUMENT ME!

maximumLB

javax.swing.JLabel maximumLB

DOCUMENT ME!

maximumLG

javax.swing.JLabel maximumLG

DOCUMENT ME!

maximumLR

javax.swing.JLabel maximumLR

DOCUMENT ME!

maximumU

javax.swing.JLabel maximumU

DOCUMENT ME!

maximumUB

javax.swing.JLabel maximumUB

DOCUMENT ME!

maximumUG

javax.swing.JLabel maximumUG

DOCUMENT ME!

maximumUR

javax.swing.JLabel maximumUR

DOCUMENT ME!

maximumValue

double maximumValue

DOCUMENT ME!

maximumValueButton

javax.swing.JButton maximumValueButton

DOCUMENT ME!

maximumValueField

javax.swing.JTextField maximumValueField

DOCUMENT ME!

maxR

float maxR

DOCUMENT ME!

maxSizeLabel

javax.swing.JLabel maxSizeLabel

DOCUMENT ME!

maxSizeTextF

javax.swing.JTextField maxSizeTextF

DOCUMENT ME!

maxValue

double maxValue

DOCUMENT ME!

maxValueB

double maxValueB

DOCUMENT ME!

maxValueG

double maxValueG

DOCUMENT ME!

maxValueR

double maxValueR

DOCUMENT ME!

min

float min

DOCUMENT ME!

minB

float minB

DOCUMENT ME!

minG

float minG

DOCUMENT ME!

minimumFuzzy

javax.swing.JLabel minimumFuzzy

DOCUMENT ME!

minimumL

javax.swing.JLabel minimumL

DOCUMENT ME!

minimumLB

javax.swing.JLabel minimumLB

DOCUMENT ME!

minimumLG

javax.swing.JLabel minimumLG

DOCUMENT ME!

minimumLR

javax.swing.JLabel minimumLR

DOCUMENT ME!

minimumU

javax.swing.JLabel minimumU

DOCUMENT ME!

minimumUB

javax.swing.JLabel minimumUB

DOCUMENT ME!

minimumUG

javax.swing.JLabel minimumUG

DOCUMENT ME!

minimumUR

javax.swing.JLabel minimumUR

DOCUMENT ME!

minR

float minR

DOCUMENT ME!

minValue

double minValue

DOCUMENT ME!

minValueB

double minValueB

DOCUMENT ME!

minValueG

double minValueG

DOCUMENT ME!

minValueR

double minValueR

DOCUMENT ME!

more

float more

DOCUMENT ME!

paintGrowListeners

java.util.Vector<PaintGrowListener> paintGrowListeners

DOCUMENT ME!

posTextF

javax.swing.JTextField posTextF

DOCUMENT ME!

range

double range

DOCUMENT ME!

rangeB

double rangeB

DOCUMENT ME!

rangeG

double rangeG

DOCUMENT ME!

rangeR

double rangeR

DOCUMENT ME!

regionGrowAlgo

AlgorithmRegionGrow regionGrowAlgo

DOCUMENT ME!

setRadioBoth

boolean setRadioBoth

DOCUMENT ME!

sizeCheckbox

javax.swing.JCheckBox sizeCheckbox

DOCUMENT ME!

surfacePaint

SurfacePaint surfacePaint

SurfacePaint reference

surfacePaint_WM

SurfacePaint_WM surfacePaint_WM

SurfacePaint reference

tabbedPane

javax.swing.JTabbedPane tabbedPane

DOCUMENT ME!

upperMid

javax.swing.JLabel upperMid

DOCUMENT ME!

upperMidB

javax.swing.JLabel upperMidB

DOCUMENT ME!

upperMidG

javax.swing.JLabel upperMidG

DOCUMENT ME!

upperMidR

javax.swing.JLabel upperMidR

DOCUMENT ME!

upSetFromField

boolean upSetFromField

DOCUMENT ME!

upSetFromFieldB

boolean upSetFromFieldB

DOCUMENT ME!

upSetFromFieldG

boolean upSetFromFieldG

DOCUMENT ME!

upSetFromFieldR

boolean upSetFromFieldR

DOCUMENT ME!

upSlider

javax.swing.JSlider upSlider

DOCUMENT ME!

upSliderB

javax.swing.JSlider upSliderB

DOCUMENT ME!

upSliderField

javax.swing.JTextField upSliderField

DOCUMENT ME!

upSliderFieldB

javax.swing.JTextField upSliderFieldB

DOCUMENT ME!

upSliderFieldG

javax.swing.JTextField upSliderFieldG

DOCUMENT ME!

upSliderFieldR

javax.swing.JTextField upSliderFieldR

DOCUMENT ME!

upSliderG

javax.swing.JSlider upSliderG

DOCUMENT ME!

upSliderR

javax.swing.JSlider upSliderR

DOCUMENT ME!

useVOI

boolean useVOI

DOCUMENT ME!

variableDeltasCheckbox

javax.swing.JCheckBox variableDeltasCheckbox

DOCUMENT ME!

variableThresholds

boolean variableThresholds

DOCUMENT ME!

voiCheckbox

javax.swing.JCheckBox voiCheckbox

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogPaintRGBComponents extends JDialogBase implements Serializable

serialVersionUID:

844490628214011726L

Serialized Fields

useBBox

javax.swing.JCheckBox useBBox

useGBox

javax.swing.JCheckBox useGBox

useRBox

javax.swing.JCheckBox useRBox

Class gov.nih.mipav.view.dialogs.JDialogPaintVasculature extends JDialogBase implements Serializable

serialVersionUID:

-7746172110383193434L

Serialized Fields

deltaSetFromField

boolean deltaSetFromField

Boolean which indicates that the seed point intensity bounds were changed from one of the text fields and not from one of the sliders.

doneButton

javax.swing.JButton doneButton

Button to indicate that the painting is finished and the dialog and attached image frame should be closed.

growButton

javax.swing.JButton growButton

Button which indicates that a region grow has been initiated / is being adjusted.

intensityTF

javax.swing.JTextField intensityTF

Text field containing the seed value intensity.

intensityValue

int intensityValue

The value of seed points to use.

isCloseOkay

boolean isCloseOkay

Indicates that we are done with the current grow, and can close the MIP when the done button is next clicked.

lowerDeltaSlider

javax.swing.JSlider lowerDeltaSlider

Slider which adjusts the lower bound of the region grow.

lowerDeltaTF

javax.swing.JTextField lowerDeltaTF

Text field containing the lower bound of the region grow.

maxDelta

int maxDelta

The most we can get away from the initial seed point intensity value (151).

mouseIntensityLabel

javax.swing.JLabel mouseIntensityLabel

The intensity of the current mouse position within the mip.

mouseXLabel

javax.swing.JLabel mouseXLabel

The x position of the current mouse position within the mip.

mouseYLabel

javax.swing.JLabel mouseYLabel

The y position of the current mouse position within the mip.

mouseZLabel

javax.swing.JLabel mouseZLabel

The z position of the current mouse position within the mip (the z position of the volume voxel put into the mip).

oldSeedIntensity

int oldSeedIntensity

The intensity value to use to recalculate the possible seed points when switching from CLICK_POINT mode back to AUTO_MODE.

paintGrowListeners

java.util.Vector<ViewJComponentEditImage> paintGrowListeners

List of frames that want to know about paint updates.

paintGrowMode

int paintGrowMode

The point selection mode.

rfastFrame

ViewJFrameImage rfastFrame

The main RFAST frame.

seedPoints

java.util.Vector<WildMagic.LibFoundation.Mathematics.Vector3f> seedPoints

List of points where we have grown a region from.

toolbarPanel

javax.swing.JPanel toolbarPanel

The dialog's toolbar panel.

undoButton

javax.swing.JButton undoButton

Button to undo the last region grow change (either a click of the grow button, or an adjustment of the threshold sliders).

upperDeltaSlider

javax.swing.JSlider upperDeltaSlider

Slider which adjusts the upper bound of the region grow.

upperDeltaTF

javax.swing.JTextField upperDeltaTF

Text field containing the upper bound of the region grow.

Class gov.nih.mipav.view.dialogs.JDialogParticleAnalysisNew extends JDialogScriptableBase implements Serializable

serialVersionUID:

7849492525308767787L

Serialized Fields

comboBoxKernelClose

javax.swing.JComboBox comboBoxKernelClose

DOCUMENT ME!

comboBoxKernelOpen

javax.swing.JComboBox comboBoxKernelOpen

DOCUMENT ME!

do25D

boolean do25D

DOCUMENT ME!

erodePanel

javax.swing.JPanel erodePanel

Erode panel.

image

ModelImage image

DOCUMENT ME!

itersClose

int itersClose

itersErode

int itersErode

itersOpen

int itersOpen

kernelClose

int kernelClose

DOCUMENT ME!

kernelOpen

int kernelOpen

DOCUMENT ME!

kernelSizeClose

float kernelSizeClose

DOCUMENT ME!

kernelSizeOpen

float kernelSizeOpen

DOCUMENT ME!

labelKernelClose

javax.swing.JLabel labelKernelClose

DOCUMENT ME!

labelKernelOpen

javax.swing.JLabel labelKernelOpen

DOCUMENT ME!

labelKernelSizeClose

javax.swing.JLabel labelKernelSizeClose

DOCUMENT ME!

labelKernelSizeOpen

javax.swing.JLabel labelKernelSizeOpen

DOCUMENT ME!

labelNIterClose

javax.swing.JLabel labelNIterClose

DOCUMENT ME!

labelNIterErode

javax.swing.JLabel labelNIterErode

DOCUMENT ME!

labelNIterOpen

javax.swing.JLabel labelNIterOpen

DOCUMENT ME!

maskPanelClose

javax.swing.JPanel maskPanelClose

Close declearation.

maskPanelOpen

javax.swing.JPanel maskPanelOpen

DOCUMENT ME!

outputPanel

JPanelAlgorithmOutputOptions outputPanel

particleAlgo25D

AlgorithmMorphology25D particleAlgo25D

DOCUMENT ME!

particleAlgo2D

AlgorithmMorphology2D particleAlgo2D

DOCUMENT ME!

particleAlgo3D

AlgorithmMorphology3D particleAlgo3D

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

showFrame

boolean showFrame

DOCUMENT ME!

showResultCB

javax.swing.JCheckBox showResultCB

DOCUMENT ME!

textErode

javax.swing.JTextField textErode

DOCUMENT ME!

textKernelSizeClose

javax.swing.JTextField textKernelSizeClose

DOCUMENT ME!

textKernelSizeOpen

javax.swing.JTextField textKernelSizeOpen

DOCUMENT ME!

textNIterClose

javax.swing.JTextField textNIterClose

DOCUMENT ME!

textNIterOpen

javax.swing.JTextField textNIterOpen

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogPbBoundaryDetection extends JDialogScriptableBase implements Serializable

Serialized Fields

bgButton

javax.swing.JRadioButton bgButton

bgtgButton

javax.swing.JRadioButton bgtgButton

CannyButton

javax.swing.JRadioButton CannyButton

CannyPanel

javax.swing.JPanel CannyPanel

cgButton

javax.swing.JRadioButton cgButton

cgtgButton

javax.swing.JRadioButton cgtgButton

gaussianButton

javax.swing.JRadioButton gaussianButton

gm2Button

javax.swing.JRadioButton gm2Button

gmButton

javax.swing.JRadioButton gmButton

gradientGroup

javax.swing.ButtonGroup gradientGroup

gradientType

int gradientType

highRadius

double highRadius

hmult

double hmult

image

ModelImage image

DOCUMENT ME!

labelMult

javax.swing.JLabel labelMult

labelOrientations

javax.swing.JLabel labelOrientations

labelThresh

javax.swing.JLabel labelThresh

lowRadius

double lowRadius

noneButton

javax.swing.JRadioButton noneButton

nthresh

int nthresh

numOrientations

int numOrientations

pbAlgo

AlgorithmPbBoundaryDetection pbAlgo

DOCUMENT ME!

presentation

int presentation

resultImage

ModelImage resultImage

DOCUMENT ME!

savgolButton

javax.swing.JRadioButton savgolButton

sigma

double sigma

sigma16Button

javax.swing.JRadioButton sigma16Button

sigma1Button

javax.swing.JRadioButton sigma1Button

sigma2Button

javax.swing.JRadioButton sigma2Button

sigma4Button

javax.swing.JRadioButton sigma4Button

sigma8Button

javax.swing.JRadioButton sigma8Button

sigmaGroup

javax.swing.ButtonGroup sigmaGroup

sigmaPanel

javax.swing.JPanel sigmaPanel

smooth

java.lang.String smooth

smoothGroup

javax.swing.ButtonGroup smoothGroup

textMult

javax.swing.JTextField textMult

textOrientations

javax.swing.JTextField textOrientations

textThresh

javax.swing.JTextField textThresh

tgButton

javax.swing.JRadioButton tgButton

twoMM2Button

javax.swing.JRadioButton twoMM2Button

twoMMButton

javax.swing.JRadioButton twoMMButton

Class gov.nih.mipav.view.dialogs.JDialogPhaseCongruency extends JDialogBase implements Serializable

serialVersionUID:

5977927697947830216L

Serialized Fields

cornerBox

javax.swing.JCheckBox cornerBox

edgeBox

javax.swing.JCheckBox edgeBox

fields

javax.swing.JTextField[] fields

helpDialog

javax.swing.JDialog helpDialog

imFrame

java.awt.Frame imFrame

methodBox

javax.swing.JComboBox methodBox

orientationBox

javax.swing.JCheckBox orientationBox

phaseBox

javax.swing.JCheckBox phaseBox

srcImage

ModelImage srcImage

Class gov.nih.mipav.view.dialogs.JDialogPhasePreservingDenoising extends JDialogScriptableBase implements Serializable

Serialized Fields

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

dthetaonsigma

double dthetaonsigma

image

ModelImage image

Source image.

k

double k

labelDtheta

javax.swing.JLabel labelDtheta

labelK

javax.swing.JLabel labelK

labelMinwave

javax.swing.JLabel labelMinwave

labelMult

javax.swing.JLabel labelMult

labelOrient

javax.swing.JLabel labelOrient

labelScale

javax.swing.JLabel labelScale

labelSigmaon

javax.swing.JLabel labelSigmaon

labelSoft

javax.swing.JLabel labelSoft

minwavelength

double minwavelength

mult

double mult

newImage

javax.swing.JRadioButton newImage

norient

int norient

nscale

int nscale

paramPanel

javax.swing.JPanel paramPanel

ppDenoisingAlgo

PhasePreservingDenoising ppDenoisingAlgo

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

resultImage

ModelImage resultImage

sigmaonf

double sigmaonf

softness

double softness

textDtheta

javax.swing.JTextField textDtheta

textK

javax.swing.JTextField textK

textMinwave

javax.swing.JTextField textMinwave

textMult

javax.swing.JTextField textMult

textOrient

javax.swing.JTextField textOrient

textScale

javax.swing.JTextField textScale

textSigmaon

javax.swing.JTextField textSigmaon

textSoft

javax.swing.JTextField textSoft

titles

java.lang.String[] titles

useProgressBar

boolean useProgressBar

userInterface

ViewUserInterface userInterface

Class gov.nih.mipav.view.dialogs.JDialogPointArea extends JDialogScriptableBase implements Serializable

serialVersionUID:

-2157089114762708039L

Serialized Fields

averageIntensities

float[] averageIntensities

DOCUMENT ME!

constrainBox

javax.swing.JCheckBox constrainBox

DOCUMENT ME!

leftPad

boolean leftPad

DOCUMENT ME!

leftPadBox

javax.swing.JCheckBox leftPadBox

DOCUMENT ME!

locationField

javax.swing.JTextField locationField

DOCUMENT ME!

pointAlgo

AlgorithmPointArea pointAlgo

DOCUMENT ME!

rgbAverageIntensities

float[][] rgbAverageIntensities

DOCUMENT ME!

showGraph

boolean showGraph

DOCUMENT ME!

srcImage

ModelImage srcImage

DOCUMENT ME!

threshold

float threshold

DOCUMENT ME!

thresholdBox

javax.swing.JCheckBox thresholdBox

DOCUMENT ME!

thresholdField

javax.swing.JTextField thresholdField

DOCUMENT ME!

topPad

boolean topPad

DOCUMENT ME!

topPadBox

javax.swing.JCheckBox topPadBox

DOCUMENT ME!

useThreshold

boolean useThreshold

DOCUMENT ME!

xLoc

int xLoc

DOCUMENT ME!

xSpaceField

javax.swing.JTextField xSpaceField

DOCUMENT ME!

xSpacing

int xSpacing

DOCUMENT ME!

yLoc

int yLoc

DOCUMENT ME!

ySpaceField

javax.swing.JTextField ySpaceField

DOCUMENT ME!

ySpacing

int ySpacing

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogPointArea.JTextFieldFilter extends javax.swing.text.PlainDocument implements Serializable

serialVersionUID:

-4552252563901427164L

Serialized Fields

acceptedChars

java.lang.String acceptedChars

DOCUMENT ME!

box

javax.swing.JCheckBox box

DOCUMENT ME!

negativeAccepted

boolean negativeAccepted

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogPointArea.UpdateYSpaceAction extends javax.swing.AbstractAction implements Serializable

serialVersionUID:

578406985180315919L

Class gov.nih.mipav.view.dialogs.JDialogPolygonToCircle extends JDialogBase implements Serializable

serialVersionUID:

0L

Serialized Fields

algorithm

int algorithm

CROSSRATIO_POLYGON_TO_CIRCLE

int CROSSRATIO_POLYGON_TO_CIRCLE

crossRatioCheckBox

javax.swing.JCheckBox crossRatioCheckBox

extents

int[] extents

DOCUMENT ME!

exteriorCheckBox

javax.swing.JCheckBox exteriorCheckBox

image

ModelImage image

DOCUMENT ME!

POLYGON_EXTERIOR_TO_CIRCLE

int POLYGON_EXTERIOR_TO_CIRCLE

POLYGON_TO_CIRCLE

int POLYGON_TO_CIRCLE

resultImage

ModelImage resultImage

DOCUMENT ME!

sAlgo

SchwarzChristoffelMapping sAlgo

DOCUMENT ME!

setCenter

boolean setCenter

setCenterCheckBox

javax.swing.JCheckBox setCenterCheckBox

xCenter

double xCenter

xCenterLabel

javax.swing.JLabel xCenterLabel

xCenterText

javax.swing.JTextField xCenterText

xDim

int xDim

DOCUMENT ME!

xSource

double[] xSource

DOCUMENT ME!

xText

javax.swing.JTextField xText

DOCUMENT ME!

yCenter

double yCenter

yCenterLabel

javax.swing.JLabel yCenterLabel

yCenterText

javax.swing.JTextField yCenterText

ySource

double[] ySource

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogPolygonToRectangle extends JDialogBase implements Serializable

serialVersionUID:

0L

Serialized Fields

algorithm

int algorithm

corners

int[] corners

CROSSRATIO_POLYGON_TO_RECTANGLE

int CROSSRATIO_POLYGON_TO_RECTANGLE

crossRatioCheckBox

javax.swing.JCheckBox crossRatioCheckBox

extents

int[] extents

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

POLYGON_TO_RECTANGLE

int POLYGON_TO_RECTANGLE

resultImage

ModelImage resultImage

DOCUMENT ME!

sAlgo

SchwarzChristoffelMapping sAlgo

DOCUMENT ME!

v0Text

javax.swing.JTextField v0Text

v1Text

javax.swing.JTextField v1Text

v2Text

javax.swing.JTextField v2Text

v3Text

javax.swing.JTextField v3Text

xDim

int xDim

DOCUMENT ME!

xSource

double[] xSource

DOCUMENT ME!

xText

javax.swing.JTextField xText

DOCUMENT ME!

yDim

int yDim

DOCUMENT ME!

ySource

double[] ySource

DOCUMENT ME!

yText

javax.swing.JTextField yText

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogPowerPaint extends JDialogBase implements Serializable

serialVersionUID:

6175130808453006120L

Serialized Fields

backgroundDim

int backgroundDim

DOCUMENT ME!

backgroundsDim

int backgroundsDim

DOCUMENT ME!

botPanel

javax.swing.JPanel botPanel

DOCUMENT ME!

buttonDilate

javax.swing.JButton buttonDilate

DOCUMENT ME!

buttonErode

javax.swing.JButton buttonErode

DOCUMENT ME!

buttonExportToMask

javax.swing.JButton buttonExportToMask

DOCUMENT ME!

buttonExportToVOI

javax.swing.JButton buttonExportToVOI

DOCUMENT ME!

buttonFillBackground

javax.swing.JButton buttonFillBackground

DOCUMENT ME!

buttonFillBackgrounds

javax.swing.JButton buttonFillBackgrounds

DOCUMENT ME!

buttonGrowRegion

javax.swing.JButton buttonGrowRegion

DOCUMENT ME!

buttonImportFromMask

javax.swing.JButton buttonImportFromMask

DOCUMENT ME!

buttonImportFromVOI

javax.swing.JButton buttonImportFromVOI

DOCUMENT ME!

buttonRevert

javax.swing.JButton buttonRevert

DOCUMENT ME!

buttonRmObject

javax.swing.JButton buttonRmObject

DOCUMENT ME!

buttonRmObjects

javax.swing.JButton buttonRmObjects

DOCUMENT ME!

buttonShortkeys

javax.swing.JToggleButton buttonShortkeys

DOCUMENT ME!

c2x

int c2x

DOCUMENT ME!

c2y

int c2y

DOCUMENT ME!

c2z

int c2z

DOCUMENT ME!

c3x

int c3x

DOCUMENT ME!

c3y

int c3y

DOCUMENT ME!

c3z

int c3z

DOCUMENT ME!

checkSave

javax.swing.JCheckBox checkSave

DOCUMENT ME!

checkThreshold

javax.swing.JCheckBox checkThreshold

handling of intensity threshold.

comboConnectType

javax.swing.JComboBox comboConnectType

DOCUMENT ME!

comboDilateDimType

javax.swing.JComboBox comboDilateDimType

DOCUMENT ME!

comboErodeDimType

javax.swing.JComboBox comboErodeDimType

DOCUMENT ME!

comboStructureType

javax.swing.JComboBox comboStructureType

DOCUMENT ME!

connectType

java.lang.String connectType

DOCUMENT ME!

connectTypes

java.lang.String[] connectTypes

DOCUMENT ME!

dilateDimType

java.lang.String dilateDimType

DOCUMENT ME!

dimTypes

java.lang.String[] dimTypes

DOCUMENT ME!

erodeDimType

java.lang.String erodeDimType

DOCUMENT ME!

exportPanel

javax.swing.JPanel exportPanel

DOCUMENT ME!

getMouseInput

int getMouseInput

DOCUMENT ME!

groupBackground

javax.swing.ButtonGroup groupBackground

DOCUMENT ME!

groupBackgrounds

javax.swing.ButtonGroup groupBackgrounds

DOCUMENT ME!

groupGrowRegion

javax.swing.ButtonGroup groupGrowRegion

DOCUMENT ME!

groupObject

javax.swing.ButtonGroup groupObject

DOCUMENT ME!

groupObjects

javax.swing.ButtonGroup groupObjects

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

labelConnectType

javax.swing.JLabel labelConnectType

DOCUMENT ME!

labelO2D

javax.swing.JLabel labelO2D

DOCUMENT ME!

labelO3D

javax.swing.JLabel labelO3D

DOCUMENT ME!

labelStructureType

javax.swing.JLabel labelStructureType

DOCUMENT ME!

labelStructuring

javax.swing.JLabel labelStructuring

DOCUMENT ME!

lowerThreshold

float lowerThreshold

handling of intensity threshold.

mainPanel

javax.swing.JPanel mainPanel

dialog elements.

morphoPanel

javax.swing.JPanel morphoPanel

DOCUMENT ME!

movePanel

javax.swing.JPanel movePanel

DOCUMENT ME!

nx

int nx

DOCUMENT ME!

ny

int ny

DOCUMENT ME!

nz

int nz

DOCUMENT ME!

objectPanel

javax.swing.JPanel objectPanel

DOCUMENT ME!

panelThreshold

javax.swing.JPanel panelThreshold

DOCUMENT ME!

previous

java.util.BitSet previous

internal objects.

radioBackground2D

javax.swing.JRadioButton radioBackground2D

DOCUMENT ME!

radioBackground3D

javax.swing.JRadioButton radioBackground3D

DOCUMENT ME!

radioBackgrounds2D

javax.swing.JRadioButton radioBackgrounds2D

DOCUMENT ME!

radioBackgrounds3D

javax.swing.JRadioButton radioBackgrounds3D

DOCUMENT ME!

radioGrowRegion2D

javax.swing.JRadioButton radioGrowRegion2D

DOCUMENT ME!

radioGrowRegion3D

javax.swing.JRadioButton radioGrowRegion3D

DOCUMENT ME!

radioObject2D

javax.swing.JRadioButton radioObject2D

DOCUMENT ME!

radioObject3D

javax.swing.JRadioButton radioObject3D

DOCUMENT ME!

radioObjects2D

javax.swing.JRadioButton radioObjects2D

DOCUMENT ME!

radioObjects3D

javax.swing.JRadioButton radioObjects3D

DOCUMENT ME!

regionGrowDim

int regionGrowDim

parameters.

resultImage

ModelImage resultImage

DOCUMENT ME!

rmObjDim

int rmObjDim

DOCUMENT ME!

rmObjsDim

int rmObjsDim

DOCUMENT ME!

save

PaintAutoSave save

DOCUMENT ME!

saver

java.util.Timer saver

DOCUMENT ME!

se2xy

java.util.BitSet se2xy

DOCUMENT ME!

se2xz

java.util.BitSet se2xz

DOCUMENT ME!

se2yz

java.util.BitSet se2yz

DOCUMENT ME!

se3

java.util.BitSet se3

DOCUMENT ME!

spinLower

javax.swing.JSpinner spinLower

handling of intensity threshold.

spinUpper

javax.swing.JSpinner spinUpper

DOCUMENT ME!

structureSize

float structureSize

DOCUMENT ME!

structureType

java.lang.String structureType

DOCUMENT ME!

structureTypes

java.lang.String[] structureTypes

DOCUMENT ME!

textSave

javax.swing.JTextField textSave

DOCUMENT ME!

textStructuring

javax.swing.JTextField textStructuring

DOCUMENT ME!

upperThreshold

float upperThreshold

handling of intensity threshold.

Class gov.nih.mipav.view.dialogs.JDialogPowerWatershed extends JDialogScriptableBase implements Serializable

Serialized Fields

algo

int algo

Use serialVersionUID for interoperability.

algoGroup

javax.swing.ButtonGroup algoGroup

componentImage

ViewJComponentEditImage componentImage

geod

boolean geod

geodesicCheckBox

javax.swing.JCheckBox geodesicCheckBox

haveOne

boolean haveOne

haveTwo

boolean haveTwo

image

ModelImage image

DOCUMENT ME!

imageComboBox

javax.swing.JComboBox imageComboBox

index_labels

java.util.Vector<java.lang.Short> index_labels

index_seeds

java.util.Vector<java.lang.Integer> index_seeds

KruskalButton

javax.swing.JRadioButton KruskalButton

labelsGroup

javax.swing.ButtonGroup labelsGroup

maskButton

javax.swing.JButton maskButton

maskImage

ModelImage maskImage

maskName

java.lang.String maskName

multiButton

javax.swing.JRadioButton multiButton

pointList

java.util.ArrayList<JDialogPowerWatershed.labelIndexItem> pointList

pointNum

short pointNum

pointsButton

javax.swing.JButton pointsButton

PowerButton

javax.swing.JRadioButton PowerButton

presentvoiIndex

int presentvoiIndex

PrimButton

javax.swing.JRadioButton PrimButton

pwAlgo

AlgorithmPowerWatershed pwAlgo

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

twoButton

javax.swing.JRadioButton twoButton

UI

ViewUserInterface UI

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogPrincipalComponents extends JDialogScriptableBase implements Serializable

serialVersionUID:

7032654276398964355L

Serialized Fields

averagedImageCheckbox

javax.swing.JCheckBox averagedImageCheckbox

DOCUMENT ME!

buttonMatchFile

javax.swing.JButton buttonMatchFile

directoryMatch

java.lang.String directoryMatch

displayAndAsk

boolean displayAndAsk

DOCUMENT ME!

displayPCheckbox

javax.swing.JCheckBox displayPCheckbox

DOCUMENT ME!

distanceGroup

javax.swing.ButtonGroup distanceGroup

doAveraging

boolean doAveraging

DOCUMENT ME!

doFilter

boolean doFilter

DOCUMENT ME!

doMahalanobisDistance

boolean doMahalanobisDistance

EuclideanButton

javax.swing.JRadioButton EuclideanButton

fileNameMatch

java.lang.String fileNameMatch

filteredImageCheckbox

javax.swing.JCheckBox filteredImageCheckbox

DOCUMENT ME!

imageFrame

ViewJFrameImage[] imageFrame

DOCUMENT ME!

imageNumber

int imageNumber

DOCUMENT ME!

imageType

int imageType

DOCUMENT ME!

iNumber

int iNumber

DOCUMENT ME!

labelNumber

javax.swing.JLabel labelNumber

DOCUMENT ME!

MahalanobisButton

javax.swing.JRadioButton MahalanobisButton

matchImage

ModelImage matchImage

nPlanes

int nPlanes

DOCUMENT ME!

pComponentAlgo

AlgorithmPrincipalComponents pComponentAlgo

DOCUMENT ME!

pNumber

int pNumber

DOCUMENT ME!

resultImage

ModelImage[] resultImage

DOCUMENT ME!

srcImage

ModelImage srcImage

DOCUMENT ME!

textMatchFile

javax.swing.JTextField textMatchFile

textNumber

javax.swing.JTextField textNumber

DOCUMENT ME!

UI

ViewUserInterface UI

Class gov.nih.mipav.view.dialogs.JDialogPyWavelets extends JDialogScriptableBase implements Serializable

Serialized Fields

axes

int[] axes

BayesCheckBox

javax.swing.JCheckBox BayesCheckBox

comboBoxFilterType

javax.swing.JComboBox<java.lang.String>[] comboBoxFilterType

comboBoxLevels

javax.swing.JComboBox<java.lang.String> comboBoxLevels

comboBoxModeX

javax.swing.JComboBox<java.lang.String> comboBoxModeX

comboBoxModeY

javax.swing.JComboBox<java.lang.String> comboBoxModeY

comboBoxModeZ

javax.swing.JComboBox<java.lang.String> comboBoxModeZ

comboBoxNameX

javax.swing.JComboBox<java.lang.String> comboBoxNameX

comboBoxNameY

javax.swing.JComboBox<java.lang.String> comboBoxNameY

comboBoxNameZ

javax.swing.JComboBox<java.lang.String> comboBoxNameZ

comboBoxOrderX

javax.swing.JComboBox<java.lang.String> comboBoxOrderX

comboBoxOrderY

javax.swing.JComboBox<java.lang.String> comboBoxOrderY

comboBoxOrderZ

javax.swing.JComboBox<java.lang.String> comboBoxOrderZ

comboBoxStartLevel

javax.swing.JComboBox<java.lang.String> comboBoxStartLevel

doBayesShrinkThresholdComputation

boolean doBayesShrinkThresholdComputation

doX

boolean doX

doY

boolean doY

doZ

boolean doZ

FILTER_GREATER

int FILTER_GREATER

FILTER_HARD

int FILTER_HARD

FILTER_LESS

int FILTER_LESS

FILTER_NN_GARROTE

int FILTER_NN_GARROTE

FILTER_NONE

int FILTER_NONE

FILTER_SOFT

int FILTER_SOFT

FILTER_THRESHOLD_FIRM

int FILTER_THRESHOLD_FIRM

filteredCheckBox

javax.swing.JCheckBox filteredCheckBox

filterType

int[] filterType

filterVal1

double[] filterVal1

filterVal2

double[] filterVal2

gbc

java.awt.GridBagConstraints gbc

image

ModelImage image

Source image.

labelComponents

javax.swing.JLabel[] labelComponents

labelLevels

javax.swing.JLabel labelLevels

labelModeX

javax.swing.JLabel labelModeX

labelModeY

javax.swing.JLabel labelModeY

labelModeZ

javax.swing.JLabel labelModeZ

labelNameX

javax.swing.JLabel labelNameX

labelNameY

javax.swing.JLabel labelNameY

labelNameZ

javax.swing.JLabel labelNameZ

labelOrderX

javax.swing.JLabel labelOrderX

labelOrderY

javax.swing.JLabel labelOrderY

labelOrderZ

javax.swing.JLabel labelOrderZ

labelStartLevel

javax.swing.JLabel labelStartLevel

labelVal1

javax.swing.JLabel[] labelVal1

labelVal2

javax.swing.JLabel[] labelVal2

lastNameStringX

java.lang.String lastNameStringX

lastNameStringY

java.lang.String lastNameStringY

lastNameStringZ

java.lang.String lastNameStringZ

levels

int levels

modes

PyWavelets.MODE[] modes

MULTILEVEL_DWT

int MULTILEVEL_DWT

multiLevelDWTButton

javax.swing.JRadioButton multiLevelDWTButton

names

PyWavelets.WAVELET_NAME[] names

numComponents

int numComponents

orders

int[] orders

resultImage

ModelImage resultImage

Result image.

showFilteredTransform

boolean showFilteredTransform

showTransform

boolean showTransform

SINGLE_LEVEL_DWT

int SINGLE_LEVEL_DWT

singleLevelDWTButton

javax.swing.JRadioButton singleLevelDWTButton

start_level

int start_level

SWT

int SWT

SWTButton

javax.swing.JRadioButton SWTButton

tabbedPane

javax.swing.JTabbedPane tabbedPane

Tabbed pane

textVal1

javax.swing.JTextField[] textVal1

textVal2

javax.swing.JTextField[] textVal2

transformCheckBox

javax.swing.JCheckBox transformCheckBox

transformTypeGroup

javax.swing.ButtonGroup transformTypeGroup

tType

int tType

waveletAlgo

PyWavelets waveletAlgo

Use serialVersionUID for interoperability.

waveletPanel

javax.swing.JPanel waveletPanel

xAxisCheckBox

javax.swing.JCheckBox xAxisCheckBox

yAxisCheckBox

javax.swing.JCheckBox yAxisCheckBox

zAxisCheckBox

javax.swing.JCheckBox zAxisCheckBox

Class gov.nih.mipav.view.dialogs.JDialogQuantify extends JDialogScriptableBase implements Serializable

serialVersionUID:

412669652447327059L

Serialized Fields

algoQuantify

AlgorithmQuantify algoQuantify

DOCUMENT ME!

buttonFile

javax.swing.JButton buttonFile

comboBoxImage

javax.swing.JComboBox comboBoxImage

directory

java.lang.String directory

DOCUMENT ME!

fileName

java.lang.String fileName

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

loadCheckBox

javax.swing.JCheckBox loadCheckBox

maskImage

ModelImage maskImage

DOCUMENT ME!

textFile

javax.swing.JTextField textFile

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogQuantifyMask extends JDialogScriptableBase implements Serializable

Serialized Fields

image

ModelImage image

Class gov.nih.mipav.view.dialogs.JDialogRandomizeSliceOrder extends JDialogScriptableBase implements Serializable

serialVersionUID:

8562091054505687054L

Serialized Fields

image

ModelImage image

DOCUMENT ME!

orderAlgo

AlgorithmRandSliceOrder orderAlgo

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogRawIO extends JDialogBase implements Serializable

serialVersionUID:

-1588091095156376702L

Serialized Fields

checkboxEnd

javax.swing.JCheckBox checkboxEnd

DOCUMENT ME!

comboBoxUnitOfMeasure1

javax.swing.JComboBox comboBoxUnitOfMeasure1

DOCUMENT ME!

comboBoxUnitOfMeasure2

javax.swing.JComboBox comboBoxUnitOfMeasure2

DOCUMENT ME!

comboBoxUnitOfMeasure3

javax.swing.JComboBox comboBoxUnitOfMeasure3

DOCUMENT ME!

comboBoxUnitOfMeasure4

javax.swing.JComboBox comboBoxUnitOfMeasure4

DOCUMENT ME!

comboBoxUnitOfMeasure5

javax.swing.JComboBox comboBoxUnitOfMeasure5

DOCUMENT ME!

dataType

int dataType

DOCUMENT ME!

dimExtents

int[] dimExtents

DOCUMENT ME!

endianess

boolean endianess

DOCUMENT ME!

extents

int[] extents

DOCUMENT ME!

labelOffset

javax.swing.JLabel labelOffset

DOCUMENT ME!

offset

int offset

DOCUMENT ME!

radioARGB

javax.swing.JRadioButton radioARGB

DOCUMENT ME!

radioARGB_FLOAT

javax.swing.JRadioButton radioARGB_FLOAT

radioARGB_UINTEGER

javax.swing.JRadioButton radioARGB_UINTEGER

radioARGB_USHORT

javax.swing.JRadioButton radioARGB_USHORT

DOCUMENT ME!

radioBool

javax.swing.JRadioButton radioBool

DOCUMENT ME!

radioByte

javax.swing.JRadioButton radioByte

DOCUMENT ME!

radioDouble

javax.swing.JRadioButton radioDouble

DOCUMENT ME!

radioFloat

javax.swing.JRadioButton radioFloat

DOCUMENT ME!

radioInt

javax.swing.JRadioButton radioInt

DOCUMENT ME!

radioLong

javax.swing.JRadioButton radioLong

DOCUMENT ME!

radioShort

javax.swing.JRadioButton radioShort

DOCUMENT ME!

radioUByte

javax.swing.JRadioButton radioUByte

DOCUMENT ME!

radioUInt

javax.swing.JRadioButton radioUInt

DOCUMENT ME!

radioUShort

javax.swing.JRadioButton radioUShort

DOCUMENT ME!

resolutions

float[] resolutions

DOCUMENT ME!

textDim1

javax.swing.JTextField textDim1

DOCUMENT ME!

textDim2

javax.swing.JTextField textDim2

DOCUMENT ME!

textDim3

javax.swing.JTextField textDim3

DOCUMENT ME!

textDim4

javax.swing.JTextField textDim4

DOCUMENT ME!

textDim5

javax.swing.JTextField textDim5

DOCUMENT ME!

textOffset

javax.swing.JTextField textOffset

DOCUMENT ME!

textRes1

javax.swing.JTextField textRes1

DOCUMENT ME!

textRes2

javax.swing.JTextField textRes2

DOCUMENT ME!

textRes3

javax.swing.JTextField textRes3

DOCUMENT ME!

textRes4

javax.swing.JTextField textRes4

DOCUMENT ME!

textRes5

javax.swing.JTextField textRes5

DOCUMENT ME!

unitsOfMeasure

int[] unitsOfMeasure

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogRecordLUT extends JDialogBase implements Serializable

serialVersionUID:

2240336763327716473L

Serialized Fields

compLUT

ViewJComponentLUTTable compLUT

Lookup table of image. The rectangular LUT table.

image

ModelImage image

ModelImage reference.

lut

ModelLUT lut

LUT table renference.

lutTablePanel

javax.swing.JPanel lutTablePanel

LUT table panel.

offsetX

int offsetX

Offset to draw the tick mark and value label.

offsetY

int offsetY

DOCUMENT ME!

tBarPanel

javax.swing.JPanel tBarPanel

Panel to hold the toolbar.

toolBar

javax.swing.JToolBar toolBar

Toolbar.

x

float[] x

control points coordinate of LUT transfer function .

xN

int[] xN

DOCUMENT ME!

y

float[] y

DOCUMENT ME!

yN

int[] yN

DOCUMENT ME!

z

float[] z

DOCUMENT ME!

zN

int[] zN

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogRegionMergingViaBoundaryMelting extends JDialogScriptableBase implements Serializable

Serialized Fields

image

ModelImage image

DOCUMENT ME!

regionAlgo

AlgorithmRegionMergingViaBoundaryMelting regionAlgo

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textThreshold1

javax.swing.JTextField textThreshold1

textThreshold2

javax.swing.JTextField textThreshold2

textThreshold3

javax.swing.JTextField textThreshold3

threshold1

double threshold1

threshold2

double threshold2

threshold3

double threshold3

Class gov.nih.mipav.view.dialogs.JDialogRegionsFromPartialBorders extends JDialogScriptableBase implements Serializable

Serialized Fields

darkObjectButton

javax.swing.JRadioButton darkObjectButton

darkObjectOnWhiteBackground

boolean darkObjectOnWhiteBackground

image

ModelImage image

DOCUMENT ME!

maximumDistance

double maximumDistance

objectGroup

javax.swing.ButtonGroup objectGroup

regionsAlgo

AlgorithmRegionsFromPartialBorders regionsAlgo

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textMaximumDistance

javax.swing.JTextField textMaximumDistance

DOCUMENT ME!

textThreshold

javax.swing.JTextField textThreshold

threshold

double threshold

whiteObjectButton

javax.swing.JRadioButton whiteObjectButton

Class gov.nih.mipav.view.dialogs.JDialogRegistrationBSpline extends JDialogScriptableBase implements Serializable

serialVersionUID:

8193864043052368084L

Serialized Fields

kStringDimension

java.lang.String kStringDimension

DOCUMENT ME.*

m_akNamesCompatibleTargetImages

java.lang.String[] m_akNamesCompatibleTargetImages

Contains names of compatible target images that can be registered to the input source image for 2D/3D registration. Null reference for 2.5D registration.

m_bCreateDeformationImage

boolean m_bCreateDeformationImage

Flag set if the deformation computation is to be performed. Reflects the state of the associated check box in the dialog.

m_iTargetSlice

int m_iTargetSlice

Index of the slice from the source image to use for 2.5 registration. The index may be -1 to indicate registration is with adjacent slice. Reflects the state of the target slice radio buttons and the combo box if a particular reference slice is to be used.

m_kAlgorithmReg

AlgorithmRegBSpline m_kAlgorithmReg

Flag set if the deformation computation is to be performed.

m_kCheckCreateDeformationImage

javax.swing.JCheckBox m_kCheckCreateDeformationImage

DOCUMENT ME!

m_kCheckMultiPass

javax.swing.JCheckBox m_kCheckMultiPass

DOCUMENT ME!

m_kComboBoxCostFunction

javax.swing.JComboBox m_kComboBoxCostFunction

DOCUMENT ME!

m_kComboBoxTargetImage

javax.swing.JComboBox m_kComboBoxTargetImage

Controls displayed in the dialog box. All of these controls are always displayed unless otherwise noted.

m_kComboBoxTargetSlice

javax.swing.JComboBox m_kComboBoxTargetSlice

DOCUMENT ME!

m_kControlsPass1

JDialogRegistrationBSpline.Controls m_kControlsPass1

Container for controls to select the parameters for the first pass of registration. These controls are always displayed.

m_kControlsPass2

JDialogRegistrationBSpline.Controls m_kControlsPass2

Container for controls to select the parameters for the optional second pass of registration. These controls are created but are only displayed when the check box is selected for two-pass registration.

m_kImageDef

ModelImage m_kImageDef

Reference to new image creatd with computed deformation resulting from registration. Null reference is deformation computation is not selected.

m_kImageReg

ModelImage m_kImageReg

Reference to new image created with result of registration of source image. Cannot be null.

m_kImageSrc

ModelImage m_kImageSrc

Reference to the input source image. Cannot be null.

m_kImageTrg

ModelImage m_kImageTrg

Reference to the selected target image. Null reference for 2.5D registration.

m_kLabelIterationsPass1

javax.swing.JLabel m_kLabelIterationsPass1

DOCUMENT ME!

m_kLabelIterationsPass2

javax.swing.JLabel m_kLabelIterationsPass2

DOCUMENT ME!

m_kLabelOptionsPass1

javax.swing.JLabel m_kLabelOptionsPass1

DOCUMENT ME!

m_kLabelOptionsPass2

javax.swing.JLabel m_kLabelOptionsPass2

DOCUMENT ME!

m_kOptionsPass1

AlgorithmRegBSpline.Options m_kOptionsPass1

Reference to parameters to use for first pass of registration. Cannot be null.

m_kOptionsPass2

AlgorithmRegBSpline.Options m_kOptionsPass2

Reference to parameters to use for optional second pass of registration. Null reference if only a single pass of registration is to be performed.

m_kRadioSliceAdjacent

javax.swing.JRadioButton m_kRadioSliceAdjacent

DOCUMENT ME!

m_kRadioSliceReference

javax.swing.JRadioButton m_kRadioSliceReference

DOCUMENT ME!

m_kRegMeasure

RegistrationMeasure m_kRegMeasure

Reference to concrete implementation of the RegistrationMeasure abstract class which defines the particular measure to use during registration. Cannot be null. Reflects the selection in the associated combo box in the dialog.

m_kUI

ViewUserInterface m_kUI

Used for scripting and to access the currently registered images.

Class gov.nih.mipav.view.dialogs.JDialogRegistrationChamfer extends JDialogBase implements Serializable

serialVersionUID:

8391544557885381489L

Serialized Fields

baseImage

ModelImage baseImage

Register match image to base image.

chamfer

AlgorithmRegChamfer chamfer

Algorithm this dialog will call.

comboBox2or3D

javax.swing.JComboBox comboBox2or3D

GUI components.

comboBoxEdge

javax.swing.JComboBox comboBoxEdge

DOCUMENT ME!

comboBoxOriginal

javax.swing.JComboBox comboBoxOriginal

DOCUMENT ME!

edge

javax.swing.JLabel edge

DOCUMENT ME!

image25D

boolean image25D

true means do each slice individually, false means do them all together.

matchImage

ModelImage matchImage

Register match image to base image.

original

javax.swing.JLabel original

DOCUMENT ME!

regionFlag

boolean regionFlag

true means apply algorithm to whole image, false means to just the VOI.

register25D

javax.swing.JRadioButton register25D

DOCUMENT ME!

register2Dor3D

javax.swing.JRadioButton register2Dor3D

DOCUMENT ME!

titles

java.lang.String[] titles

Used for setting image to locked and unlocked.

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

voiRegions

javax.swing.JRadioButton voiRegions

DOCUMENT ME!

wholeImage

javax.swing.JRadioButton wholeImage

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogRegistrationLeastSquares extends JDialogScriptableBase implements Serializable

serialVersionUID:

-2171665599919057675L

Serialized Fields

baseImage

ModelImage baseImage

Base image - register match image to base image.

comboBoxImage

javax.swing.JComboBox comboBoxImage

Combo box with image names for choosing base image.

dataType

int dataType

DIM

int DIM

Number of dimensions in match image.

fillValue

float fillValue

fromOAR3D

boolean fromOAR3D

DOCUMENT ME!

haveNonPointVOI

boolean haveNonPointVOI

imageMax

double imageMax

imageMin

double imageMin

lsCompleted

boolean lsCompleted

DOCUMENT ME!

LSMatch

AlgorithmRegLeastSquares LSMatch

Algorithm to run from this dialog.

matchImage

ModelImage matchImage

Match image - register match image to base image.

matrixComboBox

javax.swing.JComboBox matrixComboBox

matrixDirectory

java.lang.String matrixDirectory

matrixLabel

javax.swing.JLabel matrixLabel

outOfBoundsComboBox

javax.swing.JComboBox outOfBoundsComboBox

outOfBoundsIndex

int outOfBoundsIndex

Tells how to select fill value for out of bounds data 0 for image minimum 1 for NaN for float, zero otherwise. 2 for user defined 3 for image maximum

outOfBoundsLabel

javax.swing.JLabel outOfBoundsLabel

resultImage

ModelImage resultImage

Result image - image returned from registration algorithm.

resultMatrix

TransMatrix resultMatrix

DOCUMENT ME!

titles

java.lang.String[] titles

Used to lock and unlock images.

userDirectoryLabel

javax.swing.JLabel userDirectoryLabel

userDirectoryText

javax.swing.JTextField userDirectoryText

userInterface

ViewUserInterface userInterface

Reference to userface.

valueLabel

javax.swing.JLabel valueLabel

valueText

javax.swing.JTextField valueText

xdimA

int xdimA

Dimensions of match image and base image.

xresA

float xresA

Resolutions of match image and base image.

xresB

float xresB

Resolutions of match image and base image.

ydimA

int ydimA

Dimensions of match image and base image.

yresA

float yresA

Resolutions of match image and base image.

yresB

float yresB

Resolutions of match image and base image.

zdimA

int zdimA

Dimensions of match image and base image.

zresA

float zresA

Resolutions of match image and base image.

zresB

float zresB

Resolutions of match image and base image.

Class gov.nih.mipav.view.dialogs.JDialogRegistrationOAR25D extends JDialogScriptableBase implements Serializable

serialVersionUID:

-8324270868997072706L

Serialized Fields

adjacentImageRButton

javax.swing.JRadioButton adjacentImageRButton

DOCUMENT ME!

advancedDialog

javax.swing.JDialog advancedDialog

Variables for Advanced Settings dialog.

buttonWeightInput

javax.swing.JButton buttonWeightInput

DOCUMENT ME!

coarseRate

float coarseRate

DOCUMENT ME!

coarseRateText

javax.swing.JTextField coarseRateText

DOCUMENT ME!

comboBoxCostFunct

javax.swing.JComboBox comboBoxCostFunct

DOCUMENT ME!

comboBoxDOF

javax.swing.JComboBox comboBoxDOF

DOCUMENT ME!

comboBoxInterp

javax.swing.JComboBox comboBoxInterp

DOCUMENT ME!

comboBoxInterp2

javax.swing.JComboBox comboBoxInterp2

DOCUMENT ME!

comboBoxSearchAlgo

javax.swing.JComboBox comboBoxSearchAlgo

cost

int cost

DOCUMENT ME!

directoryWInput

java.lang.String directoryWInput

DOCUMENT ME!

doAdjacent

boolean doAdjacent

DOCUMENT ME!

doColor

boolean doColor

DOCUMENT ME!

DOF

int DOF

DOCUMENT ME!

doGraph

boolean doGraph

DOCUMENT ME!

doSubsample

boolean doSubsample

DOCUMENT ME!

ELSUNC

int ELSUNC

fileNameWInput

java.lang.String fileNameWInput

DOCUMENT ME!

fineRate

float fineRate

DOCUMENT ME!

fineRateText

javax.swing.JTextField fineRateText

DOCUMENT ME!

graphCheckBox

javax.swing.JCheckBox graphCheckBox

DOCUMENT ME!

inputWeightImage

ModelImage inputWeightImage

DOCUMENT ME!

interp

int interp

DOCUMENT ME!

interp2

int interp2

DOCUMENT ME!

labelCoarse

javax.swing.JLabel labelCoarse

DOCUMENT ME!

labelCoarseDegrees

javax.swing.JLabel labelCoarseDegrees

DOCUMENT ME!

labelFine

javax.swing.JLabel labelFine

DOCUMENT ME!

labelFineDegrees

javax.swing.JLabel labelFineDegrees

DOCUMENT ME!

labelInterp2

javax.swing.JLabel labelInterp2

DOCUMENT ME!

labelRotateDegrees

javax.swing.JLabel labelRotateDegrees

DOCUMENT ME!

labelRotateRange

javax.swing.JLabel labelRotateRange

DOCUMENT ME!

labelRotateRangeTo

javax.swing.JLabel labelRotateRangeTo

DOCUMENT ME!

LEVENBERG_MARQUARDT

int LEVENBERG_MARQUARDT

matchImage

ModelImage matchImage

DOCUMENT ME!

maxIterations

int maxIterations

DOCUMENT ME!

maxIterations_def

int maxIterations_def

DOCUMENT ME!

maxIterationsText

javax.swing.JTextField maxIterationsText

DOCUMENT ME!

NL2SOL

int NL2SOL

noneRadio

javax.swing.JRadioButton noneRadio

DOCUMENT ME!

numMinima

int numMinima

DOCUMENT ME!

numMinima_def

int numMinima_def

DOCUMENT ME!

numMinText

javax.swing.JTextField numMinText

DOCUMENT ME!

POWELL

int POWELL

refImageNum

int refImageNum

DOCUMENT ME!

refImageNumText

javax.swing.JTextField refImageNumText

DOCUMENT ME!

refImageRButton

javax.swing.JRadioButton refImageRButton

DOCUMENT ME!

refSlice

ModelImage refSlice

DOCUMENT ME!

reg25

AlgorithmRegOAR25D2 reg25

DOCUMENT ME!

reg25E

AlgorithmRegELSUNCOAR25D reg25E

rotateBegin

float rotateBegin

DOCUMENT ME!

rotateBeginText

javax.swing.JTextField rotateBeginText

DOCUMENT ME!

rotateEnd

float rotateEnd

DOCUMENT ME!

rotateEndText

javax.swing.JTextField rotateEndText

DOCUMENT ME!

sampleCheckBox

javax.swing.JCheckBox sampleCheckBox

DOCUMENT ME!

searchAlgorithm

int searchAlgorithm

textInput

javax.swing.JTextField textInput

DOCUMENT ME!

transformVOIs

boolean transformVOIs

DOCUMENT ME!

transformVOIsBox

javax.swing.JCheckBox transformVOIsBox

DOCUMENT ME!

UI

ViewUserInterface UI

DOCUMENT ME!

useOutsideReferenceSlice

boolean useOutsideReferenceSlice

DOCUMENT ME!

voiRadio

javax.swing.JRadioButton voiRadio

DOCUMENT ME!

voisOnly

boolean voisOnly

DOCUMENT ME!

weighted

boolean weighted

DOCUMENT ME!

weightRadio

javax.swing.JRadioButton weightRadio

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogRegistrationOAR2D extends JDialogScriptableBase implements Serializable

serialVersionUID:

-688716905705879638L

Serialized Fields

advancedDialog

javax.swing.JDialog advancedDialog

Variables for Advanced Settings dialog.

bruteForceCheckBox

javax.swing.JCheckBox bruteForceCheckBox

CheckBox to turn brute-force registration on or off:.

bruteForceDialog

javax.swing.JDialog bruteForceDialog

Dialog to set the brute-force registration parameters:.

buttonWeightInput

javax.swing.JButton buttonWeightInput

DOCUMENT ME!

buttonWeightRef

javax.swing.JButton buttonWeightRef

DOCUMENT ME!

coarseRate

float coarseRate

DOCUMENT ME!

coarseRateText

javax.swing.JTextField coarseRateText

DOCUMENT ME!

comboBoxCostFunct

javax.swing.JComboBox comboBoxCostFunct

DOCUMENT ME!

comboBoxDOF

javax.swing.JComboBox comboBoxDOF

DOCUMENT ME!

comboBoxImage

javax.swing.JComboBox comboBoxImage

DOCUMENT ME!

comboBoxInterp

javax.swing.JComboBox comboBoxInterp

DOCUMENT ME!

comboBoxInterp2

javax.swing.JComboBox comboBoxInterp2

DOCUMENT ME!

comboBoxSearchAlgo

javax.swing.JComboBox comboBoxSearchAlgo

cost

int cost

DOCUMENT ME!

dataType

int dataType

directoryWInput

java.lang.String directoryWInput

DOCUMENT ME!

directoryWRef

java.lang.String directoryWRef

DOCUMENT ME!

displayTransform

boolean displayTransform

DOCUMENT ME!

doColor

boolean doColor

DOCUMENT ME!

doColorCheckBox

javax.swing.JCheckBox doColorCheckBox

CheckBox to turn color registration on or off:.

DOF

int DOF

DOCUMENT ME!

doJTEM

boolean doJTEM

doMultiThread

boolean doMultiThread

doSubsample

boolean doSubsample

DOCUMENT ME!

ELSUNC

int ELSUNC

fileNameWInput

java.lang.String fileNameWInput

DOCUMENT ME!

fileNameWRef

java.lang.String fileNameWRef

DOCUMENT ME!

fillValue

float fillValue

fineRate

float fineRate

DOCUMENT ME!

fineRateText

javax.swing.JTextField fineRateText

DOCUMENT ME!

imageMax

double imageMax

imageMin

double imageMin

inputWeightImage

ModelImage inputWeightImage

DOCUMENT ME!

interp

int interp

DOCUMENT ME!

interp2

int interp2

DOCUMENT ME!

jtemCheckBox

javax.swing.JCheckBox jtemCheckBox

DOCUMENT ME!

labelCoarse

javax.swing.JLabel labelCoarse

DOCUMENT ME!

labelCoarseDegrees

javax.swing.JLabel labelCoarseDegrees

DOCUMENT ME!

labelFine

javax.swing.JLabel labelFine

DOCUMENT ME!

labelFineDegrees

javax.swing.JLabel labelFineDegrees

DOCUMENT ME!

labelInterp2

javax.swing.JLabel labelInterp2

DOCUMENT ME!

labelRotateDegrees

javax.swing.JLabel labelRotateDegrees

DOCUMENT ME!

labelRotateRange

javax.swing.JLabel labelRotateRange

DOCUMENT ME!

labelRotateRangeTo

javax.swing.JLabel labelRotateRangeTo

DOCUMENT ME!

LEVENBERG_MARQUARDT

int LEVENBERG_MARQUARDT

m_bSubsetDialog

boolean m_bSubsetDialog

If true the dialog for this instance of JDialogRegistrationOAR2D will not activate the AlgorithmRegOAR2D:.

matchImage

ModelImage matchImage

DOCUMENT ME!

matrixComboBox

javax.swing.JComboBox matrixComboBox

matrixDirectory

java.lang.String matrixDirectory

matrixLabel

javax.swing.JLabel matrixLabel

maxIterations

int maxIterations

DOCUMENT ME!

maxIterations_def

int maxIterations_def

DOCUMENT ME!

maxIterationsText

javax.swing.JTextField maxIterationsText

DOCUMENT ME!

multiThreadCheckBox

javax.swing.JCheckBox multiThreadCheckBox

NL2SOL

int NL2SOL

noneRadio

javax.swing.JRadioButton noneRadio

DOCUMENT ME!

numMinima

int numMinima

DOCUMENT ME!

numMinima_def

int numMinima_def

DOCUMENT ME!

numMinText

javax.swing.JTextField numMinText

DOCUMENT ME!

outOfBoundsComboBox

javax.swing.JComboBox outOfBoundsComboBox

outOfBoundsIndex

int outOfBoundsIndex

Tells how to select fill value for out of bounds data 0 for image minimum 1 for NaN for float, zero otherwise. 2 for user defined 3 for image maximum

outOfBoundsLabel

javax.swing.JLabel outOfBoundsLabel

POWELL

int POWELL

refImage

ModelImage refImage

DOCUMENT ME!

refWeightImage

ModelImage refWeightImage

DOCUMENT ME!

reg2

AlgorithmRegOAR2D reg2

DOCUMENT ME!

reg2E

AlgorithmRegELSUNCOAR2D reg2E

resultImage

ModelImage resultImage

DOCUMENT ME!

rotateBegin

float rotateBegin

DOCUMENT ME!

rotateBeginText

javax.swing.JTextField rotateBeginText

DOCUMENT ME!

rotateEnd

float rotateEnd

DOCUMENT ME!

rotateEndText

javax.swing.JTextField rotateEndText

DOCUMENT ME!

rotationBF

float rotationBF

DOCUMENT ME!

rotationText

javax.swing.JTextField rotationText

Brute-force registration parameters:.

sampleCheckBox

javax.swing.JCheckBox sampleCheckBox

DOCUMENT ME!

scaleStepsBF

int scaleStepsBF

DOCUMENT ME!

scaleStepsText

javax.swing.JTextField scaleStepsText

Brute-force registration parameters:.

searchAlgorithm

int searchAlgorithm

textInput

javax.swing.JTextField textInput

DOCUMENT ME!

textRef

javax.swing.JTextField textRef

DOCUMENT ME!

transformCheckbox

javax.swing.JCheckBox transformCheckbox

DOCUMENT ME!

translationBF

int translationBF

DOCUMENT ME!

translationText

javax.swing.JTextField translationText

Brute-force registration parameters:.

UI

ViewUserInterface UI

DOCUMENT ME!

userDirectoryLabel

javax.swing.JLabel userDirectoryLabel

userDirectoryText

javax.swing.JTextField userDirectoryText

valueLabel

javax.swing.JLabel valueLabel

valueText

javax.swing.JTextField valueText

voiRadio

javax.swing.JRadioButton voiRadio

DOCUMENT ME!

voisOnly

boolean voisOnly

DOCUMENT ME!

weighted

boolean weighted

DOCUMENT ME!

weightRadio

javax.swing.JRadioButton weightRadio

DOCUMENT ME!

xscaleBF

float xscaleBF

DOCUMENT ME!

xscaleText

javax.swing.JTextField xscaleText

Brute-force registration parameters:.

yscaleBF

float yscaleBF

DOCUMENT ME!

yscaleText

javax.swing.JTextField yscaleText

Brute-force registration parameters:.

Class gov.nih.mipav.view.dialogs.JDialogRegistrationOAR35D extends JDialogScriptableBase implements Serializable

serialVersionUID:

-4309868934393418962L

Serialized Fields

adjacentImageRButton

javax.swing.JRadioButton adjacentImageRButton

DOCUMENT ME!

advancedDialog

javax.swing.JDialog advancedDialog

Variables for Advanced Settings dialog.

averageImageRButton

javax.swing.JRadioButton averageImageRButton

DOCUMENT ME!

buttonWeightInput

javax.swing.JButton buttonWeightInput

DOCUMENT ME!

coarseRate

float coarseRate

DOCUMENT ME!

coarseRateText

javax.swing.JTextField coarseRateText

DOCUMENT ME!

comboBoxCostFunct

javax.swing.JComboBox comboBoxCostFunct

DOCUMENT ME!

comboBoxDOF

javax.swing.JComboBox comboBoxDOF

DOCUMENT ME!

comboBoxInterp

javax.swing.JComboBox comboBoxInterp

DOCUMENT ME!

comboBoxInterp2

javax.swing.JComboBox comboBoxInterp2

DOCUMENT ME!

comboBoxSearchAlgo

javax.swing.JComboBox comboBoxSearchAlgo

cost

int cost

DOCUMENT ME!

directoryWInput

java.lang.String directoryWInput

DOCUMENT ME!

doColor

boolean doColor

DOCUMENT ME!

DOF

int DOF

DOCUMENT ME!

doGraph

boolean doGraph

DOCUMENT ME!

doJTEM

boolean doJTEM

When true, the full version of JTEM Powell search is used in the registration algorithm.

doSubsample

boolean doSubsample

DOCUMENT ME!

ELSUNC

int ELSUNC

fastMode

boolean fastMode

DOCUMENT ME!

fastModeCheckbox

javax.swing.JCheckBox fastModeCheckbox

DOCUMENT ME!

fileNameWInput

java.lang.String fileNameWInput

DOCUMENT ME!

fineRate

float fineRate

DOCUMENT ME!

fineRateText

javax.swing.JTextField fineRateText

DOCUMENT ME!

graphCheckBox

javax.swing.JCheckBox graphCheckBox

DOCUMENT ME!

inputWeightImage

ModelImage inputWeightImage

DOCUMENT ME!

interp

int interp

DOCUMENT ME!

interp2

int interp2

DOCUMENT ME!

jtemCheckbox

javax.swing.JCheckBox jtemCheckbox

Turns on the JTEM full version of Powell's algorithm on or off

labelInterp2

javax.swing.JLabel labelInterp2

DOCUMENT ME!

LEVENBERG_MARQUARDT

int LEVENBERG_MARQUARDT

matchImage

ModelImage matchImage

DOCUMENT ME!

maxIterations

int maxIterations

DOCUMENT ME!

maxIterations_def

int maxIterations_def

DOCUMENT ME!

maxIterationsText

javax.swing.JTextField maxIterationsText

DOCUMENT ME!

NL2SOL

int NL2SOL

noneRadio

javax.swing.JRadioButton noneRadio

DOCUMENT ME!

numMinima

int numMinima

DOCUMENT ME!

numMinima_def

int numMinima_def

DOCUMENT ME!

numMinText

javax.swing.JTextField numMinText

DOCUMENT ME!

POWELL

int POWELL

refImageNum

int refImageNum

DOCUMENT ME!

refImageNumText

javax.swing.JTextField refImageNumText

DOCUMENT ME!

refImageRButton

javax.swing.JRadioButton refImageRButton

DOCUMENT ME!

refVolume

ModelImage refVolume

DOCUMENT ME!

reg35

AlgorithmRegOAR35D reg35

DOCUMENT ME!

reg35E

AlgorithmRegELSUNCOAR35D reg35E

registerTo

int registerTo

DOCUMENT ME!

rotateBegin

float rotateBegin

DOCUMENT ME!

rotateBeginText

javax.swing.JTextField rotateBeginText

DOCUMENT ME!

rotateEnd

float rotateEnd

DOCUMENT ME!

rotateEndText

javax.swing.JTextField rotateEndText

DOCUMENT ME!

sampleCheckBox

javax.swing.JCheckBox sampleCheckBox

DOCUMENT ME!

searchAlgorithm

int searchAlgorithm

textInput

javax.swing.JTextField textInput

DOCUMENT ME!

UI

ViewUserInterface UI

DOCUMENT ME!

useOutsideReferenceVolume

boolean useOutsideReferenceVolume

DOCUMENT ME!

voiRadio

javax.swing.JRadioButton voiRadio

DOCUMENT ME!

voisOnly

boolean voisOnly

DOCUMENT ME!

weighted

boolean weighted

DOCUMENT ME!

weightRadio

javax.swing.JRadioButton weightRadio

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogRegistrationOAR3D extends JDialogScriptableBase implements Serializable

serialVersionUID:

-1461819906844299206L

Serialized Fields

advancedDialog

javax.swing.JDialog advancedDialog

Variables for Advanced Settings dialog.

buttonWeightInput

javax.swing.JButton buttonWeightInput

DOCUMENT ME!

buttonWeightRef

javax.swing.JButton buttonWeightRef

DOCUMENT ME!

calcCOG

boolean calcCOG

DOCUMENT ME!

calcCOGCheckbox

javax.swing.JCheckBox calcCOGCheckbox

DOCUMENT ME!

calcLSBox

javax.swing.JCheckBox calcLSBox

DOCUMENT ME!

coarsePanelX

javax.swing.JPanel coarsePanelX

DOCUMENT ME!

coarsePanelY

javax.swing.JPanel coarsePanelY

DOCUMENT ME!

coarsePanelZ

javax.swing.JPanel coarsePanelZ

DOCUMENT ME!

coarseRateTextX

javax.swing.JTextField coarseRateTextX

DOCUMENT ME!

coarseRateTextY

javax.swing.JTextField coarseRateTextY

DOCUMENT ME!

coarseRateTextZ

javax.swing.JTextField coarseRateTextZ

DOCUMENT ME!

coarseRateX

float coarseRateX

DOCUMENT ME!

coarseRateY

float coarseRateY

DOCUMENT ME!

coarseRateZ

float coarseRateZ

DOCUMENT ME!

comboBoxCostFunct

javax.swing.JComboBox comboBoxCostFunct

DOCUMENT ME!

comboBoxDOF

javax.swing.JComboBox comboBoxDOF

DOCUMENT ME!

comboBoxImage

javax.swing.JComboBox comboBoxImage

DOCUMENT ME!

comboBoxInterp

javax.swing.JComboBox comboBoxInterp

DOCUMENT ME!

comboBoxInterp2

javax.swing.JComboBox comboBoxInterp2

DOCUMENT ME!

comboBoxSearchAlgo

javax.swing.JComboBox comboBoxSearchAlgo

cost

int cost

DOCUMENT ME!

costName

java.lang.String costName

DOCUMENT ME!

dataType

int dataType

directoryWInput

java.lang.String directoryWInput

DOCUMENT ME!

directoryWRef

java.lang.String directoryWRef

DOCUMENT ME!

displayTransform

boolean displayTransform

DOCUMENT ME!

doColor

boolean doColor

DOCUMENT ME!

DOF

int DOF

DOCUMENT ME!

doJTEM

boolean doJTEM

When true, the full version of JTEM Powell search is used in the registration algorithm.

doLS

boolean doLS

DOCUMENT ME!

doMultiThread

boolean doMultiThread

doSubsample

boolean doSubsample

DOCUMENT ME!

ELSUNC

int ELSUNC

fastMode

boolean fastMode

DOCUMENT ME!

fastModeCheckbox

javax.swing.JCheckBox fastModeCheckbox

DOCUMENT ME!

fileNameWInput

java.lang.String fileNameWInput

DOCUMENT ME!

fileNameWRef

java.lang.String fileNameWRef

DOCUMENT ME!

fillValue

float fillValue

finePanelX

javax.swing.JPanel finePanelX

DOCUMENT ME!

finePanelY

javax.swing.JPanel finePanelY

DOCUMENT ME!

finePanelZ

javax.swing.JPanel finePanelZ

DOCUMENT ME!

fineRateTextX

javax.swing.JTextField fineRateTextX

DOCUMENT ME!

fineRateTextY

javax.swing.JTextField fineRateTextY

DOCUMENT ME!

fineRateTextZ

javax.swing.JTextField fineRateTextZ

DOCUMENT ME!

fineRateX

float fineRateX

DOCUMENT ME!

fineRateY

float fineRateY

DOCUMENT ME!

fineRateZ

float fineRateZ

DOCUMENT ME!

gbc

java.awt.GridBagConstraints gbc

DOCUMENT ME!

imageMax

double imageMax

imageMin

double imageMin

inputWeightImage

ModelImage inputWeightImage

DOCUMENT ME!

interp

int interp

DOCUMENT ME!

interp2

int interp2

DOCUMENT ME!

jtemCheckbox

javax.swing.JCheckBox jtemCheckbox

Turns on the JTEM full version of Powell's algorithm on or off

labelInterp2

javax.swing.JLabel labelInterp2

DOCUMENT ME!

LEVENBERG_MARQUARDT

int LEVENBERG_MARQUARDT

lsCompleted

boolean lsCompleted

DOCUMENT ME!

lsImage

ModelImage lsImage

DOCUMENT ME!

lsMatrix

TransMatrix lsMatrix

DOCUMENT ME!

matchImage

ModelImage matchImage

DOCUMENT ME!

matrixComboBox

javax.swing.JComboBox matrixComboBox

matrixDirectory

java.lang.String matrixDirectory

matrixLabel

javax.swing.JLabel matrixLabel

maxIterations

int maxIterations

DOCUMENT ME!

maxIterations_def

int maxIterations_def

DOCUMENT ME!

maxIterationsText

javax.swing.JTextField maxIterationsText

DOCUMENT ME!

maxOfMinResol

boolean maxOfMinResol

DOCUMENT ME!

minMaxCheckbox

javax.swing.JCheckBox minMaxCheckbox

DOCUMENT ME!

multiThreadCheckBox

javax.swing.JCheckBox multiThreadCheckBox

NL2SOL

int NL2SOL

noneRadio

javax.swing.JRadioButton noneRadio

DOCUMENT ME!

numMinima

int numMinima

DOCUMENT ME!

numMinima_def

int numMinima_def

DOCUMENT ME!

numMinText

javax.swing.JTextField numMinText

DOCUMENT ME!

outOfBoundsComboBox

javax.swing.JComboBox outOfBoundsComboBox

outOfBoundsIndex

int outOfBoundsIndex

Tells how to select fill value for out of bounds data 0 for image minimum 1 for NaN for float, zero otherwise. 2 for user defined 3 for image maximum

outOfBoundsLabel

javax.swing.JLabel outOfBoundsLabel

POWELL

int POWELL

refImage

ModelImage refImage

DOCUMENT ME!

refWeightImage

ModelImage refWeightImage

DOCUMENT ME!

reg3

AlgorithmRegOAR3D reg3

DOCUMENT ME!

reg3E

AlgorithmRegELSUNCOAR3D reg3E

resultImage

ModelImage resultImage

DOCUMENT ME!

rotateBeginTextX

javax.swing.JTextField rotateBeginTextX

DOCUMENT ME!

rotateBeginTextY

javax.swing.JTextField rotateBeginTextY

DOCUMENT ME!

rotateBeginTextZ

javax.swing.JTextField rotateBeginTextZ

DOCUMENT ME!

rotateBeginX

float rotateBeginX

DOCUMENT ME!

rotateBeginY

float rotateBeginY

DOCUMENT ME!

rotateBeginZ

float rotateBeginZ

DOCUMENT ME!

rotateEndTextX

javax.swing.JTextField rotateEndTextX

DOCUMENT ME!

rotateEndTextY

javax.swing.JTextField rotateEndTextY

DOCUMENT ME!

rotateEndTextZ

javax.swing.JTextField rotateEndTextZ

DOCUMENT ME!

rotateEndX

float rotateEndX

DOCUMENT ME!

rotateEndY

float rotateEndY

DOCUMENT ME!

rotateEndZ

float rotateEndZ

DOCUMENT ME!

rotatePanel

javax.swing.JPanel rotatePanel

DOCUMENT ME!

rotateRangePanelX

javax.swing.JPanel rotateRangePanelX

DOCUMENT ME!

rotateRangePanelY

javax.swing.JPanel rotateRangePanelY

DOCUMENT ME!

rotateRangePanelZ

javax.swing.JPanel rotateRangePanelZ

DOCUMENT ME!

sampleCheckbox

javax.swing.JCheckBox sampleCheckbox

DOCUMENT ME!

searchAlgorithm

int searchAlgorithm

textInput

javax.swing.JTextField textInput

DOCUMENT ME!

textRef

javax.swing.JTextField textRef

DOCUMENT ME!

transformCheckbox

javax.swing.JCheckBox transformCheckbox

DOCUMENT ME!

UI

ViewUserInterface UI

DOCUMENT ME!

universalCheckbox

javax.swing.JCheckBox universalCheckbox

DOCUMENT ME!

userDirectoryLabel

javax.swing.JLabel userDirectoryLabel

userDirectoryText

javax.swing.JTextField userDirectoryText

valueLabel

javax.swing.JLabel valueLabel

valueText

javax.swing.JTextField valueText

voiRadio

javax.swing.JRadioButton voiRadio

DOCUMENT ME!

voisOnly

boolean voisOnly

DOCUMENT ME!

weighted

boolean weighted

DOCUMENT ME!

weightRadio

javax.swing.JRadioButton weightRadio

DOCUMENT ME!

xRadio

javax.swing.JRadioButton xRadio

DOCUMENT ME!

xSelected

boolean xSelected

DOCUMENT ME!

yRadio

javax.swing.JRadioButton yRadio

DOCUMENT ME!

ySelected

boolean ySelected

DOCUMENT ME!

zRadio

javax.swing.JRadioButton zRadio

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogRegistrationSIFT3D extends JDialogScriptableBase implements Serializable

Serialized Fields

baseImage

ModelImage baseImage

Base image - register match image to base image.

comboBoxImage

javax.swing.JComboBox comboBoxImage

Combo box with image names for choosing base image.

CUBOID_EXTREMA

boolean CUBOID_EXTREMA

cuboidCheckBox

javax.swing.JCheckBox cuboidCheckBox

ICOS_HIST

boolean ICOS_HIST

icosahedralCheckBox

javax.swing.JCheckBox icosahedralCheckBox

labelErrorThreshold

javax.swing.JLabel labelErrorThreshold

labelGaussianWidth

javax.swing.JLabel labelGaussianWidth

labelMatch

javax.swing.JLabel labelMatch

labelMatchingThreshold

javax.swing.JLabel labelMatchingThreshold

labelNumberIterations

javax.swing.JLabel labelNumberIterations

matchCheckBox

javax.swing.JCheckBox matchCheckBox

matchImage

ModelImage matchImage

Match image - register match image to base image.

refineCheckBox

javax.swing.JCheckBox refineCheckBox

reg3D

SIFT3D reg3D

Algorithm to run from this dialog.

resultImage

ModelImage resultImage

Result image - image returned from registration algorithm.

SIFT3D_err_thresh_default

double SIFT3D_err_thresh_default

SIFT3D_GAUSS_WIDTH_FCTR

double SIFT3D_GAUSS_WIDTH_FCTR

SIFT3D_MATCH_MAX_DIST

double SIFT3D_MATCH_MAX_DIST

SIFT3D_nn_thresh_default

double SIFT3D_nn_thresh_default

SIFT3D_num_iter_default

int SIFT3D_num_iter_default

SIFT3D_ORI_SOLID_ANGLE_WEIGHT

boolean SIFT3D_ORI_SOLID_ANGLE_WEIGHT

SIFT3D_RANSAC_REFINE

boolean SIFT3D_RANSAC_REFINE

solidCheckBox

javax.swing.JCheckBox solidCheckBox

textErrorThreshold

javax.swing.JTextField textErrorThreshold

textGaussianWidth

javax.swing.JTextField textGaussianWidth

textMatch

javax.swing.JTextField textMatch

textMatchingThreshold

javax.swing.JTextField textMatchingThreshold

textNumberIterations

javax.swing.JTextField textNumberIterations

useOCL

boolean useOCL

userInterface

ViewUserInterface userInterface

Reference to userface.

Class gov.nih.mipav.view.dialogs.JDialogRegistrationTPSpline extends JDialogScriptableBase implements Serializable

serialVersionUID:

5973812592305647222L

Serialized Fields

baseImage

ModelImage baseImage

DOCUMENT ME!

comboBoxImage

javax.swing.JComboBox comboBoxImage

DOCUMENT ME!

coplanar

boolean coplanar

DOCUMENT ME!

DIM

int DIM

DOCUMENT ME!

matchImage

ModelImage matchImage

DOCUMENT ME!

matrixComboBox

javax.swing.JComboBox matrixComboBox

matrixDirectory

java.lang.String matrixDirectory

matrixLabel

javax.swing.JLabel matrixLabel

resultImage

ModelImage resultImage

DOCUMENT ME!

spline

AlgorithmTPSpline spline

DOCUMENT ME!

threeDButton

javax.swing.JRadioButton threeDButton

titles

java.lang.String[] titles

DOCUMENT ME!

twoDButton

javax.swing.JRadioButton twoDButton

UI

ViewUserInterface UI

DOCUMENT ME!

use3D

boolean use3D

userDirectoryLabel

javax.swing.JLabel userDirectoryLabel

userDirectoryText

javax.swing.JTextField userDirectoryText

xSource

double[] xSource

DOCUMENT ME!

xTar

double[] xTar

DOCUMENT ME!

ySource

double[] ySource

DOCUMENT ME!

yTar

double[] yTar

DOCUMENT ME!

zSource

double[] zSource

DOCUMENT ME!

zTar

double[] zTar

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogRegistrationValidation extends JDialogRegistrationLeastSquares implements Serializable

Serialized Fields

algoCost

AlgorithmOptimizeFunctionBase algoCost

Algorithm that implement cost functions, either a AlgorithmCostFunctions or AlgorithmCostFunctions2D

bin1

int bin1

Bin to use for pixel comparisons

currentCostFunct

java.lang.String currentCostFunct

Description of the cost function being performed

doCorrelationRatioSmoothed

javax.swing.JCheckBox doCorrelationRatioSmoothed

Whether the available cost functions should be performed

doMutualInfoSmoothed

javax.swing.JCheckBox doMutualInfoSmoothed

Whether the available cost functions should be performed

doNormMutualInfoSmoothed

javax.swing.JCheckBox doNormMutualInfoSmoothed

Whether the available cost functions should be performed

doNormXCorr

javax.swing.JCheckBox doNormXCorr

Whether the available cost functions should be performed

simpleImg1

ModelSimpleImage simpleImg1

SimpleImages to describe ModelImage data, simpleImg2 is always registered image

simpleImg2

ModelSimpleImage simpleImg2

SimpleImages to describe ModelImage data, simpleImg2 is always registered image

tMatrix

TransMatrix tMatrix

Initial transmatrix for cost functions

Class gov.nih.mipav.view.dialogs.JDialogRegPatientPos extends JDialogScriptableBase implements Serializable

serialVersionUID:

-7190471812525279048L

Serialized Fields

comboBoxImage

javax.swing.JComboBox comboBoxImage

DOCUMENT ME!

doMatch

boolean doMatch

DOCUMENT ME!

imageA

ModelImage imageA

DOCUMENT ME!

imageB

ModelImage imageB

DOCUMENT ME!

matchOrigBox

javax.swing.JCheckBox matchOrigBox

DOCUMENT ME!

RegPatPos

AlgorithmRegPatientPos RegPatPos

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

UI

ViewUserInterface UI

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogRegularizedIsotropicDiffusion extends JDialogScriptableBase implements Serializable

serialVersionUID:

781611739174870058L

Serialized Fields

checkBox25D

javax.swing.JCheckBox checkBox25D

DOCUMENT ME!

contrast

float contrast

DOCUMENT ME!

do25D

boolean do25D

DOCUMENT ME!

doOCL

boolean doOCL

numIterations

int numIterations

DOCUMENT ME!

regIsoDiffusionAlgo

AlgorithmRegularizedIsotropicDiffusion regIsoDiffusionAlgo

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

srcImage

ModelImage srcImage

DOCUMENT ME!

stdDev

float stdDev

DOCUMENT ME!

textContrast

javax.swing.JTextField textContrast

DOCUMENT ME!

textGaussian

javax.swing.JTextField textGaussian

DOCUMENT ME!

textNumberIterations

javax.swing.JTextField textNumberIterations

DOCUMENT ME!

useOCLCheckbox

javax.swing.JCheckBox useOCLCheckbox

Class gov.nih.mipav.view.dialogs.JDialogRegVOILandmark extends JDialogBase implements Serializable

serialVersionUID:

1515612809506343793L

Serialized Fields

algoRegVOILankmark

AlgorithmRegVOILandmark algoRegVOILankmark

DOCUMENT ME!

clonedImage

ModelImage clonedImage

comboBoxOpt

javax.swing.JComboBox comboBoxOpt

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

labelmaxRz

javax.swing.JLabel labelmaxRz

DOCUMENT ME!

labelmaxTx

javax.swing.JLabel labelmaxTx

DOCUMENT ME!

labelmaxTy

javax.swing.JLabel labelmaxTy

DOCUMENT ME!

labelminRz

javax.swing.JLabel labelminRz

DOCUMENT ME!

labelminTx

javax.swing.JLabel labelminTx

DOCUMENT ME!

labelminTy

javax.swing.JLabel labelminTy

DOCUMENT ME!

labelStep

javax.swing.JLabel labelStep

DOCUMENT ME!

position

VOIContour position

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

scaleX

float scaleX

DOCUMENT ME!

scaleY

float scaleY

DOCUMENT ME!

textGaussX

javax.swing.JTextField textGaussX

DOCUMENT ME!

textGaussY

javax.swing.JTextField textGaussY

DOCUMENT ME!

textmaxRz

javax.swing.JTextField textmaxRz

DOCUMENT ME!

textmaxTx

javax.swing.JTextField textmaxTx

DOCUMENT ME!

textmaxTy

javax.swing.JTextField textmaxTy

DOCUMENT ME!

textminRz

javax.swing.JTextField textminRz

DOCUMENT ME!

textminTx

javax.swing.JTextField textminTx

DOCUMENT ME!

textminTy

javax.swing.JTextField textminTy

DOCUMENT ME!

textStep

javax.swing.JTextField textStep

DOCUMENT ME!

tmpIntensity

float[] tmpIntensity

DOCUMENT ME!

tmpPosition

WildMagic.LibFoundation.Mathematics.Vector3f[] tmpPosition

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogRemovePlugin extends JDialogBase implements Serializable

serialVersionUID:

-6309199966911968353L

Serialized Fields

destroyFileCheckbox

javax.swing.JCheckBox destroyFileCheckbox

Toggles whether or not the plugin file should be deleted from MIPAV's class directory.

list

javax.swing.JList list

List of installed plugins.

Class gov.nih.mipav.view.dialogs.JDialogRemoveSlices extends JDialogScriptableBase implements Serializable

serialVersionUID:

7932215505116955663L

Serialized Fields

checkboxList

javax.swing.JCheckBox[] checkboxList

DOCUMENT ME!

checkboxPanel

javax.swing.JPanel checkboxPanel

DOCUMENT ME!

checkButton

javax.swing.JButton checkButton

DOCUMENT ME!

checkEvenButton

javax.swing.JButton checkEvenButton

DOCUMENT ME!

checkListRemove

boolean[] checkListRemove

DOCUMENT ME!

checkOddButton

javax.swing.JButton checkOddButton

DOCUMENT ME!

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

dontOpenFrame

boolean dontOpenFrame

DOCUMENT ME!

doReplace

boolean doReplace

DOCUMENT ME!

exampleLabel

javax.swing.JLabel exampleLabel

DOCUMENT ME!

exampleLabel2

javax.swing.JLabel exampleLabel2

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

insertBlank

boolean insertBlank

If true, insert a blank rather than a weighted average

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

nSlices

int nSlices

DOCUMENT ME!

numChecked

int numChecked

DOCUMENT ME!

origExtents

int[] origExtents

DOCUMENT ME!

origNDims

int origNDims

DOCUMENT ME!

pressedCheckEven

boolean pressedCheckEven

DOCUMENT ME!

pressedCheckOdd

boolean pressedCheckOdd

DOCUMENT ME!

rangeField

javax.swing.JTextField rangeField

DOCUMENT ME!

removeSlicesAlgo

AlgorithmRemoveSlices removeSlicesAlgo

DOCUMENT ME!

replaceBox

javax.swing.JCheckBox replaceBox

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

replaceSlicesAlgo

AlgorithmReplaceRemovedSlices replaceSlicesAlgo

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

scrollPane

javax.swing.JScrollPane scrollPane

DOCUMENT ME!

successful

boolean successful

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

unCheckButton

javax.swing.JButton unCheckButton

DOCUMENT ME!

useRange

javax.swing.JCheckBox useRange

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogRemoveTSlices extends JDialogScriptableBase implements Serializable

serialVersionUID:

-5187681503326982110L

Serialized Fields

checkboxList

javax.swing.JCheckBox[] checkboxList

DOCUMENT ME!

checkboxPanel

javax.swing.JPanel checkboxPanel

DOCUMENT ME!

checkButton

javax.swing.JButton checkButton

DOCUMENT ME!

checkListRemove

boolean[] checkListRemove

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

nChecked

int nChecked

DOCUMENT ME!

nSlices

int nSlices

DOCUMENT ME!

removeTSlicesAlgo

AlgorithmRemoveTSlices removeTSlicesAlgo

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

unCheckButton

javax.swing.JButton unCheckButton

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogReorient extends JDialogScriptableBase implements Serializable

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

axisFlip

boolean[] axisFlip

axisOrder

int[] axisOrder

comboInterpType

javax.swing.JComboBox comboInterpType

comboResType

javax.swing.JComboBox comboResType

comboTemplate

javax.swing.JComboBox comboTemplate

fileInfo

FileInfoBase fileInfo

fileInfoNIFTI

FileInfoNIFTI fileInfoNIFTI

image

ModelImage image

interpType

java.lang.String interpType

interpTypes

java.lang.String[] interpTypes

labelInterpType

javax.swing.JLabel labelInterpType

labelResType

javax.swing.JLabel labelResType

labelTemplate

javax.swing.JLabel labelTemplate

mainPanel

javax.swing.JPanel mainPanel

newOr

int[] newOr

newOrientBox

javax.swing.JComboBox newOrientBox

newOrientBoxX

javax.swing.JComboBox newOrientBoxX

newOrientBoxY

javax.swing.JComboBox newOrientBoxY

newOrientBoxZ

javax.swing.JComboBox newOrientBoxZ

newOrientTypes

java.lang.String[] newOrientTypes

or

int[] or

orients

java.lang.String[] orients

orientTypes

java.lang.String[] orientTypes

presentOrientBoxX

javax.swing.JComboBox presentOrientBoxX

presentOrientBoxY

javax.swing.JComboBox presentOrientBoxY

presentOrientBoxZ

javax.swing.JComboBox presentOrientBoxZ

presentOrientLabel2

javax.swing.JLabel presentOrientLabel2

resolutionIndex

int resolutionIndex

resolutionTypes

java.lang.String[] resolutionTypes

resultImage

ModelImage resultImage

template

ModelImage template

Class gov.nih.mipav.view.dialogs.JDialogReplaceBlankSlicesWithAverages extends JDialogScriptableBase implements Serializable

Serialized Fields

image

ModelImage image

DOCUMENT ME!

rAlgo

AlgorithmReplaceBlankSlicesWithAverages rAlgo

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogReplaceSlice extends JDialogBase implements Serializable

serialVersionUID:

-4522782534141992295L

Serialized Fields

image

ModelImage image

DOCUMENT ME!

sliceBox

javax.swing.JComboBox sliceBox

DOCUMENT ME!

sliceField

javax.swing.JTextField sliceField

DOCUMENT ME!

sliceImage

ModelImage sliceImage

DOCUMENT ME!

sliceNum

int sliceNum

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogReplaceValue extends JDialogScriptableBase implements Serializable

serialVersionUID:

-4321343995269931526L

Serialized Fields

algoReplace

AlgorithmReplaceValue algoReplace

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

entireImage

boolean entireImage

image

ModelImage image

DOCUMENT ME!

inputVal

double inputVal

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

outputField

javax.swing.JTextField outputField

DOCUMENT ME!

outputOptionsPanel

JPanelAlgorithmOutputOptions outputOptionsPanel

outputVal

double outputVal

DOCUMENT ME!

rangeString

java.lang.String rangeString

DOCUMENT ME!

rangesVector

java.util.Vector<JDialogReplaceValue.Values> rangesVector

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

setChoiceBox

javax.swing.JComboBox setChoiceBox

DOCUMENT ME!

setChoiceButton

javax.swing.JRadioButton setChoiceButton

DOCUMENT ME!

userDefinedButton

javax.swing.JRadioButton userDefinedButton

DOCUMENT ME!

userDefinedField

javax.swing.JTextField userDefinedField

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogReslice extends JDialogScriptableBase implements Serializable

serialVersionUID:

293226884205657186L

Serialized Fields

comboBoxInterp

javax.swing.JComboBox comboBoxInterp

Used for choosing interpolation.

image

ModelImage image

Image to reslice.

mode

int mode

Interpolation mode.

resliceAlgo

AlgorithmReslice resliceAlgo

Reslice algorithm.

resultImage

ModelImage resultImage

resliced image.

Class gov.nih.mipav.view.dialogs.JDialogRGBConcat extends JDialogScriptableBase implements Serializable

serialVersionUID:

4183252789435843400L

Serialized Fields

blank

ModelImage blank

DOCUMENT ME!

cBoxRemap

javax.swing.JCheckBox cBoxRemap

DOCUMENT ME!

colorGroup

javax.swing.ButtonGroup colorGroup

comboBoxImageBlue

javax.swing.JComboBox comboBoxImageBlue

DOCUMENT ME!

comboBoxImageGreen

javax.swing.JComboBox comboBoxImageGreen

DOCUMENT ME!

comboBoxImageRed

javax.swing.JComboBox comboBoxImageRed

DOCUMENT ME!

commonMapping

boolean commonMapping

dataType

ModelStorageBase.DataType dataType

ARGB, ARGB_USHORT, ARGB_UINTEGER, or ARGB_FLOAT for color image

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

imageB

ModelImage imageB

DOCUMENT ME!

imageG

ModelImage imageG

DOCUMENT ME!

imageR

ModelImage imageR

DOCUMENT ME!

mathAlgo

AlgorithmRGBConcat mathAlgo

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

radioARGB

javax.swing.JRadioButton radioARGB

radioARGB_FLOAT

javax.swing.JRadioButton radioARGB_FLOAT

DOCUMENT ME!

radioARGB_UINTEGER

javax.swing.JRadioButton radioARGB_UINTEGER

radioARGB_USHORT

javax.swing.JRadioButton radioARGB_USHORT

DOCUMENT ME!

radioCommon

javax.swing.JRadioButton radioCommon

radioSeparate

javax.swing.JRadioButton radioSeparate

remapGroup

javax.swing.ButtonGroup remapGroup

remapHighestValue

float remapHighestValue

remapMode

boolean remapMode

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textRemap

javax.swing.JTextField textRemap

Class gov.nih.mipav.view.dialogs.JDialogRGBtoGray extends JDialogScriptableBase implements Serializable

serialVersionUID:

3780026821781916357L

Serialized Fields

blueValue

float blueValue

DOCUMENT ME!

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

equalButton

javax.swing.JRadioButton equalButton

DOCUMENT ME!

equalRange

boolean equalRange

equalRangeButton

javax.swing.JRadioButton equalRangeButton

fInfoBase

FileInfoBase fInfoBase

DOCUMENT ME!

graphicsButton

javax.swing.JRadioButton graphicsButton

DOCUMENT ME!

greenValue

float greenValue

DOCUMENT ME!

imageA

ModelImage imageA

DOCUMENT ME!

intensityAverage

boolean intensityAverage

DOCUMENT ME!

labelB

javax.swing.JLabel labelB

DOCUMENT ME!

labelG

javax.swing.JLabel labelG

DOCUMENT ME!

labelMaxB

javax.swing.JLabel labelMaxB

labelMaxG

javax.swing.JLabel labelMaxG

labelMaxR

javax.swing.JLabel labelMaxR

labelMinB

javax.swing.JLabel labelMinB

labelMinG

javax.swing.JLabel labelMinG

labelMinR

javax.swing.JLabel labelMinR

labelR

javax.swing.JLabel labelR

DOCUMENT ME!

maxB

float maxB

maxG

float maxG

maxR

float maxR

minB

float minB

minG

float minG

minR

float minR

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

redValue

float redValue

set the values to the defaults -- based on a default of equal values.

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

RGBAlgo

AlgorithmRGBtoGray RGBAlgo

DOCUMENT ME!

textB

javax.swing.JTextField textB

DOCUMENT ME!

textG

javax.swing.JTextField textG

DOCUMENT ME!

textMaxB

javax.swing.JTextField textMaxB

textMaxG

javax.swing.JTextField textMaxG

textMaxR

javax.swing.JTextField textMaxR

textMinB

javax.swing.JTextField textMinB

textMinG

javax.swing.JTextField textMinG

textMinR

javax.swing.JTextField textMinR

textR

javax.swing.JTextField textR

DOCUMENT ME!

textThreshold

javax.swing.JTextField textThreshold

DOCUMENT ME!

threshold

float threshold

DOCUMENT ME!

thresholdAverage

boolean thresholdAverage

DOCUMENT ME!

thresholdCheckBox

javax.swing.JCheckBox thresholdCheckBox

DOCUMENT ME!

unequalRangeButton

javax.swing.JRadioButton unequalRangeButton

userButton

javax.swing.JRadioButton userButton

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogRGBtoGrays extends JDialogScriptableBase implements Serializable

serialVersionUID:

540686811347959955L

Serialized Fields

imageA

ModelImage imageA

DOCUMENT ME!

resultImageB

ModelImage resultImageB

DOCUMENT ME!

resultImageG

ModelImage resultImageG

DOCUMENT ME!

resultImageR

ModelImage resultImageR

DOCUMENT ME!

RGBAlgo

AlgorithmRGBtoGrays RGBAlgo

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogRGBtoHSB extends JDialogScriptableBase implements Serializable

serialVersionUID:

-3386283808285677422L

Serialized Fields

HSBAlgo

AlgorithmRGBtoHSB HSBAlgo

DOCUMENT ME!

imageA

ModelImage imageA

DOCUMENT ME!

resultImageB

ModelImage resultImageB

DOCUMENT ME!

resultImageH

ModelImage resultImageH

DOCUMENT ME!

resultImageS

ModelImage resultImageS

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogRotate extends JDialogScriptableBase implements Serializable

serialVersionUID:

8408959889101739488L

Serialized Fields

image

ModelImage image

Source image for algorithm.

resultImage

ModelImage resultImage

Result image after algorithm has completed.

rotateAlgo

AlgorithmRotate rotateAlgo

DOCUMENT ME!

rotateAxis

int rotateAxis

Rotation axis.

Class gov.nih.mipav.view.dialogs.JDialogRuleBasedContrastEnhancement extends JDialogScriptableBase implements Serializable

Serialized Fields

displayLoc

int displayLoc

DOCUMENT ME!

gmax

double gmax

gmid

double gmid

DOCUMENT ME!

gmin

double gmin

image

ModelImage image

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

rbceAlgo

AlgorithmRuleBasedContrastEnhancement rbceAlgo

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textgmax

javax.swing.JTextField textgmax

textgmid

javax.swing.JTextField textgmid

DOCUMENT ME!

textgmin

javax.swing.JTextField textgmin

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogSaveDicom extends JDialogBase implements Serializable

serialVersionUID:

7303665224054251504L

Serialized Fields

additionalTagsList

java.util.Hashtable<java.lang.String,java.lang.String> additionalTagsList

autofillButton

javax.swing.JButton autofillButton

DOCUMENT ME!

dataType

int dataType

dicomFileInfo

FileInfoDicom dicomFileInfo

DOCUMENT ME!

fileInfo

FileInfoBase fileInfo

DOCUMENT ME!

fillButton

javax.swing.JButton fillButton

DOCUMENT ME!

gbc

java.awt.GridBagConstraints gbc

DOCUMENT ME!

isMultiFrame

boolean isMultiFrame

lateralities

java.lang.String[] lateralities

DOCUMENT ME!

laterality

javax.swing.JComboBox laterality

DOCUMENT ME!

layout

java.awt.GridBagLayout layout

DOCUMENT ME!

modalities

java.lang.String[] modalities

DOCUMENT ME!

parts

java.lang.String[] parts

DOCUMENT ME!

patientBirthDate

javax.swing.JTextField patientBirthDate

DOCUMENT ME!

patientBirthTime

javax.swing.JTextField patientBirthTime

DOCUMENT ME!

patientComments

javax.swing.JTextField patientComments

DOCUMENT ME!

patientEthnicGroup

javax.swing.JTextField patientEthnicGroup

DOCUMENT ME!

patientID

javax.swing.JTextField patientID

DOCUMENT ME!

patientName

javax.swing.JTextField patientName

DOCUMENT ME!

patientOrientation

javax.swing.JTextField patientOrientation

DOCUMENT ME!

patientOtherIDs

javax.swing.JTextField patientOtherIDs

DOCUMENT ME!

patientOtherNames

javax.swing.JTextField patientOtherNames

DOCUMENT ME!

patientPanel

javax.swing.JPanel patientPanel

DOCUMENT ME!

patientSex

javax.swing.JComboBox patientSex

DOCUMENT ME!

positions

java.lang.String[] positions

DOCUMENT ME!

requiredPanel

javax.swing.JPanel requiredPanel

DOCUMENT ME!

seriesBody

javax.swing.JComboBox seriesBody

DOCUMENT ME!

seriesDate

javax.swing.JTextField seriesDate

DOCUMENT ME!

seriesDescrip

javax.swing.JTextField seriesDescrip

DOCUMENT ME!

seriesLarge

javax.swing.JTextField seriesLarge

DOCUMENT ME!

seriesMod

javax.swing.JComboBox seriesMod

DOCUMENT ME!

seriesNo

javax.swing.JTextField seriesNo

DOCUMENT ME!

seriesOp

javax.swing.JTextField seriesOp

DOCUMENT ME!

seriesPanel

javax.swing.JPanel seriesPanel

DOCUMENT ME!

seriesPerfPhy

javax.swing.JTextField seriesPerfPhy

DOCUMENT ME!

seriesPos

javax.swing.JComboBox seriesPos

DOCUMENT ME!

seriesProtocol

javax.swing.JTextField seriesProtocol

DOCUMENT ME!

seriesSmall

javax.swing.JTextField seriesSmall

DOCUMENT ME!

seriesStepDate

javax.swing.JTextField seriesStepDate

DOCUMENT ME!

seriesStepDescrip

javax.swing.JTextField seriesStepDescrip

DOCUMENT ME!

seriesStepID

javax.swing.JTextField seriesStepID

DOCUMENT ME!

seriesStepTime

javax.swing.JTextField seriesStepTime

DOCUMENT ME!

seriesTime

javax.swing.JTextField seriesTime

DOCUMENT ME!

seriesUID

javax.swing.JTextField seriesUID

DOCUMENT ME!

sexes

java.lang.String[] sexes

DOCUMENT ME!

studyAccNumber

javax.swing.JTextField studyAccNumber

DOCUMENT ME!

studyAge

javax.swing.JTextField studyAge

DOCUMENT ME!

studyDate

javax.swing.JTextField studyDate

DOCUMENT ME!

studyDescrip

javax.swing.JTextField studyDescrip

DOCUMENT ME!

studyDiag

javax.swing.JTextField studyDiag

DOCUMENT ME!

studyHist

javax.swing.JTextField studyHist

DOCUMENT ME!

studyID

javax.swing.JTextField studyID

DOCUMENT ME!

studyOcc

javax.swing.JTextField studyOcc

DOCUMENT ME!

studyPanel

javax.swing.JPanel studyPanel

DOCUMENT ME!

studyPhyRead

javax.swing.JTextField studyPhyRead

DOCUMENT ME!

studyPhyRec

javax.swing.JTextField studyPhyRec

DOCUMENT ME!

studyRefPhy

javax.swing.JTextField studyRefPhy

DOCUMENT ME!

studySize

javax.swing.JTextField studySize

DOCUMENT ME!

studyTime

javax.swing.JTextField studyTime

DOCUMENT ME!

studyUID

javax.swing.JTextField studyUID

DOCUMENT ME!

studyWeight

javax.swing.JTextField studyWeight

DOCUMENT ME!

tabPane

javax.swing.JTabbedPane tabPane

DOCUMENT ME!

tagsImportedFromNonDicomImage

java.util.Hashtable<java.lang.String,java.lang.String> tagsImportedFromNonDicomImage

DICOM tags extracted from the image we want to save. Example: dicom_0xNNNN el_0xNNNN tags stored in MINC headers.

tagsList

java.util.Hashtable<java.lang.String,javax.swing.JComponent> tagsList

The additional tags list is a list of tags the DTI group has requested.

UI

ViewUserInterface UI

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogSaveMergedVOIs extends JDialogBase implements Serializable

Serialized Fields

AxialVOIs

InstanceVOI AxialVOIs

Axial VOI instance

buttonAxial

javax.swing.JButton buttonAxial

Choose button for each VOI and ply file.

buttonCoronal

javax.swing.JButton buttonCoronal

Choose button for each VOI and ply file.

buttonPanel

javax.swing.JPanel buttonPanel

Button panel to hold the OK button, Cancel button, and Help button.

buttonPly

javax.swing.JButton buttonPly

Choose button for each VOI and ply file.

buttonSagittal

javax.swing.JButton buttonSagittal

Choose button for each VOI and ply file.

CoronalVOIs

InstanceVOI CoronalVOIs

Coronal VOI instance

labelAxialVOI

javax.swing.JLabel labelAxialVOI

labelCoronalVOI

javax.swing.JLabel labelCoronalVOI

labelPlyFile

javax.swing.JLabel labelPlyFile

labelSagittalVOI

javax.swing.JLabel labelSagittalVOI

msgPanel

javax.swing.JPanel msgPanel

Msg box to show the Prostate surface analysis related info.

PlyInstance

InstanceVOI PlyInstance

Ply file instance. This instance only uses the file dir and file name.

SagittalVOIs

InstanceVOI SagittalVOIs

Sagittal VOI instance

textFieldAxialVOI

javax.swing.JTextField textFieldAxialVOI

Text field for each VOI and ply file.

textFieldCoronalVOI

javax.swing.JTextField textFieldCoronalVOI

Text field for each VOI and ply file.

textFieldPlyFile

javax.swing.JTextField textFieldPlyFile

Text field for each VOI and ply file.

textFieldSagittalVOI

javax.swing.JTextField textFieldSagittalVOI

Text field for each VOI and ply file.

VOIsPanel

javax.swing.JPanel VOIsPanel

Class gov.nih.mipav.view.dialogs.JDialogSaveMinc extends JDialogBase implements Serializable

serialVersionUID:

5951116204923790986L

Serialized Fields

comboX

javax.swing.JComboBox comboX

DOCUMENT ME!

comboY

javax.swing.JComboBox comboY

DOCUMENT ME!

comboZ

javax.swing.JComboBox comboZ

DOCUMENT ME!

defaultAxisOrient

int[] defaultAxisOrient

DOCUMENT ME!

defaultSet

boolean defaultSet

DOCUMENT ME!

defaultTSpace

float defaultTSpace

DOCUMENT ME!

defaultTStart

float defaultTStart

DOCUMENT ME!

defaultXSpace

float defaultXSpace

DOCUMENT ME!

defaultXStart

float defaultXStart

Variables for holding default values. Then if the default values are used (as in, the user hit "OK" without changing any values), that option would be set in "options". This affects the way the script records.

defaultYSpace

float defaultYSpace

DOCUMENT ME!

defaultYStart

float defaultYStart

DOCUMENT ME!

defaultZSpace

float defaultZSpace

DOCUMENT ME!

defaultZStart

float defaultZStart

DOCUMENT ME!

fileInfo

FileInfoBase fileInfo

Variables for holding and storing file information.

options

FileWriteOptions options

DOCUMENT ME!

ori

int[] ori

Axes orientations.

orient

int orient

DOCUMENT ME!

orientLabel

javax.swing.JLabel orientLabel

Variables for the actual GUI; not all need to be global, but just as easy. The text fields and radio buttons do need to be global.

tSpace

javax.swing.JTextField tSpace

tStart

javax.swing.JTextField tStart

xSpace

javax.swing.JTextField xSpace

DOCUMENT ME!

xStart

javax.swing.JTextField xStart

DOCUMENT ME!

ySpace

javax.swing.JTextField ySpace

DOCUMENT ME!

yStart

javax.swing.JTextField yStart

DOCUMENT ME!

zSpace

javax.swing.JTextField zSpace

DOCUMENT ME!

zStart

javax.swing.JTextField zStart

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogSaveMincVersionChoice extends JDialogBase implements Serializable

Serialized Fields

comboBoxSaveMethod

javax.swing.JComboBox comboBoxSaveMethod

Whether to save as selected by dialog or always as analyze, interfile, or nifti.

minc1File

javax.swing.JRadioButton minc1File

Radio button to indicate that an Minc1 CDF mnc file should be written out.

minc2File

javax.swing.JRadioButton minc2File

Radio button to indicate that a Minc2 HDF5 mnc file should be written out.

okayPressed

boolean okayPressed

Whether the window was closed through the user clicking the OK button (and not just killing the dialog).

Class gov.nih.mipav.view.dialogs.JDialogSaveSlices extends JDialogBase implements Serializable

serialVersionUID:

6208822935229525687L

Serialized Fields

afniEnabled

boolean afniEnabled

DOCUMENT ME!

corEnabled

boolean corEnabled

DOCUMENT ME!

dataType

int dataType

dicomEnabled

boolean dicomEnabled

dicomGroup

javax.swing.ButtonGroup dicomGroup

dicomInfoPanel

javax.swing.JPanel dicomInfoPanel

Dicom options panel

enablePackBitWrite

boolean enablePackBitWrite

DOCUMENT ME!

encapJP2Checkbox

javax.swing.JCheckBox encapJP2Checkbox

Check box for specifying whether DICOM files should be saved as an encapsulated JPEG2000

enforceDistinctVolumeWriting

boolean enforceDistinctVolumeWriting

enhancedDicomButton

javax.swing.JRadioButton enhancedDicomButton

All frames in one file

floatToShort

boolean floatToShort

floatToShortCheckbox

javax.swing.JCheckBox floatToShortCheckbox

fourDimEnabled

boolean fourDimEnabled

DOCUMENT ME!

geGenesisEnabled

boolean geGenesisEnabled

geSigna4XEnabled

boolean geSigna4XEnabled

isDouble

boolean isDouble

isFloat

boolean isFloat

labelDigitNumber

javax.swing.JLabel labelDigitNumber

DOCUMENT ME!

labelFirstSlice

javax.swing.JLabel labelFirstSlice

DOCUMENT ME!

labelFirstTimePeriod

javax.swing.JLabel labelFirstTimePeriod

DOCUMENT ME!

labelLastSlice

javax.swing.JLabel labelLastSlice

DOCUMENT ME!

labelLastTimePeriod

javax.swing.JLabel labelLastTimePeriod

DOCUMENT ME!

labelStartNumber

javax.swing.JLabel labelStartNumber

DOCUMENT ME!

maxTimeValue

int maxTimeValue

DOCUMENT ME!

maxValue

int maxValue

DOCUMENT ME!

mincEnabled

boolean mincEnabled

minTimeValue

int minTimeValue

DOCUMENT ME!

minValue

int minValue

DOCUMENT ME!

multiFileCheckbox

javax.swing.JCheckBox multiFileCheckbox

DOCUMENT ME!

multiFileDicomButton

javax.swing.JRadioButton multiFileDicomButton

options

FileWriteOptions options

DOCUMENT ME!

packBitCheckbox

javax.swing.JCheckBox packBitCheckbox

DOCUMENT ME!

saveAsEncapJP2

boolean saveAsEncapJP2

Whether DICOM files should be saved as an encapsulated JPEG2000

saveEnhancedDicom

boolean saveEnhancedDicom

Whether 3D or higher dimensionality dicom images should be saved as a single file

slicePanel

javax.swing.JPanel slicePanel

DOCUMENT ME!

stampSecondary

boolean stampSecondary

Whether to stamp DICOM files with the MIPAV secondary stamp

stampSecondaryCheckbox

javax.swing.JCheckBox stampSecondaryCheckbox

Check box for specifying whether DICOM files should be stamped with MIPAV information

textDigitNumber

javax.swing.JTextField textDigitNumber

DOCUMENT ME!

textFirstSlice

javax.swing.JTextField textFirstSlice

DOCUMENT ME!

textFirstTimePeriod

javax.swing.JTextField textFirstTimePeriod

DOCUMENT ME!

textLastSlice

javax.swing.JTextField textLastSlice

DOCUMENT ME!

textLastTimePeriod

javax.swing.JTextField textLastTimePeriod

DOCUMENT ME!

textStartNumber

javax.swing.JTextField textStartNumber

DOCUMENT ME!

tiffEnabled

boolean tiffEnabled

DOCUMENT ME!

tiffPanel

javax.swing.JPanel tiffPanel

DOCUMENT ME!

timeEnabled

boolean timeEnabled

DOCUMENT ME!

timePanel

javax.swing.JPanel timePanel

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogSaveVistaParams extends JDialogBase implements Serializable

Serialized Fields

acquisitionOrientationField

javax.swing.JTextField acquisitionOrientationField

textfields

bandtypeField

javax.swing.JTextField bandtypeField

textfields

birthField

javax.swing.JTextField birthField

textfields

boundingBoxField

javax.swing.JTextField boundingBoxField

textfields

caField

javax.swing.JTextField caField

textfields

CoilIDField

javax.swing.JTextField CoilIDField

textfields

conventionField

javax.swing.JTextField conventionField

textfields

cpField

javax.swing.JTextField cpField

textfields

dateField

javax.swing.JTextField dateField

textfields

deviceField

javax.swing.JTextField deviceField

textfields

extentField

javax.swing.JTextField extentField

textfields

fixpointField

javax.swing.JTextField fixpointField

textfields

image

ModelImage image

image

mainPanel

javax.swing.JPanel mainPanel

panels

modalityField

javax.swing.JTextField modalityField

textfields

MPIL_vista_0Field

javax.swing.JTextField MPIL_vista_0Field

textfields

nameField

javax.swing.JTextField nameField

textfields

nbandsField

javax.swing.JTextField nbandsField

textfields

ncolumnsField

javax.swing.JTextField ncolumnsField

textfields

nframesField

javax.swing.JTextField nframesField

textfields

nrowsField

javax.swing.JTextField nrowsField

textfields

ntimestepsField

javax.swing.JTextField ntimestepsField

textfields

optionalPanel

javax.swing.JPanel optionalPanel

panels

ori_ncolumnsField

javax.swing.JTextField ori_ncolumnsField

textfields

ori_nrowsField

javax.swing.JTextField ori_nrowsField

textfields

orientationField

javax.swing.JTextField orientationField

textfields

patientField

javax.swing.JTextField patientField

textfields

protocolField

javax.swing.JTextField protocolField

textfields

repetition_timeField

javax.swing.JTextField repetition_timeField

textfields

repnField

javax.swing.JTextField repnField

textfields

requiredPanel

javax.swing.JPanel requiredPanel

panels

sequenceField

javax.swing.JTextField sequenceField

textfields

sexField

javax.swing.JTextField sexField

textfields

slice_timeField

javax.swing.JTextField slice_timeField

textfields

tabbedPane

javax.swing.JTabbedPane tabbedPane

tabbed pane

talairachField

javax.swing.JTextField talairachField

textfields

talairachPanel

javax.swing.JPanel talairachPanel

panels

timeField

javax.swing.JTextField timeField

textfields

vistaParamTextfields

java.util.ArrayList<javax.swing.JTextField> vistaParamTextfields

array list of text fields

voxelField

javax.swing.JTextField voxelField

textfields

Class gov.nih.mipav.view.dialogs.JDialogScaleSaliency extends JDialogScriptableBase implements Serializable

serialVersionUID:

0L

Serialized Fields

aaButton

javax.swing.JRadioButton aaButton

image

ModelImage image

DOCUMENT ME!

interScaleSaliencyText

javax.swing.JTextField interScaleSaliencyText

maximumRadius

int maximumRadius

DOCUMENT ME!

maximumText

javax.swing.JTextField maximumText

DOCUMENT ME!

minimumRadius

int minimumRadius

minimumText

javax.swing.JTextField minimumText

mode

int mode

modeGroup

javax.swing.ButtonGroup modeGroup

nbins

int nbins

nbinsLabel

javax.swing.JLabel nbinsLabel

nbinsText

javax.swing.JTextField nbinsText

DOCUMENT ME!

normalButton

javax.swing.JRadioButton normalButton

parzenButton

javax.swing.JRadioButton parzenButton

sAlgo

AlgorithmScaleSaliency sAlgo

DOCUMENT ME!

saliencyText

javax.swing.JTextField saliencyText

scalarImage

boolean scalarImage

sigma

double sigma

DOCUMENT ME!

sigmaLabel

javax.swing.JLabel sigmaLabel

sigmanbinsText

javax.swing.JTextField sigmanbinsText

wt

double wt

yt

double yt

Class gov.nih.mipav.view.dialogs.JDialogSCDSegmentation extends JDialogScriptableBase implements Serializable

Serialized Fields

classLabel

javax.swing.JLabel classLabel

classText

javax.swing.JTextField classText

destinationGroup

javax.swing.ButtonGroup destinationGroup

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

image

ModelImage image

Source image.

initialSideLength

int initialSideLength

lengthLabel

javax.swing.JLabel lengthLabel

lengthText

javax.swing.JTextField lengthText

newImage

javax.swing.JRadioButton newImage

numClasses

int numClasses

parameterPanel

javax.swing.JPanel parameterPanel

replaceImage

javax.swing.JRadioButton replaceImage

resultImage

ModelImage resultImage

Result image.

scdAlgo

AlgorithmSCDSegmentation scdAlgo

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogScriptableBase extends JDialogBase implements Serializable

serialVersionUID:

1714695069613762132L

Serialized Fields

displayInNewFrame

boolean displayInNewFrame

isComplete

boolean isComplete

Indicates whether the scripted algorithm completed successfully. Used to retain the status after the dialog has finalized the algorithm handle(s) in algorithmPerformed.

scriptParameters

AlgorithmParameters scriptParameters

Contains parameters used to run or record the dialog action, along with some common helper methods.

Class gov.nih.mipav.view.dialogs.JDialogScriptableTransform extends JDialogScriptableBase implements Serializable

serialVersionUID:

-7786904359172693422L

Serialized Fields

algoTal

AlgorithmTalairachTransform algoTal

DOCUMENT ME!

algoTrans

AlgorithmTransform algoTrans

or if the source image is to be replaced.

clipCheckbox

javax.swing.JCheckBox clipCheckbox

DOCUMENT ME!

comboBoxImage

javax.swing.JComboBox comboBoxImage

DOCUMENT ME!

comboBoxInterp

javax.swing.JComboBox comboBoxInterp

DOCUMENT ME!

comboBoxTalTransform

javax.swing.JComboBox comboBoxTalTransform

DOCUMENT ME!

computeTImage

javax.swing.JRadioButton computeTImage

DOCUMENT ME!

constantFOV

int constantFOV

We use the constant to preserve the FOV. Either 1 or 0;

constantFOVradio

javax.swing.JRadioButton constantFOVradio

Radio button for constant FOV interpolation.

cropOrPad

javax.swing.ButtonGroup cropOrPad

DOCUMENT ME!

cropRadio

javax.swing.JRadioButton cropRadio

DOCUMENT ME!

current

javax.swing.JLabel current

DOCUMENT ME!

cXdim

int cXdim

DOCUMENT ME!

cXres

float cXres

DOCUMENT ME!

cYdim

int cYdim

DOCUMENT ME!

cYres

float cYres

DOCUMENT ME!

cZdim

int cZdim

DOCUMENT ME!

cZres

float cZres

DOCUMENT ME!

dataType

int dataType

dims

float[] dims

do25D

boolean do25D

DOCUMENT ME!

doClip

boolean doClip

DOCUMENT ME!

doInvMat

boolean doInvMat

DOCUMENT ME!

doPad

boolean doPad

DOCUMENT ME!

doRotateCenter

boolean doRotateCenter

DOCUMENT ME!

doTalairach

boolean doTalairach

DOCUMENT ME!

doUpdateOrigin

boolean doUpdateOrigin

DOCUMENT ME!

doVOI

boolean doVOI

DOCUMENT ME!

enableSATransform

boolean enableSATransform

endMatchFOVradio

javax.swing.JRadioButton endMatchFOVradio

Radio button for slice start & end matching interpolation.

fileClip

boolean[] fileClip

fileInterp

int[] fileInterp

fileMatrix

javax.swing.JRadioButton fileMatrix

DOCUMENT ME!

filePad

boolean[] filePad

fileTransMatrix

TransMatrix fileTransMatrix

Stores the matrix read in from a file it then can be converted to the corrected axis orientation (i.e. world coordinate and/or left-hand coordinate systems).

filetVOI

boolean[] filetVOI

fillValue

float fillValue

image

ModelImage image

source image

image25DCheckbox

javax.swing.JCheckBox image25DCheckbox

DOCUMENT ME!

imageMax

double imageMax

imageMin

double imageMin

interp

int interp

Interpolation method

interpFOVgroup

javax.swing.ButtonGroup interpFOVgroup

Button group for interpolation type, contant FOV or start, end matching.

invertCheckbox

javax.swing.JCheckBox invertCheckbox

DOCUMENT ME!

isSATransform

boolean isSATransform

is this a scanner anatomical transform (->AXIAL)

labelDimX

javax.swing.JLabel labelDimX

DOCUMENT ME!

labelDimY

javax.swing.JLabel labelDimY

DOCUMENT ME!

labelDimZ

javax.swing.JLabel labelDimZ

DOCUMENT ME!

labelOrigin

javax.swing.JLabel labelOrigin

labelResX

javax.swing.JLabel labelResX

DOCUMENT ME!

labelResY

javax.swing.JLabel labelResY

DOCUMENT ME!

labelResZ

javax.swing.JLabel labelResZ

DOCUMENT ME!

labelRx

javax.swing.JLabel labelRx

DOCUMENT ME!

labelRy

javax.swing.JLabel labelRy

DOCUMENT ME!

labelRz

javax.swing.JLabel labelRz

DOCUMENT ME!

labelSKx

javax.swing.JLabel labelSKx

DOCUMENT ME!

labelSKy

javax.swing.JLabel labelSKy

DOCUMENT ME!

labelSKz

javax.swing.JLabel labelSKz

DOCUMENT ME!

labelSx

javax.swing.JLabel labelSx

DOCUMENT ME!

labelSy

javax.swing.JLabel labelSy

DOCUMENT ME!

labelSz

javax.swing.JLabel labelSz

DOCUMENT ME!

labelTransformDimX

javax.swing.JLabel labelTransformDimX

labelTransformDimY

javax.swing.JLabel labelTransformDimY

labelTransformDimZ

javax.swing.JLabel labelTransformDimZ

labelTransformResX

javax.swing.JLabel labelTransformResX

labelTransformResY

javax.swing.JLabel labelTransformResY

labelTransformResZ

javax.swing.JLabel labelTransformResZ

labelTx

javax.swing.JLabel labelTx

DOCUMENT ME!

labelTy

javax.swing.JLabel labelTy

DOCUMENT ME!

labelTz

javax.swing.JLabel labelTz

DOCUMENT ME!

leftHandSystem

boolean leftHandSystem

If true change matrix to the left-hand coordinate system.

magSlider

javax.swing.JSlider magSlider

DOCUMENT ME!

matrixDeterminationGroup

javax.swing.ButtonGroup matrixDeterminationGroup

DOCUMENT ME!

matrixDirectory

java.lang.String matrixDirectory

matrixFile

java.lang.String matrixFile

DOCUMENT ME!

matrixFName

javax.swing.JTextField matrixFName

DOCUMENT ME!

max

int max

DOCUMENT ME!

maximum

javax.swing.JLabel maximum

DOCUMENT ME!

min

int min

DOCUMENT ME!

minimum

javax.swing.JLabel minimum

DOCUMENT ME!

noTransform

javax.swing.JRadioButton noTransform

DOCUMENT ME!

outOfBoundsComboBox

javax.swing.JComboBox outOfBoundsComboBox

outOfBoundsIndex

int outOfBoundsIndex

Tells how to select fill value for out of bounds data 0 for image minimum 1 for NaN for float, zero otherwise. 2 for user defined 3 for image maximum

outOfBoundsLabel

javax.swing.JLabel outOfBoundsLabel

outputDimsGroup

javax.swing.ButtonGroup outputDimsGroup

oXdim

int oXdim

DOCUMENT ME!

oXres

float oXres

DOCUMENT ME!

oYdim

int oYdim

DOCUMENT ME!

oYres

float oYres

DOCUMENT ME!

oZdim

int oZdim

DOCUMENT ME!

oZres

float oZres

DOCUMENT ME!

padRadio

javax.swing.JRadioButton padRadio

DOCUMENT ME!

preserveFOV

boolean preserveFOV

DOCUMENT ME!

preserveFOV2Button

javax.swing.JRadioButton preserveFOV2Button

preserveFOVButton

javax.swing.JRadioButton preserveFOVButton

preserveOutputDimsButton

javax.swing.JRadioButton preserveOutputDimsButton

prevSelectedTransformRadioButton

javax.swing.JRadioButton prevSelectedTransformRadioButton

quiet

boolean quiet

RESAMPLE_STATUS_DEFAULT_TEXT

java.lang.String RESAMPLE_STATUS_DEFAULT_TEXT

resampleGroup

javax.swing.ButtonGroup resampleGroup

DOCUMENT ME!

resampleImage

ModelImage resampleImage

DOCUMENT ME!

resampleMatrixSourceButton

javax.swing.JRadioButton resampleMatrixSourceButton

resampleMatrixTargetButton

javax.swing.JRadioButton resampleMatrixTargetButton

resamplePanel

javax.swing.JPanel resamplePanel

resampleSlider

javax.swing.JRadioButton resampleSlider

DOCUMENT ME!

resampleStatusTextField

javax.swing.JTextField resampleStatusTextField

resampletoImage

javax.swing.JRadioButton resampletoImage

DOCUMENT ME!

resampletoMatrixFile

javax.swing.JRadioButton resampletoMatrixFile

DOCUMENT ME!

resampletoUser

javax.swing.JRadioButton resampletoUser

DOCUMENT ME!

resDimGroup

javax.swing.ButtonGroup resDimGroup

resols

float[] resols

resTransformGroup

javax.swing.ButtonGroup resTransformGroup

resultImage

ModelImage resultImage

DOCUMENT ME!

rotationAxisGroup

javax.swing.ButtonGroup rotationAxisGroup

DOCUMENT ME!

rotCenter

javax.swing.JRadioButton rotCenter

DOCUMENT ME!

rotOrigin

javax.swing.JRadioButton rotOrigin

DOCUMENT ME!

separateDimResButton

javax.swing.JRadioButton separateDimResButton

sourceXdim

int[] sourceXdim

sourceXres

float[] sourceXres

sourceYdim

int[] sourceYdim

sourceYres

float[] sourceYres

sourceZdim

int[] sourceZdim

sourceZres

float[] sourceZres

spline

AlgorithmTPSpline spline

storedMatrix

javax.swing.JRadioButton storedMatrix

DOCUMENT ME!

storedMatrixBox

javax.swing.JComboBox storedMatrixBox

tabbedPane

javax.swing.JTabbedPane tabbedPane

Tabbed pane

targetXdim

int[] targetXdim

targetXres

float[] targetXres

targetYdim

int[] targetYdim

targetYres

float[] targetYres

targetZdim

int[] targetZdim

targetZres

float[] targetZres

textDimX

javax.swing.JTextField textDimX

DOCUMENT ME!

textDimY

javax.swing.JTextField textDimY

DOCUMENT ME!

textDimZ

javax.swing.JTextField textDimZ

DOCUMENT ME!

textResX

javax.swing.JTextField textResX

DOCUMENT ME!

textResY

javax.swing.JTextField textResY

DOCUMENT ME!

textResZ

javax.swing.JTextField textResZ

DOCUMENT ME!

textRx

javax.swing.JTextField textRx

DOCUMENT ME!

textRy

javax.swing.JTextField textRy

DOCUMENT ME!

textRz

javax.swing.JTextField textRz

DOCUMENT ME!

textSKx

javax.swing.JTextField textSKx

DOCUMENT ME!

textSKy

javax.swing.JTextField textSKy

DOCUMENT ME!

textSKz

javax.swing.JTextField textSKz

DOCUMENT ME!

textSx

javax.swing.JTextField textSx

DOCUMENT ME!

textSy

javax.swing.JTextField textSy

DOCUMENT ME!

textSz

javax.swing.JTextField textSz

DOCUMENT ME!

textTransformDimX

javax.swing.JTextField textTransformDimX

textTransformDimY

javax.swing.JTextField textTransformDimY

textTransformDimZ

javax.swing.JTextField textTransformDimZ

textTransformResX

javax.swing.JTextField textTransformResX

textTransformResY

javax.swing.JTextField textTransformResY

textTransformResZ

javax.swing.JTextField textTransformResZ

textTx

javax.swing.JTextField textTx

DOCUMENT ME!

textTy

javax.swing.JTextField textTy

DOCUMENT ME!

textTz

javax.swing.JTextField textTz

DOCUMENT ME!

tInfo

TalairachTransformInfo tInfo

DOCUMENT ME!

TRANSFORM_STATUS_DEFAULT_TEXT

java.lang.String TRANSFORM_STATUS_DEFAULT_TEXT

transformStatusTextField

javax.swing.JTextField transformStatusTextField

transformType

int transformType

DOCUMENT ME!

tVal

java.lang.String[] tVal

DOCUMENT ME!

units

int[] units

updateOriginCheckbox

javax.swing.JCheckBox updateOriginCheckbox

DOCUMENT ME!

userDefinedMatrix

javax.swing.JRadioButton userDefinedMatrix

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

useSACenter

boolean useSACenter

useSACenterBox

javax.swing.JCheckBox useSACenterBox

checkbox telling the algorithm to use the scanner coordinate center rather than the image center

valueLabel

javax.swing.JLabel valueLabel

valueText

javax.swing.JTextField valueText

voiCheckbox

javax.swing.JCheckBox voiCheckbox

DOCUMENT ME!

wcSystem

boolean wcSystem

If true change matrix to the world coordinate system.

xfrm

TransMatrix xfrm

DOCUMENT ME!

xyAspectRatio

javax.swing.JCheckBox xyAspectRatio

DOCUMENT ME!

xyzAspectRatio

javax.swing.JCheckBox xyzAspectRatio

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogScriptRecorder extends JDialogBase implements Serializable

serialVersionUID:

-8409175669783444792L

Serialized Fields

editButton

javax.swing.JButton editButton

DOCUMENT ME!

instructionLabel

javax.swing.JLabel instructionLabel

DOCUMENT ME!

message

java.lang.String message

DOCUMENT ME!

pauseButton

javax.swing.JButton pauseButton

DOCUMENT ME!

pauseButton2

javax.swing.JButton pauseButton2

DOCUMENT ME!

scriptRecorder

ScriptRecorder scriptRecorder

A reference to the global MIPAV script recorder. This dialog listens to changes in its status and script.

scriptTextArea

javax.swing.JTextArea scriptTextArea

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogSelectChannelSequence extends JDialogBase implements Serializable

serialVersionUID:

7969429539433435403L

Serialized Fields

channelOrder

int[] channelOrder

DOCUMENT ME!

comboBoxes

javax.swing.JComboBox[] comboBoxes

DOCUMENT ME!

parent

ViewOpenImageSequence parent

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogSelectDICOMColumnHeaders extends JDialogBase implements Serializable

serialVersionUID:

5883528252352616682L

Serialized Fields

listPanel

ViewSelectableDoubleListPanel listPanel

DOCUMENT ME!

parentFrame

ViewJFrameDICOMParser parentFrame

DOCUMENT ME!

rightTable

javax.swing.JTable rightTable

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogSequentialScanningWatershed extends JDialogScriptableBase implements Serializable

Serialized Fields

binCheckBox

javax.swing.JCheckBox binCheckBox

binNumber

int binNumber

eightButton

javax.swing.JRadioButton eightButton

fourButton

javax.swing.JRadioButton fourButton

image

ModelImage image

DOCUMENT ME!

labelBins

javax.swing.JLabel labelBins

labelThreshold

javax.swing.JLabel labelThreshold

limitBins

boolean limitBins

merge

boolean merge

mergeCheckBox

javax.swing.JCheckBox mergeCheckBox

mergeThreshold

double mergeThreshold

neighborGroup

javax.swing.ButtonGroup neighborGroup

neighborPanel

javax.swing.JPanel neighborPanel

DOCUMENT ME!

numNeighbor

int numNeighbor

resultImage

ModelImage resultImage

DOCUMENT ME!

textBins

javax.swing.JTextField textBins

textThreshold

javax.swing.JTextField textThreshold

watershedAlgo

AlgorithmSequentialScanningWatershed watershedAlgo

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogServer extends JDialogBase implements Serializable

serialVersionUID:

1348641833737787663L

Serialized Fields

alias

java.lang.String alias

DOCUMENT ME!

aliasField

javax.swing.JTextField aliasField

DOCUMENT ME!

aliasLabel

javax.swing.JLabel aliasLabel

DOCUMENT ME!

ip

java.lang.String ip

DOCUMENT ME!

ipField

javax.swing.JTextField ipField

DOCUMENT ME!

ipLabel

javax.swing.JLabel ipLabel

DOCUMENT ME!

port

java.lang.String port

DOCUMENT ME!

portField

javax.swing.JTextField portField

DOCUMENT ME!

portLabel

javax.swing.JLabel portLabel

DOCUMENT ME!

server

boolean server

DOCUMENT ME!

title

java.lang.String title

DOCUMENT ME!

titleField

javax.swing.JTextField titleField

DOCUMENT ME!

titleLabel

javax.swing.JLabel titleLabel

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogShortcutEditor extends JDialogBase implements Serializable

serialVersionUID:

-6964789155088488701L

Serialized Fields

addShortcut

javax.swing.JButton addShortcut

add shortcut button.

currentShortcut

javax.swing.KeyStroke currentShortcut

Keystroke built from shortcut editor dialog.

defaultShortcutModel

ViewTableModel defaultShortcutModel

DOCUMENT ME!

defaultShortcutTable

javax.swing.JTable defaultShortcutTable

DOCUMENT ME!

masterScrollPane

javax.swing.JScrollPane masterScrollPane

master scroll pane in which to display all information.

removeShortcut

javax.swing.JButton removeShortcut

button for removing shortcuts.

scrollingBox

javax.swing.Box scrollingBox

Box to hold table information.

userDefinedShortcutModel

ViewTableModel userDefinedShortcutModel

DOCUMENT ME!

userDefinedShortcutTable

javax.swing.JTable userDefinedShortcutTable

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogShortestPathWatershed extends JDialogScriptableBase implements Serializable

Serialized Fields

binCheckBox

javax.swing.JCheckBox binCheckBox

binNumber

int binNumber

eightButton

javax.swing.JRadioButton eightButton

fourButton

javax.swing.JRadioButton fourButton

image

ModelImage image

DOCUMENT ME!

labelBins

javax.swing.JLabel labelBins

labelThreshold

javax.swing.JLabel labelThreshold

limitBins

boolean limitBins

merge

boolean merge

mergeCheckBox

javax.swing.JCheckBox mergeCheckBox

mergeThreshold

double mergeThreshold

neighborGroup

javax.swing.ButtonGroup neighborGroup

neighborPanel

javax.swing.JPanel neighborPanel

DOCUMENT ME!

numNeighbor

int numNeighbor

resultImage

ModelImage resultImage

DOCUMENT ME!

textBins

javax.swing.JTextField textBins

textThreshold

javax.swing.JTextField textThreshold

watershedAlgo

AlgorithmShortestPathWatershed watershedAlgo

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogShowCosts extends JDialogScriptableBase implements Serializable

serialVersionUID:

7737847738523057492L

Serialized Fields

algoCost

AlgorithmOptimizeFunctionBase algoCost

Is either a AlgorithmCostFunction or a AlgorithmCostFunctions2D depending on images

bin1

int bin1

Number of bins for each image

bin1Text

javax.swing.JTextField bin1Text

User input of bins

correlationRatioSmoothed

boolean correlationRatioSmoothed

currentCostFunct

java.lang.String currentCostFunct

The current cost function

doCorrelationRatioSmoothed

javax.swing.JCheckBox doCorrelationRatioSmoothed

Whether the available cost functions should be performed

doMutualInfoSmoothed

javax.swing.JCheckBox doMutualInfoSmoothed

Whether the available cost functions should be performed

doNormMutualInfoSmoothed

javax.swing.JCheckBox doNormMutualInfoSmoothed

Whether the available cost functions should be performed

doNormXCorr

javax.swing.JCheckBox doNormXCorr

Whether the available cost functions should be performed

firstImage

ModelImage firstImage

Active image when algorithm is called.

imageComboBox

javax.swing.JComboBox imageComboBox

Image list for user to pick registered image

labelImage

javax.swing.JLabel labelImage

The registered image

mutualInfoSmoothed

boolean mutualInfoSmoothed

normMutualInfoSmoothed

boolean normMutualInfoSmoothed

normXCorr

boolean normXCorr

possibleIntValues1

double possibleIntValues1

Initial guesses for bin values

secondImage

ModelImage secondImage

The registered image as specified by user through gui

simpleImg1

ModelSimpleImage simpleImg1

Holds extents, other info about firstImage and SecondImage

simpleImg2

ModelSimpleImage simpleImg2

Holds extents, other info about firstImage and SecondImage

smoothSize

float smoothSize

Optional smooth parameter for both cost functions

tMatrix

TransMatrix tMatrix

Identity matrix for testing cost

UI

ViewUserInterface UI

The MIPAV user interface

Class gov.nih.mipav.view.dialogs.JDialogSIFT extends JDialogScriptableBase implements Serializable

serialVersionUID:

-1L

Serialized Fields

changeRemoveIndex

boolean changeRemoveIndex

chooserButton

javax.swing.JButton chooserButton

descriptorarg

java.lang.String descriptorarg

edge_thresh

double edge_thresh

fileDir

java.lang.String[] fileDir

fileName

java.lang.String[] fileName

force_orientations

boolean force_orientations

framesarg

java.lang.String framesarg

gssarg

java.lang.String gssarg

imageList

javax.swing.JList imageList

imagePanel

javax.swing.JPanel imagePanel

labelEdgeThresh

javax.swing.JLabel labelEdgeThresh

labelFirstOctave

javax.swing.JLabel labelFirstOctave

labelMagnification

javax.swing.JLabel labelMagnification

labelNLevels

javax.swing.JLabel labelNLevels

labelNOctaves

javax.swing.JLabel labelNOctaves

labelNormThresh

javax.swing.JLabel labelNormThresh

labelPeakThresh

javax.swing.JLabel labelPeakThresh

labelRegister

javax.swing.JLabel labelRegister

labelWindowSize

javax.swing.JLabel labelWindowSize

magnif

double magnif

metaarg

java.lang.String metaarg

model

javax.swing.DefaultListModel<java.lang.String> model

mosaic

boolean mosaic

mosaicCheckBox

javax.swing.JCheckBox mosaicCheckBox

norm_thresh

double norm_thresh

O

int O

omin

int omin

orientationsCheckBox

javax.swing.JCheckBox orientationsCheckBox

outarg

java.lang.String outarg

paramPanel

javax.swing.JPanel paramPanel

peak_thresh

double peak_thresh

read_framesarg

java.lang.String read_framesarg

readFrames

boolean readFrames

readFramesCheckBox

javax.swing.JCheckBox readFramesCheckBox

removeButton

javax.swing.JButton removeButton

removeIndex

int removeIndex

S

int S

selectedDirectory

java.lang.String selectedDirectory

selectedFileName

java.lang.String selectedFileName

SIFTAlgo

SIFT SIFTAlgo

srcNumber

int srcNumber

tempFileDir

java.lang.String[] tempFileDir

tempFileName

java.lang.String[] tempFileName

textEdgeThresh

javax.swing.JTextField textEdgeThresh

textFirstOctave

javax.swing.JTextField textFirstOctave

textMagnification

javax.swing.JTextField textMagnification

textNLevels

javax.swing.JTextField textNLevels

textNOctaves

javax.swing.JTextField textNOctaves

textNormThresh

javax.swing.JTextField textNormThresh

textPeakThresh

javax.swing.JTextField textPeakThresh

textWindowSize

javax.swing.JTextField textWindowSize

userInterface

ViewUserInterface userInterface

verbose

boolean verbose

verboseCheckBox

javax.swing.JCheckBox verboseCheckBox

window_size

double window_size

writeDescriptor

boolean writeDescriptor

writeDescriptorCheckBox

javax.swing.JCheckBox writeDescriptorCheckBox

writeFrames

boolean writeFrames

writeFramesCheckBox

javax.swing.JCheckBox writeFramesCheckBox

writeGss

boolean writeGss

writeGssCheckBox

javax.swing.JCheckBox writeGssCheckBox

writeMeta

boolean writeMeta

writeMetaCheckBox

javax.swing.JCheckBox writeMetaCheckBox

Class gov.nih.mipav.view.dialogs.JDialogSIFTImageSimilarity extends JDialogScriptableBase implements Serializable

Serialized Fields

assumed_blur

double assumed_blur

assumed_blurText

javax.swing.JTextField assumed_blurText

border_widthText

javax.swing.JTextField border_widthText

comboBoxImage

javax.swing.JComboBox<java.lang.String> comboBoxImage

image_border_width

int image_border_width

image1

ModelImage image1

image2

ModelImage image2

logFile

java.lang.String logFile

logFileText

javax.swing.JTextField logFileText

num_intervals

int num_intervals

num_intervalsText

javax.swing.JTextField num_intervalsText

sigma

double sigma

sigmaText

javax.swing.JTextField sigmaText

similarityAlgo

SIFTImageSimilarity similarityAlgo

Use serialVersionUID for interoperability.

Class gov.nih.mipav.view.dialogs.JDialogSimulatedExposureFusion extends JDialogScriptableBase implements Serializable

Serialized Fields

alpha

double alpha

beta

double beta

image

ModelImage image

DOCUMENT ME!

labelMed

javax.swing.JLabel labelMed

lambda

double lambda

M

int M

med

double med

medCheckBox

javax.swing.JCheckBox medCheckBox

nScales

int nScales

resultImage

ModelImage resultImage

DOCUMENT ME!

sefAlgo

AlgorithmSimulatedExposureFusion sefAlgo

DOCUMENT ME!

textAlpha

javax.swing.JTextField textAlpha

textBeta

javax.swing.JTextField textBeta

textLambda

javax.swing.JTextField textLambda

textM

javax.swing.JTextField textM

textMed

javax.swing.JTextField textMed

textNScales

javax.swing.JTextField textNScales

Class gov.nih.mipav.view.dialogs.JDialogSingleMRIImageSNR extends JDialogBase implements Serializable

serialVersionUID:

4621550176907564448L

Serialized Fields

automatic

boolean automatic

automaticCheckBox

javax.swing.JCheckBox automaticCheckBox

backgroundButton

javax.swing.JRadioButton backgroundButton

DOCUMENT ME!

backgroundIndex

int backgroundIndex

DOCUMENT ME!

componentImage

ViewJComponentEditImage componentImage

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

labelReceiver

javax.swing.JLabel labelReceiver

DOCUMENT ME!

numReceivers

int numReceivers

DOCUMENT ME!

signal2Button

javax.swing.JRadioButton signal2Button

DOCUMENT ME!

signal2Index

int signal2Index

DOCUMENT ME!

signalButton

javax.swing.JRadioButton signalButton

DOCUMENT ME!

signalIndex

int signalIndex

DOCUMENT ME!

snrAlgo

AlgorithmSingleMRIImageSNR snrAlgo

DOCUMENT ME!

textReceiver

javax.swing.JTextField textReceiver

DOCUMENT ME!

VOIGroup

javax.swing.ButtonGroup VOIGroup

DOCUMENT ME!

VOIs

ViewVOIVector VOIs

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogSkeletonize extends JDialogScriptableBase implements Serializable

Serialized Fields

do25D

boolean do25D

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

image25D

javax.swing.JCheckBox image25D

DOCUMENT ME!

labelPrune

javax.swing.JLabel labelPrune

DOCUMENT ME!

maskPanelSkeletonize

javax.swing.JPanel maskPanelSkeletonize

DOCUMENT ME!

numPruningPixels

int numPruningPixels

Number of pixels to prune

outputPanel

JPanelAlgorithmOutputOptions outputPanel

resultImage

ModelImage resultImage

DOCUMENT ME!

skeletonizeAlgo25D

AlgorithmMorphology25D skeletonizeAlgo25D

DOCUMENT ME!

skeletonizeAlgo2D

AlgorithmMorphology2D skeletonizeAlgo2D

DOCUMENT ME!

skeletonizeAlgo3D

AlgorithmMorphology3D skeletonizeAlgo3D

DOCUMENT ME!

textPrune

javax.swing.JTextField textPrune

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogSlantTransform extends JDialogScriptableBase implements Serializable

Serialized Fields

columnButton

javax.swing.JRadioButton columnButton

comboBoxFilterType

javax.swing.JComboBox<java.lang.String> comboBoxFilterType

FILTER_GREATER

int FILTER_GREATER

FILTER_HARD

int FILTER_HARD

FILTER_LESS

int FILTER_LESS

FILTER_NN_GARROTE

int FILTER_NN_GARROTE

FILTER_NONE

int FILTER_NONE

FILTER_SOFT

int FILTER_SOFT

FILTER_THRESHOLD_FIRM

int FILTER_THRESHOLD_FIRM

filterType

int filterType

filterVal1

double filterVal1

filterVal2

double filterVal2

inverseImage

ModelImage inverseImage

labelVal1

javax.swing.JLabel labelVal1

labelVal2

javax.swing.JLabel labelVal2

rcGroup

javax.swing.ButtonGroup rcGroup

rowButton

javax.swing.JRadioButton rowButton

sAlgo

SlantTransform sAlgo

srcImage

ModelImage srcImage

textVal1

javax.swing.JTextField textVal1

textVal2

javax.swing.JTextField textVal2

transform

int transform

transformImage

ModelImage transformImage

Class gov.nih.mipav.view.dialogs.JDialogSliceAveraging extends JDialogScriptableBase implements Serializable

serialVersionUID:

-6973307260738815367L

Serialized Fields

allButton

javax.swing.JRadioButton allButton

DOCUMENT ME!

averagingNumber

int averagingNumber

DOCUMENT ME!

destExtents

int[] destExtents

DOCUMENT ME!

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

fiveButton

javax.swing.JRadioButton fiveButton

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

numberGroup

javax.swing.ButtonGroup numberGroup

DOCUMENT ME!

optionsPanel

javax.swing.JPanel optionsPanel

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

sAverAlgo

AlgorithmSliceAveraging sAverAlgo

DOCUMENT ME!

sevenButton

javax.swing.JRadioButton sevenButton

DOCUMENT ME!

sliceNumber

int sliceNumber

DOCUMENT ME!

threeButton

javax.swing.JRadioButton threeButton

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogSM2 extends JDialogScriptableBase implements Serializable

Serialized Fields

br

java.io.BufferedReader br

buttonTimesFile

javax.swing.JButton buttonTimesFile

buttonTissueFile

javax.swing.JButton buttonTissueFile

buttonVOIFile

javax.swing.JButton buttonVOIFile

buttonVOIFile2

javax.swing.JButton buttonVOIFile2

componentImage

ViewJComponentEditImage componentImage

directoryTimes

java.lang.String directoryTimes

directoryTissue

java.lang.String directoryTissue

directoryVOI

java.lang.String directoryVOI

directoryVOI2

java.lang.String directoryVOI2

fileNameTimes

java.lang.String fileNameTimes

fileNameTissue

java.lang.String fileNameTissue

fileNameVOI

java.lang.String fileNameVOI

fileNameVOI2

java.lang.String fileNameVOI2

fileTimes

java.io.File fileTimes

fileVOI

FileVOI fileVOI

fileVOI2

FileVOI fileVOI2

hematocrit

double hematocrit

image

ModelImage image

DOCUMENT ME!

initial

double[] initial

labelHematocrit

javax.swing.JLabel labelHematocrit

labelInitial0

javax.swing.JLabel labelInitial0

labelInitial1

javax.swing.JLabel labelInitial1

labelInitial2

javax.swing.JLabel labelInitial2

labelMaxConstr0

javax.swing.JLabel labelMaxConstr0

labelMaxConstr1

javax.swing.JLabel labelMaxConstr1

labelMaxConstr2

javax.swing.JLabel labelMaxConstr2

labelMinConstr0

javax.swing.JLabel labelMinConstr0

labelMinConstr1

javax.swing.JLabel labelMinConstr1

labelMinConstr2

javax.swing.JLabel labelMinConstr2

labelParamsToFit

javax.swing.JLabel labelParamsToFit

Use serialVersionUID for interoperability.

labelVOI

javax.swing.JLabel labelVOI

max_constr

double[] max_constr

min_constr

double[] min_constr

numTimes

int numTimes

processRegionButton

javax.swing.JRadioButton processRegionButton

processRegionIndex

int processRegionIndex

resultImage

ModelImage[] resultImage

sagittalSinusButton

javax.swing.JRadioButton sagittalSinusButton

sagittalSinusIndex

int sagittalSinusIndex

sm2Algo

AlgorithmSM2 sm2Algo

DOCUMENT ME!

textHematocrit

javax.swing.JTextField textHematocrit

textInitial0

javax.swing.JTextField textInitial0

textInitial1

javax.swing.JTextField textInitial1

textInitial2

javax.swing.JTextField textInitial2

textMaxConstr0

javax.swing.JTextField textMaxConstr0

textMaxConstr1

javax.swing.JTextField textMaxConstr1

textMaxConstr2

javax.swing.JTextField textMaxConstr2

textMinConstr0

javax.swing.JTextField textMinConstr0

textMinConstr1

javax.swing.JTextField textMinConstr1

textMinConstr2

javax.swing.JTextField textMinConstr2

textTimesFile

javax.swing.JTextField textTimesFile

textTissueFile

javax.swing.JTextField textTissueFile

textVOIFile

javax.swing.JTextField textVOIFile

textVOIFile2

javax.swing.JTextField textVOIFile2

timeVals

double[] timeVals

tissueImage

ModelImage tissueImage

UI

ViewUserInterface UI

DOCUMENT ME!

voi

VOI[] voi

voi2

VOI[] voi2

VOIGroup

javax.swing.ButtonGroup VOIGroup

VOIs

ViewVOIVector VOIs

Class gov.nih.mipav.view.dialogs.JDialogSmoothMesh extends JDialogBase implements Serializable

serialVersionUID:

-4644401872827443236L

Serialized Fields

alpha

float alpha

Alpha smoothing factor.

alphaText

javax.swing.JTextField alphaText

Text field for getting alpha smoothing factor.

iterations

int iterations

Number of iterations for smoothing formula.

iterationsText

javax.swing.JTextField iterationsText

Text field for getting iterations.

lambda

float lambda

positive scale factor.

lambdaText

javax.swing.JTextField lambdaText

Text field for getting lambda for smoothing.

limitCheckBox

javax.swing.JCheckBox limitCheckBox

If limitCheckBox is selected iterations stop when volume change from initial volume is greater than or equal to volumePercent.

mainPanel

javax.swing.JPanel mainPanel

main panel containing interface:

mu

float mu

negative scale factor.

muText

javax.swing.JTextField muText

Volume text field.

stiffness

float stiffness

stiffness.

stiffnessText

javax.swing.JTextField stiffnessText

Text field for getting stiffness for smoothing.

volumeLimit

boolean volumeLimit

flag indicates volume is greater than or equal to volumePercent.

volumePercent

float volumePercent

Volume percentage.

volumeText

javax.swing.JTextField volumeText

Volume text field.

Class gov.nih.mipav.view.dialogs.JDialogSnake extends JDialogBase implements Serializable

serialVersionUID:

-6160718529233426119L

Serialized Fields

boundaryDir

int boundaryDir

DOCUMENT ME!

boundaryDirBox

javax.swing.JComboBox boundaryDirBox

DOCUMENT ME!

boundaryIterations

int boundaryIterations

DOCUMENT ME!

groupNum

int groupNum

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

labelCorrected

javax.swing.JLabel labelCorrected

DOCUMENT ME!

normFactor

float normFactor

DOCUMENT ME!

propagate

javax.swing.JRadioButton propagate

DOCUMENT ME!

propagationType

int propagationType

DOCUMENT ME!

removeOriginal

boolean removeOriginal

DOCUMENT ME!

removeOriginalCheckBox

javax.swing.JCheckBox removeOriginalCheckBox

DOCUMENT ME!

resolutionCheckbox

javax.swing.JCheckBox resolutionCheckbox

DOCUMENT ME!

scaleX

float scaleX

DOCUMENT ME!

scaleY

float scaleY

DOCUMENT ME!

scaleZ

float scaleZ

DOCUMENT ME!

singleSlice

javax.swing.JRadioButton singleSlice

DOCUMENT ME!

smoothness

float smoothness

DOCUMENT ME!

snakeAlgo

AlgorithmSnake snakeAlgo

DOCUMENT ME!

srcVOI

VOI srcVOI

DOCUMENT ME!

textBoundaryIterations

javax.swing.JTextField textBoundaryIterations

DOCUMENT ME!

textGaussX

javax.swing.JTextField textGaussX

DOCUMENT ME!

textGaussY

javax.swing.JTextField textGaussY

DOCUMENT ME!

textGaussZ

javax.swing.JTextField textGaussZ

DOCUMENT ME!

textSmoothness

javax.swing.JTextField textSmoothness

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

voiColor

java.awt.Color voiColor

DOCUMENT ME!

VOIs

ViewVOIVector VOIs

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogSobel extends JDialogScriptableBase implements Serializable

Serialized Fields

comboBoxKernelSize

javax.swing.JComboBox comboBoxKernelSize

image

ModelImage image

DOCUMENT ME!

image25D

boolean image25D

Flag indicating if slices should be blurred independently.

image25DCheckbox

javax.swing.JCheckBox image25DCheckbox

DOCUMENT ME!

kernelSize

int kernelSize

resultImage

ModelImage resultImage

DOCUMENT ME!

sobelAlgo

AlgorithmSobel sobelAlgo

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogSpectralClustering extends JDialogScriptableBase implements Serializable

Serialized Fields

alg

AlgorithmSpectralClustering alg

handle to algorithm

blueBuffer

float[] blueBuffer

br

java.io.BufferedReader br

buttonImage

javax.swing.JButton buttonImage

buttonPointsFile

javax.swing.JButton buttonPointsFile

centroidPos

double[][] centroidPos

directoryPoints

java.lang.String directoryPoints

extents

int[] extents

fileNamePoints

java.lang.String fileNamePoints

filePoints

java.io.File filePoints

greenBuffer

float[] greenBuffer

groupNum

int[] groupNum

havePoints

boolean havePoints

image

ModelImage image

source image.

imageList

javax.swing.JComboBox imageList

isMultifile

boolean isMultifile

boolean isMultifile

nDims

int nDims

nPoints

int nPoints

numberClusters

int numberClusters

pos

double[][] pos

redBuffer

float[] redBuffer

resultImage

ModelImage resultImage

result image

resultsFileName

java.lang.String resultsFileName

resultsFileNameLabel

javax.swing.JLabel resultsFileNameLabel

resultsFileNameText

javax.swing.JTextField resultsFileNameText

scale

double[] scale

scaleMax

double scaleMax

scaleVariablesToUnitVariance

boolean scaleVariablesToUnitVariance

textClusters

javax.swing.JTextField textClusters

textImage

javax.swing.JTextField textImage

textPointsFile

javax.swing.JTextField textPointsFile

unitVarianceCheckBox

javax.swing.JCheckBox unitVarianceCheckBox

weight

double[] weight

Class gov.nih.mipav.view.dialogs.JDialogSphereGeneration extends JDialogBase implements Serializable

serialVersionUID:

0L

Serialized Fields

aggregatedButton

javax.swing.JRadioButton aggregatedButton

constantButton

javax.swing.JRadioButton constantButton

constrainedButton

javax.swing.JRadioButton constrainedButton

extents

int[] extents

highestForbiddenLabel

javax.swing.JLabel highestForbiddenLabel

highestForbiddenNNDistance

double highestForbiddenNNDistance

highestForbiddenText

javax.swing.JTextField highestForbiddenText

highestRegenerationLabel

javax.swing.JLabel highestRegenerationLabel

highestRegenerationNNDistance

double highestRegenerationNNDistance

highestRegenerationText

javax.swing.JTextField highestRegenerationText

initialRandomSpheres

int initialRandomSpheres

initialSpheresLabel

javax.swing.JLabel initialSpheresLabel

initialSpheresText

javax.swing.JTextField initialSpheresText

lowestForbiddenLabel

javax.swing.JLabel lowestForbiddenLabel

lowestForbiddenNNDistance

double lowestForbiddenNNDistance

lowestForbiddenText

javax.swing.JTextField lowestForbiddenText

maximumDistanceLabel

javax.swing.JLabel maximumDistanceLabel

maximumDistanceText

javax.swing.JTextField maximumDistanceText

maximumNearestNeighborDistance

double maximumNearestNeighborDistance

maxRadius

int maxRadius

maxRadiusLabel

javax.swing.JLabel maxRadiusLabel

maxRadiusText

javax.swing.JTextField maxRadiusText

minimumDistanceLabel

javax.swing.JLabel minimumDistanceLabel

minimumDistanceText

javax.swing.JTextField minimumDistanceText

minimumNearestNeighborDistance

double minimumNearestNeighborDistance

minRadius

int minRadius

numSpheres

int numSpheres

numSpheresText

javax.swing.JTextField numSpheresText

pattern

int pattern

patternGroup

javax.swing.ButtonGroup patternGroup

radiusDistribution

int radiusDistribution

radiusGroup

javax.swing.ButtonGroup radiusGroup

radiusLabel

javax.swing.JLabel radiusLabel

radiusText

javax.swing.JTextField radiusText

DOCUMENT ME!

randomButton

javax.swing.JRadioButton randomButton

regularButton

javax.swing.JRadioButton regularButton

resultImage

ModelImage resultImage

DOCUMENT ME!

sAlgo

AlgorithmSphereGeneration sAlgo

DOCUMENT ME!

uniformButton

javax.swing.JRadioButton uniformButton

xDim

int xDim

DOCUMENT ME!

xDimText

javax.swing.JTextField xDimText

DOCUMENT ME!

yDim

int yDim

DOCUMENT ME!

yDimText

javax.swing.JTextField yDimText

zDim

int zDim

zDimText

javax.swing.JTextField zDimText

Class gov.nih.mipav.view.dialogs.JDialogSplitAndMergeWatershed extends JDialogScriptableBase implements Serializable

Serialized Fields

binCheckBox

javax.swing.JCheckBox binCheckBox

binNumber

int binNumber

createWatershedCheckBox

javax.swing.JCheckBox createWatershedCheckBox

createWatershedLines

boolean createWatershedLines

eightButton

javax.swing.JRadioButton eightButton

fourButton

javax.swing.JRadioButton fourButton

image

ModelImage image

DOCUMENT ME!

labelBins

javax.swing.JLabel labelBins

labelThreshold

javax.swing.JLabel labelThreshold

limitBins

boolean limitBins

merge

boolean merge

mergeCheckBox

javax.swing.JCheckBox mergeCheckBox

mergeThreshold

double mergeThreshold

neighborGroup

javax.swing.ButtonGroup neighborGroup

neighborPanel

javax.swing.JPanel neighborPanel

DOCUMENT ME!

numNeighbor

int numNeighbor

resultImage

ModelImage resultImage

DOCUMENT ME!

textBins

javax.swing.JTextField textBins

textThreshold

javax.swing.JTextField textThreshold

watershedAlgo

AlgorithmSplitAndMergeWatershed watershedAlgo

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogStandardDeviationThreshold extends JDialogScriptableBase implements Serializable

Serialized Fields

alg

AlgorithmStandardDeviationThreshold alg

handle to algorithm

algoVOI

AlgorithmVOIProps algoVOI

handle to algorithm

avgIntensity

float avgIntensity

average intensities in VOI

avgIntensityB

float avgIntensityB

average intensities in VOI

avgIntensityG

float avgIntensityG

average intensities in VOI

avgIntensityR

float avgIntensityR

average intensities in VOI

destinationPanel

javax.swing.JPanel destinationPanel

panels

destinationRadioGroup

javax.swing.ButtonGroup destinationRadioGroup

radio groups

groupNum

int groupNum

number for id of VOI

inverseThreshold

boolean inverseThreshold

boolean for inverse threshold

inverseThresholdCheckBox

javax.swing.JCheckBox inverseThresholdCheckBox

checkbox for inverse threshold

isColorImage

boolean isColorImage

boolean for color image

mainPanel

javax.swing.JPanel mainPanel

panels

maxIntensity

float maxIntensity

max intensities calculatd using std dev

maxIntensityB

float maxIntensityB

max intensities calculatd using std dev

maxIntensityG

float maxIntensityG

max intensities calculatd using std dev

maxIntensityR

float maxIntensityR

max intensities calculatd using std dev

minIntensity

float minIntensity

min intensities calculatd using std dev

minIntensityB

float minIntensityB

min intensities calculatd using std dev

minIntensityG

float minIntensityG

min intensities calculatd using std dev

minIntensityR

float minIntensityR

min intensities calculatd using std dev

newImageDestination

boolean newImageDestination

flags for destination and threshold

newImageRadio

javax.swing.JRadioButton newImageRadio

radio buttons

numPixels

int numPixels

numStdDev

float numStdDev

number of standard deviations used in thresholding

numStdDevB

float numStdDevB

number of standard deviations used in thresholding

numStdDevG

float numStdDevG

number of standard deviations used in thresholding

numStdDevR

float numStdDevR

number of standard deviations used in thresholding

outMax

double outMax

image type max

outMin

double outMin

image type min

paintRadio

javax.swing.JRadioButton paintRadio

radio buttons

resultImage

ModelImage resultImage

src image, result image

scriptFail

boolean scriptFail

boolean telling if script failed

setMaxThresholdCheckBox

javax.swing.JCheckBox setMaxThresholdCheckBox

checkbox for inverse threshold

setMaxThresholdCheckBoxB

javax.swing.JCheckBox setMaxThresholdCheckBoxB

checkbox for inverse threshold

setMaxThresholdCheckBoxG

javax.swing.JCheckBox setMaxThresholdCheckBoxG

checkbox for inverse threshold

setMaxThresholdCheckBoxR

javax.swing.JCheckBox setMaxThresholdCheckBoxR

checkbox for inverse threshold

setMinThresholdCheckBox

javax.swing.JCheckBox setMinThresholdCheckBox

checkbox for inverse threshold

setMinThresholdCheckBoxB

javax.swing.JCheckBox setMinThresholdCheckBoxB

checkbox for inverse threshold

setMinThresholdCheckBoxG

javax.swing.JCheckBox setMinThresholdCheckBoxG

checkbox for inverse threshold

setMinThresholdCheckBoxR

javax.swing.JCheckBox setMinThresholdCheckBoxR

checkbox for inverse threshold

srcImage

ModelImage srcImage

src image, result image

srcVOI

VOI srcVOI

src VOI used for thresholding ME!

stdDev

float stdDev

standard deviations in VOI

stdDevB

float stdDevB

standard deviations in VOI

stdDevG

float stdDevG

standard deviations in VOI

stdDevR

float stdDevR

standard deviations in VOI

stdDevTextField

javax.swing.JTextField stdDevTextField

text fields

stdDevTextFieldB

javax.swing.JTextField stdDevTextFieldB

text fields

stdDevTextFieldG

javax.swing.JTextField stdDevTextFieldG

text fields

stdDevTextFieldR

javax.swing.JTextField stdDevTextFieldR

text fields

sumPixelInten

double sumPixelInten

sumPixelIntenB

double sumPixelIntenB

sumPixelIntenG

double sumPixelIntenG

sumPixelIntenR

double sumPixelIntenR

thresholdPanel

javax.swing.JPanel thresholdPanel

panels

thresholdParametersLeftPanel

javax.swing.JPanel thresholdParametersLeftPanel

panels

thresholdParametersPanel

javax.swing.JPanel thresholdParametersPanel

panels

thresholdParametersRightPanel

javax.swing.JPanel thresholdParametersRightPanel

panels

thresholdRadioGroup

javax.swing.ButtonGroup thresholdRadioGroup

radio groups

UI

ViewUserInterface UI

handle to UI

valuesOutside

float valuesOutside

intensity values to be used in thresholding

valuesOutsideB

float valuesOutsideB

intensity values to be used in thresholding

valuesOutsideG

float valuesOutsideG

intensity values to be used in thresholding

valuesOutsideR

float valuesOutsideR

intensity values to be used in thresholding

valuesOutsideTextField

javax.swing.JTextField valuesOutsideTextField

text fields

valuesOutsideTextFieldB

javax.swing.JTextField valuesOutsideTextFieldB

text fields

valuesOutsideTextFieldG

javax.swing.JTextField valuesOutsideTextFieldG

text fields

valuesOutsideTextFieldR

javax.swing.JTextField valuesOutsideTextFieldR

text fields

voiRegionsRadio

javax.swing.JRadioButton voiRegionsRadio

radio buttons

VOIs

ViewVOIVector VOIs

vois in image

voiStatsLeftPanel

javax.swing.JPanel voiStatsLeftPanel

panels

voiStatsPanel

javax.swing.JPanel voiStatsPanel

panels

voiStatsRightPanel

javax.swing.JPanel voiStatsRightPanel

panels

wholeImageRadio

javax.swing.JRadioButton wholeImageRadio

radio buttons

wholeImageThreshold

boolean wholeImageThreshold

flags for destination and threshold

Class gov.nih.mipav.view.dialogs.JDialogSubsample extends JDialogScriptableBase implements Serializable

serialVersionUID:

3213495943646123969L

Serialized Fields

algoSub

AlgorithmSubsample algoSub

DOCUMENT ME!

by2Button

javax.swing.JRadioButton by2Button

DOCUMENT ME!

by4Button

javax.swing.JRadioButton by4Button

DOCUMENT ME!

by8Button

javax.swing.JRadioButton by8Button

DOCUMENT ME!

denom

int denom

DOCUMENT ME!

dim

int dim

Number of dimensions in an image e.g 2D, 3D

doPad

boolean doPad

The boolean value to determine whether to pad the original image or not.

doVOI

boolean doVOI

DOCUMENT ME!

extents

int[] extents

The extents of original image

image

ModelImage image

DOCUMENT ME!

label2OriginalExtentX

javax.swing.JLabel label2OriginalExtentX

Label for displaying the original extent X

label2OriginalExtentY

javax.swing.JLabel label2OriginalExtentY

Label for displaying the original extent Y

label2OriginalExtentZ

javax.swing.JLabel label2OriginalExtentZ

Label for displaying the original extent Z

labelPaddedExtentX

javax.swing.JLabel labelPaddedExtentX

Label for displaying the padded extent X

labelPaddedExtentY

javax.swing.JLabel labelPaddedExtentY

Label for displaying the padded extent Y

labelPaddedExtentZ

javax.swing.JLabel labelPaddedExtentZ

label for displaying the padded extent Z

newExtents

int[] newExtents

DOCUMENT ME!

oXres

float oXres

DOCUMENT ME!

oYres

float oYres

DOCUMENT ME!

oZres

float oZres

DOCUMENT ME!

padExtents

int[] padExtents

The extents of padded image

processIndep

boolean processIndep

DOCUMENT ME!

processIndepBox

javax.swing.JCheckBox processIndepBox

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

sigmas

float[] sigmas

DOCUMENT ME!

Sx

float Sx

DOCUMENT ME!

Sy

float Sy

DOCUMENT ME!

Sz

float Sz

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

voiCheckBox

javax.swing.JCheckBox voiCheckBox

DOCUMENT ME!

xfrm

TransMatrix xfrm

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogSubset extends JDialogScriptableBase implements Serializable

serialVersionUID:

7757821847126335458L

Serialized Fields

destExtents

int[] destExtents

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

labelSlice

javax.swing.JLabel labelSlice

DOCUMENT ME!

removeDim

int removeDim

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

resultString

java.lang.String resultString

DOCUMENT ME!

sliceNum

int sliceNum

DOCUMENT ME!

subsetAlgo

AlgorithmSubset subsetAlgo

DOCUMENT ME!

tButton

javax.swing.JRadioButton tButton

DOCUMENT ME!

textSlice

javax.swing.JTextField textSlice

DOCUMENT ME!

textString

java.lang.String textString

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

tSlices

int tSlices

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

xButton

javax.swing.JRadioButton xButton

DOCUMENT ME!

xSlices

int xSlices

DOCUMENT ME!

yButton

javax.swing.JRadioButton yButton

DOCUMENT ME!

ySlices

int ySlices

DOCUMENT ME!

zButton

javax.swing.JRadioButton zButton

DOCUMENT ME!

zSlices

int zSlices

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogSubtractVOI extends JDialogScriptableBase implements Serializable

serialVersionUID:

3133054636469390689L

Serialized Fields

averageMode

int averageMode

DOCUMENT ME!

clipGroup

javax.swing.ButtonGroup clipGroup

DOCUMENT ME!

clipMode

int clipMode

DOCUMENT ME!

clipPanel

javax.swing.JPanel clipPanel

DOCUMENT ME!

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

group

javax.swing.ButtonGroup group

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

inputPanel

javax.swing.JPanel inputPanel

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

radioClip

javax.swing.JRadioButton radioClip

DOCUMENT ME!

radioMean

javax.swing.JRadioButton radioMean

DOCUMENT ME!

radioMedian

javax.swing.JRadioButton radioMedian

DOCUMENT ME!

radioPromote

javax.swing.JRadioButton radioPromote

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

subVOIAlgo

AlgorithmSubtractVOI subVOIAlgo

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogSurfaceReconstruction extends JDialogBase implements Serializable

Serialized Fields

BallPivotingPanel

javax.swing.JPanel BallPivotingPanel

buttonInputFile

javax.swing.JButton buttonInputFile

buttonOutputFile

javax.swing.JButton buttonOutputFile

buttonPanel

javax.swing.JPanel buttonPanel

Button panel to hold the OK button, Cancel button, and Help button.

chooser

javax.swing.JFileChooser chooser

directoryInput

java.lang.String directoryInput

directoryOutput

java.lang.String directoryOutput

file_suffix

java.lang.String file_suffix

fileNameInput

java.lang.String fileNameInput

fileNameOutput

java.lang.String fileNameOutput

msgPanel

javax.swing.JPanel msgPanel

Msg box to show the Prostate surface analysis related info.

plyInputFilePanel

javax.swing.JPanel plyInputFilePanel

plyOutputFilePanel

javax.swing.JPanel plyOutputFilePanel

PoissonPanel

javax.swing.JPanel PoissonPanel

textFieldAngleThreshold

javax.swing.JTextField textFieldAngleThreshold

textFieldBallRadius

javax.swing.JTextField textFieldBallRadius

textFieldClusteringRadius

javax.swing.JTextField textFieldClusteringRadius

textFieldInputFile

javax.swing.JTextField textFieldInputFile

textFieldOutputFile

javax.swing.JTextField textFieldOutputFile

textOctreeDepth

javax.swing.JTextField textOctreeDepth

textSamplePerNode

javax.swing.JTextField textSamplePerNode

textSolverDivide

javax.swing.JTextField textSolverDivide

UI

ViewUserInterface UI

Class gov.nih.mipav.view.dialogs.JDialogSwap34 extends JDialogScriptableBase implements Serializable

serialVersionUID:

8107279710815271509L

Serialized Fields

doClose

boolean doClose

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

imageName

java.lang.String imageName

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

swap34Algo

AlgorithmSwap34 swap34Algo

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogSwapDims extends JDialogScriptableBase implements Serializable

serialVersionUID:

8107279710815271509L

Serialized Fields

doClose

boolean doClose

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

imageName

java.lang.String imageName

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

swapDimsAlgo

AlgorithmSwapDims swapDimsAlgo

DOCUMENT ME!

swapType

int swapType

Class gov.nih.mipav.view.dialogs.JDialogSwapSlicesVolumes extends JDialogScriptableBase implements Serializable

Serialized Fields

appendButton

javax.swing.JButton appendButton

Button for appending selected rows to end of JTable

displayTable

javax.swing.JTable displayTable

The visible JTable for slice/volume reordering

inPlace

boolean inPlace

Whether to perform alg in place

mode

JDialogSwapSlicesVolumes.SwapMode mode

Swap mode, either 3D or 4D

newImage

javax.swing.JRadioButton newImage

Radio buttons for alg output options.

nSlices

int nSlices

Number of slices in mode

replaceImage

javax.swing.JRadioButton replaceImage

Radio buttons for alg output options.

sliceRenum

int[][] sliceRenum

Reordering of slices/volumes

srcImage

ModelImage srcImage

srcImage for keeping track of slices

swapAlgo

AlgorithmSwapSlicesVolume swapAlgo

Running algorithm

swapVolume

ModelImage swapVolume

Result image

undoModel

javax.swing.table.DefaultTableModel undoModel

Model to restore last model of JTable

Class gov.nih.mipav.view.dialogs.JDialogSWI extends JDialogScriptableBase implements Serializable

Serialized Fields

doErnst

boolean doErnst

The variable representing whether the blur should be performed.

guiBuilder

GuiBuilder guiBuilder

image

ModelImage image

This source image is typically set by the constructor

magImage

ModelImage magImage

magnitudeCombo

javax.swing.JComboBox magnitudeCombo

maskThreshold

double maskThreshold

maskThresholdField

javax.swing.JTextField maskThresholdField

multFactor

int multFactor

multFactorField

javax.swing.JTextField multFactorField

phaseCombo

javax.swing.JComboBox phaseCombo

phaseImage

ModelImage phaseImage

resultImage

ModelImage resultImage

Result image.

resultImageName

java.lang.String resultImageName

showInterImages

boolean showInterImages

showInterImagesBox

javax.swing.JCheckBox showInterImagesBox

swiAlgo

AlgorithmSWI swiAlgo

This is the SWIs algorithm

titles

java.lang.String[] titles

xFilterSize

int xFilterSize

xFilterSizeField

javax.swing.JTextField xFilterSizeField

yFilterSize

int yFilterSize

yFilterSizeField

javax.swing.JTextField yFilterSizeField

Class gov.nih.mipav.view.dialogs.JDialogSymmetricNearestNeighbor extends JDialogScriptableBase implements Serializable

Serialized Fields

averageGroup

javax.swing.ButtonGroup averageGroup

doMedian

boolean doMedian

image

ModelImage image

Source image.

iterations

int iterations

meanButton

javax.swing.JRadioButton meanButton

medianButton

javax.swing.JRadioButton medianButton

outputOptionsPanel

JPanelAlgorithmOutputOptions outputOptionsPanel

output to a new image or overwite the current image

resultImage

ModelImage resultImage

Result image.

snnAlgo

AlgorithmSymmetricNearestNeighbor snnAlgo

textIterations

javax.swing.JTextField textIterations

textWindow

javax.swing.JTextField textWindow

titles

java.lang.String[] titles

locks the frame title

userInterface

ViewUserInterface userInterface

locking the image

windowSize

int windowSize

Class gov.nih.mipav.view.dialogs.JDialogTalairach extends JDialogBase implements Serializable

serialVersionUID:

-2923298916025034767L

Serialized Fields

anteriorPt

javax.swing.JRadioButton anteriorPt

DOCUMENT ME!

anteriorPt3Df

WildMagic.LibFoundation.Mathematics.Vector3f anteriorPt3Df

DOCUMENT ME!

applyTalairachButton

javax.swing.JButton applyTalairachButton

DOCUMENT ME!

cancelTalairachButton

javax.swing.JButton cancelTalairachButton

DOCUMENT ME!

clearTalairachButton

javax.swing.JButton clearTalairachButton

DOCUMENT ME!

frame

ViewJFrameTriImage frame

DOCUMENT ME!

haveAnteriorPt

boolean haveAnteriorPt

DOCUMENT ME!

haveInferiorPt

boolean haveInferiorPt

DOCUMENT ME!

haveLeftPt

boolean haveLeftPt

DOCUMENT ME!

havePosteriorPt

boolean havePosteriorPt

DOCUMENT ME!

haveRightPt

boolean haveRightPt

DOCUMENT ME!

haveSuperiorPt

boolean haveSuperiorPt

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

inferiorPt

javax.swing.JRadioButton inferiorPt

DOCUMENT ME!

inferiorPt3Df

WildMagic.LibFoundation.Mathematics.Vector3f inferiorPt3Df

DOCUMENT ME!

leftPt

javax.swing.JRadioButton leftPt

DOCUMENT ME!

leftPt3Df

WildMagic.LibFoundation.Mathematics.Vector3f leftPt3Df

DOCUMENT ME!

posteriorPt

javax.swing.JRadioButton posteriorPt

DOCUMENT ME!

posteriorPt3Df

WildMagic.LibFoundation.Mathematics.Vector3f posteriorPt3Df

DOCUMENT ME!

rightPt

javax.swing.JRadioButton rightPt

DOCUMENT ME!

rightPt3Df

WildMagic.LibFoundation.Mathematics.Vector3f rightPt3Df

DOCUMENT ME!

setTalairachButton

javax.swing.JButton setTalairachButton

DOCUMENT ME!

superiorPt

javax.swing.JRadioButton superiorPt

DOCUMENT ME!

superiorPt3Df

WildMagic.LibFoundation.Mathematics.Vector3f superiorPt3Df

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogTalairachTransform extends JDialogBase implements Serializable

Serialized Fields

acpcDialog

JDialogACPC acpcDialog

acpcImage

ModelImage acpcImage

acpcPC

WildMagic.LibFoundation.Mathematics.Vector3f acpcPC

acpcRes

float acpcRes

acpcResLabel

javax.swing.JLabel acpcResLabel

acpcResOrg

float acpcResOrg

acpcResPanel

javax.swing.JPanel acpcResPanel

acpcResText

javax.swing.JTextField acpcResText

algo

AlgorithmTalairachTransform algo

botPanel

javax.swing.JPanel botPanel

comboBoxImage

javax.swing.JComboBox comboBoxImage

comboBoxInterpolation

javax.swing.JComboBox comboBoxInterpolation

comboBoxTransform

javax.swing.JComboBox comboBoxTransform

computeACPC

javax.swing.JButton computeACPC

computeImage

javax.swing.JButton computeImage

computeTLRC

javax.swing.JButton computeTLRC

image

ModelImage image

imgPanel

javax.swing.JPanel imgPanel

interpolation

java.lang.String interpolation

interpPanel

javax.swing.JPanel interpPanel

labelImage

javax.swing.JLabel labelImage

labelInterpolation

javax.swing.JLabel labelInterpolation

labelTransform

javax.swing.JLabel labelTransform

loadButton

javax.swing.JButton loadButton

loadDialog

javax.swing.JFileChooser loadDialog

loadsaveLabel

javax.swing.JLabel loadsaveLabel

loadsavePanel

javax.swing.JPanel loadsavePanel

newImagePanel

javax.swing.JPanel newImagePanel

otherImage

ModelImage otherImage

resultImage

ModelImage resultImage

saveButton

javax.swing.JButton saveButton

saveDialog

javax.swing.JFileChooser saveDialog

talairachPanel

javax.swing.JPanel talairachPanel

title

java.lang.String title

tlrcImage

ModelImage tlrcImage

tlrcRes

float[] tlrcRes

transform

TalairachTransformInfo transform

transformType

java.lang.String transformType

transPanel

javax.swing.JPanel transPanel

updateImage

javax.swing.JButton updateImage

userInterface

ViewUserInterface userInterface

Class gov.nih.mipav.view.dialogs.JDialogTamuraTexture extends JDialogScriptableBase implements Serializable

Serialized Fields

blueButton

javax.swing.JRadioButton blueButton

DOCUMENT ME!

coarsenessCheckBox

javax.swing.JCheckBox coarsenessCheckBox

coarsenessThreshold

double coarsenessThreshold

coarsenessThreshold must be <= 1.0. If coarsenessThreshold < 1.0, select the largest k for which Ek >= coarsenessThreshold * Emax. If coarsenessThreshold = 1.0, select the largest k which gives Emax.

colorGroup

javax.swing.ButtonGroup colorGroup

DOCUMENT ME!

colorPanel

javax.swing.JPanel colorPanel

DOCUMENT ME!

contrastCheckBox

javax.swing.JCheckBox contrastCheckBox

cSize

int cSize

directionalityCheckBox

javax.swing.JCheckBox directionalityCheckBox

doCoarseness

boolean doCoarseness

doContrast

boolean doContrast

doDirectionality

boolean doDirectionality

greenButton

javax.swing.JRadioButton greenButton

DOCUMENT ME!

histogramBins

int histogramBins

histogramThreshold

double histogramThreshold

image

ModelImage image

DOCUMENT ME!

labelCoarsenessThreshold

javax.swing.JLabel labelCoarsenessThreshold

labelCSize

javax.swing.JLabel labelCSize

labelHistogramBins

javax.swing.JLabel labelHistogramBins

labelHistogramThreshold

javax.swing.JLabel labelHistogramThreshold

numOperators

int numOperators

DOCUMENT ME!

redButton

javax.swing.JRadioButton redButton

DOCUMENT ME!

resultImage

ModelImage[] resultImage

DOCUMENT ME!

RGBOffset

int RGBOffset

DOCUMENT ME!

textCoarsenessThreshold

javax.swing.JTextField textCoarsenessThreshold

textCSize

javax.swing.JTextField textCSize

textHistogramBins

javax.swing.JTextField textHistogramBins

textHistogramThreshold

javax.swing.JTextField textHistogramThreshold

textureAlgo

AlgorithmTamuraTexture textureAlgo

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogText extends JDialogBase implements Serializable

serialVersionUID:

3861014709972568409L

Serialized Fields

buttonPanel

javax.swing.JPanel buttonPanel

DOCUMENT ME!

DEFAULT_SIZE

java.awt.Dimension DEFAULT_SIZE

Describes the initial size of the textual display area when the dialog is created. The value is given in pixel size rather than the number of characters since the display area has no characters to display.

followingScroll

boolean followingScroll

DOCUMENT ME!

message

java.lang.StringBuffer message

DOCUMENT ME!

scrollPane

javax.swing.JScrollPane scrollPane

DOCUMENT ME!

textArea

javax.swing.JEditorPane textArea

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogTextGE extends JDialogText implements Serializable

serialVersionUID:

419753934724528702L

Serialized Fields

convertButton

javax.swing.JButton convertButton

DOCUMENT ME!

fileInfo

FileInfoBase[] fileInfo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

slice

int slice

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogTextGE4X extends JDialogText implements Serializable

Serialized Fields

convertButton

javax.swing.JButton convertButton

DOCUMENT ME!

fileInfo

FileInfoBase[] fileInfo

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

slice

int slice

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogTextureAnalysis extends JDialogScriptableBase implements Serializable

Serialized Fields

image

ModelImage image

resultImage

ModelImage[] resultImage

scaleCheckBox

javax.swing.JCheckBox scaleCheckBox

scaleImage

boolean scaleImage

textureAlgo

AlgorithmTextureAnalysis textureAlgo

Class gov.nih.mipav.view.dialogs.JDialogTextureSegmentation extends JDialogScriptableBase implements Serializable

Serialized Fields

contourButton

javax.swing.JRadioButton contourButton

contourMask

java.util.BitSet contourMask

destImage

ModelImage destImage

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

labelSegmentNumber

javax.swing.JLabel labelSegmentNumber

labelWindowSize

javax.swing.JLabel labelWindowSize

nonNegativity

boolean nonNegativity

nonNegativityCheckBox

javax.swing.JCheckBox nonNegativityCheckBox

noVOIsButton

javax.swing.JRadioButton noVOIsButton

pointButton

javax.swing.JRadioButton pointButton

pt

WildMagic.LibFoundation.Mathematics.Vector3f[] pt

removeSmallRegions

boolean removeSmallRegions

removeSmallRegionsCheckBox

javax.swing.JCheckBox removeSmallRegionsCheckBox

segmentCheckBox

javax.swing.JCheckBox segmentCheckBox

segmentNumber

int segmentNumber

textSegmentNumber

javax.swing.JTextField textSegmentNumber

textureSegAlgo

AlgorithmTextureSegmentation textureSegAlgo

DOCUMENT ME!

textWindowSize

javax.swing.JTextField textWindowSize

useContours

boolean useContours

usePoints

boolean usePoints

VOIGroup

javax.swing.ButtonGroup VOIGroup

windowSize

int windowSize

Class gov.nih.mipav.view.dialogs.JDialogThinning2D extends JDialogScriptableBase implements Serializable

Serialized Fields

image

ModelImage image

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

thinAlgo

AlgorithmThinning2D thinAlgo

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogThreshold extends JDialogScriptableBase implements Serializable

serialVersionUID:

8143576591075984708L

Serialized Fields

displayLoc

int displayLoc

DOCUMENT ME!

fillValue

float fillValue

DOCUMENT ME!

histogram

ModelHistogram histogram

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

inverseCheckbox

javax.swing.JCheckBox inverseCheckbox

DOCUMENT ME!

isInverse

boolean isInverse

DOCUMENT ME!

labelThres2

javax.swing.JLabel labelThres2

DOCUMENT ME!

max

float max

DOCUMENT ME!

maxEntCheckbox

javax.swing.JCheckBox maxEntCheckbox

DOCUMENT ME!

min

float min

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

otsuCheckbox

javax.swing.JCheckBox otsuCheckbox

DOCUMENT ME!

outMax

double outMax

DOCUMENT ME!

outMin

double outMin

DOCUMENT ME!

outputBox

javax.swing.JComboBox outputBox

Holds the choices for the outputType.

outputType

int outputType

Same data-type, binary, or unsigned byte mask.

regionFlag

boolean regionFlag

or if the source image is to be replaced.

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textFill

javax.swing.JTextField textFill

DOCUMENT ME!

textThres1

javax.swing.JTextField textThres1

DOCUMENT ME!

textThres2

javax.swing.JTextField textThres2

DOCUMENT ME!

thres1

float thres1

DOCUMENT ME!

thres2

float thres2

DOCUMENT ME!

thresholdAlgo

AlgorithmThresholdDual thresholdAlgo

DOCUMENT ME!

thresholdType

int thresholdType

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

VOIRegions

javax.swing.JRadioButton VOIRegions

DOCUMENT ME!

wholeImage

javax.swing.JRadioButton wholeImage

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogThreshold.CheckValueAction extends javax.swing.AbstractAction implements Serializable

serialVersionUID:

-1531686009578681460L

Class gov.nih.mipav.view.dialogs.JDialogThresholdLUT extends JDialogBase implements Serializable

serialVersionUID:

-3705234971745674752L

Serialized Fields

fillValue

float fillValue

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

labelMax

javax.swing.JLabel labelMax

DOCUMENT ME!

labelMin

javax.swing.JLabel labelMin

DOCUMENT ME!

lowerThreshold

float lowerThreshold

DOCUMENT ME!

outputType

int outputType

DOCUMENT ME!

radioBinary

javax.swing.JRadioButton radioBinary

DOCUMENT ME!

radioRange

javax.swing.JRadioButton radioRange

DOCUMENT ME!

radioThresh

javax.swing.JRadioButton radioThresh

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textFill

javax.swing.JTextField textFill

DOCUMENT ME!

textMax

javax.swing.JTextField textMax

DOCUMENT ME!

textMin

javax.swing.JTextField textMin

DOCUMENT ME!

thresholdAlgo

AlgorithmThresholdDual thresholdAlgo

DOCUMENT ME!

upperThreshold

float upperThreshold

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogThresholdRGB extends JDialogScriptableBase implements Serializable

serialVersionUID:

1903960650432668714L

Serialized Fields

applyToAllBox

javax.swing.JCheckBox applyToAllBox

false = apply algorithm only to VOI regions apply same threshold to all.

applyToBlueBox

javax.swing.JCheckBox applyToBlueBox

enable blue threshold.

applyToGreenBox

javax.swing.JCheckBox applyToGreenBox

enable green threshold.

applyToRedBox

javax.swing.JCheckBox applyToRedBox

enable red threshold.

displayLoc

int displayLoc

DOCUMENT ME!

fillValues

float[] fillValues

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

inverseOptionBox

javax.swing.JCheckBox inverseOptionBox

choose inverse or no inverse threshold.

isInverse

boolean isInverse

inverse?

maxs

float[] maxs

DOCUMENT ME!

mins

float[] mins

Minimum and maximum values for red/gree/blue.

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

regionFlag

boolean regionFlag

or if the source image is to be replaced.

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textFills

javax.swing.JTextField[] textFills

DOCUMENT ME!

textThreshold1

javax.swing.JTextField[] textThreshold1

Text fields for lower & upper thresholds and fill values.

textThreshold2

javax.swing.JTextField[] textThreshold2

DOCUMENT ME!

thresholdAlgoRGB

AlgorithmThresholdDualRGB thresholdAlgoRGB

DOCUMENT ME!

thresholdB

float[] thresholdB

DOCUMENT ME!

thresholdG

float[] thresholdG

DOCUMENT ME!

thresholdLabels1

javax.swing.JLabel[] thresholdLabels1

DOCUMENT ME!

thresholdLabels2

javax.swing.JLabel[] thresholdLabels2

DOCUMENT ME!

thresholdR

float[] thresholdR

lower [0] and upper [1] thresholds for RGB.

titles

java.lang.String[] titles

DOCUMENT ME!

useChannel

boolean[] useChannel

tells whether or not to use the channels (red=0, green=1, blue=2).

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

VOIRegions

javax.swing.JRadioButton VOIRegions

DOCUMENT ME!

wholeImage

javax.swing.JRadioButton wholeImage

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogTiltCorrection extends JDialogScriptableBase implements Serializable

Serialized Fields

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

helicalButton

javax.swing.JRadioButton helicalButton

image

ModelImage image

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

nonHelical

boolean nonHelical

Use serialVersionUID for interoperability.

nonHelicalButton

javax.swing.JRadioButton nonHelicalButton

optionsPanel

javax.swing.JPanel optionsPanel

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textAngle

javax.swing.JTextField textAngle

DOCUMENT ME!

tiltAlgo

AlgorithmTiltCorrection tiltAlgo

DOCUMENT ME!

tiltAngle

double tiltAngle

titles

java.lang.String[] titles

DOCUMENT ME!

typeGroup

javax.swing.ButtonGroup typeGroup

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogTimeFitting extends JDialogScriptableBase implements Serializable

Serialized Fields

altTimeCheckBox

javax.swing.JCheckBox altTimeCheckBox

altTimeDicomTag

java.lang.String altTimeDicomTag

altTimeTagField

javax.swing.JTextField altTimeTagField

altTimeTagLabel

javax.swing.JLabel altTimeTagLabel

b0CheckBox

javax.swing.JCheckBox b0CheckBox

b1CheckBox

javax.swing.JCheckBox b1CheckBox

b2CheckBox

javax.swing.JCheckBox b2CheckBox

b3CheckBox

javax.swing.JCheckBox b3CheckBox

b4CheckBox

javax.swing.JCheckBox b4CheckBox

b5CheckBox

javax.swing.JCheckBox b5CheckBox

b6CheckBox

javax.swing.JCheckBox b6CheckBox

buttonImage

javax.swing.JButton buttonImage

buttonVOIFile

javax.swing.JButton buttonVOIFile

directoryVOI

java.lang.String directoryVOI

exitStatusImage

ModelImage exitStatusImage

exponentialFit

javax.swing.JRadioButton exponentialFit

fileNameVOI

java.lang.String fileNameVOI

fileVOI

FileVOI fileVOI

findInitialFromData

boolean findInitialFromData

functionFit

int functionFit

functionGroup

javax.swing.ButtonGroup functionGroup

gaussianFit

javax.swing.JRadioButton gaussianFit

high0Label

javax.swing.JLabel high0Label

high0TextField

javax.swing.JTextField high0TextField

high1Label

javax.swing.JLabel high1Label

high1TextField

javax.swing.JTextField high1TextField

high2Label

javax.swing.JLabel high2Label

high2TextField

javax.swing.JTextField high2TextField

high3Label

javax.swing.JLabel high3Label

high3TextField

javax.swing.JTextField high3TextField

high4Label

javax.swing.JLabel high4Label

high4TextField

javax.swing.JTextField high4TextField

high5Label

javax.swing.JLabel high5Label

high5TextField

javax.swing.JTextField high5TextField

high6Label

javax.swing.JLabel high6Label

high6TextField

javax.swing.JTextField high6TextField

highBounds

double[] highBounds

image

ModelImage image

source image.

imageList

javax.swing.JComboBox imageList

initial

double[] initial

initialCheckBox

javax.swing.JCheckBox initialCheckBox

isMultifile

boolean isMultifile

boolean isMultifile

labela0

javax.swing.JLabel labela0

labela1

javax.swing.JLabel labela1

labela2

javax.swing.JLabel labela2

labela3

javax.swing.JLabel labela3

labela4

javax.swing.JLabel labela4

labela5

javax.swing.JLabel labela5

labela6

javax.swing.JLabel labela6

labelVOI

javax.swing.JLabel labelVOI

laplaceFit

javax.swing.JRadioButton laplaceFit

linearFit

javax.swing.JRadioButton linearFit

logCheckBox

javax.swing.JCheckBox logCheckBox

lorentzFit

javax.swing.JRadioButton lorentzFit

low0Label

javax.swing.JLabel low0Label

low0TextField

javax.swing.JTextField low0TextField

low1Label

javax.swing.JLabel low1Label

low1TextField

javax.swing.JTextField low1TextField

low2Label

javax.swing.JLabel low2Label

low2TextField

javax.swing.JTextField low2TextField

low3Label

javax.swing.JLabel low3Label

low3TextField

javax.swing.JTextField low3TextField

low4Label

javax.swing.JLabel low4Label

low4TextField

javax.swing.JTextField low4TextField

low5Label

javax.swing.JLabel low5Label

low5TextField

javax.swing.JTextField low5TextField

low6Label

javax.swing.JLabel low6Label

low6TextField

javax.swing.JTextField low6TextField

lowBounds

double[] lowBounds

multiExponentialFit

javax.swing.JRadioButton multiExponentialFit

nDims

int nDims

numVariables

int numVariables

numVariablesField

javax.swing.JTextField numVariablesField

numVariablesLabel

javax.swing.JLabel numVariablesLabel

rayleighFit

javax.swing.JRadioButton rayleighFit

resultImage

ModelImage resultImage

result image

tabbedPane

javax.swing.JTabbedPane tabbedPane

texta0

javax.swing.JTextField texta0

texta1

javax.swing.JTextField texta1

texta2

javax.swing.JTextField texta2

texta3

javax.swing.JTextField texta3

texta4

javax.swing.JTextField texta4

texta5

javax.swing.JTextField texta5

texta6

javax.swing.JTextField texta6

textImage

javax.swing.JTextField textImage

textVOIFile

javax.swing.JTextField textVOIFile

tfAlgo

AlgorithmTimeFitting tfAlgo

UI

ViewUserInterface UI

useAltTime

boolean useAltTime

useBounds

boolean[] useBounds

useLog

boolean useLog

voi

VOI[] voi

Class gov.nih.mipav.view.dialogs.JDialogTLRC extends JDialogBase implements Serializable

Serialized Fields

acpcImage

ModelImage acpcImage

anteriorPt

javax.swing.JRadioButton anteriorPt

anteriorPt3Df

WildMagic.LibFoundation.Mathematics.Vector3f anteriorPt3Df

applyTalairachButton

javax.swing.JButton applyTalairachButton

cancelTalairachButton

javax.swing.JButton cancelTalairachButton

clearTalairachButton

javax.swing.JButton clearTalairachButton

frame

ViewJFrameTriImage frame

haveAnteriorPt

boolean haveAnteriorPt

haveInferiorPt

boolean haveInferiorPt

haveLeftPt

boolean haveLeftPt

havePosteriorPt

boolean havePosteriorPt

haveRightPt

boolean haveRightPt

haveSuperiorPt

boolean haveSuperiorPt

inferiorPt

javax.swing.JRadioButton inferiorPt

inferiorPt3Df

WildMagic.LibFoundation.Mathematics.Vector3f inferiorPt3Df

interpolation

int interpolation

leftPt

javax.swing.JRadioButton leftPt

leftPt3Df

WildMagic.LibFoundation.Mathematics.Vector3f leftPt3Df

originalImage

ModelImage originalImage

posteriorPt

javax.swing.JRadioButton posteriorPt

posteriorPt3Df

WildMagic.LibFoundation.Mathematics.Vector3f posteriorPt3Df

rightPt

javax.swing.JRadioButton rightPt

rightPt3Df

WildMagic.LibFoundation.Mathematics.Vector3f rightPt3Df

setTalairachButton

javax.swing.JButton setTalairachButton

superiorPt

javax.swing.JRadioButton superiorPt

superiorPt3Df

WildMagic.LibFoundation.Mathematics.Vector3f superiorPt3Df

talairachImage

ModelImage talairachImage

transform

TalairachTransformInfo transform

Class gov.nih.mipav.view.dialogs.JDialogTopHat extends JDialogScriptableBase implements Serializable

Serialized Fields

comboBoxKernel

javax.swing.JComboBox comboBoxKernel

DOCUMENT ME!

do25D

boolean do25D

DOCUMENT ME!

gsTopHatAlgo25D

AlgorithmGrayScaleMorphology25D gsTopHatAlgo25D

gsTopHatAlgo2D

AlgorithmGrayScaleMorphology2D gsTopHatAlgo2D

Use serialVersionUID for interoperability.

gsTopHatAlgo3D

AlgorithmGrayScaleMorphology3D gsTopHatAlgo3D

image

ModelImage image

DOCUMENT ME!

image25D

javax.swing.JCheckBox image25D

DOCUMENT ME!

itersD

int itersD

or if the source image is to be replaced.

itersE

int itersE

DOCUMENT ME!

kernel

int kernel

DOCUMENT ME!

kernelSize

float kernelSize

DOCUMENT ME!

labelKernel

javax.swing.JLabel labelKernel

DOCUMENT ME!

labelKernelSize

javax.swing.JLabel labelKernelSize

DOCUMENT ME!

labelNIterD

javax.swing.JLabel labelNIterD

DOCUMENT ME!

labelNIterE

javax.swing.JLabel labelNIterE

DOCUMENT ME!

maskPanel

javax.swing.JPanel maskPanel

DOCUMENT ME!

outputPanel

JPanelAlgorithmOutputOptions outputPanel

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textKernelSize

javax.swing.JTextField textKernelSize

DOCUMENT ME!

textNIterD

javax.swing.JTextField textNIterD

DOCUMENT ME!

textNIterE

javax.swing.JTextField textNIterE

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogTransformBSpline extends JDialogScriptableBase implements Serializable

serialVersionUID:

3877682545436641450L

Serialized Fields

algoTrans

AlgorithmTransformBSpline algoTrans

DOCUMENT ME!

chooserButton

javax.swing.JButton chooserButton

DOCUMENT ME!

controlMat

float[][] controlMat

DOCUMENT ME!

controlMat25D

float[][][] controlMat25D

DOCUMENT ME!

destExtents

int[] destExtents

DOCUMENT ME!

destMinExtent

int destMinExtent

DOCUMENT ME!

directory

java.lang.String directory

have25D

boolean have25D

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

model

javax.swing.DefaultListModel model

DOCUMENT ME!

nDims

int nDims

DOCUMENT ME!

nltFile

java.io.File nltFile

nltName

java.lang.String nltName

DOCUMENT ME!

numberSlices

int numberSlices

DOCUMENT ME!

numControlPoints

int numControlPoints

DOCUMENT ME!

removeButton

javax.swing.JButton removeButton

DOCUMENT ME!

resolutions

float[] resolutions

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

splineDegree

int splineDegree

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogTransformVOI extends JDialogBase implements Serializable

serialVersionUID:

-8451501816656567049L

Serialized Fields

allVOIBox

javax.swing.JCheckBox allVOIBox

centerRB

javax.swing.JRadioButton centerRB

cornerRB

javax.swing.JRadioButton cornerRB

fileMatrix

javax.swing.JRadioButton fileMatrix

imCenterRB

javax.swing.JRadioButton imCenterRB

matrixFName

javax.swing.JTextField matrixFName

srcImage

ModelImage srcImage

t_x

float t_x

t_y

float t_y

t_z

float t_z

textRx

javax.swing.JTextField textRx

textRy

javax.swing.JTextField textRy

textRz

javax.swing.JTextField textRz

textSKx

javax.swing.JTextField textSKx

textSKy

javax.swing.JTextField textSKy

textSKz

javax.swing.JTextField textSKz

textSx

javax.swing.JTextField textSx

textSy

javax.swing.JTextField textSy

textSz

javax.swing.JTextField textSz

textTx

javax.swing.JTextField textTx

textTy

javax.swing.JTextField textTy

textTz

javax.swing.JTextField textTz

userDefinedMatrix

javax.swing.JRadioButton userDefinedMatrix

xfrm

TransMatrix xfrm

Class gov.nih.mipav.view.dialogs.JDialogTreMethod extends JDialogScriptableBase implements Serializable

Serialized Fields

bottomLeftBox

javax.swing.JCheckBox bottomLeftBox

bottomRightBox

javax.swing.JCheckBox bottomRightBox

generalThresholdPanel

javax.swing.JPanel generalThresholdPanel

guiBuilder

GuiBuilder guiBuilder

hardCheckBox

javax.swing.JRadioButton hardCheckBox

hardNoiseField

javax.swing.JTextField hardNoiseField

hardNoiseThreshold

float hardNoiseThreshold

lowerLeftCorner

boolean lowerLeftCorner

lowerRightCorner

boolean lowerRightCorner

noCheckBox

javax.swing.JRadioButton noCheckBox

noiseScale

float noiseScale

smartCheckBox

javax.swing.JRadioButton smartCheckBox

smartNoiseField

javax.swing.JTextField smartNoiseField

thresholdGroup

javax.swing.ButtonGroup thresholdGroup

thresholdMethod

AlgorithmTreParams.Threshold thresholdMethod

topLeftBox

javax.swing.JCheckBox topLeftBox

topRightBox

javax.swing.JCheckBox topRightBox

totalThreshold

javax.swing.JPanel totalThreshold

upperLeftCorner

boolean upperLeftCorner

Whether, during "smart-thresholding", noise should be calculated from a given corner

upperRightCorner

boolean upperRightCorner

Class gov.nih.mipav.view.dialogs.JDialogTreT1 extends JDialogTreMethod implements Serializable

Serialized Fields

angleIncrement

double angleIncrement

b1Field

javax.swing.JComboBox b1Field

b1ImageIndex

int b1ImageIndex

calculateM0

boolean calculateM0

calculateT1

boolean calculateT1

The list of possible maps that can be calculated

cAlgo

AlgorithmTreT1 cAlgo

convFAFieldAr

javax.swing.JTextField[] convFAFieldAr

convimageComboAr

javax.swing.JComboBox[] convimageComboAr

convRepTime

javax.swing.JTextField convRepTime

convSpec

javax.swing.JPanel convSpec

direction

int[] direction

doConvTre

javax.swing.JRadioButton doConvTre

doHifiTre

javax.swing.JRadioButton doHifiTre

doubleInvRadio

javax.swing.JRadioButton doubleInvRadio

estimates

double[] estimates

fieldStrengthGroup

javax.swing.ButtonGroup fieldStrengthGroup

flipAngleAr

javax.swing.JTextField[] flipAngleAr

hifiPanel

javax.swing.JPanel hifiPanel

hifiSpec

javax.swing.JPanel hifiSpec

inversionGroup

javax.swing.ButtonGroup inversionGroup

inversionType

AlgorithmTreParams.InversionType inversionType

invertT1toR1

boolean invertT1toR1

irspgrCombo

javax.swing.JComboBox[] irspgrCombo

irspgrData

double[] irspgrData

irspgrFA

double irspgrFA

irspgrFAField

javax.swing.JTextField irspgrFAField

irspgrField

javax.swing.JTextField[] irspgrField

irspgrGeneralPanel

javax.swing.JPanel irspgrGeneralPanel

irspgrImageIndex

int[] irspgrImageIndex

irspgrKy

double irspgrKy

irspgrNum

javax.swing.JTextField irspgrNum

irspgrPanel

javax.swing.JScrollPane irspgrPanel

irspgrTI

double[] irspgrTI

irspgrTr

double[] irspgrTr

irspgrTR

double irspgrTR

irspgrTRField

javax.swing.JTextField irspgrTRField

isGEButton

javax.swing.JRadioButton isGEButton

isSiemensButton

javax.swing.JRadioButton isSiemensButton

leastSquaresCheck

javax.swing.JCheckBox leastSquaresCheck

maxAngle

double maxAngle

maxM0

double maxM0

maxM0Field

javax.swing.JTextField maxM0Field

maxT1

double maxT1

maxT1Field

javax.swing.JTextField maxT1Field

mriStrength

AlgorithmTreParams.FieldStrength mriStrength

The following GUI choices change algorithm operation using enums

Nsa

int Nsa

Nti

int Nti

numSlicesField

javax.swing.JTextField numSlicesField

performStraightTreT1

boolean performStraightTreT1

performTreT1HIFI

boolean performTreT1HIFI

performTreT1withPreCalculatedB1Map

boolean performTreT1withPreCalculatedB1Map

pointScale

double pointScale

residuals

double[] residuals

scale

double scale

scaleIncrement

double scaleIncrement

scannerType

AlgorithmTreParams.ScannerType scannerType

showB1Check

javax.swing.JCheckBox showB1Check

showB1Map

boolean showB1Map

showM0Map

javax.swing.JCheckBox showM0Map

showR1Map

javax.swing.JCheckBox showR1Map

showT1Map

javax.swing.JCheckBox showT1Map

singleInvRadio

javax.swing.JRadioButton singleInvRadio

smoothB1Box

javax.swing.JCheckBox smoothB1Box

smoothB1Field

boolean smoothB1Field

spgrData

double[] spgrData

spgrImageComboBoxAr

javax.swing.JComboBox[] spgrImageComboBoxAr

spgrImageIndex

int[] spgrImageIndex

spgrNumFA

javax.swing.JTextField spgrNumFA

spgrPanel

javax.swing.JScrollPane spgrPanel

spgrRepTime

javax.swing.JTextField spgrRepTime

straightPanel

javax.swing.JPanel straightPanel

t15Radio

javax.swing.JRadioButton t15Radio

t30Radio

javax.swing.JRadioButton t30Radio

tab

javax.swing.JTabbedPane tab

titles

java.lang.String[] titles

The GUI list of images

treFA

double[] treFA

treLong

javax.swing.JScrollPane treLong

treTR

double treTR

uniformAngleSpacing

boolean uniformAngleSpacing

useB1Map

javax.swing.JCheckBox useB1Map

useWeights

boolean useWeights

wList

java.lang.String[] wList

The ordered list of images that the algorithm is dependent on.

Class gov.nih.mipav.view.dialogs.JDialogTreT2 extends JDialogScriptableBase implements Serializable

serialVersionUID:

8406327135505127177L

Serialized Fields

b1ImageIndex

int b1ImageIndex

bestToWorst

int[] bestToWorst

calculateB0

boolean calculateB0

calculateM0

boolean calculateM0

calculateT2

boolean calculateT2

cAlgo

AlgorithmTreT2 cAlgo

contraction

double[] contraction

expansion

double[] expansion

geScanner

boolean geScanner

hardNoiseThreshold

float hardNoiseThreshold

includeB1Map

boolean includeB1Map

invertT2toR2

boolean invertT2toR2

lowerLeftCorner

boolean lowerLeftCorner

lowerRightCorner

boolean lowerRightCorner

maxM0

double maxM0

maxT2

double maxT2

modelingComboBox

javax.swing.JComboBox modelingComboBox

Nfa_phase0

int Nfa_phase0

Nfa_phase180

int Nfa_phase180

noiseScale

float noiseScale

performApproxModeling

boolean performApproxModeling

performConventionalModeling

boolean performConventionalModeling

performConventionalWith0Phase

boolean performConventionalWith0Phase

performConventionalWith180Phase

boolean performConventionalWith180Phase

performFullModeling

boolean performFullModeling

phaseRadios

java.util.ArrayList<javax.swing.JRadioButton> phaseRadios

reflection

double[] reflection

shrink

double[] shrink

siemensScanner

boolean siemensScanner

simplex

double[][] simplex

simplexCentre

double[] simplexCentre

simplexLineValues

double[] simplexLineValues

simplexResiduals

double[] simplexResiduals

ssfpImageIndex_phase0

int[] ssfpImageIndex_phase0

ssfpImageIndex_phase180

int[] ssfpImageIndex_phase180

t1ImageIndex

int t1ImageIndex

treFA_phase0

double[] treFA_phase0

treFA_phase180

double[] treFA_phase180

treTR

double treTR

twoPContraction

double[] twoPContraction

twoPExpansion

double[] twoPExpansion

twoPReflection

double[] twoPReflection

twoPShrink

double[] twoPShrink

twoPSimplex

double[][] twoPSimplex

twoPSimplexCentre

double[] twoPSimplexCentre

twoPSimplexLineValues

double[] twoPSimplexLineValues

twoPSimplexResiduals

double[] twoPSimplexResiduals

upperLeftCorner

boolean upperLeftCorner

upperRightCorner

boolean upperRightCorner

useHardThresholding

boolean useHardThresholding

useSmartThresholding

boolean useSmartThresholding

wList

java.lang.String[] wList

Class gov.nih.mipav.view.dialogs.JDialogTriFrameLinker extends JDialogBase implements Serializable

serialVersionUID:

-4546169496119216251L

Serialized Fields

comboBoxImage

javax.swing.JComboBox comboBoxImage

DOCUMENT ME!

frameB

ViewJFrameTriImage frameB

DOCUMENT ME!

imageA

ModelImage imageA

DOCUMENT ME!

imageB

ModelImage imageB

DOCUMENT ME!

linkButton

javax.swing.JButton linkButton

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogTriImageTransformation extends JDialogBase implements Serializable

serialVersionUID:

-6567165297005633024L

Serialized Fields

boxIndex

int boxIndex

DOCUMENT ME!

centerGroup

javax.swing.ButtonGroup centerGroup

centerX

double centerX

angles are passed to setRotate.

centerY

double centerY

angles are passed to setRotate.

centerZ

double centerZ

angles are passed to setRotate.

comboBoxInterp

javax.swing.JComboBox comboBoxInterp

DOCUMENT ME!

crosshairButton

javax.swing.JRadioButton crosshairButton

frame

ViewJFrameTriImage frame

Pointer back to frame that called this.

imageA

ModelImage imageA

Image to transform.

imageB

ModelImage imageB

Image B to transform, can be null.

imageCenterButton

javax.swing.JRadioButton imageCenterButton

originButton

javax.swing.JRadioButton originButton

progressBar

ViewJProgressBar progressBar

Progress bar.

protractorCommonVertexButton

javax.swing.JRadioButton protractorCommonVertexButton

thetaXY

double thetaXY

DOCUMENT ME!

thetaXZ

double thetaXZ

DOCUMENT ME!

thetaZY

double thetaZY

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogTrilateralFilter extends JDialogScriptableBase implements Serializable

Serialized Fields

destinationGroup

javax.swing.ButtonGroup destinationGroup

DOCUMENT ME!

destinationPanel

javax.swing.JPanel destinationPanel

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

epsilon

double epsilon

fastButton

javax.swing.JRadioButton fastButton

filterType

int filterType

image

ModelImage image

Source image.

labelEpsilon

javax.swing.JLabel labelEpsilon

labelSigma

javax.swing.JLabel labelSigma

LUTButton

javax.swing.JRadioButton LUTButton

newImage

javax.swing.JRadioButton newImage

paramPanel

javax.swing.JPanel paramPanel

replaceImage

javax.swing.JRadioButton replaceImage

resultImage

ModelImage resultImage

sigmaSpace

double sigmaSpace

textEpsilon

javax.swing.JTextField textEpsilon

textSigma

javax.swing.JTextField textSigma

titles

java.lang.String[] titles

trilateralFilterAlgo

AlgorithmTrilateralFilter trilateralFilterAlgo

DOCUMENT ME!

TYPE_FAST

int TYPE_FAST

TYPE_LUT

int TYPE_LUT

typeGroup

javax.swing.ButtonGroup typeGroup

userInterface

ViewUserInterface userInterface

Class gov.nih.mipav.view.dialogs.JDialogTrim extends JDialogBase implements Serializable

serialVersionUID:

2967441574461453380L

Serialized Fields

activeImage

ModelImage activeImage

The currently selected image

maskCurrent

javax.swing.JLabel maskCurrent

Labels for values of the mask trim points property

maskMaximum

javax.swing.JLabel maskMaximum

Labels for values of the mask trim points property

maskMinimum

javax.swing.JLabel maskMinimum

Labels for values of the mask trim points property

maskTrimSlider

javax.swing.JSlider maskTrimSlider

Sliders for setting the mask and voi trim parameters

trimCheckbox

javax.swing.JCheckBox trimCheckbox

Checkbox for whether adjacent points are trimmed

voiCurrent

javax.swing.JLabel voiCurrent

Labels for values of the voi trim points property

voiMaximum

javax.swing.JLabel voiMaximum

Labels for values of the voi trim points property

voiMinimum

javax.swing.JLabel voiMinimum

Labels for values of the voi trim points property

voiTrimSlider

javax.swing.JSlider voiTrimSlider

Sliders for setting the mask and voi trim parameters

Class gov.nih.mipav.view.dialogs.JDialogTwoMRIImagesSNR extends JDialogBase implements Serializable

serialVersionUID:

-2992719068907961685L

Serialized Fields

comboBoxCostFunct

javax.swing.JComboBox comboBoxCostFunct

DOCUMENT ME!

componentImage

ViewJComponentEditImage componentImage

DOCUMENT ME!

componentImage2

ViewJComponentEditImage componentImage2

DOCUMENT ME!

cost

int cost

DOCUMENT ME!

createRegCheckBox

javax.swing.JCheckBox createRegCheckBox

DOCUMENT ME!

createRegImage

boolean createRegImage

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

image2

ModelImage image2

DOCUMENT ME!

imageComboBox

javax.swing.JComboBox imageComboBox

DOCUMENT ME!

labelCost

javax.swing.JLabel labelCost

DOCUMENT ME!

nBoundingVOIs

int nBoundingVOIs

DOCUMENT ME!

regCheckBox

javax.swing.JCheckBox regCheckBox

DOCUMENT ME!

register

boolean register

DOCUMENT ME!

signal2Button

javax.swing.JRadioButton signal2Button

DOCUMENT ME!

signal2Image

int signal2Image

DOCUMENT ME!

signal2Index

int signal2Index

DOCUMENT ME!

signalButton

javax.swing.JRadioButton signalButton

DOCUMENT ME!

signalImage

int signalImage

DOCUMENT ME!

signalIndex

int signalIndex

DOCUMENT ME!

snrAlgo

AlgorithmTwoMRIImagesSNR snrAlgo

DOCUMENT ME!

UI

ViewUserInterface UI

DOCUMENT ME!

VOIGroup

javax.swing.ButtonGroup VOIGroup

DOCUMENT ME!

VOIs

ViewVOIVector VOIs

DOCUMENT ME!

VOIs2

ViewVOIVector VOIs2

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogUltErode extends JDialogScriptableBase implements Serializable

serialVersionUID:

-7439335499053110688L

Serialized Fields

dist

float dist

DOCUMENT ME!

erodeAlgo2D

AlgorithmMorphology2D erodeAlgo2D

DOCUMENT ME!

erodeAlgo3D

AlgorithmMorphology3D erodeAlgo3D

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

outputPanel

JPanelAlgorithmOutputOptions outputPanel

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

textNPix

javax.swing.JTextField textNPix

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogUninstallPlugin extends JDialogBase implements Serializable

serialVersionUID:

-8736744495208652866L

Serialized Fields

pluginTree

javax.swing.JTree pluginTree

The JTree that describes the plugin structure

ui

ViewUserInterface ui

The main user interface

Class gov.nih.mipav.view.dialogs.JDialogUnionFindComponentLabelling extends JDialogScriptableBase implements Serializable

Serialized Fields

binCheckBox

javax.swing.JCheckBox binCheckBox

binNumber

int binNumber

eightButton

javax.swing.JRadioButton eightButton

eighteenButton

javax.swing.JRadioButton eighteenButton

fourButton

javax.swing.JRadioButton fourButton

image

ModelImage image

DOCUMENT ME!

labelBins

javax.swing.JLabel labelBins

limitBins

boolean limitBins

neighborGroup

javax.swing.ButtonGroup neighborGroup

neighborPanel

javax.swing.JPanel neighborPanel

DOCUMENT ME!

numNeighbor

int numNeighbor

resultImage

ModelImage resultImage

DOCUMENT ME!

sixButton

javax.swing.JRadioButton sixButton

textBins

javax.swing.JTextField textBins

twentySixButton

javax.swing.JRadioButton twentySixButton

ufclAlgo

AlgorithmUnionFindComponentLabelling ufclAlgo

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogUnionFindWatershed extends JDialogScriptableBase implements Serializable

Serialized Fields

binCheckBox

javax.swing.JCheckBox binCheckBox

binNumber

int binNumber

eightButton

javax.swing.JRadioButton eightButton

fourButton

javax.swing.JRadioButton fourButton

image

ModelImage image

DOCUMENT ME!

labelBins

javax.swing.JLabel labelBins

labelThreshold

javax.swing.JLabel labelThreshold

limitBins

boolean limitBins

merge

boolean merge

mergeCheckBox

javax.swing.JCheckBox mergeCheckBox

mergeThreshold

double mergeThreshold

neighborGroup

javax.swing.ButtonGroup neighborGroup

neighborPanel

javax.swing.JPanel neighborPanel

DOCUMENT ME!

numNeighbor

int numNeighbor

resultImage

ModelImage resultImage

DOCUMENT ME!

textBins

javax.swing.JTextField textBins

textThreshold

javax.swing.JTextField textThreshold

watershedAlgo

AlgorithmUnionFindWatershed watershedAlgo

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogUnknownIO extends JDialogBase implements Serializable

serialVersionUID:

960085709232971480L

Serialized Fields

imageType

int imageType

DOCUMENT ME!

list

javax.swing.JList list

DOCUMENT ME!

suffix

java.lang.String suffix

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogUnsharpMask extends JDialogScriptableBase implements Serializable

serialVersionUID:

-3776616289889677111L

Serialized Fields

correctionLabel

javax.swing.JLabel correctionLabel

correctionText

javax.swing.JTextField correctionText

cubic

boolean cubic

cubicCheckbox

javax.swing.JCheckBox cubicCheckbox

image

ModelImage image

DOCUMENT ME!

image25D

boolean image25D

DOCUMENT ME!

image25DCheckbox

javax.swing.JCheckBox image25DCheckbox

DOCUMENT ME!

labelWeight

javax.swing.JLabel labelWeight

maximumCorrection

double maximumCorrection

outputPanel

JPanelAlgorithmOutputOptions outputPanel

DOCUMENT ME!

paramPanel

javax.swing.JPanel paramPanel

resultImage

ModelImage resultImage

DOCUMENT ME!

sigmaPanel

JPanelSigmas sigmaPanel

DOCUMENT ME!

textWeight

javax.swing.JTextField textWeight

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

unsharpMaskAlgo

AlgorithmUnsharpMask unsharpMaskAlgo

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

weight

double weight

weightPanel

javax.swing.JPanel weightPanel

Class gov.nih.mipav.view.dialogs.JDialogVABRA extends JDialogBase implements Serializable

serialVersionUID:

6730316616430519395L

Serialized Fields

comboBoxImage

javax.swing.JComboBox comboBoxImage

drop-down box for selecting available images

imageA

ModelImage imageA

source image.

imageB

ModelImage imageB

target image

Class gov.nih.mipav.view.dialogs.JDialogVesselEnhancement extends JDialogScriptableBase implements Serializable

Serialized Fields

alpha

double alpha

beta

double beta

c

double c

gamma

double gamma

image

ModelImage image

DOCUMENT ME!

is2D

boolean is2D

nScales

int nScales

resultImage

ModelImage resultImage

DOCUMENT ME!

sigma

double[][] sigma

sigmaMaxX

double sigmaMaxX

sigmaMaxY

double sigmaMaxY

sigmaMaxZ

double sigmaMaxZ

sigmaMinX

double sigmaMinX

sigmaMinY

double sigmaMinY

sigmaMinZ

double sigmaMinZ

textAlpha

javax.swing.JTextField textAlpha

textBeta

javax.swing.JTextField textBeta

textC

javax.swing.JTextField textC

textGamma

javax.swing.JTextField textGamma

textNScales

javax.swing.JTextField textNScales

textSigmaMaxX

javax.swing.JTextField textSigmaMaxX

textSigmaMaxY

javax.swing.JTextField textSigmaMaxY

textSigmaMaxZ

javax.swing.JTextField textSigmaMaxZ

textSigmaMinX

javax.swing.JTextField textSigmaMinX

textSigmaMinY

javax.swing.JTextField textSigmaMinY

textSigmaMinZ

javax.swing.JTextField textSigmaMinZ

vesselAlgo

AlgorithmVesselEnhancement vesselAlgo

DOCUMENT ME!

wb

boolean wb

wbCheckBox

javax.swing.JCheckBox wbCheckBox

Class gov.nih.mipav.view.dialogs.JDialogVOIBoolean extends JDialogBase implements Serializable

Serialized Fields

booleanGroup

javax.swing.ButtonGroup booleanGroup

DOCUMENT ME!

clipVOIButton

javax.swing.JRadioButton clipVOIButton

DOCUMENT ME!

clipVOIIndex

int clipVOIIndex

DOCUMENT ME!

componentImage

ViewJComponentEditImage componentImage

DOCUMENT ME!

differenceButton

javax.swing.JRadioButton differenceButton

DOCUMENT ME!

exclusiveOrButton

javax.swing.JRadioButton exclusiveOrButton

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

intersectionButton

javax.swing.JRadioButton intersectionButton

DOCUMENT ME!

nVOIs

int nVOIs

op

GenericPolygonClipper.gpc_op op

removeClipVOI

boolean removeClipVOI

removeClipVOICheckBox

javax.swing.JCheckBox removeClipVOICheckBox

removeSubjectVOI

boolean removeSubjectVOI

removeSubjectVOICheckBox

javax.swing.JCheckBox removeSubjectVOICheckBox

subjectVOIButton

javax.swing.JRadioButton subjectVOIButton

DOCUMENT ME!

subjectVOIIndex

int subjectVOIIndex

DOCUMENT ME!

unionButton

javax.swing.JRadioButton unionButton

DOCUMENT ME!

VOIGroup

javax.swing.ButtonGroup VOIGroup

DOCUMENT ME!

VOIs

ViewVOIVector VOIs

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogVOIExtraction extends JDialogBase implements Serializable

serialVersionUID:

6131165470681736959L

Serialized Fields

imageA

ModelImage imageA

DOCUMENT ME!

VOIExtractionAlgo

AlgorithmVOIExtraction VOIExtractionAlgo

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogVOIHausdorffDistance extends JDialogScriptableBase implements Serializable

Serialized Fields

addremove

JDialogVOIHausdorffDistance.JPanelAddRemoveVOI addremove

Panel to push/pull VOIs from full list to selectable list.

alg

AlgorithmVOIHausdorffDistance alg

algorithm

everything

javax.swing.JTabbedPane everything

Tabbed pane that holds all components.

frameBorder

javax.swing.border.Border frameBorder

highlighter

JDialogVOIHausdorffDistance.VOIHighlighter highlighter

Operator to provide listener access... could be done by /this/

image

ModelImage image

image and cloned image

index

int index

jsp

javax.swing.JScrollPane jsp

logicalOperation

int logicalOperation

processList

ViewVOIVector processList

selectedRoot

javax.swing.tree.DefaultMutableTreeNode selectedRoot

DOCUMENT ME!

selectedVOI

VOI selectedVOI

selectedVOIModel

javax.swing.tree.DefaultTreeModel selectedVOIModel

The tree of VOIs, composed of an image with children VOIs

selectedVoiTree

javax.swing.JTree selectedVoiTree

sourceRoot

javax.swing.tree.DefaultMutableTreeNode sourceRoot

DOCUMENT ME!

sourceVoiModel

javax.swing.tree.DefaultTreeModel sourceVoiModel

The tree of VOIs, composed of an image with children VOIs

sourceVoiTree

javax.swing.JTree sourceVoiTree

The graphical representation of voiModel

treeSelectionChange

boolean treeSelectionChange

updateTree

boolean updateTree

userInterface

ViewUserInterface userInterface

voiHandler

VOIHandlerInterface voiHandler

Class gov.nih.mipav.view.dialogs.JDialogVOIHausdorffDistance.JPanelAddRemoveVOI extends JPanelTreeController implements Serializable

serialVersionUID:

-2076771728355899710L

Class gov.nih.mipav.view.dialogs.JDialogVOILogicalOperations extends JDialogScriptableBase implements Serializable

Serialized Fields

addremove

JDialogVOILogicalOperations.JPanelAddRemoveVOI addremove

Panel to push/pull VOIs from full list to selectable list.

alg

AlgorithmVOILogicalOperations alg

algorithm

and

javax.swing.JRadioButton and

radio button

clonedImage

ModelImage clonedImage

image and cloned image

createMaskImage

javax.swing.JRadioButton createMaskImage

radio button

createVoiImage

javax.swing.JRadioButton createVoiImage

radio button

doVOIImage

boolean doVOIImage

flag indicating whether output should be VOI image or mask image

everything

javax.swing.JTabbedPane everything

Tabbed pane that holds all components.

frameBorder

javax.swing.border.Border frameBorder

highlighter

JDialogVOILogicalOperations.VOIHighlighter highlighter

Operator to provide listener access... could be done by /this/

image

ModelImage image

image and cloned image

imageOptionsPanel

javax.swing.JPanel imageOptionsPanel

panels

index

int index

jsp

javax.swing.JScrollPane jsp

logicalOperation

int logicalOperation

logicalOptionsPanel

javax.swing.JPanel logicalOptionsPanel

panels

or

javax.swing.JRadioButton or

radio button

processList

ViewVOIVector processList

selectedRoot

javax.swing.tree.DefaultMutableTreeNode selectedRoot

DOCUMENT ME!

selectedVOI

VOI selectedVOI

selectedVOIModel

javax.swing.tree.DefaultTreeModel selectedVOIModel

The tree of VOIs, composed of an image with children VOIs

selectedVoiTree

javax.swing.JTree selectedVoiTree

sourceRoot

javax.swing.tree.DefaultMutableTreeNode sourceRoot

DOCUMENT ME!

sourceVoiModel

javax.swing.tree.DefaultTreeModel sourceVoiModel

The tree of VOIs, composed of an image with children VOIs

sourceVoiTree

javax.swing.JTree sourceVoiTree

The graphical representation of voiModel

treeSelectionChange

boolean treeSelectionChange

updateTree

boolean updateTree

userInterface

ViewUserInterface userInterface

voiHandler

VOIHandlerInterface voiHandler

xor

javax.swing.JRadioButton xor

radio button

Class gov.nih.mipav.view.dialogs.JDialogVOILogicalOperations.JPanelAddRemoveVOI extends JPanelTreeController implements Serializable

serialVersionUID:

-2076771728355899710L

Class gov.nih.mipav.view.dialogs.JDialogVOILogicalOperations.JPanelImageOptions extends javax.swing.JPanel implements Serializable

Class gov.nih.mipav.view.dialogs.JDialogVOILogicalOperations.JPanelLogicalOptions extends javax.swing.JPanel implements Serializable

serialVersionUID:

-4726615904924397356L

Class gov.nih.mipav.view.dialogs.JDialogVOIShapeInterpolation extends JDialogBase implements Serializable

Serialized Fields

alg

AlgorithmVOIShapeInterpolation alg

algorithm

imageA

ModelImage imageA

src image

Class gov.nih.mipav.view.dialogs.JDialogVOISplitter extends JDialogBase implements Serializable

serialVersionUID:

4074062695729029005L

Serialized Fields

allSlicesRadio

javax.swing.JRadioButton allSlicesRadio

DOCUMENT ME!

b

float b

currentSlice

int currentSlice

DOCUMENT ME!

endPt

WildMagic.LibFoundation.Mathematics.Vector3f endPt

image

ModelImage image

DOCUMENT ME!

onlyActiveRadio

javax.swing.JRadioButton onlyActiveRadio

radioGroup

javax.swing.ButtonGroup radioGroup

slope

float slope

startPt

WildMagic.LibFoundation.Mathematics.Vector3f startPt

tol

float tol

Class gov.nih.mipav.view.dialogs.JDialogVOIStatistics extends JDialogScriptableBase implements Serializable

serialVersionUID:

-1354965054401181781L

Serialized Fields

activeVolume

int activeVolume

addremove

JDialogVOIStatistics.JPanelAddRemoveVOI addremove

Panel to push/pull VOIs from full list to selectable list.

calculator

AlgorithmVOIProps calculator

DOCUMENT ME!

checkBoxPanel

JPanelStatisticsList checkBoxPanel

Panel holding statistics options.

checkList

boolean[] checkList

boolean array mirroring checkbox panel's selection.

doAllVolumes

boolean doAllVolumes

doForce

boolean doForce

force precision to display at maximum.

everything

javax.swing.JTabbedPane everything

Tabbed pane that holds all components.

fileSelectorPanel

JPanelFileSelection fileSelectorPanel

Panel to select files.

highlighter

JDialogVOIStatistics.VOIHighlighter highlighter

Operator to provide listener access... could be done by /this/

image

ModelImage image

Global image reference to the currently active image during script running and recording.

initialActiveVolume

int initialActiveVolume

logFileText

java.lang.StringBuffer logFileText

The text of the log process to be written to file.

logModel

ViewTableModel logModel

Model where data is stored for the table.

logTable

javax.swing.JTable logTable

Table holding log of statistics calculated.

noisyProcess

boolean noisyProcess

Flag where true means notifying the user of stupid errors.

outputOptionsPanel

JDialogVOIStatistics.JPanelStatisticsOptions outputOptionsPanel

Panel holding statistics output options.

overwriteBox

javax.swing.JCheckBoxMenuItem overwriteBox

Check box item indicating if we're to always overwriteBox the statistics file.

precision

int precision

Number of digits after decimal place to allow.

processList

ViewVOIVector processList

processType

int processType

DOCUMENT ME!

r

JPanelPixelExclusionSelector.RangeType r

rangeMaximum

float rangeMaximum

DOCUMENT ME!

rangeMaximumB

float rangeMaximumB

rangeMaximumG

float rangeMaximumG

rangeMaximumR

float rangeMaximumR

rangeMinimum

float rangeMinimum

DOCUMENT ME!

rangeMinimumB

float rangeMinimumB

rangeMinimumG

float rangeMinimumG

rangeMinimumR

float rangeMinimumR

scriptRange

JPanelPixelExclusionSelector.RangeType scriptRange

When running as a script, holds the pixel exclusion range.

selectedList

javax.swing.JList selectedList

List of selected VOIs.

showTotals

boolean showTotals

DOCUMENT ME!

subsetAlgo

AlgorithmSubset subsetAlgo

subsetImage

ModelImage subsetImage

tableDestination

java.io.File tableDestination

Log file destination.

tableDestinationUsage

int tableDestinationUsage

Indicates options for OVERWRITE, APPEND for the xlat file.

tDim

int tDim

toolBar

javax.swing.JToolBar toolBar

Toolbar.

userInterface

ViewUserInterface userInterface

Icon and log access.

volumesList

javax.swing.JList volumesList

List of available VOIs.

xUnits

int xUnits

The units printed to the logModel, set in createNewLogile

yUnits

int yUnits

The units printed to the logModel, set in createNewLogile

zUnits

int zUnits

The units printed to the logModel, set in createNewLogile

Class gov.nih.mipav.view.dialogs.JDialogVOIStatistics.JPanelAddRemoveVOI extends JPanelListController implements Serializable

serialVersionUID:

-2076771728355899710L

Class gov.nih.mipav.view.dialogs.JDialogVOIStatistics.JPanelStatisticFileFormatOptions extends javax.swing.JPanel implements Serializable

serialVersionUID:

-4726615904924397356L

Serialized Fields

tabDelimited

javax.swing.JRadioButton tabDelimited

Radio button to choose a tab-delimited file.

xml

javax.swing.JRadioButton xml

Radio button to choose a XML file.

Class gov.nih.mipav.view.dialogs.JDialogVOIStatistics.JPanelStatisticsOptions extends javax.swing.JPanel implements Serializable

serialVersionUID:

6577076069976323730L

Serialized Fields

activeVolumeButton

javax.swing.JRadioButton activeVolumeButton

A radio button to select calculation only for the active volume

allVolumesButton

javax.swing.JRadioButton allVolumesButton

A radio button to select calculation for all volumes

byContour

javax.swing.JRadioButton byContour

A radio button to select calculation by VOI contour.

byContourSlice

javax.swing.JRadioButton byContourSlice

A radio button to select calculation by VOI contour.

bySlice

javax.swing.JRadioButton bySlice

A radio button to select calculation by VOI slice.

byTotalVOI

javax.swing.JRadioButton byTotalVOI

A radio button to select calculation by total VOI.

excluder

JPanelPixelExclusionSelector excluder

The Exclusion selector.

forceDecimal

javax.swing.JCheckBox forceDecimal

DOCUMENT ME!

precisionBox

javax.swing.JComboBox precisionBox

User can choose the precision to display.

showTotals

javax.swing.JCheckBox showTotals

A check box to opt for VOI totals.

Class gov.nih.mipav.view.dialogs.JDialogVOIStats extends JDialogScriptableBase implements Serializable

serialVersionUID:

1618733051752245417L

Serialized Fields

activeVolume

int activeVolume

activeVolumeButton

javax.swing.JRadioButton activeVolumeButton

algoVOI

AlgorithmVOIProps algoVOI

Algorithm for computing VOI statistics

allVolumesButton

javax.swing.JRadioButton allVolumesButton

applyButton

javax.swing.JButton applyButton

Applies bounding box/shading/name display and other UI changes to ModelImage

calcButton

javax.swing.JButton calcButton

Performs statistics calculations

checkboxBoundingBox

javax.swing.JCheckBox checkboxBoundingBox

Whether to display bounding box around VOI

checkboxIncludeForProcessing

javax.swing.JCheckBox checkboxIncludeForProcessing

Whether to include the selected VOI for statistics processing

checkboxOpacity

javax.swing.JCheckBox checkboxOpacity

Whether to display VOI with shading

checkboxSaveStats

javax.swing.JCheckBox checkboxSaveStats

Whether to save statistics to a file

checkboxVOIName

javax.swing.JCheckBox checkboxVOIName

Whether to display VOI name

colorButton

javax.swing.JButton colorButton

Allows VOI color to be selected

colorChooser

ViewJColorChooser colorChooser

Internal dialog box for selecting VOI color

colorVOI

java.awt.Color colorVOI

The current color of the selected VOI

contourTextArea

javax.swing.JTextArea contourTextArea

Displays points and name of selected VOI or contour

currentOpacity

javax.swing.JLabel currentOpacity

Displays current opacity level in slider

doAllVolumes

boolean doAllVolumes

excluder

JPanelPixelExclusionSelector excluder

followVOISelectionBox

javax.swing.JCheckBox followVOISelectionBox

DOCUMENT ME!

frameBorder

javax.swing.border.Border frameBorder

DOCUMENT ME!

frameFollowsSelection

boolean frameFollowsSelection

DOCUMENT ME!

helpButton

javax.swing.JButton helpButton

Displays Stats dialog help

image

ModelImage image

Internal reference to the currently selected ModelImage

listPanel

JPanelStatisticsList listPanel

The list of statistics to calculate

opacitySlider

javax.swing.JSlider opacitySlider

The opacity slider for the selected VOI

popup

JDialogVOIStats.VOITreePopup popup

DOCUMENT ME!

processList

ViewVOIVector[] processList

List of VOI sets that will have statistics calculated

processListIndex

int processListIndex

Current set of VOIs that are being processed

rangeMaximum

float rangeMaximum

DOCUMENT ME!

rangeMaximumB

float rangeMaximumB

rangeMaximumG

float rangeMaximumG

rangeMaximumR

float rangeMaximumR

rangeMinimum

float rangeMinimum

DOCUMENT ME!

rangeMinimumB

float rangeMinimumB

rangeMinimumG

float rangeMinimumG

rangeMinimumR

float rangeMinimumR

root

javax.swing.tree.DefaultMutableTreeNode root

A reference in the voiTree to the currently selected image

scriptRange

JPanelPixelExclusionSelector.RangeType scriptRange

When running as a script, holds the pixel exclusion range.

seedValue

short seedValue

The seed value last entered by the user

seedValueTF

javax.swing.JTextField seedValueTF

Watershed seed value

subsetAlgo

AlgorithmSubset subsetAlgo

subsetImage

ModelImage subsetImage

tDim

int tDim

treeSelectionChange

boolean treeSelectionChange

DOCUMENT ME!

UIDfield

javax.swing.JTextField UIDfield

uid of the selected voi

updateTree

boolean updateTree

voi

VOI voi

The selected VOI when the VOIStats dialogue was created

voiContourPane

javax.swing.JScrollPane voiContourPane

DOCUMENT ME!

voiHandler

VOIHandlerInterface voiHandler

voiModel

javax.swing.tree.DefaultTreeModel voiModel

The tree of VOIs, composed of an image with children VOIs

VOIName

javax.swing.JTextField VOIName

Name of the currently selected voi

VOIThicknessField

javax.swing.JTextField VOIThicknessField

Thickness of the currently selected voi

voiTree

javax.swing.JTree voiTree

The graphical representation of voiModel

voiTreePane

javax.swing.JScrollPane voiTreePane

Displays the orthoganal list of VOIs in the selected ModelImage

wholeImage

VOI wholeImage

VOI used for whole image processing

Class gov.nih.mipav.view.dialogs.JDialogWalshHadamardTransform extends JDialogScriptableBase implements Serializable

Serialized Fields

comboBoxFilterType

javax.swing.JComboBox<java.lang.String> comboBoxFilterType

dyadicButton

javax.swing.JRadioButton dyadicButton

FILTER_GREATER

int FILTER_GREATER

FILTER_HARD

int FILTER_HARD

FILTER_LESS

int FILTER_LESS

FILTER_NN_GARROTE

int FILTER_NN_GARROTE

FILTER_NONE

int FILTER_NONE

FILTER_SOFT

int FILTER_SOFT

FILTER_THRESHOLD_FIRM

int FILTER_THRESHOLD_FIRM

filterType

int filterType

filterVal1

double filterVal1

filterVal2

double filterVal2

inverseImage

ModelImage inverseImage

labelVal1

javax.swing.JLabel labelVal1

labelVal2

javax.swing.JLabel labelVal2

naturalButton

javax.swing.JRadioButton naturalButton

sequencyButton

javax.swing.JRadioButton sequencyButton

srcImage

ModelImage srcImage

textVal1

javax.swing.JTextField textVal1

textVal2

javax.swing.JTextField textVal2

transformImage

ModelImage transformImage

twoDButton

javax.swing.JRadioButton twoDButton

type

int type

typeGroup

javax.swing.ButtonGroup typeGroup

wh3Algo

WalshHadamardTransform3 wh3Algo

whAlgo

WalshHadamardTransform whAlgo

Class gov.nih.mipav.view.dialogs.JDialogWatershed extends JDialogScriptableBase implements Serializable

serialVersionUID:

-3432667720289138422L

Serialized Fields

buttonEnergyInput

javax.swing.JButton buttonEnergyInput

DOCUMENT ME!

choiceCheckBox

javax.swing.JCheckBox choiceCheckBox

DOCUMENT ME!

gmDirectory

java.lang.String gmDirectory

DOCUMENT ME!

gmFileName

java.lang.String gmFileName

DOCUMENT ME!

gmImage

ModelImage gmImage

DOCUMENT ME!

gmTextFile

javax.swing.JTextField gmTextFile

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

labelCorrected

javax.swing.JLabel labelCorrected

DOCUMENT ME!

labelGaussX

javax.swing.JLabel labelGaussX

DOCUMENT ME!

labelGaussY

javax.swing.JLabel labelGaussY

DOCUMENT ME!

labelGaussZ

javax.swing.JLabel labelGaussZ

DOCUMENT ME!

normFactor

float normFactor

DOCUMENT ME!

resolutionCheckbox

javax.swing.JCheckBox resolutionCheckbox

difference between x,y resolutions (in plane) and z resolution (between planes).

resultImage

ModelImage resultImage

DOCUMENT ME!

scaleX

float scaleX

DOCUMENT ME!

scaleY

float scaleY

DOCUMENT ME!

scaleZ

float scaleZ

DOCUMENT ME!

textGaussX

javax.swing.JTextField textGaussX

DOCUMENT ME!

textGaussY

javax.swing.JTextField textGaussY

DOCUMENT ME!

textGaussZ

javax.swing.JTextField textGaussZ

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

watershedAlgo

AlgorithmWatershed watershedAlgo

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogWaveletFuse extends JDialogScriptableBase implements Serializable

Serialized Fields

comboBoxImage

javax.swing.JComboBox<java.lang.String> comboBoxImage

comboBoxName

javax.swing.JComboBox<java.lang.String> comboBoxName

comboBoxOrder

javax.swing.JComboBox<java.lang.String> comboBoxOrder

fastButton

javax.swing.JRadioButton fastButton

fastGroup

javax.swing.ButtonGroup fastGroup

fuseImage

ModelImage fuseImage

Use serialVersionUID for interoperability.

gbc2

java.awt.GridBagConstraints gbc2

image

ModelImage image

DOCUMENT ME!

kernel_size

int kernel_size

labelName

javax.swing.JLabel labelName

labelOrder

javax.swing.JLabel labelOrder

lastNameString

java.lang.String lastNameString

max_depth

int max_depth

names

PyWavelets.WAVELET_NAME[] names

orders

int[] orders

paramPanel

javax.swing.JPanel paramPanel

resultImage

ModelImage resultImage

slow

boolean slow

slowButton

javax.swing.JRadioButton slowButton

textDepth

javax.swing.JTextField textDepth

textKernelSize

javax.swing.JTextField textKernelSize

userInterface

ViewUserInterface userInterface

waveletFuseAlgo

AlgorithmWaveletFuse waveletFuseAlgo

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogWaveletMultiscaleProducts extends JDialogScriptableBase implements Serializable

Serialized Fields

actualThreshold

double actualThreshold

actualThresholdLabel

javax.swing.JLabel actualThresholdLabel

actualThresholdText

javax.swing.JTextField actualThresholdText

BayesCheckBox

javax.swing.JCheckBox BayesCheckBox

denoiseCheckBox

javax.swing.JCheckBox denoiseCheckBox

destImage

ModelImage destImage

doBayesShrinkThresholdComputation

boolean doBayesShrinkThresholdComputation

doDenoise

boolean doDenoise

doWaveletImages

boolean doWaveletImages

DOCUMENT ME!

filterLength

int filterLength

filterType

int filterType

hardButton

javax.swing.JRadioButton hardButton

image

ModelImage image

DOCUMENT ME!

MADButton

javax.swing.JRadioButton MADButton

maximumButton

javax.swing.JRadioButton maximumButton

maximumLevel

int maximumLevel

maximumLevelsButton

javax.swing.JRadioButton maximumLevelsButton

midButton

javax.swing.JRadioButton midButton

minimumButton

javax.swing.JRadioButton minimumButton

minimumLevel

int minimumLevel

nonredundantButton

javax.swing.JRadioButton nonredundantButton

numberOfLevels

int numberOfLevels

redundant

boolean redundant

redundantButton

javax.swing.JRadioButton redundantButton

softButton

javax.swing.JRadioButton softButton

STDButton

javax.swing.JRadioButton STDButton

textFilterLength

javax.swing.JTextField textFilterLength

DOCUMENT ME!

textLevels

javax.swing.JTextField textLevels

textMaximum

javax.swing.JTextField textMaximum

textMinimum

javax.swing.JTextField textMinimum

thresholdingType

int thresholdingType

thresholdingTypeGroup

javax.swing.ButtonGroup thresholdingTypeGroup

thresholdingTypeLabel

javax.swing.JLabel thresholdingTypeLabel

thresholdLowPass

boolean thresholdLowPass

thresholdLowPassCheckBox

javax.swing.JCheckBox thresholdLowPassCheckBox

thresholdMultiplier

double thresholdMultiplier

thresholdMultiplierLabel

javax.swing.JLabel thresholdMultiplierLabel

thresholdMultiplierText

javax.swing.JTextField thresholdMultiplierText

userLevelsButton

javax.swing.JRadioButton userLevelsButton

varianceEstimator

int varianceEstimator

varianceEstimatorLabel

javax.swing.JLabel varianceEstimatorLabel

varianceGroup

javax.swing.ButtonGroup varianceGroup

waveletAlgo

AlgorithmRiceWaveletTools waveletAlgo

DOCUMENT ME!

waveletCheckBox

javax.swing.JCheckBox waveletCheckBox

DOCUMENT ME!

waveletImage

ModelImage[] waveletImage

DOCUMENT ME!

xDim

int xDim

yDim

int yDim

Class gov.nih.mipav.view.dialogs.JDialogWaveletThreshold extends JDialogScriptableBase implements Serializable

serialVersionUID:

5536998601413644702L

Serialized Fields

cNum

int cNum

or if the source image is to be replaced.

coefficientCombo

javax.swing.JComboBox coefficientCombo

DOCUMENT ME!

displayLoc

int displayLoc

DOCUMENT ME!

doWaveletImage

boolean doWaveletImage

DOCUMENT ME!

garrote

javax.swing.JRadioButton garrote

DOCUMENT ME!

hard

javax.swing.JRadioButton hard

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

newImage

javax.swing.JRadioButton newImage

DOCUMENT ME!

replaceImage

javax.swing.JRadioButton replaceImage

DOCUMENT ME!

resultImage

ModelImage resultImage

DOCUMENT ME!

scad

javax.swing.JRadioButton scad

DOCUMENT ME!

soft

javax.swing.JRadioButton soft

DOCUMENT ME!

textThreshold

javax.swing.JTextField textThreshold

DOCUMENT ME!

threshold

float threshold

DOCUMENT ME!

thresholdType

int thresholdType

DOCUMENT ME!

titles

java.lang.String[] titles

DOCUMENT ME!

userInterface

ViewUserInterface userInterface

DOCUMENT ME!

waveletAlgo

AlgorithmWaveletThreshold waveletAlgo

DOCUMENT ME!

waveletCheckBox

javax.swing.JCheckBox waveletCheckBox

DOCUMENT ME!

waveletImage

ModelImage waveletImage

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogWinLevel extends JDialogBase implements Serializable

serialVersionUID:

-3270517526341902110L

Serialized Fields

allowChangesMinMax

int allowChangesMinMax

allow changes to the min and max boundaries *

allowChangesWin

int allowChangesWin

allow changes to the window and level boundaries *

closeButton

javax.swing.JButton closeButton

DOCUMENT ME!

dataSlice

float[] dataSlice

Reference to the image data of the slice presently displayed. Needed to calculate the max/min of the slice used to adjust the transfer function.

image

ModelImage image

Reference to the image that will be affected by the adjust of the window and level.

keyTyped

boolean keyTyped

level

float level

Average of the min and max extents of the transfer window that describes the window size.

levelMaxFloat

float levelMaxFloat

the maxes and mins for window and level *

levelMinFloat

float levelMinFloat

the maxes and mins for window and level *

levelSlider

javax.swing.JSlider levelSlider

DOCUMENT ME!

levelSliderMax

int levelSliderMax

Stores the maximum slider value.

levelValTextField

javax.swing.JTextField levelValTextField

textfield inputs for window and level *

loadButton

javax.swing.JButton loadButton

DOCUMENT ME!

LUT

ModelLUT LUT

Reference to the LUT used to display the image.

max

float max

maxImage

float maxImage

Image's maximum intensity.

maxSlider

javax.swing.JSlider maxSlider

DOCUMENT ME!

maxValTextField

javax.swing.JTextField maxValTextField

textfield inputs for window and level *

min

float min

minImage

float minImage

Image's minimum intensity.

minMaxBInt

float minMaxBInt

b intercept for mapping of min/max sliders *

minMaxPanel

javax.swing.JPanel minMaxPanel

DOCUMENT ME!

minMaxSlope

float minMaxSlope

slope for mapping of min/max sliders *

minSlider

javax.swing.JSlider minSlider

DOCUMENT ME!

minValTextField

javax.swing.JTextField minValTextField

textfield inputs for window and level *

saveButton

javax.swing.JButton saveButton

DOCUMENT ME!

sliderLevMax

javax.swing.JLabel sliderLevMax

sliderLevMin

javax.swing.JLabel sliderLevMin

sliderMaxMax

javax.swing.JLabel sliderMaxMax

labels at top and bottom of sliders indicating slider bounds *

sliderMaxMin

javax.swing.JLabel sliderMaxMin

labels at top and bottom of sliders indicating slider bounds *

sliderMinMax

javax.swing.JLabel sliderMinMax

labels at top and bottom of sliders indicating slider bounds *

sliderMinMin

javax.swing.JLabel sliderMinMin

labels at top and bottom of sliders indicating slider bounds *

sliderWinMax

javax.swing.JLabel sliderWinMax

sliderWinMin

javax.swing.JLabel sliderWinMin

tabbedPane

javax.swing.JTabbedPane tabbedPane

tabbed pane for w/L and min/max *

window

float window

The size of the window.

windowLevelPanel

javax.swing.JPanel windowLevelPanel

DOCUMENT ME!

windowSlider

javax.swing.JSlider windowSlider

DOCUMENT ME!

windowSliderMax

int windowSliderMax

Stores the minimum slider value.

winMaxFloat

float winMaxFloat

the maxes and mins for window and level *

winMinFloat

float winMinFloat

the maxes and mins for window and level *

winValTextField

javax.swing.JTextField winValTextField

textfield inputs for window and level *

x

float[] x

Three arrays to save the coordinates of the LUT's transfer fucntion. z[] not used.

y

float[] y

DOCUMENT ME!

z

float[] z

DOCUMENT ME!

Class gov.nih.mipav.view.dialogs.JDialogZoom extends JDialogBase implements Serializable

serialVersionUID:

5271517126304850595L

Serialized Fields

bilinear

javax.swing.JRadioButton bilinear

Radio buttons for interpolation methods.

componentImage

ViewJComponentEditImage componentImage

Component image which this dialog belongs to.

cubic

javax.swing.JRadioButton cubic

Radio buttons for interpolation methods.

currentLabel

javax.swing.JLabel currentLabel

Value of current slider number.

intensityCheckbox

javax.swing.JCheckBox intensityCheckbox

Checkbox for displaying intensity values.

interpType

Preferences.InterpolateDisplay interpType

Method of interpolation

magSlider

javax.swing.JSlider magSlider

Slider used for zooming.

maximumLabel

javax.swing.JLabel maximumLabel

Labels to display max/min slider values.

maximumValueButton

javax.swing.JButton maximumValueButton

Buttons to set max/min slider values.

maximumValueField

javax.swing.JTextField maximumValueField

Text fields for user to enter max/min slider values.

minimumLabel

javax.swing.JLabel minimumLabel

Labels to display max/min slider values.

minimumValueButton

javax.swing.JButton minimumValueButton

Buttons to set max/min slider values.

minimumValueField

javax.swing.JTextField minimumValueField

Text fields for user to enter max/min slider values.

mode

JDialogZoom.ZoomMode mode

Mode of operation for the dialog

nearest

javax.swing.JRadioButton nearest

Radio buttons for interpolation methods.

Class gov.nih.mipav.view.dialogs.JFrameRegistrationMosaic extends javax.swing.JFrame implements Serializable

serialVersionUID:

2954367270283496349L

Serialized Fields

m_aabReference

boolean[][] m_aabReference

For masking, set to true if the reference image is written into the same location:.

m_aabReferenceBackup

boolean[][] m_aabReferenceBackup

backup:.

m_akBackupBorders

javax.media.j3d.Shape3D[] m_akBackupBorders

Backup shape for Undo:.

m_akBackupImages

ModelImage[] m_akBackupImages

Backup Image for Undo:.

m_akBackupPolygons

javax.media.j3d.Shape3D[] m_akBackupPolygons

Backup shape for Undo:.

m_akBackupTG

javax.media.j3d.TransformGroup[] m_akBackupTG

Backup Transform for Undo:.

m_akBorderShapes

javax.media.j3d.Shape3D[] m_akBorderShapes

Reference to the border shape data structure for changing the color based on which image is selected:.

m_akImages

ModelImage[] m_akImages

Reference to the model images:.

m_akImageTransforms

javax.media.j3d.TransformGroup[] m_akImageTransforms

Reference and tile image transformations:.

m_akPolygonShapes

javax.media.j3d.Shape3D[] m_akPolygonShapes

Reference to the texture-mapped polygon on which the image is displayed:.

m_bBruteForce

boolean m_bBruteForce

Brute force default is off:.

m_bDisplayTransform

boolean m_bDisplayTransform

Display transfromed image in separate window: set to false (no display).

m_bDoMultiThread

boolean m_bDoMultiThread

m_bDoSubsample

boolean m_bDoSubsample

Default subsample set to true:.

m_bFileLoaded

boolean m_bFileLoaded

Boolean to check that a file is loaded before mouse operations are allowed to occur.

m_bFirst

boolean m_bFirst

For blending the reference and tile images, reference image is not blended with background, reset when initData() is called.

m_bResetAlpha

boolean m_bResetAlpha

To reset m_kReferenceAlpha:.

m_bSetScale

boolean m_bSetScale

True when scale factor should be used:.

m_fCoarseRate

float m_fCoarseRate

Default rotation coarse rate, set to 2 degrees:.

m_fFineRate

float m_fFineRate

Default rotation fine rate, set to 1 degree:.

m_fRotateBegin

float m_fRotateBegin

Default rotation start, set to negative 5 degrees:.

m_fRotateEnd

float m_fRotateEnd

Default rotation end, set to postive 5 degrees:.

m_fRotationRange

float m_fRotationRange

default rotation range (0).

m_fScale

float m_fScale

Scale factor for large images:.

m_fXScaleRange

float m_fXScaleRange

default x scale range (0).

m_fYScaleRange

float m_fYScaleRange

default y scale range (0).

m_iCost

int m_iCost

Default cost function, set to correlation ratio (smoothed, weighted):.

m_iDOF

int m_iDOF

Default degrees of freedom:.

m_iInterp

int m_iInterp

Default image interpolation, set to be bilinear interpolation:.

m_iInterp2

int m_iInterp2

Default interpolation for the transform algorithm:.

m_iMaxIterations

int m_iMaxIterations

Default number of iteration set to 2:.

m_iNumMinima

int m_iNumMinima

Default number of minima to test from level 8 at level 4 (set to 3):.

m_iOpen

int m_iOpen

index of the non-selected image:.

m_iOpenSave

int m_iOpenSave

Backup of the open index:.

m_iReference

int m_iReference

Index of the reference image:.

m_iReferenceSave

int m_iReferenceSave

Backup of the reference index:.

m_iScaleSteps

int m_iScaleSteps

default number of divisions for scale optimazation:.

m_iSelected

int m_iSelected

index of the selected image:

m_iTile

int m_iTile

Index of the tile image:.

m_iTranslationRange

int m_iTranslationRange

default x,y translation range (0).

m_iXClick

int m_iXClick

x,y positions of the mouse when one of the mouse buttons is pressed:.

m_iYClick

int m_iYClick

x,y positions of the mouse when one of the mouse buttons is pressed:.

m_kAdvancedOptionsButton

javax.swing.JButton m_kAdvancedOptionsButton

Launches the JDialogRegistrationOAR2D dialog to set registration options:.

m_kCanvas

javax.media.j3d.Canvas3D m_kCanvas

Drawing canvas:.

m_kCloseAllButton

javax.swing.JButton m_kCloseAllButton

Close all images and remove them from the scene:.

m_kCurrentTransform

javax.media.j3d.Transform3D m_kCurrentTransform

current transformation based on mouseDragged event:.

m_kHelpButton

javax.swing.JButton m_kHelpButton

Open the mosaic image help.

m_kMouseEvent

java.awt.event.MouseEvent m_kMouseEvent

Reference to the mousePressed event:.

m_kOldTransform

javax.media.j3d.Transform3D m_kOldTransform

Accumulated transformation prior to current mouseDrag:.

m_kOpenReferenceButton

javax.swing.JButton m_kOpenReferenceButton

Open reference image:.

m_kOpenTileButton

javax.swing.JButton m_kOpenTileButton

Open tile image:.

m_kReferenceAlpha

ModelImage m_kReferenceAlpha

For blending between refernce and transformed tile images:.

m_kReferenceAlphaBackup

ModelImage m_kReferenceAlphaBackup

For blending between refernce and transformed tile images:.

m_kRegisterButton

javax.swing.JButton m_kRegisterButton

Initialize and start the registration based on how the user positioned the two images:.

m_kSaveButton

javax.swing.JButton m_kSaveButton

Save the mosaic image:.

m_kScene

javax.media.j3d.BranchGroup m_kScene

Scene graph root node:.

m_kTileAlpha

ModelImage m_kTileAlpha

For blending between refernce and transformed tile images:.

m_kToggleSelectedButton

javax.swing.JButton m_kToggleSelectedButton

Toggle which image is currently selected:.

m_kUndoButton

javax.swing.JButton m_kUndoButton

Undo the last registration for the mosaic image:.

m_kUniverse

com.sun.j3d.utils.universe.SimpleUniverse m_kUniverse

SimpleUniverse:.

Class gov.nih.mipav.view.dialogs.JPanelPixelExclusionSelector extends javax.swing.JPanel implements Serializable

serialVersionUID:

1471564039185960351L

Serialized Fields

boundA

javax.swing.JTextField boundA

The lower bound of the exclusion

boundB

javax.swing.JTextField boundB

The upper bound of the exclusion

boundLB

javax.swing.JTextField boundLB

The lower blue bound of the exclusion

boundLG

javax.swing.JTextField boundLG

The lower green bound of the exclusion

boundLR

javax.swing.JTextField boundLR

The lower red bound of the exclusion

boundUB

javax.swing.JTextField boundUB

The upper blue bound of the exclusion

boundUG

javax.swing.JTextField boundUG

The upper green bound of the exclusion

boundUR

javax.swing.JTextField boundUR

The upper red bound of the exclusion

checkBoxPanel

JPanelStatisticsList checkBoxPanel

A reference to the JDialogVOIStatistic or JDialogVOIStats check box panel.

doColor

boolean doColor

excludeSelection

javax.swing.JComboBox excludeSelection

Lists available exclusion types

lowerLimit

java.lang.Float lowerLimit

The lower limit of the exclusion

lowerLimitB

java.lang.Float lowerLimitB

lowerLimitG

java.lang.Float lowerLimitG

lowerLimitR

java.lang.Float lowerLimitR

permitExclusion

javax.swing.JCheckBox permitExclusion

Whether pixels will be excluded from a calculation based on intensity values

rangeFlag

JPanelPixelExclusionSelector.RangeType rangeFlag

The range type that this pixel exclusion selector covers.

upperLimit

java.lang.Float upperLimit

held for switching between states of the exclusion.

upperLimitB

java.lang.Float upperLimitB

upperLimitG

java.lang.Float upperLimitG

upperLimitR

java.lang.Float upperLimitR

Class gov.nih.mipav.view.dialogs.ScriptTreeNode extends javax.swing.tree.DefaultMutableTreeNode implements Serializable

Serialized Fields

filePath

java.lang.String filePath

nodeType

int nodeType

Package gov.nih.mipav.view.dialogs.reportbug

Class gov.nih.mipav.view.dialogs.reportbug.ReportBugBuilder extends JDialogBase implements Serializable

serialVersionUID:

-7015450168814651213L

Serialized Fields

attachedImages

javax.swing.JTextArea attachedImages

Text are for displaying the attached images

attachmentName

java.lang.String attachmentName

Name of the image being attached.

browser

javax.swing.JFileChooser browser

File chooser for the user to select an existing file for attachment

bugTypeComboBox

javax.swing.JComboBox bugTypeComboBox

descriptionField

javax.swing.JTextPane descriptionField

Text pane for user inputed bug description

directory

javax.swing.JTextField directory

Text field for the directory of a file being attached from the user's computer

emailField

javax.swing.JTextField emailField

Text field for user inputed email

fileNames

java.util.ArrayList<java.lang.String> fileNames

ArrayList of all file names of report attachments

filePaths

java.util.ArrayList<java.lang.String> filePaths

ArrayList of all file paths of report attachments

frame

javax.swing.JFrame frame

Frame for the GUI in which the form is presented

image

java.io.File image

Image file used to store images created through the screen capture function

isScreenCapAttached

boolean isScreenCapAttached

Hack-ish boolean to avoid double adding screen captures to the attachment list.

nameField

javax.swing.JTextField nameField

Text field for user inputed name

screenCap

javax.swing.JButton screenCap

Button to launch the create new image dialog

screenCapture

JDialogCaptureScreen screenCapture

Dialog used for taking screen captures

standardOS

javax.swing.JTextField standardOS

Text field for the user inputed operating system.

standardUrgency

javax.swing.JTextField standardUrgency

Text field for the user inputed urgency of the bug

standardVersion

javax.swing.JTextField standardVersion

Text field for the user inputed mipav version.

summaryField

javax.swing.JTextField summaryField

Text area for user inputed bug title

Package gov.nih.mipav.view.graphVisualization

Class gov.nih.mipav.view.graphVisualization.JDialogAction extends JDialogBase implements Serializable

Serialized Fields

action

java.lang.String action

Current notes for the node.

actionField

javax.swing.JTextField actionField

NoteField for providing a note about this marker. Note only displayed when clicked.

buttonPanel

javax.swing.JPanel buttonPanel

Panel to contain the okay/cancel/help buttons.

parent

MipavGraphPanel parent

Parent graph panel to update on 'OK'

pickedNode

hypergraph.graphApi.Node pickedNode

Class gov.nih.mipav.view.graphVisualization.JDialogAddNode extends JDialogBase implements Serializable

serialVersionUID:

3937866689552181956L

Serialized Fields

addNode

boolean addNode

When true the dialog creates a new node, otherwise it is used to edit the Notes.

buttonPanel

javax.swing.JPanel buttonPanel

Panel to contain the okay/cancel/help buttons.

nameField

javax.swing.JTextField nameField

NameField that will contain the string to be displayed.

noteField

javax.swing.JTextArea noteField

NoteField for providing a note about this marker. Note only displayed when clicked.

notes

java.lang.String notes

Current notes for the node.

parent

MipavGraphPanel parent

Parent graph panel to update on 'OK'

pickedNode

hypergraph.graphApi.Node pickedNode

Class gov.nih.mipav.view.graphVisualization.JDialogHyperGraph extends javax.swing.JFrame implements Serializable

serialVersionUID:

7133468293112430462L

Serialized Fields

centerRootNodeButton

javax.swing.JButton centerRootNodeButton

decreaseFontButton

javax.swing.JButton decreaseFontButton

graphPanel

MipavGraphPanel graphPanel

Displays the graph.

graphPanel2

javax.swing.JPanel graphPanel2

increaseFontButton

javax.swing.JButton increaseFontButton

m_fPageMargin

float m_fPageMargin

page margin

m_fPageWidth

float m_fPageWidth

page width

m_iCurrentFontSize

int m_iCurrentFontSize

current font size

m_kCurrentDir

java.lang.String m_kCurrentDir

current directory

m_kCurrentFont

org.apache.pdfbox.pdmodel.font.PDFont m_kCurrentFont

current font

m_kFileName

java.lang.String m_kFileName

current file name

mainPanel

javax.swing.JPanel mainPanel

saveGraphButton

javax.swing.JButton saveGraphButton

sep

javax.swing.JButton sep

toolbarBuilder

ViewToolBarBuilder toolbarBuilder

toolbarPanel

javax.swing.JPanel toolbarPanel

Class gov.nih.mipav.view.graphVisualization.MipavEdgeRenderer extends hypergraph.visualnet.DefaultEdgeRenderer implements Serializable

Serialized Fields

labelVisible

boolean labelVisible

Indicates whether the label of the edge has to be shown or not.

Class gov.nih.mipav.view.graphVisualization.MipavGraphPanel extends hypergraph.visualnet.GraphPanel implements Serializable

serialVersionUID:

-5403703931672321741L

Serialized Fields

actionDialog

JDialogAction actionDialog

addNode

boolean addNode

addNodeDialog

JDialogAddNode addNodeDialog

clickTimer

javax.swing.Timer clickTimer

colorChooser

ViewJColorChooser colorChooser

ColorChooser for changing graph colors.

colorNode

hypergraph.graphApi.Node colorNode

Current Node to color.

image

java.awt.Image image

isBGImageShowing

boolean isBGImageShowing

kGraph

hypergraph.graphApi.Graph kGraph

lastMouseClickNode

hypergraph.graphApi.Node lastMouseClickNode

logo

java.awt.Image logo

m_kImageFrame

ViewJFrameImage m_kImageFrame

The ViewJFrameImage connect to this Graph, may be null.

m_kLastCommand

java.lang.String m_kLastCommand

Last command, used for determining the action the color chooser is associated with.

m_kMinDegree

hypergraph.graphApi.Node m_kMinDegree

If there is no Root node, this is the Node with the smallest number of parent nodes, and serves as a default Root for the Graph.

newImage

java.awt.Image newImage

nodeColorChooser

ViewJColorChooser nodeColorChooser

ColorChooser for changing graph colors.

ownerDialog

JDialogHyperGraph ownerDialog

pickedColor

java.awt.Color pickedColor

Default color to highlight the selected nodes on control- mouse-click:

pickedEdge

hypergraph.graphApi.Edge pickedEdge

Current selected Edge.

pickedNode

hypergraph.graphApi.Node pickedNode

Current selected Node.

pickedNodePrev

hypergraph.graphApi.Node pickedNodePrev

previously selected Node.

propertiesDialog

MipavGraphPanel.PropertiesDialog propertiesDialog

treeCheckBox

javax.swing.JCheckBox treeCheckBox

treeLevelColorChooser

ViewJColorChooser treeLevelColorChooser

ColorChooser for changing graph colors.

Class gov.nih.mipav.view.graphVisualization.MipavGraphPanel.PropertiesDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

addNode

boolean addNode

gbc

java.awt.GridBagConstraints gbc

mainPanel

javax.swing.JPanel mainPanel

mgp

MipavGraphPanel mgp

owner

JDialogHyperGraph owner

tabbedPane

javax.swing.JTabbedPane tabbedPane

Class gov.nih.mipav.view.graphVisualization.MipavNodeRenderer extends hypergraph.visualnet.DefaultNodeRenderer implements Serializable

serialVersionUID:

1686126148353845051L

Package gov.nih.mipav.view.input.spacenav

Class gov.nih.mipav.view.input.spacenav.SpaceNavigatorEvent extends java.awt.event.MouseEvent implements Serializable

serialVersionUID:

3087686667525077579L

Package gov.nih.mipav.view.renderer

Class gov.nih.mipav.view.renderer.JDialogRendererAVI extends JDialogBase implements Serializable

serialVersionUID:

-1983774099020785830L

Serialized Fields

applyWindowLevel

boolean applyWindowLevel

Flag to indicate to apply window level or not.

rate

double rate

Frame rate.

rateBox

javax.swing.JTextField rateBox

Frame rate textbox.

windowLevelCheckBox

javax.swing.JCheckBox windowLevelCheckBox

Window level check box.

Class gov.nih.mipav.view.renderer.JDialogVolViewResample extends JDialogBase implements Serializable

serialVersionUID:

-1966951185588087479L

Serialized Fields

extents

int[] extents

Original dimensions extents value array.

extXInput

javax.swing.JTextField extXInput

Original X, Y, Z dimension extents values.

extXOutput

javax.swing.JTextField extXOutput

Power of 2 X, Y, Z dimension extents values.

extYInput

javax.swing.JTextField extYInput

Original X, Y, Z dimension extents values.

extYOutput

javax.swing.JTextField extYOutput

Power of 2 X, Y, Z dimension extents values.

extZInput

javax.swing.JTextField extZInput

Original X, Y, Z dimension extents values.

extZOutput

javax.swing.JTextField extZOutput

Power of 2 X, Y, Z dimension extents values.

forcePadding

boolean forcePadding

Flag to force the padding of blank images to the end of images.

forceResample

boolean forceResample

Boolean flag to do resample images.

imageA

ModelImage imageA

Model images A and B.

imageAOriginal

ModelImage imageAOriginal

The non-cloned image which we want to load into the renderer.

imageB

ModelImage imageB

Model images A and B.

leftPanelRenderMode

int leftPanelRenderMode

The left panel renderer mode.

LUTa

ModelLUT LUTa

Lookup table of the imageA, B.

LUTb

ModelLUT LUTb

Lookup table of the imageA, B.

m_iFilter

int m_iFilter

Resample filter type, default: Trilinear Interpoloation.

m_kFilterType

javax.swing.JComboBox m_kFilterType

Resample filter selection box.

m_kVolViewType

java.lang.String m_kVolViewType

Type of ViewJFrameVolumeView object (using WildMagic or not)

nDim

int nDim

Number of available dimension.

newRes

float[] newRes

Resample resolutioin corresponding to Power of 2.

padButton

javax.swing.JButton padButton

Pad button is used for inserting blank images to the end of the image. This approach creates the power of 2 image. Pad Button is only enabled when the power of 2 value is greater than the slices number.

radioBrainSurfaceFlattenerR

javax.swing.JRadioButton radioBrainSurfaceFlattenerR

Radio button of the brainsurface flattener render mode in the right panel.

radioFlythruL

javax.swing.JRadioButton radioFlythruL

Radio button of the fly througth mode in the left panel.

radioNoneR

javax.swing.JRadioButton radioNoneR

Radio button of the none mode in the right panel.

radioRaycastR

javax.swing.JRadioButton radioRaycastR

Radio button of the raycast render mode in the right panel.

radioShearwarpR

javax.swing.JRadioButton radioShearwarpR

Radio button of the shearwarp render mode in the right panel.

radioSurfaceL

javax.swing.JRadioButton radioSurfaceL

Radio button of the surface render mode int the left panel.

radioSurfaceR

javax.swing.JRadioButton radioSurfaceR

Radio button of the surface render mode in the right panel.

radioSurfaceView

javax.swing.JRadioButton radioSurfaceView

Radio button of the surface view mode in the left panel.

res

float[] res

Original resolutioin arrray.

resampledImage

ModelImage resampledImage

Temp Model image.

RGBTA

ModelRGB RGBTA

Lookup table of the color imageA, B.

RGBTB

ModelRGB RGBTB

Lookup table of the color imageA, B.

rightPanelRenderMode

int rightPanelRenderMode

The right panel renderer mode.

segmentationImage

ModelImage segmentationImage

An image with areas designated as special (vessels, etc).

sr

ViewJFrameVolumeView sr

Reference to ViewJFrameSurfaceRenderer.

startupCommand

java.lang.String startupCommand

The action command to send to the volume renderer after we start it (can be used to open a tab). Used by RFAST to open up the RFA simulation immediately.

volExtents

int[] volExtents

Resampled dimension value in Power of 2.

volSize

int volSize

Volume size X*Y*Z.

Class gov.nih.mipav.view.renderer.JPanelAVIChoice extends JDialogBase implements Serializable

serialVersionUID:

-4246819535725354623L

Serialized Fields

compressionBox

javax.swing.JComboBox compressionBox

Combo box to select compression.

okayPressed

boolean okayPressed

Indicator for OK button pressed.

operating_system

int operating_system

Operating system type windows or Mac.

qualityField

javax.swing.JTextField qualityField

Text Field for M-JPEG quality.

Class gov.nih.mipav.view.renderer.JPanelRendererBase extends javax.swing.JPanel implements Serializable

serialVersionUID:

7175361900854772739L

Serialized Fields

applyButton

javax.swing.JButton applyButton

Apply button is used to apply the setting of the dialog.

cancelButton

javax.swing.JButton cancelButton

Cancel button is used on most dialogs. Defining it in the base allows default actions if the user presses return and the button is in focus.

cancelFlag

boolean cancelFlag

Flag indicating if the dialog had been cancelled or not.

closeButton

javax.swing.JButton closeButton

Close button is used to close the dialog.

helpButton

javax.swing.JButton helpButton

Help button is used on most dialogs. Defining it in the base allows default actions if the user presses return and the button is in focus.

isActiveImage

boolean isActiveImage

DOCUMENT ME!

mainPanel

javax.swing.JPanel mainPanel

The main control.

OKButton

javax.swing.JButton OKButton

OK button is used on most dialogs. Defining it in the base allows default actions if the user presses return and the button is in focus.

runInSeparateThread

boolean runInSeparateThread

Flag indicating if the algorithm should run in a separate thread. Default is true.

serif12

java.awt.Font serif12

Fonts, same as MipavUtil.font12 and MipavUtil.font12B.

serif12B

java.awt.Font serif12B

Fonts, same as MipavUtil.font12 and MipavUtil.font12B.

Class gov.nih.mipav.view.renderer.JPanelVolOpacityRGB extends JPanelVolOpacityBase implements Serializable

serialVersionUID:

8837612116721229202L

Serialized Fields

histogramABlue

ModelHistogram histogramABlue

Deprecated.

imageA histogram of the Blue channel.

histogramAGreen

ModelHistogram histogramAGreen

Deprecated.

imageA histogram of the Green channel.

histogramARed

ModelHistogram histogramARed

Deprecated.

imageA histogram of the Red channel.

histogramBBlue

ModelHistogram histogramBBlue

Deprecated.

imageB histogram, the Blue channel.

histogramBGreen

ModelHistogram histogramBGreen

Deprecated.

imageB histogram, the Green channel.

histogramBRed

ModelHistogram histogramBRed

Deprecated.

imageB histogram of the Red channel.

histogramGM_ABlue

ModelHistogram histogramGM_ABlue

Deprecated.

imageA histogram of the Blue channel.

histogramGM_AGreen

ModelHistogram histogramGM_AGreen

Deprecated.

imageA histogram of the Green channel.

histogramGM_ARed

ModelHistogram histogramGM_ARed

Deprecated.

imageA histogram of the Red channel.

histogramGM_BBlue

ModelHistogram histogramGM_BBlue

Deprecated.

imageB histogram, the Blue channel.

histogramGM_BGreen

ModelHistogram histogramGM_BGreen

Deprecated.

imageB histogram, the Green channel.

histogramGM_BRed

ModelHistogram histogramGM_BRed

Deprecated.

imageB histogram of the Red channel.

rendererProgressBar

javax.swing.JProgressBar rendererProgressBar

Deprecated.

A reference to the volume renderer frame's progress bar.

RGBTA

ModelRGB RGBTA

Deprecated.

Tagged for deletion - Matt, Ruida, Lee, ModelRGB table for imageA, B.

RGBTA_GM

ModelRGB RGBTA_GM

Deprecated.

Tagged for deletion - Matt, Ruida, Lee, RGB table reference of the image A, B.

RGBTB

ModelRGB RGBTB

Deprecated.

DOCUMENT ME!

RGBTB_GM

ModelRGB RGBTB_GM

Deprecated.

DOCUMENT ME!

toolBar

javax.swing.JToolBar toolBar

Deprecated.

ToolBar that hold the linear, horizontal mode etc.

Class gov.nih.mipav.view.renderer.MouseEventVector extends java.lang.Object implements Serializable

serialVersionUID:

5183229064629196522L

Serialization Methods

readObject

private void readObject(java.io.ObjectInputStream stream)
                 throws java.io.IOException,
                        java.lang.ClassNotFoundException

Called by some native invokeMethod. Provides a way to read this class out as a object stream. First, the size of the vector is read, then each mouseEvent into the vector, then the name, then the view. The view is read in as a String because it is not serializable. The read method corresponds to the write method, below.

Throws:

java.io.IOException - DOCUMENT ME!

java.lang.ClassNotFoundException - DOCUMENT ME!

writeObject

private void writeObject(java.io.ObjectOutputStream stream)
                  throws java.io.IOException

Called by some native invokeMethod. Provides a way to write this class out as a object stream. First, the size of the vector is written, then each mouseEvent in the vector, then the name, then the view. The view is written out as a String because it is not serializable. The write method corresponds to the read method, above.

Throws:

java.io.IOException - DOCUMENT ME!

Serialized Fields

first

boolean first

First time accessed.

mode

int mode

Current mode.

mouseEvents

java.util.Vector mouseEvents

Vector to record mouse events.

name

java.lang.String name

Name of the events.

state

java.lang.Object state

State being recorded.

stateVector

java.util.Vector stateVector

Vector to record state changes.

view

double[] view

Parent frame transform3D view.

Class gov.nih.mipav.view.renderer.SceneState extends java.lang.Object implements Serializable

serialVersionUID:

9166009718509099407L

Serialized Fields

aClipVisible

boolean aClipVisible

Boolean visibility values for x, y, z, arbitrary clipping slider frames.

axisAngle

float axisAngle

Save the current.

axisX

float axisX

Save the current.

axisY

float axisY

Save the current.

axisZ

float axisZ

Save the current.

clipSliceA

int clipSliceA

Clipping slider values for the triplanar clipping slider x, y, z, arbitrary.

clipSliceX

int clipSliceX

Clipping slider values for the triplanar clipping slider x, y, z, arbitrary.

clipSliceXNeg

int clipSliceXNeg

Clipping slider values for the triplanar clipping slider x, y, z negative.

clipSliceY

int clipSliceY

Clipping slider values for the triplanar clipping slider x, y, z, arbitrary.

clipSliceYNeg

int clipSliceYNeg

Clipping slider values for the triplanar clipping slider x, y, z negative.

clipSliceZ

int clipSliceZ

Clipping slider values for the triplanar clipping slider x, y, z, arbitrary.

clipSliceZNeg

int clipSliceZNeg

Clipping slider values for the triplanar clipping slider x, y, z negative.

is6PlaneClipping

boolean is6PlaneClipping

Boolean flag to indicate if the 6 plane clipping mode is active.

isClipArbiPicked

boolean isClipArbiPicked

Boolean flag to indicate if the arbitary clipping mode is active.

isVolOpacityChanged

boolean isVolOpacityChanged

Boolean indicator for volume opacity changed.

isVolumeDisplayMode3D

boolean isVolumeDisplayMode3D

Boolean indicator for the current diaplay mode, volume render mode or slice render mode.

surfaceOpacity

int surfaceOpacity

Surface opacity slider value of the surface dialog.

transform

float[] transform

Current sceneRoot transform.

transformFunc

TransferFunction transformFunc

Currrent tranform function of the volume render look up table.

whichComp

int whichComp

Current active volume opacity control of the volume render.

x

int x

x, y, z triplanar slider values.

xClipVisible

boolean xClipVisible

Boolean visibility values for x, y, z, arbitrary clipping slider frames.

xNegClipVisible

boolean xNegClipVisible

Boolean visibility values for x, y, z negative clipping slider frames.

xOpacity

int xOpacity

x, y, z triplanar opacity slider values.

xVisible

boolean xVisible

Boolean visibility values for x, y, z triplanar.

y

int y

x, y, z triplanar slider values.

yClipVisible

boolean yClipVisible

Boolean visibility values for x, y, z, arbitrary clipping slider frames.

yNegClipVisible

boolean yNegClipVisible

Boolean visibility values for x, y, z negative clipping slider frames.

yOpacity

int yOpacity

x, y, z triplanar opacity slider values.

yVisible

boolean yVisible

Boolean visibility values for x, y, z triplanar.

z

int z

x, y, z triplanar slider values.

zClipVisible

boolean zClipVisible

Boolean visibility values for x, y, z, arbitrary clipping slider frames.

zNegClipVisible

boolean zNegClipVisible

Boolean visibility values for x, y, z negative clipping slider frames.

zOpacity

int zOpacity

x, y, z triplanar opacity slider values.

zVisible

boolean zVisible

Boolean visibility values for x, y, z triplanar.

Class gov.nih.mipav.view.renderer.ViewJComponentVolOpacityBase extends javax.swing.JComponent implements Serializable

serialVersionUID:

826985329858268537L

Serialized Fields

addPointFlag

boolean addPointFlag

DOCUMENT ME!

componentDim

java.awt.Dimension componentDim

The outer dimension of the histogram component we will be drawing.

dim

java.awt.Dimension dim

The histogram image dimension.

histogram

ModelHistogram histogram

The image histogram.

histogramBuffer

int[] histogramBuffer

DOCUMENT ME!

histogramMax

double histogramMax

DOCUMENT ME!

histogramMaxLog

double histogramMaxLog

DOCUMENT ME!

image

ModelImage image

The image whose histo lut we are displaying.

img

java.awt.Image img

DOCUMENT ME!

logFlag

boolean logFlag

Whether to transform the histogram data by log10.

lutIndexBuffer

int[] lutIndexBuffer

DOCUMENT ME!

max

float max

DOCUMENT ME!

min

float min

DOCUMENT ME!

mode

int mode

The current mode of the histogram component.

newPointIndex

int newPointIndex

DOCUMENT ME!

offsetX

int offsetX

DOCUMENT ME!

offsetY

int offsetY

DOCUMENT ME!

parentListener

ViewJComponentVolOpacityListener parentListener

parentPanel

JPanelVolOpacityBase parentPanel

The container of this histogram component.

pixBuffer

int[] pixBuffer

DOCUMENT ME!

range

float range

DOCUMENT ME!

stRange

int stRange

DOCUMENT ME!

tfActiveIndex

int tfActiveIndex

DOCUMENT ME!

transferFunction

TransferFunction transferFunction

DOCUMENT ME!

Class gov.nih.mipav.view.renderer.ViewJComponentVolOpacityRGB extends ViewJComponentVolOpacityBase implements Serializable

serialVersionUID:

1208349901510241151L

Serialized Fields

lutIndexBuffer

int[] lutIndexBuffer

DOCUMENT ME!

Package gov.nih.mipav.view.renderer.flythroughview

Class gov.nih.mipav.view.renderer.flythroughview.JPanelFlythruMove extends JPanelRendererBase implements Serializable

serialVersionUID:

6224214629454958231L

Serialized Fields

annotationNextButton

javax.swing.JButton annotationNextButton

DOCUMENT ME!

annotationPrevButton

javax.swing.JButton annotationPrevButton

DOCUMENT ME!

autoRunButton

javax.swing.JButton autoRunButton

Auto Run Button.

aviPlayButton

javax.swing.JToggleButton aviPlayButton

AVI Recorder Play button.

aviRecordButton

javax.swing.JToggleButton aviRecordButton

AVI Recorder record button.

aviStopButton

javax.swing.JToggleButton aviStopButton

AVI Recorder Stop button.

branchButton

javax.swing.JButton branchButton

DOCUMENT ME!

changedMode

boolean changedMode

flag to indicate current mode being changed.

contButton

javax.swing.JToggleButton contButton

Continue play button.

current

int current

index to the item list.

currEventTime

long currEventTime

Current mouse press event time stamp.

endButton

javax.swing.JButton endButton

DOCUMENT ME!

eventVector

MouseEventVector eventVector

Seqence of mouse events ( press, shift,and release as individual mouse event).

first

boolean first

Flag to indicate first event.

gazeDecreaseButton

javax.swing.JButton gazeDecreaseButton

DOCUMENT ME!

gazeIncrButton

javax.swing.JButton gazeIncrButton

DOCUMENT ME!

homeButton

javax.swing.JButton homeButton

DOCUMENT ME!

isPlaying

boolean isPlaying

Flag to indicating play mouse is running or not.

leftRotateButton

javax.swing.JButton leftRotateButton

DOCUMENT ME!

mediaPlayerButton

javax.swing.JButton mediaPlayerButton

MS media player button to play AVI file.

middleDownButton

javax.swing.JButton middleDownButton

DOCUMENT ME!

middleLeftButton

javax.swing.JButton middleLeftButton

DOCUMENT ME!

middleLeftButtonEmpty

javax.swing.JButton middleLeftButtonEmpty

Empty button group.

middleRightButton

javax.swing.JButton middleRightButton

DOCUMENT ME!

middleUpButton

javax.swing.JButton middleUpButton

DOCUMENT ME!

mode

int mode

Current mode, init to stop.

mouseCount

int mouseCount

Mouse event counter.

mouseEvents

java.util.Vector mouseEvents

Sequence of mouse events( press, shift and release as a whole mouse event).

mousePanel

javax.swing.JPanel mousePanel

Panel holds the mouse move buttons.

moviePanel

javax.swing.JPanel moviePanel

Movie control panel that hold mouse recorder and AVI movie control.

parentScene

FlyThroughRenderInterface parentScene

The parent fly thru render reference.

pauseButton

javax.swing.JToggleButton pauseButton

Pause button.

playButton

javax.swing.JToggleButton playButton

Display button.

playMouse

JPanelFlythruMove.PlayMouse playMouse

Reference to PlayMouse class object.

pressed

boolean pressed

If any of the mouse move button pressed.

prevEventTime

long prevEventTime

Previous mouse press event time stamp.

quickTimeButton

javax.swing.JButton quickTimeButton

Apple quick time player button to play quick time movie.

recordButton

javax.swing.JToggleButton recordButton

Recorder button.

reverseButton

javax.swing.JButton reverseButton

DOCUMENT ME!

rightDownButton

javax.swing.JButton rightDownButton

DOCUMENT ME!

rightLeftButton

javax.swing.JButton rightLeftButton

DOCUMENT ME!

rightRightButton

javax.swing.JButton rightRightButton

DOCUMENT ME!

rightRotateButton

javax.swing.JButton rightRotateButton

DOCUMENT ME!

rightUpButton

javax.swing.JButton rightUpButton

JButton group.

scroller

javax.swing.JScrollPane scroller

Scroll pane.

scrollPanel

JPanelFlythruMove.DrawingPanel scrollPanel

Scroll panel that holding the all the control components.

stepButton

javax.swing.JToggleButton stepButton

Next step button.

stepDecreaseButton

javax.swing.JButton stepDecreaseButton

DOCUMENT ME!

stepIncrButton

javax.swing.JButton stepIncrButton

DOCUMENT ME!

stopButton

javax.swing.JToggleButton stopButton

Stop button.

time

long time

Time to wait for the next mouse event.

toolBar

javax.swing.JToolBar toolBar

Tool bar of the mouse recorder.

Package gov.nih.mipav.view.renderer.J3D

Class gov.nih.mipav.view.renderer.J3D.JPanelCamera extends JPanelRendererJ3D implements Serializable

serialVersionUID:

7970872222123739616L

Serialized Fields

buttonPanel

javax.swing.JPanel buttonPanel

Button panel.

degreeLabel

javax.swing.JLabel degreeLabel

Label of the rotation degree.

degreeText

javax.swing.JTextField degreeText

Textfield of the roation degree.

flyButton

javax.swing.JRadioButton flyButton

Raido Button group.

labelX

javax.swing.JLabel labelX

X, Y, Z labels inside the rotation panel.

labelY

javax.swing.JLabel labelY

X, Y, Z labels inside the rotation panel.

labelZ

javax.swing.JLabel labelZ

X, Y, Z labels inside the rotation panel.

leftDownButton

javax.swing.JButton leftDownButton

Left panel mouse button down.

leftDownButtonEmpty

javax.swing.JButton leftDownButtonEmpty

Left panel empty button.

leftLeftButton

javax.swing.JButton leftLeftButton

Left panel mouse button left.

leftRightButton

javax.swing.JButton leftRightButton

Left panel mouse button right.

leftUpButton

javax.swing.JButton leftUpButton

Left panel mouse button up.

leftUpButtonEmpty

javax.swing.JButton leftUpButtonEmpty

Empty button group.

middleDownButton

javax.swing.JButton middleDownButton

Middle panel down button.

middleLeftButton

javax.swing.JButton middleLeftButton

Middel panel left button.

middleLeftButtonEmpty

javax.swing.JButton middleLeftButtonEmpty

Middle panel empty button.

middleRightButton

javax.swing.JButton middleRightButton

Middle panel right button.

middleRightButtonEmpty

javax.swing.JButton middleRightButtonEmpty

Middle panel right button empty.

middleUpButton

javax.swing.JButton middleUpButton

Middel panel up button.

mode

int mode

Current mode std or fly.

mousePanel

javax.swing.JPanel mousePanel

Panel holds the mouse move buttons.

parentScene

RenderViewBase parentScene

Parent frame.

pressed

boolean pressed

If any of the mouse move button pressed.

radioX

javax.swing.JRadioButton radioX

Radio button of the X_AXIS mode option.

radioY

javax.swing.JRadioButton radioY

Radio button of the Y_AXIS mode option.

radioZ

javax.swing.JRadioButton radioZ

Radio button of the Z_AXIS mode option.

resetButton

javax.swing.JButton resetButton

Reset button.

rightDownButton

javax.swing.JButton rightDownButton

Right panel down button.

rightLeftButton

javax.swing.JButton rightLeftButton

Right panel left button.

rightRightButton

javax.swing.JButton rightRightButton

Right panel right button.

rightUpButton

javax.swing.JButton rightUpButton

Right panel up button.

scroller

javax.swing.JScrollPane scroller

Scroll pane.

scrollPanel

JPanelCamera.DrawingPanel scrollPanel

Scroll panel that holding the all the control components.

snapButton

javax.swing.JButton snapButton

Camera button.

startButton

javax.swing.JButton startButton

Start button to auto snapshooting.

stdButton

javax.swing.JRadioButton stdButton

Auto snapshot button.

time

long time

Time to wait for the next mouse event.

Class gov.nih.mipav.view.renderer.J3D.JPanelClip extends JPanelRendererJ3D implements Serializable

serialVersionUID:

-3342110506544352170L

Serialized Fields

AclipPlanePts

javax.vecmath.Vector4f[] AclipPlanePts

Arbitrary clipping plane four corners points.

arbiMouseRotateBehavior

com.sun.j3d.utils.behaviors.mouse.MouseRotate arbiMouseRotateBehavior

Mouse Rotate behavior of the arbitrary clipping plane.

arbiTG

javax.media.j3d.TransformGroup arbiTG

Tranform group for arbitrary clipping plane.

arbiTrans3d

javax.media.j3d.Transform3D arbiTrans3d

Transform3D group for clipSliceA frame box and ModelClip arbitrary clipping plane.

arbitrary_SG

javax.media.j3d.Switch arbitrary_SG

Arbitrary clipping plane switch group.

aSlice

int aSlice

Which arbitray clipping slice is currently displayed.

axisAngle

float axisAngle

Value attribute for the roation axis.

axisX

float axisX

Value attribute for the roation axis.

axisY

float axisY

Value attribute for the roation axis.

axisZ

float axisZ

Value attribute for the roation axis.

behaviorBG

javax.media.j3d.BranchGroup behaviorBG

The BranchGroup to which the arbitrary behaviors are attached and rotate.

boundingCheckA

javax.swing.JCheckBox boundingCheckA

Arbitrary and static clipping plane check box.

boundingCheckStatic

javax.swing.JCheckBox boundingCheckStatic

Arbitrary and static clipping plane check box.

boundingCheckStaticInv

javax.swing.JCheckBox boundingCheckStaticInv

Arbitrary and static clipping plane check box.

boundingCheckX

javax.swing.JCheckBox boundingCheckX

Check box to turn the clipping plane frame on and off.

boundingCheckXInv

javax.swing.JCheckBox boundingCheckXInv

X,Y,Z inverse clipping plane check box.

boundingCheckY

javax.swing.JCheckBox boundingCheckY

Check box to turn the clipping plane frame on and off.

boundingCheckYInv

javax.swing.JCheckBox boundingCheckYInv

X,Y,Z inverse clipping plane check box.

boundingCheckZ

javax.swing.JCheckBox boundingCheckZ

Check box to turn the clipping plane frame on and off.

boundingCheckZInv

javax.swing.JCheckBox boundingCheckZInv

X,Y,Z inverse clipping plane check box.

boxA

javax.swing.JCheckBox boxA

Static and static inverse, arbitrary clipping plane check box.

boxStatic

javax.swing.JCheckBox boxStatic

Static and static inverse, arbitrary clipping plane check box.

boxStaticInv

javax.swing.JCheckBox boxStaticInv

Static and static inverse, arbitrary clipping plane check box.

boxX

javax.swing.JCheckBox boxX

Check boxes that turn the image plane and the sliders on and off.

boxXInv

javax.swing.JCheckBox boxXInv

Check boxes that turn the image plane and the sliders on and off.

boxY

javax.swing.JCheckBox boxY

Check boxes that turn the image plane and the sliders on and off.

boxYInv

javax.swing.JCheckBox boxYInv

Check boxes that turn the image plane and the sliders on and off.

boxZ

javax.swing.JCheckBox boxZ

Check boxes that turn the image plane and the sliders on and off.

boxZInv

javax.swing.JCheckBox boxZInv

Check boxes that turn the image plane and the sliders on and off.

clipCount

int clipCount

Counters show the event number in the mouse recorder.

clipEvents

MouseEventVector clipEvents

Mouse event vector that record the clipping plane sliders changes.

clipSliceA

ViewJComponentBoxSlice clipSliceA

Arbitrary clipping plane yellow boundary indicator box.

clipSliceA_BG

javax.media.j3d.BranchGroup clipSliceA_BG

Arbitrary clipping branch group.

clipSliceAIndicator

ViewJComponentBoxSlice clipSliceAIndicator

Arbitrary clipping plane yellow boundary indicator box.

clipSliceAIndicator_BG

javax.media.j3d.BranchGroup clipSliceAIndicator_BG

Arbitrary clipping branch group.

clipSliceStatic

ViewJComponentBoxSlice clipSliceStatic

Static clipping plane boundary box.

clipSliceStaticInv

ViewJComponentBoxSlice clipSliceStaticInv

Static clipping plane boundary box.

clipSliceX

ViewJComponentBoxSlice clipSliceX

The bounding box frame around the clipping planes.

clipSliceXInv

ViewJComponentBoxSlice clipSliceXInv

X, Y, Z inverse clipping slice boundary box.

clipSliceY

ViewJComponentBoxSlice clipSliceY

The bounding box frame around the clipping planes.

clipSliceYInv

ViewJComponentBoxSlice clipSliceYInv

X, Y, Z inverse clipping slice boundary box.

clipSliceZ

ViewJComponentBoxSlice clipSliceZ

The bounding box frame around the clipping planes.

clipSliceZInv

ViewJComponentBoxSlice clipSliceZInv

X, Y, Z inverse clipping slice boundary box.

clipSliderStatic

javax.swing.JSlider clipSliderStatic

Static, static inverse and arbitrary clipping plane boundary box.

clipSliderStaticInv

javax.swing.JSlider clipSliderStaticInv

Static, static inverse and arbitrary clipping plane boundary box.

clipSliderX

javax.swing.JSlider clipSliderX

Sliders for the image planes.

clipSliderY

javax.swing.JSlider clipSliderY

Sliders for the image planes.

clipSliderZ

javax.swing.JSlider clipSliderZ

Sliders for the image planes.

colorButtonA

javax.swing.JButton colorButtonA

Color button for the arbitrary clipping plane frame.

colorButtonStatic

javax.swing.JButton colorButtonStatic

Color button for the static clipping plane frame.

colorButtonStaticInv

javax.swing.JButton colorButtonStaticInv

Color button for the static clipping plane frame.

colorButtonX

javax.swing.JButton colorButtonX

Color button for X clipping plane frame.

colorButtonXInv

javax.swing.JButton colorButtonXInv

Color button for X clipping plane frame.

colorButtonY

javax.swing.JButton colorButtonY

Color button for Y clipping plane frame.

colorButtonYInv

javax.swing.JButton colorButtonYInv

Color button for Y clipping plane frame.

colorButtonZ

javax.swing.JButton colorButtonZ

Color button for Z clipping plane frame.

colorButtonZInv

javax.swing.JButton colorButtonZInv

Color button for Z clipping plane frame.

colorChooser

ViewJColorChooser colorChooser

Color chooser dialog.

enables

boolean[] enables

Enable flags for the 6 ( X, Y, Z and inverse ) clipping planes.

enablesArbi

boolean[] enablesArbi

Enable flags for the arbitrary clipping planes.

enablesStatic

boolean[] enablesStatic

Enable flags for the static clipping planes.

eqnA

javax.vecmath.Vector4d eqnA

Vector4D clipping equation of each clipping plane.

eqnPlanes

javax.vecmath.Vector4d[] eqnPlanes

Vetor holding the clipping plane equations.

eqnPlanesArbi

javax.vecmath.Vector4d[] eqnPlanesArbi

Vetor holding the clipping plane equations.

eqnPlanesStatic

javax.vecmath.Vector4d[] eqnPlanesStatic

Vetor holding the clipping plane equations.

eqnX

javax.vecmath.Vector4d eqnX

Vector4D clipping equation of each clipping plane.

eqnXInv

javax.vecmath.Vector4d eqnXInv

Vector4D clipping equation of each clipping plane.

eqnY

javax.vecmath.Vector4d eqnY

Vector4D clipping equation of each clipping plane.

eqnYInv

javax.vecmath.Vector4d eqnYInv

Vector4D clipping equation of each clipping plane.

eqnZ

javax.vecmath.Vector4d eqnZ

Vector4D clipping equation of each clipping plane.

eqnZInv

javax.vecmath.Vector4d eqnZInv

Vector4D clipping equation of each clipping plane.

extractButtonA

javax.swing.JButton extractButtonA

Extract arbitrary cliping plane button.

extractButtonS

javax.swing.JButton extractButtonS

Extract static eye cliping plane button.

intersectionPts

javax.vecmath.Point3f[] intersectionPts

intersectioin points coordinate.

iNumLights

int iNumLights

12 possible intersection points.

is6PlaneClipping

boolean is6PlaneClipping

Flag to indicate 6 plane clipping is active.

isClipArbiPicked

boolean isClipArbiPicked

Arbitrary clipping plane frame being picked or not.

isFirstTimeBuildTree

boolean isFirstTimeBuildTree

First time to build the clipping plane tree.

isStateChangedEvent

boolean isStateChangedEvent

Flag to indicate StateChangeEvent invoked.

isTransformChanged

boolean isTransformChanged

Flag to indicate tranformChanged event invoked.

labelA

javax.swing.JLabel labelA

Static cliiping slider labels.

labelAEnd

javax.swing.JLabel labelAEnd

Arbitrary clipping slider labels.

labelAMid

javax.swing.JLabel labelAMid

Arbitrary clipping slider labels.

labelAStart

javax.swing.JLabel labelAStart

Arbitrary clipping slider labels.

labelStatic

javax.swing.JLabel labelStatic

Static cliiping slider labels.

labelStaticEnd

javax.swing.JLabel labelStaticEnd

Static clipping plane labels.

labelStaticInv

javax.swing.JLabel labelStaticInv

Static cliiping slider labels.

labelStaticInvEnd

javax.swing.JLabel labelStaticInvEnd

Static inverse clipping plane labels.

labelStaticInvMid

javax.swing.JLabel labelStaticInvMid

Static inverse clipping plane labels.

labelStaticInvStart

javax.swing.JLabel labelStaticInvStart

Static inverse clipping plane labels.

labelStaticMid

javax.swing.JLabel labelStaticMid

Static clipping plane labels.

labelStaticStart

javax.swing.JLabel labelStaticStart

Static clipping plane labels.

labelX

javax.swing.JLabel labelX

Sliders labels.

labelXEnd

javax.swing.JLabel labelXEnd

Slider tick labels.

labelXEndInv

javax.swing.JLabel labelXEndInv

X clipping slider labels.

labelXInv

javax.swing.JLabel labelXInv

Sliders labels.

labelXMid

javax.swing.JLabel labelXMid

Slider tick labels.

labelXMidInv

javax.swing.JLabel labelXMidInv

X clipping slider labels.

labelXStart

javax.swing.JLabel labelXStart

Slider tick labels.

labelXStartInv

javax.swing.JLabel labelXStartInv

X clipping slider labels.

labelY

javax.swing.JLabel labelY

Sliders labels.

labelYEnd

javax.swing.JLabel labelYEnd

Y clipping slider labels.

labelYEndInv

javax.swing.JLabel labelYEndInv

Y inverse clipping slider labels.

labelYInv

javax.swing.JLabel labelYInv

Sliders labels.

labelYMid

javax.swing.JLabel labelYMid

Y clipping slider labels.

labelYMidInv

javax.swing.JLabel labelYMidInv

Y inverse clipping slider labels.

labelYStart

javax.swing.JLabel labelYStart

Y clipping slider labels.

labelYStartInv

javax.swing.JLabel labelYStartInv

Y inverse clipping slider labels.

labelZ

javax.swing.JLabel labelZ

Sliders labels.

labelZEnd

javax.swing.JLabel labelZEnd

Z clipping slider labels.

labelZEndInv

javax.swing.JLabel labelZEndInv

Z clipping slider labels.

labelZInv

javax.swing.JLabel labelZInv

Sliders labels.

labelZMid

javax.swing.JLabel labelZMid

Z clipping slider labels.

labelZMidInv

javax.swing.JLabel labelZMidInv

Z clipping slider labels.

labelZStart

javax.swing.JLabel labelZStart

Z clipping slider labels.

labelZStartInv

javax.swing.JLabel labelZStartInv

Z clipping slider labels.

m_aiImageA_backup

int[] m_aiImageA_backup

Backup of the data for undo:.

m_aiImageB_backup

int[] m_aiImageB_backup

ImageB backup buffer.

m_akLightBG

javax.media.j3d.BranchGroup[] m_akLightBG

Parent of each light bulb.

m_akLightMaterials

javax.media.j3d.Material[] m_akLightMaterials

Material properties for each light bulb.

m_akLightSpheres

com.sun.j3d.utils.geometry.Sphere[] m_akLightSpheres

Shapes representing light bulbs.

m_akLightTransformGroup

javax.media.j3d.TransformGroup[] m_akLightTransformGroup

Parent transform group.

m_kLightRoot

javax.media.j3d.BranchGroup m_kLightRoot

Parent of all the light bulbs.

maxBox

float maxBox

The largest of xBox,yBox,and zBox.

maxDim

int maxDim

The largest dimension of xDim, yDim and zDim.

mc

javax.media.j3d.ModelClip mc

Global model clip object.

mcArbi

javax.media.j3d.ModelClip mcArbi

Global model clip object.

mcArbiBG

javax.media.j3d.BranchGroup mcArbiBG

Branch group of the arbitrary clipping plane.

mcArbiExtendBG

javax.media.j3d.BranchGroup mcArbiExtendBG

Branch group of the arbitrary clipping plane.

mcArbiTG

javax.media.j3d.TransformGroup mcArbiTG

ModelClip arbitrary TransformGroup.

mcArbiTrans3D

javax.media.j3d.Transform3D mcArbiTrans3D

Transform3D group for clipSliceA frame box and ModelClip arbitrary clipping plane.

mcBG

javax.media.j3d.BranchGroup mcBG

Branch group of the 6 clipping planes.

mcExtendBG

javax.media.j3d.BranchGroup mcExtendBG

Branch group of the arbitrary clipping plane.

mcStatic

javax.media.j3d.ModelClip mcStatic

Global model clip object.

mcStaticBG

javax.media.j3d.BranchGroup mcStaticBG

Branch group of the static clipping plane.

objClipSliceA_BG

javax.media.j3d.BranchGroup objClipSliceA_BG

Arbitrary clipping branch group.

objClipSlices_BG

javax.media.j3d.BranchGroup objClipSlices_BG

root of all the clipping slices branch group.

objClipSliceStatic_BG

javax.media.j3d.BranchGroup objClipSliceStatic_BG

Static clipping branch group.

objClipSliceStaticInv_BG

javax.media.j3d.BranchGroup objClipSliceStaticInv_BG

Static clipping branch group.

objClipSliceX_BG

javax.media.j3d.BranchGroup objClipSliceX_BG

Parent for each individual clip slices branch group, childen of objClipSlices_BG.

objClipSliceXInv_BG

javax.media.j3d.BranchGroup objClipSliceXInv_BG

Parent of the -x, -y, -z clip slices branchgroup.

objClipSliceY_BG

javax.media.j3d.BranchGroup objClipSliceY_BG

Parent for each individual clip slices branch group, childen of objClipSlices_BG.

objClipSliceYInv_BG

javax.media.j3d.BranchGroup objClipSliceYInv_BG

Parent of the -x, -y, -z clip slices branchgroup.

objClipSliceZ_BG

javax.media.j3d.BranchGroup objClipSliceZ_BG

Parent for each individual clip slices branch group, childen of objClipSlices_BG.

objClipSliceZInv_BG

javax.media.j3d.BranchGroup objClipSliceZInv_BG

Parent of the -x, -y, -z clip slices branchgroup.

panelA

javax.swing.JPanel panelA

Arbitrary and static control panels.

panelS

javax.swing.JPanel panelS

Arbitrary and static control panels.

panelSInv

javax.swing.JPanel panelSInv

Arbitrary and static control panels.

panelX

javax.swing.JPanel panelX

Declare each clipping plane control panel.

panelXInv

javax.swing.JPanel panelXInv

Declare each clipping plane control panel.

panelY

javax.swing.JPanel panelY

Declare each clipping plane control panel.

panelYInv

javax.swing.JPanel panelYInv

Declare each clipping plane control panel.

panelZ

javax.swing.JPanel panelZ

Declare each clipping plane control panel.

panelZInv

javax.swing.JPanel panelZInv

Declare each clipping plane control panel.

radicalRatio

float radicalRatio

Arbitrary clipping plane expanding ratio.

recordEventName

boolean recordEventName

Flag indicates whether to record the clip event name.

rotationAxis

javax.vecmath.AxisAngle4f rotationAxis

Rotation axis to sync up the action for both ModelClip arbitrary clipping plane and the clipSliceA frame box transformGroup.

rotationCount

int rotationCount

Counters show the event number in the mouse recorder.

rotationEvent

MouseEventVector rotationEvent

mouse rotation event vector for the arbitrary clipping plane.

scroller

javax.swing.JScrollPane scroller

The scroll pane holding the panel content. Used when the screen is small.

scrollPanel

JPanelClip.DrawingPanel scrollPanel

Scroll panel that holding all the control components.

sliderA

javax.swing.JSlider sliderA

Static, static inverse and arbitrary clipping plane boundary box.

sliderXInv

javax.swing.JSlider sliderXInv

Sliders for the image planes.

sliderYInv

javax.swing.JSlider sliderYInv

Sliders for the image planes.

sliderZInv

javax.swing.JSlider sliderZInv

Sliders for the image planes.

sSlice

int sSlice

Record the current static clipping slice number.

sSliceInv

int sSliceInv

Record the current static clipping slice number.

tabbedPane

javax.swing.JTabbedPane tabbedPane

Tabbed Panel that hold the each clipping planes control box.

textA

javax.swing.JTextField textA

Static and arbitrary text field.

textStatic

javax.swing.JTextField textStatic

Static and arbitrary text field.

textStaticInv

javax.swing.JTextField textStaticInv

Static and arbitrary text field.

textX

javax.swing.JTextField textX

Text fields that display the slice number when slider moves.

textXInv

javax.swing.JTextField textXInv

X, Y, Z inverse text field.

textY

javax.swing.JTextField textY

Text fields that display the slice number when slider moves.

textYInv

javax.swing.JTextField textYInv

X, Y, Z inverse text field.

textZ

javax.swing.JTextField textZ

Text fields that display the slice number when slider moves.

textZInv

javax.swing.JTextField textZInv

X, Y, Z inverse text field.

xBox

float xBox

xBox, yBox, zBox from the parent scene.

xDim

int xDim

Image X, Y, Z dimension.

xSlice

int xSlice

Which slice is currently displayed in the ZY plane.

xSliceInv

int xSliceInv

Which slice is currently displayed in the ZY plane.

yBox

float yBox

xBox, yBox, zBox from the parent scene.

yDim

int yDim

Image X, Y, Z dimension.

ySlice

int ySlice

Which slice is currently displayed in the XZ plane.

ySliceInv

int ySliceInv

Which slice is currently displayed in the XZ plane.

zBox

float zBox

xBox, yBox, zBox from the parent scene.

zDim

int zDim

Image X, Y, Z dimension.

zSlice

int zSlice

Which slice is currently displayed in the XY plane.

zSliceInv

int zSliceInv

Which slice is currently displayed in the XY plane.

Class gov.nih.mipav.view.renderer.J3D.JPanelLights extends JPanelRendererJ3D implements Serializable

serialVersionUID:

8549491288085975699L

Serialized Fields

ambientRadio

javax.swing.JRadioButton ambientRadio

Radio button for different light type.

bNeedsRedraw

boolean bNeedsRedraw

Flag is set if one of the controls changed a value and the renderering needs to be redrawn when the mouse is released.

checkBoxShowLight

javax.swing.JCheckBox checkBoxShowLight

Check box to show the light bulb or not.

colorButton

javax.swing.JButton colorButton

Color button, checkBox On/Off.

colorChooser

ViewJColorChooser colorChooser

Color choose dialog reference.

colorLabel

javax.swing.JLabel colorLabel

Color label.

controlPanel

javax.swing.JPanel controlPanel

Control panel.

controlPanelBox

javax.swing.Box controlPanelBox

Control panel box that hold the control panel.

directionalRadio

javax.swing.JRadioButton directionalRadio

Directional light radio botton.

drawPanel

javax.swing.JPanel drawPanel

Scroll panel reference.

intensitySlider

javax.swing.JSlider intensitySlider

Intensity slider.

iSelect

int iSelect

index of currently selected one.

labelIntensity

javax.swing.JLabel labelIntensity

Light intensity label.

labelIntensityBegin

javax.swing.JLabel labelIntensityBegin

Light intensity label begin.

labelIntensityEnd

javax.swing.JLabel labelIntensityEnd

Light intensity label end.

labelIntensityMid

javax.swing.JLabel labelIntensityMid

Light intensity label middle.

labelShininess

javax.swing.JLabel labelShininess

Light shinness label.

labelShininessBegin

javax.swing.JLabel labelShininessBegin

Shinness label begin.

labelShininessEnd

javax.swing.JLabel labelShininessEnd

Shinness label end.

labelShininessMid

javax.swing.JLabel labelShininessMid

Shinness lable middle.

list

javax.swing.JList list

List of lights.

m_aiLightScale

int[] m_aiLightScale

Light scale factor array.

m_akLights

GeneralLight[] m_akLights

The structure for the light bulbs.

m_akModelLights

GeneralLight[] m_akModelLights

General light array.

m_akSoftwareLightsModel

SoftwareLight[] m_akSoftwareLightsModel

Soft light array.

m_akSoftwareLightsWorld

SoftwareLight[] m_akSoftwareLightsWorld

Lighting objects needed for software rendering.

m_akWorldLights

GeneralLight[] m_akWorldLights

World general light array.

m_kGPUVolumeRender

VolumeTriPlanarRender m_kGPUVolumeRender

m_kLabelPosX

javax.swing.JLabel m_kLabelPosX

Label for slider X position.

m_kLabelPosY

javax.swing.JLabel m_kLabelPosY

Label for slider Y position.

m_kLabelPosZ

javax.swing.JLabel m_kLabelPosZ

Label for slider Z position.

m_kLabelTrgX

javax.swing.JLabel m_kLabelTrgX

Label for X light target position.

m_kLabelTrgY

javax.swing.JLabel m_kLabelTrgY

Label for Y light target position.

m_kLabelTrgZ

javax.swing.JLabel m_kLabelTrgZ

Label for Z light target position.

m_kPanelSurface

JPanelSurface m_kPanelSurface

surface panel reference.

m_kRenderSurface

SurfaceRender m_kRenderSurface

Parent render frame reference.

m_kSliderPosX

javax.swing.JSlider m_kSliderPosX

Light x position slider.

m_kSliderPosY

javax.swing.JSlider m_kSliderPosY

Light y position slider.

m_kSliderPosZ

javax.swing.JSlider m_kSliderPosZ

Light z position slider.

m_kSliderTrgX

javax.swing.JSlider m_kSliderTrgX

Light x target position slider.

m_kSliderTrgY

javax.swing.JSlider m_kSliderTrgY

Light y target position slider.

m_kSliderTrgZ

javax.swing.JSlider m_kSliderTrgZ

Light z target position slider.

m_kTextPosX

javax.swing.JTextField m_kTextPosX

X position text field.

m_kTextPosY

javax.swing.JTextField m_kTextPosY

Y position text field.

m_kTextPosZ

javax.swing.JTextField m_kTextPosZ

Z position text field.

m_kTextTrgX

javax.swing.JTextField m_kTextTrgX

X target position text field.

m_kTextTrgY

javax.swing.JTextField m_kTextTrgY

Y target position text field.

m_kTextTrgZ

javax.swing.JTextField m_kTextTrgZ

Z target position text field.

maxBox

float maxBox

x, y, z box size.

onOffCheckBox

javax.swing.JCheckBox onOffCheckBox

Light turn on/off check box.

onOffLabel

javax.swing.JLabel onOffLabel

Light turn on/off label.

pointRadio

javax.swing.JRadioButton pointRadio

Point light radio button.

scroller

javax.swing.JScrollPane scroller

Scroll pane.

scrollPanel

javax.swing.JPanel scrollPanel

Scroll the control panel when the frame changes size.

shininessPanel

javax.swing.JPanel shininessPanel

Shininess panel.

shininessSlider

javax.swing.JSlider shininessSlider

Shininess slider.

spotRadio

javax.swing.JRadioButton spotRadio

Spot light radio button.

textIntensity

javax.swing.JTextField textIntensity

Light intensity textfield.

textShininess

javax.swing.JTextField textShininess

Light shinness textfield.

xBox

float xBox

x, y, z box size.

yBox

float yBox

x, y, z box size.

zBox

float zBox

x, y, z box size.

Class gov.nih.mipav.view.renderer.J3D.JPanelRendererJ3D extends JPanelRendererBase implements Serializable

Serialized Fields

rayBasedRender

VolumeRenderer rayBasedRender

Raycast based renderer reference, raycast renderer or shear warp renderer.

renderBase

RenderViewBase renderBase

Render base.

Class gov.nih.mipav.view.renderer.J3D.JPanelSculptor extends JPanelRendererJ3D implements Serializable

serialVersionUID:

4235930260988710821L

Serialized Fields

lineButton

javax.swing.JToggleButton lineButton

Line shape button.

m_iSculptHeight

int m_iSculptHeight

DOCUMENT ME!

m_iSculptWidth

int m_iSculptWidth

Window information for Sculpting:.

m_kApplySculptButton

javax.swing.JButton m_kApplySculptButton

Button to apply sculpt region to the volume.

m_kClearDrawOutlineButton

javax.swing.JButton m_kClearDrawOutlineButton

Button for clearing the sculpt region.

m_kDrawOutlineButton

javax.swing.JToggleButton m_kDrawOutlineButton

Toggle button is down while the mouse is used to draw the sculpt outline.

m_kInvertOutlineButton

javax.swing.JButton m_kInvertOutlineButton

Button for inverting the sculpt region.

m_kSaveSculptButton

javax.swing.JButton m_kSaveSculptButton

Button to save the sculpt image.

m_kTextureSculptor

TextureSculptor m_kTextureSculptor

DOCUMENT ME!

m_kUndoSculptButton

javax.swing.JButton m_kUndoSculptButton

Button to undo the sculpt and restor the original volume.

m_kVolumeSculptor

VolumeSculptor m_kVolumeSculptor

Sculptor object enables, draws and sculpts the volume based on the outline region drawn on screen. Handles drawing the sculpt region.

mainPanel

javax.swing.JPanel mainPanel

Control panel for volume sculpting.

rectButton

javax.swing.JToggleButton rectButton

Rectangle shape button.

scroller

javax.swing.JScrollPane scroller

The scroll pane holding the panel content. Useful when the screen is small.

scrollPanel

JPanelSculptor.DrawingPanel scrollPanel

Scroll panel that holding the all the control components.

surRender

SurfaceRender surRender

SurfaceRender reference.

toolbarBuilder

ViewToolBarBuilder toolbarBuilder

Toolbar builder reference.

Class gov.nih.mipav.view.renderer.J3D.JPanelVolOpacity extends JPanelVolOpacityBase implements Serializable

serialVersionUID:

-2618795264166878795L

Serialized Fields

histogramA

ModelHistogram histogramA

Deprecated.

Histogram reference for image A.

histogramB

ModelHistogram histogramB

Deprecated.

Histogram reference for image B.

histogramGM_A

ModelHistogram histogramGM_A

Deprecated.

Histogram reference for imageA GM.

histogramGM_B

ModelHistogram histogramGM_B

Deprecated.

Histogram reference for imageB GM.

rendererProgressBar

javax.swing.JProgressBar rendererProgressBar

Deprecated.

A reference to the volume renderer frame's progress bar.

Class gov.nih.mipav.view.renderer.J3D.JPanelVolOpacityBase extends JPanelRendererJ3D implements Serializable

serialVersionUID:

-5320201609864903620L

Serialized Fields

blendSlider

javax.swing.JSlider blendSlider

Deprecated.

Opacity slider of texture 3D volume opacity changes.

componentOpacityA

ViewJComponentVolOpacityBase componentOpacityA

Deprecated.

Reference to compoment opacity control A.

componentOpacityB

ViewJComponentVolOpacityBase componentOpacityB

Deprecated.

Reference to compoment opacity control B.

componentOpacityGM_A

ViewJComponentVolOpacityBase componentOpacityGM_A

Deprecated.

Reference to compoment opacity control A GM Rescale.

componentOpacityGM_B

ViewJComponentVolOpacityBase componentOpacityGM_B

Deprecated.

Reference to compoment opacity control B GM Rescale.

GMCheckBox

javax.swing.JCheckBox GMCheckBox

Deprecated.

Gradient Magnitude Check box of the grey scale image.

gradMagRescale_A

ModelImage gradMagRescale_A

Deprecated.

Model image of the gradient magnitude of image A rescaled to have value in the range [0:255].

gradMagRescale_B

ModelImage gradMagRescale_B

Deprecated.

Model image of the gradient magnitude of image B rescaled to have value in the range [0:255].

imageA

ModelImage imageA

Deprecated.

Model image A.

imageB

ModelImage imageB

Deprecated.

Model image B.

labelsTable

java.util.Hashtable labelsTable

Deprecated.

Historgram dialog slider labels of the imageA, B and GM imageA, B.

labelsTableB

java.util.Hashtable labelsTableB

Deprecated.

Historgram dialog slider labels of the imageA, B and GM imageA, B.

labelsTableGM_A

java.util.Hashtable labelsTableGM_A

Deprecated.

Historgram dialog slider labels of the imageA, B and GM imageA, B.

labelsTableGM_B

java.util.Hashtable labelsTableGM_B

Deprecated.

Historgram dialog slider labels of the imageA, B and GM imageA, B.

m_kVolumeViewer

VolumeTriPlanarInterface m_kVolumeViewer

Deprecated.

Render base.

middleLabelValueA

float middleLabelValueA

Deprecated.

DOCUMENT ME!

middleLabelValueB

float middleLabelValueB

Deprecated.

DOCUMENT ME!

middleLabelValueGM_A

float middleLabelValueGM_A

Deprecated.

DOCUMENT ME!

middleLabelValueGM_B

float middleLabelValueGM_B

Deprecated.

DOCUMENT ME!

mouseSlider

javax.swing.JSlider mouseSlider

Deprecated.

DOCUMENT ME!

mouseSliderB

javax.swing.JSlider mouseSliderB

Deprecated.

DOCUMENT ME!

mouseSliderGM_A

javax.swing.JSlider mouseSliderGM_A

Deprecated.

DOCUMENT ME!

mouseSliderGM_B

javax.swing.JSlider mouseSliderGM_B

Deprecated.

DOCUMENT ME!

opacitySliderLabelsA

javax.swing.JLabel[] opacitySliderLabelsA

Deprecated.

The labels below the opacity slider.

opacitySliderLabelsB

javax.swing.JLabel[] opacitySliderLabelsB

Deprecated.

The labels below the opacity slider.

opacitySliderLabelsGM_A

javax.swing.JLabel[] opacitySliderLabelsGM_A

Deprecated.

DOCUMENT ME!

opacitySliderLabelsGM_B

javax.swing.JLabel[] opacitySliderLabelsGM_B

Deprecated.

DOCUMENT ME!

panelOpacityA

javax.swing.JPanel panelOpacityA

Deprecated.

Panels that hold the the control components (opacity maps).

panelOpacityB

javax.swing.JPanel panelOpacityB

Deprecated.

DOCUMENT ME!

panelOpacityGM_A

javax.swing.JPanel panelOpacityGM_A

Deprecated.

DOCUMENT ME!

panelOpacityGM_B

javax.swing.JPanel panelOpacityGM_B

Deprecated.

DOCUMENT ME!

rangeText

javax.swing.JTextField rangeText

Deprecated.

X range text field in the imageA, B histogram dialog.

rangeTextB

javax.swing.JTextField rangeTextB

Deprecated.

X range text field in the imageA, B histogram dialog.

rangeTextGM_A

javax.swing.JTextField rangeTextGM_A

Deprecated.

X range text field in the Gradient Magnitude imageA, B histogram dialog.

rangeTextGM_B

javax.swing.JTextField rangeTextGM_B

Deprecated.

X range text field in the Gradient Magnitude imageA, B histogram dialog.

scaleRangeA

float scaleRangeA

Deprecated.

Scale range value according to the image min and max.

scaleRangeB

float scaleRangeB

Deprecated.

Scale range value according to the image min and max.

scaleRangeGM_A

float scaleRangeGM_A

Deprecated.

Scale range value according to the image min and max.

scaleRangeGM_B

float scaleRangeGM_B

Deprecated.

Scale range value according to the image min and max.

tabbedPane

javax.swing.JTabbedPane tabbedPane

Deprecated.

Tabbed pane that contains the list of opacity functions.

xRangeTextA

javax.swing.JTextField xRangeTextA

Deprecated.

X range text field in the imageA, B and GM image A, B histogram dialog. Following text fields are used by the tri-planar volume view.

xRangeTextB

javax.swing.JTextField xRangeTextB

Deprecated.

X range text field in the imageA, B and GM image A, B histogram dialog. Following text fields are used by the tri-planar volume view.

xRangeTextGM_A

javax.swing.JTextField xRangeTextGM_A

Deprecated.

X range text field in the imageA, B and GM image A, B histogram dialog. Following text fields are used by the tri-planar volume view.

xRangeTextGM_B

javax.swing.JTextField xRangeTextGM_B

Deprecated.

X range text field in the imageA, B and GM image A, B histogram dialog. Following text fields are used by the tri-planar volume view.

yRangeTextA

javax.swing.JTextField yRangeTextA

Deprecated.

Y range text field in the imageA, B and GM image A, B histogram dialog. Following text fields are used by the tri-planar volume view.

yRangeTextB

javax.swing.JTextField yRangeTextB

Deprecated.

Y range text field in the imageA, B and GM image A, B histogram dialog. Following text fields are used by the tri-planar volume view.

yRangeTextGM_A

javax.swing.JTextField yRangeTextGM_A

Deprecated.

Y range text field in the imageA, B and GM image A, B histogram dialog. Following text fields are used by the tri-planar volume view.

yRangeTextGM_B

javax.swing.JTextField yRangeTextGM_B

Deprecated.

Y range text field in the imageA, B and GM image A, B histogram dialog. Following text fields are used by the tri-planar volume view.

Class gov.nih.mipav.view.renderer.J3D.PlaneRender extends VolumeCanvas3D implements Serializable

serialVersionUID:

2025132936439496099L

Serialized Fields

m_aiLocalImageExtents

int[] m_aiLocalImageExtents

The image dimensions in x,y,z:.

m_akColors

javax.vecmath.Color3f[] m_akColors

Set of colors used to draw the X and Y Bars and the Z box:.

m_akImageComponent

javax.media.j3d.ImageComponent2D[] m_akImageComponent

Image component 2D. Used to store the ModelImage data as textures.

m_bDrawAxes

boolean m_bDrawAxes

when true, the axis labels (P-> L-> S->) will be drawn

m_bDrawXHairs

boolean m_bDrawXHairs

Turns on drawing of the X,Y bars and the Axis labels:.

m_bEntryPointSelect

boolean m_bEntryPointSelect

Boolean to turn on/off the RFA probe entry point selection with mouse:.

m_bFirstDrag

boolean m_bFirstDrag

Change the mouse cursor with the first mouseDrag event

m_bLeftMousePressed

boolean m_bLeftMousePressed

True when the left mouse has been pressed, set to false when the left mouse button is released.

m_bMemoryUsage

boolean m_bMemoryUsage

Whether to store all the data in ImageComponent2D array or not:.

m_bPatientOrientation

boolean m_bPatientOrientation

Actual image orietation.

m_bRightMousePressed

boolean m_bRightMousePressed

Flag indicating if the right mouse button is currently pressed down:

m_fCenterX

float m_fCenterX

The center of the X,Y bar cross hairs, in plane coordinates:.

m_fCenterY

float m_fCenterY

The center of the X,Y bar cross hairs, in plane coordinates:.

m_fMaxBox

float m_fMaxBox

Numbers dicatating the size of the plane based on the extents and resolutions of the image.

m_fX0

float m_fX0

lower x-bound of the texture-mapped polygon:

m_fX1

float m_fX1

upper x-bound of the texture-mapped polygon:

m_fXBox

float m_fXBox

Numbers dicatating the size of the plane based on the extents and resolutions of the image.

m_fXRange

float m_fXRange

Width of the texture-mapped polygon:

m_fXTranslate

float m_fXTranslate

X direction mouse translation.

m_fY0

float m_fY0

lower y-bound of the texture-mapped polygon:

m_fY1

float m_fY1

upper y-bound of the texture-mapped polygon:

m_fYBox

float m_fYBox

Numbers dicatating the size of the plane based on the extents and resolutions of the image.

m_fYRange

float m_fYRange

Height of the texture-mapped polygon:

m_fYTranslate

float m_fYTranslate

Y direction mouse translatioin.

m_fZoomScale

float m_fZoomScale

Image scaling from Zoom:.

m_iPlaneOrientation

int m_iPlaneOrientation

Which dimension of the ModelImage to render.

m_iSlice

int m_iSlice

Which slice is currently displayed in the XY plane.

m_kActiveImage

ModelImage m_kActiveImage

Current active image for manipulating the LUT by dragging with the right-mouse down.

m_kActiveLookupTable

ModelStorageBase m_kActiveLookupTable

The current active lookup table:

m_kCanvas

VolumeCanvas3D m_kCanvas

The Canvas3D object on which the plane is drawn.

m_kCurrentTransform

javax.media.j3d.Transform3D m_kCurrentTransform

current zoom transformation

m_kDisplayedImage

javax.media.j3d.ImageComponent2D m_kDisplayedImage

The current displayed texture, based on the value of m_iSlice.

m_kImageA

ModelImage m_kImageA

Current image A.

m_kImageB

ModelImage m_kImageB

Current image B.

m_kLabelX

java.lang.String m_kLabelX

x-axis label:

m_kLabelY

java.lang.String m_kLabelY

y-axis label:

m_kMouseTranslate

MouseTranslation m_kMouseTranslate

Mouse translate behavior.

m_kMouseZoom

MouseZoomBehavior m_kMouseZoom

Mouse zoom behavior.

m_kObjRootBG

javax.media.j3d.BranchGroup m_kObjRootBG

The BranchGroup root of the scene managed by the simple universe. The root has a single child, a TransformGroup, that manages all of the actual objects.

m_kOrderedGroup

javax.media.j3d.OrderedGroup m_kOrderedGroup

Root order group of the image scene graph.

m_kParent

ViewJFrameVolumeView m_kParent

Reference to the parent frame:.

m_kPatientSlice

PatientSlice m_kPatientSlice

PatientSlice contains all the Patient Coordinate System view-specific data for rendering this component:

m_kRFA_BranchGroup

javax.media.j3d.BranchGroup m_kRFA_BranchGroup

Branch group for the RFA indicator point.

m_kTextBranchGroup

javax.media.j3d.BranchGroup m_kTextBranchGroup

Branch group to hold the texture image.

m_kTextTransformGroup

javax.media.j3d.TransformGroup m_kTextTransformGroup

Transform group to hold the texture images.

m_kTexture

javax.media.j3d.Texture2D m_kTexture

The 2D texture for the texture-mapped polygon.

m_kTranslationTG

javax.media.j3d.TransformGroup m_kTranslationTG

Group dictating how the plane is translated.

m_kUniverse

com.sun.j3d.utils.universe.SimpleUniverse m_kUniverse

The SimpleUniverse object which is the parent of everything else in the scene.

m_kWinLevel

WindowLevel m_kWinLevel

Class gov.nih.mipav.view.renderer.J3D.RenderViewBase extends VolumeCanvas3D implements Serializable

serialVersionUID:

2913636735677876386L

Serialized Fields

background

javax.media.j3d.Background background

The background node for the canvas.

bounds

javax.media.j3d.BoundingSphere bounds

A BoundingSphere that contains the entire scene. This bound is used for all scheduling, including lighting and mouse behaviors.

boxFrame

ViewJComponentBoxFrame boxFrame

The outside box frame.

canvas

VolumeCanvas3D canvas

The Canvas3D object on which the surfaces are drawn and where the picking happens.

captureFrame

ViewJFrameRenderCamera captureFrame

Camera snapshot frame.

captureImage

ModelImage captureImage

The resulting ModelImage of the camera snapshot.

config

java.awt.GraphicsConfiguration config

The config used to extends the Canvas3D class.

displayMode

int displayMode

Indicates which image is to be acted upon when two images are displayed.

imageA

ModelImage imageA

Reference to the image A of this frame.

imageB

ModelImage imageB

Reference to the image Bof this frame.

LUTa

ModelLUT LUTa

Reference to LUT for image A.

LUTb

ModelLUT LUTb

Reference to LUT for image B.

objBehaviorBG

javax.media.j3d.BranchGroup objBehaviorBG

The BranchGroup to which the standard behaviors are attached, zoom and rotate.

objBoxFrameBG

javax.media.j3d.BranchGroup objBoxFrameBG

Parent of the whole box frame.

objRootBG

javax.media.j3d.BranchGroup objRootBG

The BranchGroup root of the scene managed by the simple universe. The root has a single child, a TransformGroup, that manages all of the actual scene objects.

rotationAngle

int rotationAngle

Rotation angle when the camera takes snapshot.

rotationAxis

int rotationAxis

Rotation axis when the camera takes snapshot.

rotationControlPanel

JPanelCamera rotationControlPanel

Camera control dialog box.

rotationTimes

int rotationTimes

Number of rotation during the camera auto snapshotting.

rotationTotal

int rotationTotal

The total rotation degree, fixing one bug.

sceneRootTG

javax.media.j3d.TransformGroup sceneRootTG

A TransformGroup object to which all the scene objects are attached, including 3D images, surface, behavior, and lights.

sliderEvents

MouseEventVector sliderEvents

Slider events used by the mouse recorder.

transRotation

javax.media.j3d.Transform3D transRotation

transform rotation of the volume image during camera snapshot.

transRotationMatrix

javax.media.j3d.Transform3D transRotationMatrix

Rotation matrix.

triPlanarViewBG

javax.media.j3d.BranchGroup triPlanarViewBG

Triplanar view branch group, which hold the three plane view and the slice box frame view.

universe

com.sun.j3d.utils.universe.SimpleUniverse universe

The SimpleUniverse object which is the parent of everything else in the scene.

viewPanel

JPanelView viewPanel

View dialog associated with surface plotter or renderer.

Class gov.nih.mipav.view.renderer.J3D.ViewJComponentVolOpacity extends ViewJComponentVolOpacityBase implements Serializable

serialVersionUID:

-5441344478555285964L

Serialized Fields

myParent

RenderViewBase myParent

DOCUMENT ME!

opacityCount

int opacityCount

Opacity slider event count.

opacityEvents

MouseEventVector opacityEvents

Opacity slider changed events, which is used by the mouse recorder.

Class gov.nih.mipav.view.renderer.J3D.ViewJFrameRenderCamera extends ViewJFrameBase implements Serializable

serialVersionUID:

-6223794265610151148L

Serialized Fields

borderColor

java.awt.Color borderColor

color for the line border surrounding each image in the light-box.

borderSize

int borderSize

spacing for the line border surrounding each image in the light-box.

componentImageVector

java.util.Vector componentImageVector

DOCUMENT ME!

currentSelectedSlice

int currentSelectedSlice

DOCUMENT ME!

currentSlice

int currentSlice

current info -- this slice info refers to the *real* slice number, not the page index for a slice on a page.

deleteButton

javax.swing.JButton deleteButton

Delete the captured image button.

deleteSelection

javax.swing.JMenuItem deleteSelection

Delete menu icon item.

extractButton

javax.swing.JButton extractButton

Extract the selected image button.

extractSelection

javax.swing.JMenuItem extractSelection

Extrace menu icon item.

firstTime

boolean firstTime

DOCUMENT ME!

frameHeight

int frameHeight

DOCUMENT ME!

frameStartLocation

java.awt.Point frameStartLocation

DOCUMENT ME!

frameWidth

int frameWidth

frame information.

gridColor

java.awt.Color gridColor

color for the region in-between the images in the light-box.

gridColumn

int gridColumn

DOCUMENT ME!

gridRow

int gridRow

value for the number of rows (number of images along the y-axis) and columns (number of images along the x-axis) in the light-box.

Note that both row and column set to 1 cannot make sense, but that one or the other will be the 'dependent variable' as defined by the row_dependent boolean var.

A value of 0 means that the dependent variable will automatically be sized to its maximum size that can fit nicely on the screen.

gridSpacing

int gridSpacing

spacing between images in the light-box.

group

javax.swing.ButtonGroup group

DOCUMENT ME!

imageBorderVector

java.util.Vector imageBorderVector

DOCUMENT ME!

imageBufferA

float[] imageBufferA

DOCUMENT ME!

imageHeight

int imageHeight

DOCUMENT ME!

imagePanelSizeX

int imagePanelSizeX

per num visible images information.

imagePanelSizeY

int imagePanelSizeY

per num visible images information.

imagePanelVector

java.util.Vector imagePanelVector

DOCUMENT ME!

imageWidth

int imageWidth

DOCUMENT ME!

lastSelectedSlice

int lastSelectedSlice

DOCUMENT ME!

magMax

float magMax

DOCUMENT ME!

magMin

float magMin

DOCUMENT ME!

magnification

float magnification

magnification of images in the light-box (mag is a percentage).

maxPagePanelSizeX

int maxPagePanelSizeX

DOCUMENT ME!

maxPagePanelSizeY

int maxPagePanelSizeY

DOCUMENT ME!

menuBar

javax.swing.JMenuBar menuBar

variables for the menubar.

modelImageVector

java.util.Vector modelImageVector

DOCUMENT ME!

numTotalSlices

int numTotalSlices

DOCUMENT ME!

pagePanel

javax.swing.JPanel pagePanel

Number of pages in this frame will always be one.

pagePanelSizeX

int pagePanelSizeX

DOCUMENT ME!

pagePanelSizeY

int pagePanelSizeY

DOCUMENT ME!

pageScrollPanel

javax.swing.JScrollPane pageScrollPanel

Scroll panel to handle the frame scolling.

parentFrame

RenderViewBase parentFrame

DOCUMENT ME!

pBarVisible

boolean pBarVisible

Flag indicating if a whether of not the progress bar is visible.

pixBuffer

int[] pixBuffer

DOCUMENT ME!

progressBar

ViewJProgressBar progressBar

Progress bar object.

progressBarLocation

java.awt.Point progressBarLocation

Progress bar default location.

progressMode

int progressMode

Progress mode - either standard, no cancel, or no progress bar.

row_dependent

boolean row_dependent

indicates which--row or column--should be dependent on the other.

the default is the number of rows is the dependent variable, and is dependent apon the total number of images and the number of columns. Don't confuse the reading to be "This display is (t/f) dependent on the row." It -could- be read as "The display is a column-independent (t/f) matrix".

selectedBorderColor

java.awt.Color selectedBorderColor

color for the line border surrounding each selected image in the light-box.

selectedBorderSize

int selectedBorderSize

spacing for the selected line border surrounding each image in the light-box.

selectedImages

java.util.Vector selectedImages

the selectedImages contains the *real* slice numbers -- not the index of a slice on a page. So the maximum number in the vector will be numTotalSlices - 1.

srcImage

ModelImage srcImage

Reference to imageA.

tBar

javax.swing.JToolBar tBar

Frame ToolBar.

toolbarPanel

javax.swing.JPanel toolbarPanel

variables for the toolbar.

unselectedBorderColor

java.awt.Color unselectedBorderColor

DOCUMENT ME!

xScreen

int xScreen

DOCUMENT ME!

yScreen

int yScreen

DOCUMENT ME!

Class gov.nih.mipav.view.renderer.J3D.ViewJFrameVolumeView extends ViewJFrameBase implements Serializable

serialVersionUID:

1898957906984534260L

Serialized Fields

axialOrientation

boolean axialOrientation

Indicates that image orientation is unknown type or not.

brainsurfaceFlattenerRender

MjCorticalAnalysis brainsurfaceFlattenerRender

Rendering the brainsurfaceFlattener objects.

cameraPanel

javax.swing.JPanel cameraPanel

DOCUMENT ME!

clipBox

javax.swing.JPanel clipBox

DOCUMENT ME!

clipButton

javax.swing.JButton clipButton

Button to invoke all the six clipping planes.

clipDisableButton

javax.swing.JButton clipDisableButton

Button to disable all the six clipping planes.

clipMaskButton

javax.swing.JButton clipMaskButton

Button to crop the clip volume.

clipMaskUndoButton

javax.swing.JButton clipMaskUndoButton

Button to undo crop the clip volume.

clipPanel

javax.swing.JPanel clipPanel

DOCUMENT ME!

clipPlaneButton

javax.swing.JButton clipPlaneButton

Button to invoke clipping planes.

clipSaveButton

javax.swing.JButton clipSaveButton

Button to save clipped region.

compound

javax.swing.border.Border compound

Panel Border view.

config

java.awt.GraphicsConfiguration config

Configuration param, which will pass down to each render's constructor.

displayPanel

javax.swing.JPanel displayPanel

DOCUMENT ME!

dualImagePane

javax.swing.JSplitPane dualImagePane

dual image pane that holds the left and right panel.

dualImagePanel

javax.swing.JPanel dualImagePanel

The image panel to hold two Canvas3D.

dualLeftPanel

javax.swing.JPanel dualLeftPanel

Left panel of the dual panel view.

dualRightPanel

javax.swing.JPanel dualRightPanel

Right panel of the dual panel view.

etchedBorder

javax.swing.border.Border etchedBorder

Panel Border view.

firstTimeVolView

boolean firstTimeVolView

Keep track of whether we're switching to the volume renderer for the first time.

flythruControl

JPanelVirtualEndoscopySetup flythruControl

Fly through setup control panel.

flythruMoveControl

JPanelFlythruMove flythruMoveControl

Fly through movement control panel.

flythruMovePanel

javax.swing.JPanel flythruMovePanel

View panel contains the fly thru control panel.

flythruOptions

FlythruRender.SetupOptions flythruOptions

Fly through options.

flythruPanel

javax.swing.JPanel flythruPanel

Fly through panel.

flythruRender

FlythruRender flythruRender

Reference to fly through renderer.

flythruSurfaceButton

javax.swing.JButton flythruSurfaceButton

Surface load button.

flythruTabVector

java.util.Vector flythruTabVector

DOCUMENT ME!

flyThruToolbar

javax.swing.JToolBar flyThruToolbar

Flythru toolbar.

histoLUTPanel

javax.swing.JPanel histoLUTPanel

Control panel for the surface renderer.

imageAOriginal

ModelImage imageAOriginal

Reference to the imageA original copy.

imageOrientation

int imageOrientation

Image orientation: coronal, sagittal, axial, unknown.

imagePanel

javax.swing.JPanel imagePanel

The image panel to hold one Canvas3D.

intensityDialog

JDialogIntensityPaint intensityDialog

DOCUMENT ME!

isBrainsurfaceFlattenerEnable

boolean isBrainsurfaceFlattenerEnable

Indicate if the brainsurface flattener render is enabled from the resample dialog or not.

isEndoscopyEnable

boolean isEndoscopyEnable

Indicate if the fly through render is enabled from the resample dialog or not.

isoImageA

ModelImage isoImageA

Isotropic version image A, B, used by the shear warp renderer.

isoImageB

ModelImage isoImageB

Isotropic version image A, B, used by the shear warp renderer.

isRayCastEnable

boolean isRayCastEnable

Indicate if the raycast render is enabled from the resample dialog or not.

isShearWarpEnable

boolean isShearWarpEnable

Indicate if the shear warp render is enabled from the resample dialog or not.

isSurfaceRenderEnable

boolean isSurfaceRenderEnable

Indicate if the surface render is enabled from the resample dialog or not.

isSurfaceViewEnable

boolean isSurfaceViewEnable

Indicate if the surface view is enabled from the resample dialog or not.

leftPanelRenderMode

int leftPanelRenderMode

The left panel renderer mode.

lightPanel

javax.swing.JPanel lightPanel

DOCUMENT ME!

loweredbevel

javax.swing.border.Border loweredbevel

Panel Border view.

m_akPlaneRender

PlaneRender[] m_akPlaneRender

The three slice views displayed as texture-mapped polygons:.

m_kBrainsurfaceFlattenerPanel

javax.swing.JPanel m_kBrainsurfaceFlattenerPanel

Control panels for the Brainsurface Flattener:.

m_kGeodesicPanel

javax.swing.JPanel m_kGeodesicPanel

Control panel for drawing geodesic curves.

m_kSculptPanel

javax.swing.JPanel m_kSculptPanel

Control panel for volume sculpting.

maxPanelWidth

int maxPanelWidth

The max width of the control panels.

menuBar

javax.swing.JMenuBar menuBar

Menu bar.

menuObj

ViewMenuBuilder menuObj

Menu items storage.

modelViewLabel

javax.swing.JLabel modelViewLabel

Labels for the current position in 3D ModelView coordinates:.

modelViewLabelVals

javax.swing.JLabel[] modelViewLabelVals

DOCUMENT ME!

mousePanel

javax.swing.JPanel mousePanel

DOCUMENT ME!

opacityDialog

JDialogOpacityControls opacityDialog

DOCUMENT ME!

opacityPanel

javax.swing.JPanel opacityPanel

DOCUMENT ME!

orient

int[] orient

Orientations of the three axes.

paddingImageA

ModelImage paddingImageA

Padding imageA with blank images feeding.

paddingImageB

ModelImage paddingImageB

Padding imageB with blank images feeding.

paintGrowDialog

JDialogPaintGrow paintGrowDialog

Control panels of the triplanar view.

panelHistogram

JFrameHistogram panelHistogram

LUT control panel of the gray scale image.

panelLabels

javax.swing.JPanel panelLabels

Panel containing the position labels:.

panelToolbar

javax.swing.JPanel panelToolbar

Panel that holds the toolbars.

parallelButton

javax.swing.JToggleButton parallelButton

Rendering parallel rotation button.

patientSliceLabel

javax.swing.JLabel patientSliceLabel

Labels for the current position in PatientSlice coordinates:.

patientSliceLabelVals

javax.swing.JLabel[] patientSliceLabelVals

DOCUMENT ME!

pressedBorder

javax.swing.border.Border pressedBorder

Panel Border view.

probePanel

javax.swing.JPanel probePanel

DOCUMENT ME!

radioCOMPOSITE

javax.swing.JRadioButton radioCOMPOSITE

Radio button of the COMPOSITE mode option.

radioCOMPOSITEShear

javax.swing.JRadioButton radioCOMPOSITEShear

Radio button of the COMPOSITE mode option.

radioMIP

javax.swing.JRadioButton radioMIP

Radio button of the MIP mode option.

radioMIPShear

javax.swing.JRadioButton radioMIPShear

Radio button of the MIP mode option.

radioSURFACE

javax.swing.JRadioButton radioSURFACE

Radio button of the SURFACE mode option.

radioSURFACEFAST

javax.swing.JRadioButton radioSURFACEFAST

Radio button of the SURFACE mode option.

radioSURFACEShear

javax.swing.JRadioButton radioSURFACEShear

Radio button of the SURFACE mode option.

radioSurrenderCOMPOSITE

javax.swing.JRadioButton radioSurrenderCOMPOSITE

Radio button of the surface render composite mode.

radioSurrenderLIGHT

javax.swing.JRadioButton radioSurrenderLIGHT

Radio button of the surface render lighting mode.

radioXRAY

javax.swing.JRadioButton radioXRAY

Radio button of the XRAY mode option.

radioXRAYShear

javax.swing.JRadioButton radioXRAYShear

Radio button of the XRAY mode option.

raisedbevel

javax.swing.border.Border raisedbevel

Panel Border view.

raycastCameraPanel

javax.swing.JPanel raycastCameraPanel

DOCUMENT ME!

raycastOptionsPanel

javax.swing.JPanel raycastOptionsPanel

Control panels for the raycast render.

raycastRender

VolumeRendererRayCast raycastRender

DOCUMENT ME!

raycastTabVector

java.util.Vector raycastTabVector

DOCUMENT ME!

rayCastToolBar

javax.swing.JToolBar rayCastToolBar

Raycast toolbar.

redBorder

javax.swing.border.Border redBorder

Panel Border view.

resampleDialog

JDialogVolViewResample resampleDialog

Reference to resample dialog, use to null out the resample dialog in this frame.

rfaButton

javax.swing.JButton rfaButton

Button for RFA.

rfaSeparator

javax.swing.JButton rfaSeparator

RFA separator.

RGBTA

ModelRGB RGBTA

Lookup table of the color imageA, B.

RGBTB

ModelRGB RGBTB

Lookup table of the color imageA, B.

rightPane

javax.swing.JSplitPane rightPane

The view pane that contains the image view and tri-planar view panels.

rightPanelRenderMode

int rightPanelRenderMode

The right panel renderer mode.

screenHeight

int screenHeight

Screen width, screen height.

screenWidth

int screenWidth

Screen width, screen height.

sculptHeight

int sculptHeight

Sculpt region height.

sculptWidth

int sculptWidth

Sculpt region width.

serif12

java.awt.Font serif12

Fonts, same as MipavUtil.font12 and MipavUtil.font12B.

serif12B

java.awt.Font serif12B

Fonts, same as MipavUtil.font12 and MipavUtil.font12B.

shearwarpCameraPanel

javax.swing.JPanel shearwarpCameraPanel

DOCUMENT ME!

shearwarpOptionsPanel

javax.swing.JPanel shearwarpOptionsPanel

Control panels for the shearwarp render.

shearwarpRender

VolumeRendererShearWarp shearwarpRender

DOCUMENT ME!

shearwarpTabVector

java.util.Vector shearwarpTabVector

DOCUMENT ME!

shearWarpToolBar

javax.swing.JToolBar shearWarpToolBar

Shearwarp toolbar.

slicePanel

javax.swing.JPanel slicePanel

DOCUMENT ME!

storeTabbedPaneIndex

int storeTabbedPaneIndex

Previoius tab index recorder.

surfacePanel

javax.swing.JPanel surfacePanel

DOCUMENT ME!

surRender

SurfaceRender surRender

Three types of renderer.

surTabVector

java.util.Vector surTabVector

For each render, use the vector to store the currently active tabs.

surView

SurfaceView surView

Surface View reference

toolbarBuilder

ViewToolBarBuilder toolbarBuilder

Toolbar builder reference.

triImagePanel

javax.swing.JPanel triImagePanel

Tri image planar render panels.

unparallelButton

javax.swing.JToggleButton unparallelButton

Rendering unparallel rotaion button.

viewPanel

javax.swing.JPanel viewPanel

DOCUMENT ME!

viewToolBar

javax.swing.JToolBar viewToolBar

The top one render view switch toolbar.

volToolBar

javax.swing.JToolBar volToolBar

Surface Render toolbar.

Class gov.nih.mipav.view.renderer.J3D.VolumeCanvas3D extends javax.media.j3d.Canvas3D implements Serializable

serialVersionUID:

5377755312667171175L

Serialized Fields

m_bTestFrameRate

boolean m_bTestFrameRate

m_dAccumulatedTime

double m_dAccumulatedTime

Framerate Performance parameters:

m_dFrameRate

double m_dFrameRate

Framerate Performance parameters:

m_dLastTime

double m_dLastTime

Framerate Performance parameters:

m_iAccumulatedFrameCount

int m_iAccumulatedFrameCount

Framerate Performance parameters:

m_iFrameCount

int m_iFrameCount

Framerate Performance parameters:

m_iMaxTimer

int m_iMaxTimer

Framerate Performance parameters:

m_iTimer

int m_iTimer

Framerate Performance parameters:

Package gov.nih.mipav.view.renderer.J3D.model.file

Class gov.nih.mipav.view.renderer.J3D.model.file.FileInfoSurfaceRefXML_J3D extends FileInfoSurfaceRefXML implements Serializable

Serialized Fields

m_kMaterial

javax.media.j3d.Material m_kMaterial

Material properties of the surface:.

Class gov.nih.mipav.view.renderer.J3D.model.file.FileInfoSurfaceXML_J3D extends FileInfoSurfaceXML implements Serializable

Serialized Fields

m_kMaterial

javax.media.j3d.Material m_kMaterial

Material properties of the surface:.

m_kMesh

ModelTriangleMesh[] m_kMesh

Surface triangle mesh:.

Package gov.nih.mipav.view.renderer.J3D.model.structures

Class gov.nih.mipav.view.renderer.J3D.model.structures.ModelSurfaceExtractor extends WildMagic.LibImagics.Extraction.ExtractSurfaceTetra implements Serializable

Serialized Fields

dicomMatrix

TransMatrix dicomMatrix

DOCUMENT ME!

direction

int[] direction

DOCUMENT ME!

m_fXDelta

float m_fXDelta

DOCUMENT ME!

m_fYDelta

float m_fYDelta

DOCUMENT ME!

m_fZDelta

float m_fZDelta

DOCUMENT ME!

startLocation

float[] startLocation

DOCUMENT ME!

Class gov.nih.mipav.view.renderer.J3D.model.structures.ModelSurfaceExtractorCubes extends WildMagic.LibImagics.Extraction.ExtractSurfaceCubes implements Serializable

Serialized Fields

dicomMatrix

TransMatrix dicomMatrix

DOCUMENT ME!

m_afStartLocation

float[] m_afStartLocation

DOCUMENT ME!

m_aiDirection

int[] m_aiDirection

DOCUMENT ME!

m_fXDelta

float m_fXDelta

DOCUMENT ME!

m_fYDelta

float m_fYDelta

DOCUMENT ME!

m_fZDelta

float m_fZDelta

DOCUMENT ME!

Package gov.nih.mipav.view.renderer.J3D.surfaceview

Class gov.nih.mipav.view.renderer.J3D.surfaceview.JDialogSimpleText extends JDialogBase implements Serializable

serialVersionUID:

1577016550517413391L

Serialized Fields

field

javax.swing.JTextField field

Text field to enter name in.

name

java.lang.String name

Name for the view.

Class gov.nih.mipav.view.renderer.J3D.surfaceview.JDialogSurfaceAVI extends JDialogBase implements Serializable

serialVersionUID:

-475364340269669481L

Serialized Fields

rate

double rate

Frame rate per second.

rateBox

javax.swing.JTextField rateBox

Text field for the frame rate per second.

subSample

int subSample

Subsample flag.

subSampleCBox

javax.swing.JComboBox subSampleCBox

Sub sampel combo box.

Class gov.nih.mipav.view.renderer.J3D.surfaceview.JFrameSurfaceMaterialProperties extends javax.swing.JFrame implements Serializable

serialVersionUID:

3077827124095959620L

Serialized Fields

AFTER

int AFTER

Before/After index values for the two displayed spheres, canvases, and display panels:.

BEFORE

int BEFORE

Before/After index values for the two displayed spheres, canvases, and display panels:.

m_akMaterialPreset

javax.media.j3d.Material[] m_akMaterialPreset

Pre-defined materials

m_bColorApplied

boolean m_bColorApplied

keeps track of whether or not color has been applied to surface (for backup on cancel)

m_fShininess

float m_fShininess

specular coefficient

m_iNumPreset

int m_iNumPreset

Preset Material's examples:.

m_iSurfaceIndex

int m_iSurfaceIndex

the index of the surface that is being changed in the JPanelSurface

m_iWhichButton

int m_iWhichButton

Which button is pressed to activate the JColorChooser:.

m_kAmbient

javax.vecmath.Color3f m_kAmbient

Current color values:.

m_kAmbientColorButton

javax.swing.JButton m_kAmbientColorButton

Material Properties color buttons:.

m_kColorChooser

javax.swing.JColorChooser m_kColorChooser

Color Chooser dialog:.

m_kDiffuse

javax.vecmath.Color3f m_kDiffuse

diffuse color

m_kDiffuseColorButton

javax.swing.JButton m_kDiffuseColorButton

diffuse color button

m_kEmissive

javax.vecmath.Color3f m_kEmissive

emissive color

m_kEmissiveColorButton

javax.swing.JButton m_kEmissiveColorButton

emissive color button

m_kImagePane

javax.swing.JSplitPane m_kImagePane

Split pane for displaying the canvases side-by-side:.

m_kImagePanel

javax.swing.JPanel[] m_kImagePanel

Canvas display panels:.

m_kMainPane

javax.swing.JSplitPane m_kMainPane

Split pane for displaying the rendered spheres above the interface:.

m_kMaterialNew

javax.media.j3d.Material m_kMaterialNew

Materials for new vales and backup:.

m_kMaterialPanel

javax.swing.JPanel m_kMaterialPanel

Window display panels: Material properties buttons/slider panel:.

m_kMaterialSave

javax.media.j3d.Material m_kMaterialSave

Saved Material for backup

m_kParent

JPanelSurface m_kParent

Parent class:.

m_kShininessSlider

javax.swing.JSlider m_kShininessSlider

Shininess slider.

m_kSpecular

javax.vecmath.Color3f m_kSpecular

Specular color component

m_kSpecularColorButton

javax.swing.JButton m_kSpecularColorButton

Specular color button

Class gov.nih.mipav.view.renderer.J3D.surfaceview.JPanelDisplay extends JPanelRendererJ3D implements Serializable

serialVersionUID:

926266253314679850L

Serialized Fields

boundingCheck

javax.swing.JCheckBox boundingCheck

Check box for turning box on and off.

coarse

javax.swing.JTextField coarse

Coarse and fine value text field.

coarseLabel

javax.swing.JLabel coarseLabel

Coarse and fine value label.

coarseValue

float coarseValue

Coarse and fine value.

colorButton

javax.swing.JButton colorButton

Color button for changing color.

colorButtonBackground

javax.swing.JButton colorButtonBackground

Color button for changing z color.

colorChooser

ViewJColorChooser colorChooser

Color chooser dialog.

cubePanel

javax.swing.JPanel cubePanel

Panel for the rotation cube.

cubicCheck

javax.swing.JCheckBox cubicCheck

Check box for cubic control.

fine

javax.swing.JTextField fine

Coarse and fine value text field.

fineLabel

javax.swing.JLabel fineLabel

Coarse and fine value label.

fineValue

float fineValue

Coarse and fine value.

flag

boolean flag

Flag indicating if the red bounding box is on or off.

radioButtonGroupProjections

javax.swing.ButtonGroup radioButtonGroupProjections

Button group for projections.

radioButtonOrthographic

javax.swing.JRadioButton radioButtonOrthographic

Radio Button for Orthographic rendering.

radioButtonPerspective

javax.swing.JRadioButton radioButtonPerspective

Radio Button for Perspective rendering.

scroller

javax.swing.JScrollPane scroller

The scroll pane holding the panel content. Useful when the screen is small.

scrollPanel

JPanelDisplay.DrawingPanel scrollPanel

Scroll panel that holding the all the control components.

viewAlignedButton

javax.swing.JRadioButton viewAlignedButton

Radio Button for Perspective rendering.

viewButton

javax.swing.JRadioButton viewButton

Radio Button for Orthographic rendering.

viewTextureButtonGroup

javax.swing.ButtonGroup viewTextureButtonGroup

Button group for projections.

Class gov.nih.mipav.view.renderer.J3D.surfaceview.JPanelGeodesic extends JPanelRendererJ3D implements Serializable

serialVersionUID:

4382184418236793404L

Serialized Fields

drawLabel

javax.swing.JLabel drawLabel

Geodesic line draw control label.

flythruGeodesic

Geodesic flythruGeodesic

DOCUMENT ME!

flythruRender

FlythruRender flythruRender

FlythruRender reference.

m_bPickSetFlyThru

boolean m_bPickSetFlyThru

Initialzied to true when the the Geodesic.setPickCanvas funtion is called.

m_bPickSetSurface

boolean m_bPickSetSurface

DOCUMENT ME!

m_fDijkstraCurrent

float m_fDijkstraCurrent

DOCUMENT ME!

m_fDijkstraPrevious

float m_fDijkstraPrevious

DOCUMENT ME!

m_fDijkstraTotal

float m_fDijkstraTotal

DOCUMENT ME!

m_fEuclidianCurrent

float m_fEuclidianCurrent

Values for the current path length between the last two selected points:

m_fEuclidianPrevious

float m_fEuclidianPrevious

Values for the previous current path length between the last two selected points:

m_fEuclidianTotal

float m_fEuclidianTotal

Values for the total path lengths:.

m_fGeodesicSmoothCurrent

float m_fGeodesicSmoothCurrent

DOCUMENT ME!

m_fGeodesicSmoothPrevious

float m_fGeodesicSmoothPrevious

DOCUMENT ME!

m_fGeodesicSmoothTotal

float m_fGeodesicSmoothTotal

DOCUMENT ME!

m_kCheckLivewire

javax.swing.JCheckBox m_kCheckLivewire

Toggle between LiveWire Interaction and point & click interaction:.

m_kClearAllCutsButton

javax.swing.JButton m_kClearAllCutsButton

DOCUMENT ME!

m_kClearAllGeodesicButton

javax.swing.JButton m_kClearAllGeodesicButton

DOCUMENT ME!

m_kClearLastCutButton

javax.swing.JButton m_kClearLastCutButton

DOCUMENT ME!

m_kClearLastGeodesicButton

javax.swing.JButton m_kClearLastGeodesicButton

Button for deleting the geodesic.

m_kCutGeodesicButton

javax.swing.JButton m_kCutGeodesicButton

Button for cutting the mesh along the geodesic:.

m_kDijkstraDistance

javax.swing.JLabel m_kDijkstraDistance

DOCUMENT ME!

m_kDijkstraDistanceValueLast

javax.swing.JLabel m_kDijkstraDistanceValueLast

DOCUMENT ME!

m_kDijkstraDistanceValueTotal

javax.swing.JLabel m_kDijkstraDistanceValueTotal

DOCUMENT ME!

m_kDisplayButtonGroup

javax.swing.ButtonGroup m_kDisplayButtonGroup

DOCUMENT ME!

m_kDisplayDijkstra

javax.swing.JRadioButton m_kDisplayDijkstra

DOCUMENT ME!

m_kDisplayEuclidian

javax.swing.JRadioButton m_kDisplayEuclidian

DOCUMENT ME!

m_kDisplayGeodesic

javax.swing.JRadioButton m_kDisplayGeodesic

Radio buttons for displaying the smoothed geodesic, dijkstra's path, or the euclidian path:.

m_kDrawGeodesicButton

javax.swing.JToggleButton m_kDrawGeodesicButton

Geodesic drawing interface Toggle button is down while points are added to the curve:.

m_kEuclidianDistance

javax.swing.JLabel m_kEuclidianDistance

Labels to indicate the path length between the picked points, in Euclidian distance, geodesic smoothed distance, and Dijkstra's path mesh distance. Two labels each, one for the distances between the last two points picked, and one for the total length of the curve, from starting point to end point:

m_kEuclidianDistanceValueLast

javax.swing.JLabel m_kEuclidianDistanceValueLast

DOCUMENT ME!

m_kEuclidianDistanceValueTotal

javax.swing.JLabel m_kEuclidianDistanceValueTotal

DOCUMENT ME!

m_kFinishClosedGeodesicButton

javax.swing.JButton m_kFinishClosedGeodesicButton

DOCUMENT ME!

m_kFinishOpenGeodesicButton

javax.swing.JButton m_kFinishOpenGeodesicButton

DOCUMENT ME!

m_kGeodesicSmoothDistance

javax.swing.JLabel m_kGeodesicSmoothDistance

DOCUMENT ME!

m_kGeodesicSmoothDistanceValueLast

javax.swing.JLabel m_kGeodesicSmoothDistanceValueLast

DOCUMENT ME!

m_kGeodesicSmoothDistanceValueTotal

javax.swing.JLabel m_kGeodesicSmoothDistanceValueTotal

DOCUMENT ME!

m_kGeodesicToggleWireframe

javax.swing.JToggleButton m_kGeodesicToggleWireframe

DOCUMENT ME!

mainPanel

javax.swing.JPanel mainPanel

the main control panel.

scroller

javax.swing.JScrollPane scroller

The scroll pane holding the panel content. Useful when the screen is small.

scrollPanel

JPanelGeodesic.DrawingPanel scrollPanel

Scroll panel that holding the all the control components.

surfaceGeodesic

Geodesic surfaceGeodesic

Geodesic reference.

surPickLabel

javax.swing.JLabel surPickLabel

Label to indicate that enable Surface pickable before drawing geodesic line.

surRender

SurfaceRender surRender

SurfaceRender reference.

Class gov.nih.mipav.view.renderer.J3D.surfaceview.JPanelMouse extends JPanelRendererJ3D implements Serializable

serialVersionUID:

-3554229077099968128L

Serialized Fields

changedMode

boolean changedMode

flag to indicate current mode being changed.

contButton

javax.swing.JToggleButton contButton

Continue play button.

currentEventVector

MouseEventVector currentEventVector

Current event vector used by the save AVI.

currentObject

java.lang.Object currentObject

current SceneState object being recorded by SaveAVI.

currentTransform

javax.media.j3d.Transform3D currentTransform

Current transform3D object used in Save AVI.

events

java.util.Vector events

Vector that holds mouse or change events.

eventVector

MouseEventVector eventVector

Global mouse event vector.

first

boolean first

Flag to indicate first event.

goButton

javax.swing.JButton goButton

Go to button.

isArbitraryRotation

boolean isArbitraryRotation

Flag indicates that arbitrary clipping plane is triggered or not.

isPlaying

boolean isPlaying

Flag to indicating play mouse is running or not.

listModel

javax.swing.DefaultListModel listModel

List to record info for each mouse, change events.

mainPanel

javax.swing.JPanel mainPanel

The main control panel.

mjpegQuality

float mjpegQuality

Param to save AVI.

mode

int mode

Current mode, init to stop.

mouseCount

int mouseCount

Mouse event counter.

movieButton

javax.swing.JButton movieButton

Save AVI button .

myParent

SurfaceRender myParent

Reference to ViewJFrameSurfaceRenderer.

nameChangeVector

MouseEventVector nameChangeVector

Used by name change dialog to change name of the selected item.

newButton

javax.swing.JButton newButton

This button add at head of the list.

parentScene

RenderViewBase parentScene

Parent scene.

pauseButton

javax.swing.JToggleButton pauseButton

Pause button.

playButton

javax.swing.JToggleButton playButton

Display button.

playMouse

JPanelMouse.PlayMouse playMouse

Reference to PlayMouse class object.

process

int process

Process id used by the save AVI.

recordButton

javax.swing.JToggleButton recordButton

Recorder button.

recorderToAVI

JPanelMouse.RecordMouse recorderToAVI

Reference to RecordMouse object class.

removeAllButton

javax.swing.JButton removeAllButton

Remove all items in the item list.

removeButton

javax.swing.JButton removeButton

Remove the selected item in the item list.

resetTransform

javax.media.j3d.Transform3D resetTransform

Current transform3D object.

scroller

javax.swing.JScrollPane scroller

The scroll pane holding the panel content. Useful when the screen is small.

scrollPanel

JPanelMouse.DrawingPanel scrollPanel

Scroll panel that holding the all the control components.

setMouseVectorFlag

boolean setMouseVectorFlag

flag to indicate the first time mouse tranform event happpened.

sliceDialog

JPanelSlices sliceDialog

Dialog to turn the slices control box on and off.

sliderCount

int sliderCount

Slider moves event counter.

stepButton

javax.swing.JToggleButton stepButton

Next step button.

stopButton

javax.swing.JToggleButton stopButton

Stop button.

toolBar

javax.swing.JToolBar toolBar

Tool bar of the mouse recorder.

transformChange

boolean transformChange

Flag indicates that a transform changed event is invoked.

viewList

javax.swing.JList viewList

View list of the mouse recorder display list.

Class gov.nih.mipav.view.renderer.J3D.surfaceview.JPanelSlices extends JPanelRendererJ3D implements Serializable

serialVersionUID:

-8359831093707979536L

Serialized Fields

boundingBoxPanel

javax.swing.JPanel boundingBoxPanel

Bounding box control panel.

boundingCheck

javax.swing.JCheckBox[] boundingCheck

Check box for turning bounding boxes on and off.

boxX

javax.swing.JCheckBox boxX

Check boxes that turn the image plane on and off.

boxY

javax.swing.JCheckBox boxY

Check boxes that turn the image plane on and off.

boxZ

javax.swing.JCheckBox boxZ

Check boxes that turn the image plane on and off.

colorButton

javax.swing.JButton[] colorButton

Color button for changing bounding box color.

colorChooser

ViewJColorChooser colorChooser

Color chooser dialog.

controlPanel

javax.swing.JPanel controlPanel

Main panel for sliders.

current

int current

Current event vector index.

labelT

javax.swing.JLabel labelT

Labels next to sliders.

labelX

javax.swing.JLabel labelX

Labels next to sliders.

labelX1

javax.swing.JLabel labelX1

Labels beneath sliders.

labelXEnd

javax.swing.JLabel labelXEnd

Labels beneath sliders.

labelXMid

javax.swing.JLabel labelXMid

Labels beneath sliders.

labelY

javax.swing.JLabel labelY

Labels next to sliders.

labelY1

javax.swing.JLabel labelY1

Labels beneath sliders.

labelYEnd

javax.swing.JLabel labelYEnd

Labels beneath sliders.

labelYMid

javax.swing.JLabel labelYMid

Labels beneath sliders.

labelZ

javax.swing.JLabel labelZ

Labels next to sliders.

labelZ1

javax.swing.JLabel labelZ1

Labels beneath sliders.

labelZEnd

javax.swing.JLabel labelZEnd

Labels beneath sliders.

labelZMid

javax.swing.JLabel labelZMid

Labels beneath sliders.

opacityControlPanel

javax.swing.JPanel opacityControlPanel

Opacity control panel.

opacityLabelX

javax.swing.JLabel opacityLabelX

The opacity slider label.

opacityLabelY

javax.swing.JLabel opacityLabelY

The opacity slider label.

opacityLabelZ

javax.swing.JLabel opacityLabelZ

The opacity slider label.

opacitySliderLabelsX

javax.swing.JLabel[] opacitySliderLabelsX

The labels below the opacity slider.

opacitySliderLabelsY

javax.swing.JLabel[] opacitySliderLabelsY

The labels below the opacity slider.

opacitySliderLabelsZ

javax.swing.JLabel[] opacitySliderLabelsZ

The labels below the opacity slider.

opacitySliderX

javax.swing.JSlider opacitySliderX

Opacity slider, not enabled yet.

opacitySliderY

javax.swing.JSlider opacitySliderY

Opacity slider, not enabled yet.

opacitySliderZ

javax.swing.JSlider opacitySliderZ

Opacity slider, not enabled yet.

scroller

javax.swing.JScrollPane scroller

The scroll pane holding the panel content. Useful when the screen is small.

scrollPanel

JPanelSlices.DrawingPanel scrollPanel

Scroll panel that holding the all the control components.

setSliderFlag

boolean setSliderFlag

Flag to indicate the first time slider name changes.

slicePosition

WildMagic.LibFoundation.Mathematics.Vector3f slicePosition

sliceVisible

boolean[] sliceVisible

Flags indicating if the image slices are on or off.

sliderT

javax.swing.JSlider sliderT

Sliders for the image planes.

sliderX

javax.swing.JSlider sliderX

Sliders for the image planes.

sliderY

javax.swing.JSlider sliderY

Sliders for the image planes.

sliderZ

javax.swing.JSlider sliderZ

Sliders for the image planes.

tDim

int tDim

x, y, z and time dimension values.

textT

javax.swing.JTextField textT

Text fields that display the slice number next to the sliders.

textX

javax.swing.JTextField textX

Text fields that display the slice number next to the sliders.

textY

javax.swing.JTextField textY

Text fields that display the slice number next to the sliders.

textZ

javax.swing.JTextField textZ

Text fields that display the slice number next to the sliders.

tSlice

int tSlice

Which time slice is currently displayed.

xDim

int xDim

x, y, z and time dimension values.

xOpacitySlice

int xOpacitySlice

x, y, z opacity slider values.

xProbe

int xProbe

Probe x, y, z position.

xSlice

int xSlice

Which slice is currently displayed in the ZY plane.

yDim

int yDim

x, y, z and time dimension values.

yOpacitySlice

int yOpacitySlice

x, y, z opacity slider values.

yProbe

int yProbe

Probe x, y, z position.

ySlice

int ySlice

Which slice is currently displayed in the XZ plane.

zDim

int zDim

x, y, z and time dimension values.

zOpacitySlice

int zOpacitySlice

x, y, z opacity slider values.

zProbe

int zProbe

Probe x, y, z position.

zSlice

int zSlice

Which slice is currently displayed in the XY plane.

Class gov.nih.mipav.view.renderer.J3D.surfaceview.JPanelSurface extends JPanelRendererJ3D implements Serializable

serialVersionUID:

-4600563188022683359L

Serialized Fields

activeLightBulbIndex

int activeLightBulbIndex

Record the current active index of light bulb, which is being picked.

areaLabel

javax.swing.JLabel areaLabel

The area label.

areaText

javax.swing.JTextField areaText

Displays the area of triangle.

colorButton

javax.swing.JButton colorButton

The color button, which calls a color chooser.

colorChooser

ViewJColorChooser colorChooser

Color chooser for when the user wants to change the color of the surface.

colorLabel

javax.swing.JLabel colorLabel

The color button label.

comboLabel

javax.swing.JLabel comboLabel

The polygon mode combo box label.

currentIndex

int currentIndex

Current surface index being highlighted.

decimateButton

javax.swing.JButton decimateButton

Decimate button.

detailLabel

javax.swing.JLabel detailLabel

The level of detail slider label.

detailSlider

javax.swing.JSlider detailSlider

Level of detail slider.

detailSliderLabels

javax.swing.JLabel[] detailSliderLabels

The labels below the detail slider.

extents

int[] extents

findArbitraryClipping

boolean findArbitraryClipping

flag indicates arbitrary clpping bounding frame being picked.

findProbe

boolean findProbe

flag indicates the probe being picked.

levelSButton

javax.swing.JButton levelSButton

Save surface button.

levelVButton

javax.swing.JButton levelVButton

Save surface button.

levelWButton

javax.swing.JButton levelWButton

Save surface button.

levelXMLButton

javax.swing.JButton levelXMLButton

Save surface button.

lightArray

javax.media.j3d.Light[] lightArray

An array of eight lights that can be used for illuminating the surfaces in the scene. The lights at indices 0 and 7 are initially enabled; the other lights are initially disabled. The default positions for the lights are at the 8 corners of the cube [0,1]^3. Light 0 is at (0,0,0) and light 7 is at (1,1,1), thereby providing suitable lighting for the visible surfaces in the scene. Other lights can be enabled as desired through the light attribute dialog.

lightArrayBG

javax.media.j3d.BranchGroup[] lightArrayBG

The branch groups to which the lights are attached.

lightBulbs

ViewJComponentLightBulbs lightBulbs

The structure for the light bulbs.

m_aiMapIndexToJPanelLightsIndex

int[] m_aiMapIndexToJPanelLightsIndex

The index of the lights in JPanelLights is different from the order maintained here. This array maps from our index to JPanelLights' index.

m_aiMapJPanelLightsIndexToIndex

int[] m_aiMapJPanelLightsIndexToIndex

The index of the lights in JPanelLights is different from the order maintained here. This array maps from JPanelLights' index to our index.

m_akLights

GeneralLight[] m_akLights

The description of the lights so they can be duplicated in the "Advanced Material Properties" dialog:.

m_kAdvancedMaterialOptionsButton

javax.swing.JButton m_kAdvancedMaterialOptionsButton

The material options button, which launches the material editor window.

m_kFiberTractGroup

javax.media.j3d.BranchGroup m_kFiberTractGroup

For displaying the fiber bundle tracts in the orthogonal slice view:

m_kGeodesicGroup

javax.media.j3d.BranchGroup m_kGeodesicGroup

For drawing the geodesic lines on the triangle mesh:.

m_kLightsControl

JPanelLights m_kLightsControl

Light dialog for when the user clicks the light button.

m_kPathPositionTG

javax.media.j3d.TransformGroup m_kPathPositionTG

For drawing the flythru path in the triangle mesh:.

m_kStereoButton

javax.swing.JButton m_kStereoButton

Stereo render button, launches the JStereoWindow for viewing the ModelTriangleMesh in stereo:.

m_kSurfaceTextureButton

javax.swing.JButton m_kSurfaceTextureButton

Opens SurfaceTexture dialog:.

maxBox

float maxBox

ModelImage max dimension: (Extents * resolutions).

mSurfaceMask

SurfaceMask mSurfaceMask

Surface mask.

mSurfacePaint

SurfacePaint mSurfacePaint

Paint interface/algorithm for allowing the user to interactively paint the vertices of the ModelTriangleMesh.

opacityLabel

javax.swing.JLabel opacityLabel

The opacity slider label.

opacitySlider

javax.swing.JSlider opacitySlider

Opacity slider, not enabled yet.

opacitySliderLabels

javax.swing.JLabel[] opacitySliderLabels

The labels below the opacity slider.

parentScene

SurfaceRender parentScene

The parent object that holds necessary the structures to which the surfaces will be added and modified.

pickCanvas

com.sun.j3d.utils.picking.PickCanvas pickCanvas

The PickCanvas object that ties together the canvas and the surfaces branch group to allow pick operations on the scene.

polygonModeCB

javax.swing.JComboBox polygonModeCB

The combo box for the polygon mode to display.

resolutions

float[] resolutions

scroller

javax.swing.JScrollPane scroller

The scroll pane holding the panel content. Useful when the screen is small.

setSurfaceOpacityFlag

boolean setSurfaceOpacityFlag

Indicator for the opacity slider moves.

smooth1Button

javax.swing.JButton smooth1Button

Smooth button.

smooth2Button

javax.swing.JButton smooth2Button

Smooth button.

smooth3Button

javax.swing.JButton smooth3Button

Smooth button.

sphere

com.sun.j3d.utils.geometry.Sphere sphere

Sphere showing where the user clicked in the surface.

sphereBranch

javax.media.j3d.BranchGroup sphereBranch

Branch group parent of the sphere.

sphereShowing

boolean sphereShowing

Flag indicating if the sphere is currently showing.

sphereTransform

javax.media.j3d.TransformGroup sphereTransform

Transform group parent of the sphere.

staticLightBehaviorBG

javax.media.j3d.BranchGroup staticLightBehaviorBG

Static light hehavior branch group.

staticLightBG

javax.media.j3d.BranchGroup staticLightBG

The branch group that holds the static light bulb.

staticLightBulb

ViewJComponentLightBulbs staticLightBulb

The structure for the static light bulb.

staticLightTG

javax.media.j3d.TransformGroup staticLightTG

The transform group that holds the static light branch group.

staticLightTranslate

com.sun.j3d.utils.behaviors.mouse.MouseTranslate staticLightTranslate

Static light translate behavior.

staticLightZoom

com.sun.j3d.utils.behaviors.mouse.MouseZoom staticLightZoom

Static light zoom behavior.

surfaceBackFaceCB

javax.swing.JCheckBox surfaceBackFaceCB

Check Box for surface back face culling.

surfaceClipCB

javax.swing.JCheckBox surfaceClipCB

Check Box for surface clpping of the volume render.

surfaceDirectoryName

java.lang.String surfaceDirectoryName

The directory where a surface file was last loaded/saved. Defaults to MIPAV default directory.

surfaceList

javax.swing.JList surfaceList

The list box in the dialog for surfaces.

surfaceOpacityEvents

MouseEventVector surfaceOpacityEvents

Surface opacity changes event queue.

surfaceOpacitySlice

int surfaceOpacitySlice

Surface volume opacity.

surfacePickableCB

javax.swing.JCheckBox surfacePickableCB

Check Box for surface pickable.

surfaceRootBG

javax.media.j3d.BranchGroup surfaceRootBG

The branch group that holds all the surfaces together.

surfaceRootTG

javax.media.j3d.TransformGroup surfaceRootTG

The transform group to which the model lights are attached.

surfaceSliderCount

int surfaceSliderCount

Counter for surface opacity slider moves.

surfaceTransparencyCB

javax.swing.JCheckBox surfaceTransparencyCB

Check Box for surface transparency.

surfaceVector

java.util.Vector<SurfaceAttributes> surfaceVector

A list of the surfaces. The elements are of type SurfaceAttributes.

triangleLabel

javax.swing.JLabel triangleLabel

The number of triangles label.

triangleText

javax.swing.JTextField triangleText

Displays the number of triangles.

volumeLabel

javax.swing.JLabel volumeLabel

The volume label.

volumeText

javax.swing.JTextField volumeText

Displays the volume of triangle.

Class gov.nih.mipav.view.renderer.J3D.surfaceview.JPanelSurfaceTexture extends JPanelRendererJ3D implements Serializable

serialVersionUID:

7562070328632922435L

Serialized Fields

mHistogram

JFrameHistogram mHistogram

Display the independent LUT for Black/White images.

mImageA

ModelImage mImageA

ModelImage used to generate the 3D texture:.

mImageALink

ModelImage mImageALink

Reference to ModelImage A for linking the texture to the imageA LUT.

mImageAsTextureRadioButton

javax.swing.JRadioButton mImageAsTextureRadioButton

RadioButton for turing on the surface image texture:.

mImageAsVertexColorRadioButton

javax.swing.JRadioButton mImageAsVertexColorRadioButton

RadioButton for turing on the surface image per-vertex color:.

mImageDirName

java.lang.String mImageDirName

Stores the currently-loaded ModelImage directory name:.

mImageFileName

java.lang.String mImageFileName

Stores the currently-loaded ModelImage file name:.

mImageFileNameLabel

javax.swing.JLabel mImageFileNameLabel

Display the currently-loaded ModelImage file name:.

mImageNoneRadioButton

javax.swing.JRadioButton mImageNoneRadioButton

RadioButton for turing off the surface image:.

mLoadImageButton

javax.swing.JButton mLoadImageButton

Load a new ModelImage:.

mLUTButtonGroup

javax.swing.ButtonGroup mLUTButtonGroup

Grouping the radio buttons:.

mLUTImageA

ModelImage mLUTImageA

Independent ModelImage for independent LUT.

mLUTModel

ModelLUT mLUTModel

The LUT associated with the ModelImage imageA:.

mLUTSeparate

ModelLUT mLUTSeparate

The LUT associated with the independent texture LUT:.

mModelLUTRadioButton

javax.swing.JRadioButton mModelLUTRadioButton

Use the ModelImage LUT.

mNewLUTRadioButton

javax.swing.JRadioButton mNewLUTRadioButton

Use a separate LUT.

mPatientSlice

PatientSlice mPatientSlice

Renders the ModelImage data with LUT changes.

mRGBModel

ModelRGB mRGBModel

The RGB LUT associated with the ModelImage imageA:.

mRGBSeparate

ModelRGB mRGBSeparate

The RGB LUT associated with the independent texture LUT:.

mSurfaceTextureImage

javax.media.j3d.ImageComponent3D mSurfaceTextureImage

The ModelImage texture with LUT changes, used with the Texture3D.

mTexture

javax.media.j3d.Texture3D mTexture

3D Texture used to display the ModelImage data as a texture mapped onto the ModelTriangleMesh.

mTextureButtonGroup

javax.swing.ButtonGroup mTextureButtonGroup

Grouping the radio buttons:.

mTextureStatus

int mTextureStatus

Currently selected ModelImage display type:.

mTextureUnitState

javax.media.j3d.TextureUnitState[] mTextureUnitState

TextureUnitState contains texture information for the rendered surfaces:.

Class gov.nih.mipav.view.renderer.J3D.surfaceview.JPanelView extends JPanelRendererJ3D implements Serializable

serialVersionUID:

-8408530937731996131L

Serialized Fields

flyBehavior

FlyBehaviorRenderer flyBehavior

Fly behavior reference.

flyButton

javax.swing.JRadioButton flyButton

Fly behaviro radio button.

flyText

java.lang.String flyText

User message explain how the mouse moves in fly mode.

labels

javax.swing.JLabel[] labels

speed control slider labels.

leftDownButton

javax.swing.JButton leftDownButton

DOCUMENT ME!

leftLeftButton

javax.swing.JButton leftLeftButton

DOCUMENT ME!

leftRightButton

javax.swing.JButton leftRightButton

DOCUMENT ME!

leftUpButton

javax.swing.JButton leftUpButton

Arrow button references.

middleDownButton

javax.swing.JButton middleDownButton

DOCUMENT ME!

middleLeftButton

javax.swing.JButton middleLeftButton

DOCUMENT ME!

middleRightButton

javax.swing.JButton middleRightButton

DOCUMENT ME!

middleUpButton

javax.swing.JButton middleUpButton

DOCUMENT ME!

mode

int mode

Current behavior mode.

modeGroup

javax.swing.ButtonGroup modeGroup

Radio button group reference.

mouseText

javax.swing.JTextArea mouseText

Text field reference that hold the user message.

pointerBehavior

PointerBehaviorRenderer pointerBehavior

Pointer behavior reference, not used now.

pressed

boolean pressed

Flag to indicate mouse pressed or not.

ptrButton

javax.swing.JRadioButton ptrButton

Point behavior button.

rightDownButton

javax.swing.JButton rightDownButton

DOCUMENT ME!

rightLeftButton

javax.swing.JButton rightLeftButton

DOCUMENT ME!

rightRightButton

javax.swing.JButton rightRightButton

DOCUMENT ME!

rightUpButton

javax.swing.JButton rightUpButton

DOCUMENT ME!

scroller

javax.swing.JScrollPane scroller

The scroll pane holding the panel content. Useful when the screen is small.

scrollPanel

JPanelView.DrawingPanel scrollPanel

Scroll panel that holding the all the control components.

stdBehavior

com.sun.j3d.utils.behaviors.vp.ViewPlatformBehavior stdBehavior

Standard behavior reference.

stdButton

javax.swing.JRadioButton stdButton

Standard behavior button.

stdText

java.lang.String stdText

User message explain how the mouse moves in stardard mode.

time

long time

Standard mouse tread waiting time.

velocitySlider

javax.swing.JSlider velocitySlider

fly Speed control slider.

Class gov.nih.mipav.view.renderer.J3D.surfaceview.JStereoWindow extends javax.swing.JFrame implements Serializable

serialVersionUID:

-2284771559648676504L

Serialized Fields

m_akUniverse

com.sun.j3d.utils.universe.SimpleUniverse[] m_akUniverse

Three SimpleUniverses, one for each canavas:.

m_dEyeSeparation

double m_dEyeSeparation

Original eye separation, read from the canvas.view.physicalbody.

m_iCurrentUniverse

int m_iCurrentUniverse

The current universe to be initialized:.

m_iStereoUpdateCount

int m_iStereoUpdateCount

First time the stereo canvas is rendered, set to true:.

m_kD

java.awt.Dimension m_kD

BufferedImage Dimensions (power of two).

m_kDisplayPane

javax.swing.JSplitPane m_kDisplayPane

The JSplitPane displaying the left and right eye views:.

m_kEyeSep_Slider

javax.swing.JSlider m_kEyeSep_Slider

Focal-length, (eye separation) slider.

m_kLeftCanvas

VolumeCanvas3D m_kLeftCanvas

Left-eye view canvas:.

m_kLeftImagePanel

javax.swing.JPanel m_kLeftImagePanel

Left Image Panel, holds the canvas for the left-eye view:.

m_kMainPane

javax.swing.JSplitPane m_kMainPane

The JSplitPane displaying different views and the user-interface:.

m_kRGStereo

java.awt.image.BufferedImage m_kRGStereo

BufferedImage containing the Anagyphy stereo image:.

m_kRightCanvas

VolumeCanvas3D m_kRightCanvas

Right-eye view canvas:.

m_kRightImagePanel

javax.swing.JPanel m_kRightImagePanel

Right Image Panel, holds the canvas for the right-eye view:.

m_kStereoCanvas

VolumeCanvas3D m_kStereoCanvas

Stereo canvas:.

m_kStereoPane

javax.swing.JSplitPane m_kStereoPane

The JSplitPane displaying the left and right eye views and the stereo view:.

m_kStereoPanel

javax.swing.JPanel m_kStereoPanel

Stereo Image Panel, holds the canvas for the Anaglyph stereo view:.

m_kStereoShape

javax.media.j3d.Shape3D m_kStereoShape

Texture-mapped polygon for displaying the Anaglyph stereo image as a texture:.

Class gov.nih.mipav.view.renderer.J3D.surfaceview.SurfaceRender extends RenderViewBase implements Serializable

serialVersionUID:

608959413602233595L

Serialized Fields

boxPanel

JPanelDisplay boxPanel

Dialog to turn bounding box of surface renderer on and off, and to change the color of the frame.

boxSlices

ViewJComponentBoxSlice[] boxSlices

The frame around the AXIAL, CORONAL, SAGITTAL slices:

boxSliceVertices

javax.vecmath.Vector3f[][] boxSliceVertices

The transformed boxSlices frames used to sample the volume data along diagonal slices:

clipPanel

JPanelClip clipPanel

Dialog to turn the clipping palne box on and off.

componentVolImage

ViewJComponentSurfaceVolume componentVolImage

Volume image object.

cubicBehaviorBG

javax.media.j3d.BranchGroup cubicBehaviorBG

The cubic roational behavior branch group.

cubicBG

javax.media.j3d.BranchGroup cubicBG

Cubic branch group.

cubicRotate

com.sun.j3d.utils.behaviors.mouse.MouseRotate cubicRotate

Cubic mouse rotation behavior.

cubicTG

javax.media.j3d.TransformGroup cubicTG

Cubic transform group.

currentTransform

javax.media.j3d.Transform3D currentTransform

Current transform matrix.

currentTransformType

int currentTransformType

Current transform changes type.

first6ClipPlane

boolean first6ClipPlane

flag indicate the first time 6 clipping plane branch switch.

firstClipArbi

boolean firstClipArbi

flag indicate the first time arbitrary clipping plane branch switch.

geodesicPanel

JPanelGeodesic geodesicPanel

Geodesic panel.

imageA

ModelImage imageA

Current image A.

imageB

ModelImage imageB

Current image B.

imageVolBufferA

float[] imageVolBufferA

Buffer that holds image A volume data.

imageVolBufferB

float[] imageVolBufferB

Buffer that holds image B volume data.

isEntryPoint

boolean isEntryPoint

Flag indicates that probe rotate around the entry point or not.

isTriPlanarVolView

boolean isTriPlanarVolView

Mode is tri-planar volume view or not.

isViewTextureAligned

boolean isViewTextureAligned

Flag to indicate whether the view volume texture is aligned or not.

m_bRenderModeLighting

boolean m_bRenderModeLighting

Flag set when texture volume is being rendered using lights.

m_dOriginalScreenScale

double m_dOriginalScreenScale

Zoomfactor, zooming in screen scale space, and is relative to original position, this stores that original position:.

m_kObjBoxSliceProbe_TG

javax.media.j3d.TransformGroup[] m_kObjBoxSliceProbe_TG

TransformGroup[] used to rotate the AXIAL, CORONAL, SAGITTAL slice BOXES:

m_kObjPlaneProbe_TG

javax.media.j3d.TransformGroup[] m_kObjPlaneProbe_TG

TransformGroup[] used to rotate the AXIAL, CORONAL, SAGITTAL slice PLANES:

m_kProbeTransform

javax.media.j3d.Transform3D m_kProbeTransform

The Transform3D used to position the planes based on the Probe position and angle. The planes are rotates about the intersection between the probe and the plane, which may or may not be in the center of the plane. This transform allows non-origin rotations by conactenating the translation to the origin, rotation, and translation matricies into one transform, which is used to set the Transforms for the TransformGroups above and also to sample the ModelImage data on the diagonal slice:

m_kRFACoordMaps

javax.vecmath.Vector4f[][] m_kRFACoordMaps

Texture mapping for the RFA probe rotation:

m_kSoftwareLightSet

SoftwareLightSet m_kSoftwareLightSet

Used to compute software lighting of composite texture volume.

m_kSoftwareMaterial

SoftwareMaterial m_kSoftwareMaterial

DOCUMENT ME!

maxBox

float maxBox

Numbers dicatating the sizes of the planes based on the extents and resolutions of the image.

mousePanel

JPanelMouse mousePanel

Dialog for recording and playing back mouse events.

mouseRotateBehavior

MouseRotateExt mouseRotateBehavior

Mouse Rotate behavior.

mouseTranslateBehavior

com.sun.j3d.utils.behaviors.mouse.MouseTranslate mouseTranslateBehavior

Mouse Translate behavior.

mouseZoomBehavior

com.sun.j3d.utils.behaviors.mouse.MouseZoom mouseZoomBehavior

Mouse Zoom behavior.

myEyePoint

javax.vecmath.Point3d myEyePoint

Initial center viewing point of the image.

objBoxSlices_BG

javax.media.j3d.BranchGroup[] objBoxSlices_BG

BranchGroup[] containing the slice BOXES:

objPlane_BG

javax.media.j3d.BranchGroup[] objPlane_BG

BranchGroup[] containing the image planes.

objTransSlices_TG

javax.media.j3d.TransformGroup[] objTransSlices_TG

Group dictating how the XY plane is translated.

parallelRotation

boolean parallelRotation

Parallel rotation flag.

parallelScaleT3D

javax.media.j3d.Transform3D parallelScaleT3D

Transformation matrix.

parent

ViewJFrameBase parent

Controls for the image. ViewJFrameVolumeView

probePanel

JPanelProbe probePanel

Dialog for loading and displaying probes.

rayBasedRender

VolumeRenderer rayBasedRender

Raycast based renderer reference, raycast renderer or shear warp renderer.

resols

float[] resols

Resolutions of image A.

rotationAlpha

javax.media.j3d.Alpha rotationAlpha

rotationCount

int rotationCount

fix one bug from threading.

sculptorPanel

JPanelSculptor sculptorPanel

Sculptor panel.

segmentationImage

ModelImage segmentationImage

Image with areas marked with values indicating that they are special tissue types (vessels, etc).

sliceImageComponent2D

javax.media.j3d.ImageComponent2D[] sliceImageComponent2D

Each Texture2D adds a ImageComponent2D:

slicePanel

JPanelSlices slicePanel

Dialog to turn the slices control box on and off.

sliceTextures

javax.media.j3d.Texture2D[] sliceTextures

ViewJComponentTriSliceImages -> Texture2D to display the image slices:

sliceTransparency

javax.media.j3d.TransparencyAttributes[] sliceTransparency

ViewJComponentTriSliceImages -> Texture2D transparency values:

surfacePanel

JPanelSurface surfacePanel

Dialog for loading and displaying surfaces.

surfaceTexturePanel

JPanelSurfaceTexture surfaceTexturePanel

Panel for displaying the SurfaceTexture interface:

switchGroup

javax.media.j3d.Switch switchGroup

Tri planar view and the 3D texture volume view switch group.

tDim

int tDim

Dimensions of image A.

texture

VolumeTexture texture

Reference to 3D texture node for the volume.

transformCubic

javax.media.j3d.Transform3D transformCubic

Cubic tansform3D.

transformNode3d

javax.media.j3d.Transform3D transformNode3d

Setup the initial position of the image, added to ScenerootTG transform group.

triSliceGeometry

javax.media.j3d.Shape3D[] triSliceGeometry

triSliceImages

ViewJComponentTriSliceImage[] triSliceImages

ImageRenderers for the AXIAL, CORONAL, SAGITTAL slices:

view

javax.media.j3d.View view

View object in rendering a three dimensional scene from one viewpoint.

volBG

javax.media.j3d.BranchGroup volBG

Volume branch group.

volOpacityPanel

JPanelVolumeOpacity volOpacityPanel

Volume opacity control dialog.

volRenderBG

javax.media.j3d.BranchGroup volRenderBG

Volume render branch group.

volRenderNode

NodeVolumeTextureRender volRenderNode

Add here.

volRenderOG

javax.media.j3d.OrderedGroup volRenderOG

Volume render order group, specify the rendering order.

volumeDisplayMode3D

boolean volumeDisplayMode3D

If true display 3D volume as a 3D texture map or 2D array of texture maps. If false display 3 orthogonal image planes.

xBox

float xBox

Numbers dicatating the sizes of the planes based on the extents and resolutions of the image.

xDim

int xDim

Dimensions of image A.

yBox

float yBox

Numbers dicatating the sizes of the planes based on the extents and resolutions of the image.

yDim

int yDim

Dimensions of image A.

zBox

float zBox

Numbers dicatating the sizes of the planes based on the extents and resolutions of the image.

zDim

int zDim

Dimensions of image A.

Class gov.nih.mipav.view.renderer.J3D.surfaceview.SurfaceView extends SurfaceRender implements Serializable

serialVersionUID:

608959413602233595L

Serialized Fields

boxPanel

JPanelDisplay boxPanel

Dialog to turn bounding box of surface renderer on and off, and to change the color of the frame.

boxSlices

ViewJComponentBoxSlice[] boxSlices

The frame around the AXIAL, CORONAL, SAGITTAL slices:

boxSliceVertices

javax.vecmath.Vector3f[][] boxSliceVertices

The transformed boxSlices frames used to sample the volume data along diagonal slices:

bufferFactor

int bufferFactor

Buffer factor, 1 usually, 4 for color images.

clipPanel

JPanelClip clipPanel

Dialog to turn the clipping palne box on and off.

cubicBehaviorBG

javax.media.j3d.BranchGroup cubicBehaviorBG

The cubic roational behavior branch group.

cubicBG

javax.media.j3d.BranchGroup cubicBG

Cubic branch group.

cubicRotate

com.sun.j3d.utils.behaviors.mouse.MouseRotate cubicRotate

Cubic mouse rotation behavior.

cubicTG

javax.media.j3d.TransformGroup cubicTG

Cubic transform group.

currentTransform

javax.media.j3d.Transform3D currentTransform

Current transform matrix.

currentTransformType

int currentTransformType

Current transform changes type.

first6ClipPlane

boolean first6ClipPlane

flag indicate the first time 6 clipping plane branch switch.

firstClipArbi

boolean firstClipArbi

flag indicate the first time arbitrary clipping plane branch switch.

geodesicPanel

JPanelGeodesic geodesicPanel

Geodesic panel.

imageA

ModelImage imageA

Current image A.

imageB

ModelImage imageB

Current image B.

isEntryPoint

boolean isEntryPoint

Flag indicates that probe rotate around the entry point or not.

m_bRenderModeLighting

boolean m_bRenderModeLighting

Flag set when texture volume is being rendered using lights.

m_dOriginalScreenScale

double m_dOriginalScreenScale

Zoomfactor, zooming in screen scale space, and is relative to original position, this stores that original position:.

m_kObjBoxSliceProbe_TG

javax.media.j3d.TransformGroup[] m_kObjBoxSliceProbe_TG

TransformGroup[] used to rotate the AXIAL, CORONAL, SAGITTAL slice BOXES:

m_kObjPlaneProbe_TG

javax.media.j3d.TransformGroup[] m_kObjPlaneProbe_TG

TransformGroup[] used to rotate the AXIAL, CORONAL, SAGITTAL slice PLANES:

m_kProbeTransform

javax.media.j3d.Transform3D m_kProbeTransform

The Transform3D used to position the planes based on the Probe position and angle. The planes are rotates about the intersection between the probe and the plane, which may or may not be in the center of the plane. This transform allows non-origin rotations by conactenating the translation to the origin, rotation, and translation matricies into one transform, which is used to set the Transforms for the TransformGroups above and also to sample the ModelImage data on the diagonal slice:

m_kRFACoordMaps

javax.vecmath.Vector4f[][] m_kRFACoordMaps

Texture mapping for the RFA probe rotation:

m_kSoftwareLightSet

SoftwareLightSet m_kSoftwareLightSet

Used to compute software lighting of composite texture volume.

m_kSoftwareMaterial

SoftwareMaterial m_kSoftwareMaterial

DOCUMENT ME!

maxBox

float maxBox

Numbers dicatating the sizes of the planes based on the extents and resolutions of the image.

mousePanel

JPanelMouse mousePanel

Dialog for recording and playing back mouse events.

mouseRotateBehavior

MouseRotateExt mouseRotateBehavior

Mouse Rotate behavior.

mouseTranslateBehavior

com.sun.j3d.utils.behaviors.mouse.MouseTranslate mouseTranslateBehavior

Mouse Translate behavior.

mouseZoomBehavior

com.sun.j3d.utils.behaviors.mouse.MouseZoom mouseZoomBehavior

Mouse Zoom behavior.

myEyePoint

javax.vecmath.Point3d myEyePoint

Initial center viewing point of the image.

objPlane_BG

javax.media.j3d.BranchGroup[] objPlane_BG

BranchGroup[] containing the image planes.

objTransSlices_TG

javax.media.j3d.TransformGroup[] objTransSlices_TG

Group dictating how the XY plane is translated.

parallelRotation

boolean parallelRotation

Parallel rotation flag.

parallelScaleT3D

javax.media.j3d.Transform3D parallelScaleT3D

Transformation matrix.

parent

ViewJFrameBase parent

Controls for the image. ViewJFrameVolumeView

probePanel

JPanelProbe probePanel

Dialog for loading and displaying probes.

resols

float[] resols

Resolutions of image A.

rotationCount

int rotationCount

fix one bug from threading.

segmentationImage

ModelImage segmentationImage

Image with areas marked with values indicating that they are special tissue types (vessels, etc).

slicePanel

JPanelSlices slicePanel

Dialog to turn the slices control box on and off.

surfacePanel

JPanelSurface surfacePanel

Dialog for loading and displaying surfaces.

surfaceTexturePanel

JPanelSurfaceTexture surfaceTexturePanel

Panel for displaying the SurfaceTexture interface:

switchGroup

javax.media.j3d.Switch switchGroup

Tri planar view and the 3D texture volume view switch group.

tDim

int tDim

Dimensions of image A.

transformCubic

javax.media.j3d.Transform3D transformCubic

Cubic tansform3D.

transformNode3d

javax.media.j3d.Transform3D transformNode3d

Setup the initial position of the image, added to ScenerootTG transform group.

view

javax.media.j3d.View view

View object in rendering a three dimensional scene from one viewpoint.

volBG

javax.media.j3d.BranchGroup volBG

Volume branch group.

volRenderBG

javax.media.j3d.BranchGroup volRenderBG

Volume render branch group.

volRenderOG

javax.media.j3d.OrderedGroup volRenderOG

Volume render order group, specify the rendering order.

volumeDisplayMode3D

boolean volumeDisplayMode3D

If true display 3D volume as a 3D texture map or 2D array of texture maps. If false display 3 orthogonal image planes.

xBox

float xBox

Numbers dicatating the sizes of the planes based on the extents and resolutions of the image.

xDim

int xDim

Dimensions of image A.

yBox

float yBox

Numbers dicatating the sizes of the planes based on the extents and resolutions of the image.

yDim

int yDim

Dimensions of image A.

zBox

float zBox

Numbers dicatating the sizes of the planes based on the extents and resolutions of the image.

zDim

int zDim

Dimensions of image A.

Package gov.nih.mipav.view.renderer.J3D.surfaceview.brainflattenerview

Class gov.nih.mipav.view.renderer.J3D.surfaceview.brainflattenerview.JPanelBrainSurfaceFlattener extends JPanelRendererJ3D implements Serializable

serialVersionUID:

-2749305357977770854L

Serialized Fields

m_bFileLoaded

boolean m_bFileLoaded

DOCUMENT ME!

m_bFirstSurface

boolean m_bFirstSurface

DOCUMENT ME!

m_iGridY

int m_iGridY

DOCUMENT ME!

m_kButtonLoadImage

javax.swing.JButton m_kButtonLoadImage

DOCUMENT ME!

m_kButtonLoadSurface

javax.swing.JButton m_kButtonLoadSurface

DOCUMENT ME!

m_kCenter

javax.vecmath.Point3f m_kCenter

DOCUMENT ME!

m_kDisablePick

javax.swing.JRadioButton m_kDisablePick

DOCUMENT ME!

m_kDisplayButtonGroup

javax.swing.ButtonGroup m_kDisplayButtonGroup

DOCUMENT ME!

m_kDisplayPlane

javax.swing.JRadioButton m_kDisplayPlane

DOCUMENT ME!

m_kDisplaySphere

javax.swing.JRadioButton m_kDisplaySphere

DOCUMENT ME!

m_kFile

java.io.File m_kFile

DOCUMENT ME!

m_kImage

ModelImage m_kImage

DOCUMENT ME!

m_kImageDir

java.lang.String m_kImageDir

DOCUMENT ME!

m_kImageFile

java.lang.String m_kImageFile

DOCUMENT ME!

m_kLabelFileName

javax.swing.JLabel m_kLabelFileName

DOCUMENT ME!

m_kLabelFileNameImage

javax.swing.JLabel m_kLabelFileNameImage

DOCUMENT ME!

m_kLatLonLines

javax.swing.JCheckBox m_kLatLonLines

DOCUMENT ME!

m_kLUTa

ModelLUT m_kLUTa

DOCUMENT ME!

m_kLUTImageA

ModelImage m_kLUTImageA

DOCUMENT ME!

m_kNumLatText

javax.swing.JTextField m_kNumLatText

DOCUMENT ME!

m_kNumLonText

javax.swing.JTextField m_kNumLonText

DOCUMENT ME!

m_kPanelBrainsurfaceFlattenerLUT

JFrameHistogram m_kPanelBrainsurfaceFlattenerLUT

DOCUMENT ME!

m_kParentFrame

ViewJFrameVolumeView m_kParentFrame

DOCUMENT ME!

m_kPickButtonGroup

javax.swing.ButtonGroup m_kPickButtonGroup

DOCUMENT ME!

m_kPickCorrespondence

javax.swing.JRadioButton m_kPickCorrespondence

DOCUMENT ME!

m_kPickPuncture

javax.swing.JRadioButton m_kPickPuncture

DOCUMENT ME!

m_kSurfaceDir

java.lang.String m_kSurfaceDir

DOCUMENT ME!

m_kTriangleMesh

ModelTriangleMesh m_kTriangleMesh

DOCUMENT ME!

m_kView

MjCorticalAnalysis m_kView

DOCUMENT ME!

Class gov.nih.mipav.view.renderer.J3D.surfaceview.brainflattenerview.MjCorticalAnalysis extends RenderViewBase implements Serializable

serialVersionUID:

-6130870790192175575L

Serialized Fields

m_aiTriIndex

int[] m_aiTriIndex

DOCUMENT ME!

m_akPickColors

javax.vecmath.Color3f[] m_akPickColors

Colors for the picked points:.

m_akTriColors

javax.vecmath.Color4f[] m_akTriColors

DOCUMENT ME!

m_bCurvatureColors

boolean m_bCurvatureColors

Flag set to indicate whether curvature colors are rendered on the mesh surface. If not, then average convexity colors are rendered.

m_bInflationInitialized

boolean m_bInflationInitialized

Flag set once inflation processing has been initialized.

m_bMousePressed

boolean m_bMousePressed

Mouse events. Setting mousePressed and mouseReleased explicitly when the mouse events are received has deals with getting multiply mouse event notifications for the same mouse press.

m_bMouseReleased

boolean m_bMouseReleased

DOCUMENT ME!

m_bPickCorrespondenceEnabled

boolean m_bPickCorrespondenceEnabled

Turned on when picking with the mouse is enabled:.

m_bPickPunctureEnabled

boolean m_bPickPunctureEnabled

DOCUMENT ME!

m_iNumPicked

int m_iNumPicked

number of picked points displayed.

m_iRunningNumPicked

int m_iRunningNumPicked

DOCUMENT ME!

m_kCortical

MjCorticalMesh m_kCortical

Cortical mesh to be used in rendering scene.

m_kGeometryArrayPlane

javax.media.j3d.GeometryArray m_kGeometryArrayPlane

DOCUMENT ME!

m_kGeometryArraySphere

javax.media.j3d.GeometryArray m_kGeometryArraySphere

DOCUMENT ME!

m_kLUTConvexity

ModelLUT m_kLUTConvexity

DOCUMENT ME!

m_kLUTCurvature

ModelLUT m_kLUTCurvature

local reference to ModelLUT.

m_kMeshBranchRoot

javax.media.j3d.BranchGroup m_kMeshBranchRoot

BranchGroups for the Meshlines, for deleting and recreating the meshlines when the user changes the number of latitude and longitude lines:.

m_kMeshLinesBranchRoot

javax.media.j3d.BranchGroup m_kMeshLinesBranchRoot

DOCUMENT ME!

m_kMouseEvent

java.awt.event.MouseEvent m_kMouseEvent

DOCUMENT ME!

m_kPanel

JPanelBrainSurfaceFlattener m_kPanel

DOCUMENT ME!

m_kPickCanvas

com.sun.j3d.utils.picking.PickCanvas m_kPickCanvas

DOCUMENT ME!

m_kShapeMesh

javax.media.j3d.Shape3D m_kShapeMesh

DOCUMENT ME!

m_kShapePlane

javax.media.j3d.Shape3D m_kShapePlane

DOCUMENT ME!

m_kShapeSphere

javax.media.j3d.Shape3D m_kShapeSphere

DOCUMENT ME!

m_kSwitchDisplay

javax.media.j3d.Switch m_kSwitchDisplay

Switch between displaying the Sphere and the Plane:.

m_kSwitchLinesMesh

javax.media.j3d.Switch m_kSwitchLinesMesh

This node contains the latitude/longitude renderings for the mesh which can be enabled/disabled.

m_kSwitchLinesPlane

javax.media.j3d.Switch m_kSwitchLinesPlane

This node contains the latitude/longitude renderings for the plane which can be enabled/disabled.

m_kSwitchLinesPlaneBranch

javax.media.j3d.BranchGroup m_kSwitchLinesPlaneBranch

DOCUMENT ME!

m_kSwitchLinesSphere

javax.media.j3d.Switch m_kSwitchLinesSphere

This node contains the latitude/longitude renderings for the sphere which can be enabled/disabled.

m_kSwitchLinesSphereBranch

javax.media.j3d.BranchGroup m_kSwitchLinesSphereBranch

DOCUMENT ME!

m_kTransformGroupActive

javax.media.j3d.TransformGroup m_kTransformGroupActive

Currently selected transform that gets modified by the handler for the keyboard behavior.

m_kTransformGroupMesh

javax.media.j3d.TransformGroup m_kTransformGroupMesh

DOCUMENT ME!

m_kTransformGroupPlane

javax.media.j3d.TransformGroup m_kTransformGroupPlane

DOCUMENT ME!

m_kTransformGroupPoseMesh

javax.media.j3d.TransformGroup m_kTransformGroupPoseMesh

This node contains all of the cortical mesh related nodes in the scene which can be manipulated as a group.

m_kTransformGroupPosePlane

javax.media.j3d.TransformGroup m_kTransformGroupPosePlane

This node contains all of the plane related nodes in the scene which can be manipulated as a group.

m_kTransformGroupPoseSphere

javax.media.j3d.TransformGroup m_kTransformGroupPoseSphere

This node contains all of the sphere related nodes in the scene which can be manipulated as a group.

m_kTransformGroupSphere

javax.media.j3d.TransformGroup m_kTransformGroupSphere

DOCUMENT ME!

m_kTriangleMesh

ModelTriangleMesh m_kTriangleMesh

Geometry for the rendering of the cortical mesh is maintained here so that the scene can be updated when the mesh is inflated.

MAX_POINTS

int MAX_POINTS

DOCUMENT ME!

MESH

int MESH

DOCUMENT ME!

PLANE

int PLANE

DOCUMENT ME!

SPHERE

int SPHERE

DOCUMENT ME!

Class gov.nih.mipav.view.renderer.J3D.surfaceview.brainflattenerview.MjVector2f extends javax.vecmath.Vector2f implements Serializable

serialVersionUID:

-1076716465909115350L

Class gov.nih.mipav.view.renderer.J3D.surfaceview.brainflattenerview.MjVector3f extends javax.vecmath.Vector3f implements Serializable

serialVersionUID:

-3573463090318350522L

Package gov.nih.mipav.view.renderer.J3D.surfaceview.flythruview

Class gov.nih.mipav.view.renderer.J3D.surfaceview.flythruview.FlythruRender extends SurfaceRender implements Serializable

serialVersionUID:

-3255657270255875848L

Serialized Fields

buffer

short[] buffer

DOCUMENT ME!

capScreenHeight

int capScreenHeight

DOCUMENT ME!

capScreenWidth

int capScreenWidth

DOCUMENT ME!

currEventTime

long currEventTime

Current mouse press event time stamp.

directory

java.lang.String directory

DOCUMENT ME!

extents

int[] extents

DOCUMENT ME!

fileType

java.lang.String fileType

DOCUMENT ME!

imageCounter

int imageCounter

DOCUMENT ME!

imageToMovie

JpegImagesToMovie imageToMovie

DOCUMENT ME!

kCanvas

VolumeCanvas3D kCanvas

DOCUMENT ME!

kImage

ModelImage kImage

DOCUMENT ME!

m_aiBranchIndexUnvisitedMax

int[] m_aiBranchIndexUnvisitedMax

DOCUMENT ME!

m_aiBranchIndexUnvisitedMin

int[] m_aiBranchIndexUnvisitedMin

This is the range of path samples for each branch that are unvisited.

m_aiMeshConnectivity

int[] m_aiMeshConnectivity

DOCUMENT ME!

m_iLastSelectedBranchIndex

int m_iLastSelectedBranchIndex

Keep track of the last branch that was selected (at a branch point).

m_kAnnotateList

FlyPathAnnotateList m_kAnnotateList

This is for the collection of annotation points.

m_kAnnotatePointGroup

javax.media.j3d.Group m_kAnnotatePointGroup

DOCUMENT ME!

m_kBranchConnectShape

javax.media.j3d.Shape3D m_kBranchConnectShape

DOCUMENT ME!

m_kBranchPathShape

javax.media.j3d.Shape3D m_kBranchPathShape

This is the Java3D geometry for the path.

m_kControlFrame

JPanelVirtualEndoscopySetup m_kControlFrame

This is the control frame which may need to be updated as the view changes.

m_kFlyPathBehavior

FlyPathBehavior m_kFlyPathBehavior

Keep track of the FlyPathBehavior because it knows about the view from the path.

m_kFlyPathGraphCurve

FlyPathGraphCurve m_kFlyPathGraphCurve

DOCUMENT ME!

m_kFlyPathGraphSamples

FlyPathGraphSamples m_kFlyPathGraphSamples

This is the path extracted from the skeletonization.

m_kGeodesicGroup

javax.media.j3d.Group m_kGeodesicGroup

DOCUMENT ME!

m_kMeanCurvaturesLUT

ModelLUT m_kMeanCurvaturesLUT

DOCUMENT ME!

m_kMeshCurvatures

ModelTriangleMeshCurvatures m_kMeshCurvatures

DOCUMENT ME!

m_kMouseRotateBehavior

com.sun.j3d.utils.behaviors.mouse.MouseRotate m_kMouseRotateBehavior

DOCUMENT ME!

m_kNormalColorPathUnvisited

javax.vecmath.Color3f m_kNormalColorPathUnvisited

DOCUMENT ME!

m_kNormalColorPathVisited

javax.vecmath.Color3f m_kNormalColorPathVisited

These are the colors to use when rendering the normal/selected branch that is unvisited/visited.

m_kOptions

FlythruRender.SetupOptions m_kOptions

These are the setup options passed to the constructor which we need to keep track of in case we need to use them outside the constructor.

m_kPickCanvas

com.sun.j3d.utils.picking.PickCanvas m_kPickCanvas

Used for picking.

m_kPointLight

javax.media.j3d.PointLight m_kPointLight

DOCUMENT ME!

m_kSceneRoot

javax.media.j3d.BranchGroup m_kSceneRoot

These are part of the scene and view.

m_kSelectColorPathUnvisited

javax.vecmath.Color3f m_kSelectColorPathUnvisited

DOCUMENT ME!

m_kSelectColorPathVisited

javax.vecmath.Color3f m_kSelectColorPathVisited

DOCUMENT ME!

m_kSkeleton

Skeleton3D m_kSkeleton

This it skeletonization of the binary volume.

m_kSurface

ModelTriangleMesh m_kSurface

This is the surface geometry and its properties.

m_kSurfaceCurveSegments

ModelTriangleMeshCurveSegments m_kSurfaceCurveSegments

DOCUMENT ME!

m_kSurfaceGeometry

javax.media.j3d.IndexedGeometryArray m_kSurfaceGeometry

DOCUMENT ME!

m_kSurfaceGeometryInfo

com.sun.j3d.utils.geometry.GeometryInfo m_kSurfaceGeometryInfo

This is the Java3D geometry for the surface.

m_kSurfaceMesh

ModelTriangleMesh m_kSurfaceMesh

DOCUMENT ME!

m_kSurfaceShape

javax.media.j3d.Shape3D m_kSurfaceShape

DOCUMENT ME!

m_kUniverse

com.sun.j3d.utils.universe.SimpleUniverse m_kUniverse

The simple universe contains a single canvas, a viewing platform, and a scene graph. The scene graph will contain all objects involved in the rendering.

m_kVolumeLayout

ModelImage3DLayout m_kVolumeLayout

Describes the organization of the volume data in a linear array.

movieMake

MovieMaker movieMake

DOCUMENT ME!

parentFrame

ViewJFrameVolumeView parentFrame

DOCUMENT ME!

pixels

int[] pixels

DOCUMENT ME!

pressed

boolean pressed

If any of the mouse move button pressed.

prevEventTime

long prevEventTime

Previous mouse press event time stamp.

rendererProgressBar

javax.swing.JProgressBar rendererProgressBar

A local reference to the volume renderer frame's progress bar.

robot

java.awt.Robot robot

DOCUMENT ME!

saveCounter

int saveCounter

DOCUMENT ME!

time

long time

Time to wait for the next mouse event.

Class gov.nih.mipav.view.renderer.J3D.surfaceview.flythruview.JPanelVirtualEndoscopySetup extends JPanelRendererJ3D implements Serializable

serialVersionUID:

5676430934584329807L

Serialized Fields

contentBox

javax.swing.Box contentBox

Box layout for control panel.

continueUpdate

boolean continueUpdate

Flag indicates to continue update the surface render and plane render or not.

directory

java.lang.String directory

File name and directory.

endoscopyImage

ModelImage endoscopyImage

Loaded endoscopy image file.

fileName

java.lang.String fileName

File name and directory.

flythruButtonLoadImage

javax.swing.JButton flythruButtonLoadImage

DOCUMENT ME!

flythruLabelFileName

javax.swing.JLabel flythruLabelFileName

DOCUMENT ME!

kDialogSmooth

JDialogSmoothMesh kDialogSmooth

Surface smooth control panel reference.

kFile

java.io.File kFile

File to open the mask suface.

kPanelButton

javax.swing.JPanel kPanelButton

Button panel.

m_bShowMeanCurvatures

boolean m_bShowMeanCurvatures

Flag indicates to show pseudo color or not.

m_kButtonLoadSurface

javax.swing.JButton m_kButtonLoadSurface

DOCUMENT ME!

m_kCheckBoxShowCurvatures

javax.swing.JCheckBox m_kCheckBoxShowCurvatures

DOCUMENT ME!

m_kComboSegmentSurfaceBranchSamplesReductionFactor

javax.swing.JComboBox m_kComboSegmentSurfaceBranchSamplesReductionFactor

Surface sample reduction factor.

m_kContinueUpdate

javax.swing.JCheckBox m_kContinueUpdate

DOCUMENT ME!

m_kDecimalFormat

java.text.DecimalFormat m_kDecimalFormat

Used to create text representations of numbers.

m_kLabelBranch

javax.swing.JLabel m_kLabelBranch

DOCUMENT ME!

m_kLabelDirection

javax.swing.JLabel m_kLabelDirection

DOCUMENT ME!

m_kLabelDistance

javax.swing.JLabel m_kLabelDistance

DOCUMENT ME!

m_kLabelFileName

javax.swing.JLabel m_kLabelFileName

Automatically inserted by JBuilder Designer.

m_kLabelOrientation

javax.swing.JLabel m_kLabelOrientation

DOCUMENT ME!

m_kLabelPosition

javax.swing.JLabel m_kLabelPosition

DOCUMENT ME!

m_kLabelStepGaze

javax.swing.JLabel m_kLabelStepGaze

DOCUMENT ME!

m_kMeanCurvaturesLUT

ModelLUT m_kMeanCurvaturesLUT

kMean curvature LUT. Pseudo color look up table.

m_kOptions

FlythruRender.SetupOptions m_kOptions

Image option panel.

m_kTextBranch

javax.swing.JTextField m_kTextBranch

DOCUMENT ME!

m_kTextDirection

javax.swing.JTextField m_kTextDirection

DOCUMENT ME!

m_kTextDistance

javax.swing.JTextField m_kTextDistance

DOCUMENT ME!

m_kTextMaxNumBranches

javax.swing.JTextField m_kTextMaxNumBranches

maximum number of branches created for the endoscopy view.

m_kTextMinBranchLength

javax.swing.JTextField m_kTextMinBranchLength

minimum branch length.

m_kTextOrientation

javax.swing.JTextField m_kTextOrientation

DOCUMENT ME!

m_kTextPercentBSplineNumControlPoints

javax.swing.JTextField m_kTextPercentBSplineNumControlPoints

BSpline control points fraction of branch samples.

m_kTextPosition

javax.swing.JTextField m_kTextPosition

DOCUMENT ME!

m_kTextStepGaze

javax.swing.JTextField m_kTextStepGaze

DOCUMENT ME!

m_kTriangleMesh

ModelTriangleMesh m_kTriangleMesh

Keep a copy of the loaded triangle mesh and any other properties associated with the surface.

m_kView

FlythruRender m_kView

Applet that is associated with the controls in this frame.

parentFrame

ViewJFrameVolumeView parentFrame

Keep a reference to the ViewJFrameVolumeView.

scroller

javax.swing.JScrollPane scroller

Scroll pane.

scrollPanel

JPanelVirtualEndoscopySetup.DrawingPanel scrollPanel

Scroll panel that holding all the control components.

surfaceDir

java.lang.String surfaceDir

Loaded mask surface image directory.

updateButton

javax.swing.JButton updateButton

continue update button.

Class gov.nih.mipav.view.renderer.J3D.surfaceview.flythruview.ViewJSimpleProgressBar extends ViewJProgressBar implements Serializable

serialVersionUID:

-8035459499734828360L

Serialized Fields

m_fRangeMax

float m_fRangeMax

DOCUMENT ME!

m_fRangeMin

float m_fRangeMin

Remember the range of input values for the progress bar. It is not required that the minimum be less than the maximum.

m_iLastValue

int m_iLastValue

Remember the value passed to the setValue method of the JProgressBar. When valid, should be in range [0,RESOLUTION).

Package gov.nih.mipav.view.renderer.J3D.surfaceview.plotterview

Class gov.nih.mipav.view.renderer.J3D.surfaceview.plotterview.JPanelMousePlotter extends JPanelRendererJ3D implements Serializable

serialVersionUID:

-8105261993244718879L

Serialized Fields

changedMode

boolean changedMode

flag to indicate current mode being changed.

contButton

javax.swing.JToggleButton contButton

Continue play button.

current

int current

index to the item list.

currentEventVector

MouseEventVectorPlotter currentEventVector

Current event vector used by the save AVI.

currentObject

java.lang.Object currentObject

current SceneState object being recorded by SaveAVI.

currentTransform

javax.media.j3d.Transform3D currentTransform

Current transform3D object used in Save AVI.

events

java.util.Vector<MouseEventVectorPlotter> events

Vector that holds mouse or change events.

eventVector

MouseEventVectorPlotter eventVector

Global mouse event vector.

first

boolean first

Flag to indicate first event.

goButton

javax.swing.JButton goButton

Go to button.

isPlaying

boolean isPlaying

Flag to indicating play mouse is running or not.

listModel

javax.swing.DefaultListModel listModel

List to record info for each mouse, change events.

mjpegQuality

float mjpegQuality

DOCUMENT ME!

mode

int mode

Current mode, init to stop.

mouseCount

int mouseCount

Mouse event counter.

movieButton

javax.swing.JButton movieButton

Save AVI button .

myParentPlotter

SurfacePlotter myParentPlotter

Reference to ViewJFrameSurfacePlotter.

nameChangeVector

MouseEventVectorPlotter nameChangeVector

Used by name change dialog to change name of the selected item.

newButton

javax.swing.JButton newButton

This button add at head of the list.

parentScene

RenderViewBase parentScene

Parent scene.

pauseButton

javax.swing.JToggleButton pauseButton

Pause button.

playButton

javax.swing.JToggleButton playButton

Display button.

playMouse

JPanelMousePlotter.PlayMouse playMouse

Reference to PlayMouse class object.

process

int process

Process id used by the save AVI.

recordButton

javax.swing.JToggleButton recordButton

Recorder button.

recorderToAVI

JPanelMousePlotter.RecordMouse recorderToAVI

Reference to RecordMouse object class.

removeAllButton

javax.swing.JButton removeAllButton

Remove all items in the item list.

removeButton

javax.swing.JButton removeButton

Remove the selected item in the item list.

resetTransform

javax.media.j3d.Transform3D resetTransform

Current transform3D object.

setMouseVectorFlag

boolean setMouseVectorFlag

flag to indicate the first time mouse tranform event happpened.

sliderCount

int sliderCount

Slider moves event counter.

stepButton

javax.swing.JToggleButton stepButton

Next step button.

stopButton

javax.swing.JToggleButton stopButton

Stop button.

toolBar

javax.swing.JToolBar toolBar

Tool bar of the mouse recorder.

transformChange

boolean transformChange

DOCUMENT ME!

viewList

javax.swing.JList viewList

View list of the mouse recorder display list.

Class gov.nih.mipav.view.renderer.J3D.surfaceview.plotterview.JPanelSurfaceBox extends JPanelRendererJ3D implements Serializable

serialVersionUID:

-1435246141584042105L

Serialized Fields

boundingCheck

javax.swing.JCheckBox boundingCheck

Check box for turning box on and off.

buttonPanel

javax.swing.JPanel buttonPanel

DOCUMENT ME!

coarse

javax.swing.JTextField coarse

DOCUMENT ME!

coarseLabel

javax.swing.JLabel coarseLabel

DOCUMENT ME!

coarseValue

float coarseValue

DOCUMENT ME!

colorButton

javax.swing.JButton colorButton

Color button for changing color.

colorButtonBackground

javax.swing.JButton colorButtonBackground

Color button for changing z color.

colorChooser

ViewJColorChooser colorChooser

Color chooser dialog.

cubePanel

javax.swing.JPanel cubePanel

Panel for the rotation cube.

cubicCheck

javax.swing.JCheckBox cubicCheck

Check box for cubic control.

fine

javax.swing.JTextField fine

DOCUMENT ME!

fineLabel

javax.swing.JLabel fineLabel

DOCUMENT ME!

fineValue

float fineValue

DOCUMENT ME!

flag

boolean flag

Flag indicating if box is on or off.

radioButtonGroupProjections

javax.swing.ButtonGroup radioButtonGroupProjections

Button group for projections.

radioButtonOrthographic

javax.swing.JRadioButton radioButtonOrthographic

Radio Button for Orthographic rendering.

radioButtonPerspective

javax.swing.JRadioButton radioButtonPerspective

Radio Button for Perspective rendering.

viewAlignedButton

javax.swing.JRadioButton viewAlignedButton

Radio Button for Perspective rendering.

viewButton

javax.swing.JRadioButton viewButton

Radio Button for Orthographic rendering.

viewTextureButtonGroup

javax.swing.ButtonGroup viewTextureButtonGroup

Button group for projections.

Class gov.nih.mipav.view.renderer.J3D.surfaceview.plotterview.MouseEventVectorPlotter extends java.lang.Object implements Serializable

serialVersionUID:

-6069342266407301187L

Serialization Methods

readObject

private void readObject(java.io.ObjectInputStream stream)
                 throws java.io.IOException,
                        java.lang.ClassNotFoundException

Called by some native invokeMethod. Provides a way to read this class out as a object stream. First, the size of the vector is read, then each mouseEvent into the vector, then the name, then the view. The view is read in as a String because it is not serializable. The read method corresponds to the write method, below.

Throws:

java.io.IOException - If the matrix being read in by the JDialogMouseRecorder has the incorrect size.

java.lang.ClassNotFoundException - DOCUMENT ME!

writeObject

private void writeObject(java.io.ObjectOutputStream stream)
                  throws java.io.IOException

Called by some native invokeMethod. Provides a way to write this class out as a object stream. First, the size of the vector is written, then each mouseEvent in the vector, then the name, then the view. The view is written out as a String because it is not serializable. The write method corresponds to the read method, above.

Throws:

java.io.IOException - DOCUMENT ME!

Serialized Fields

first

boolean first

First time accessed.

mode

int mode

Current mode.

mouseEvents

java.util.Vector mouseEvents

Vector to record mouse events.

name

java.lang.String name

Name of the events.

state

java.lang.Object state

State being recorded.

stateVector

java.util.Vector stateVector

Vector to record state changes.

view

javax.media.j3d.Transform3D view

Parent frame transform3D view.

Class gov.nih.mipav.view.renderer.J3D.surfaceview.plotterview.SceneStatePlotter extends java.lang.Object implements Serializable

serialVersionUID:

5063961369724570657L

Serialized Fields

transform

javax.media.j3d.Transform3D transform

Current sceneRoot transform.

z

int z

DOCUMENT ME!

zVisible

boolean zVisible

DOCUMENT ME!

Class gov.nih.mipav.view.renderer.J3D.surfaceview.plotterview.SurfacePlotter extends RenderViewBase implements Serializable

serialVersionUID:

-1650691820947415108L

Serialized Fields

boxDialog

JPanelSurfaceBox boxDialog

Dialog for recording and playing back mouse events.

componentImageXY

ViewJComponentSurface componentImageXY

Main component found in this frame.

controlPanel

javax.swing.JPanel controlPanel

the control panel that hold the z slider.

current

int current

Current event vector index.

extents

int[] extents

Extents of image.

imageBranch

javax.media.j3d.BranchGroup imageBranch

Branch parent of the image in the scene, needed so image can be made invisible when another surface is loaded.

isVisible

boolean isVisible

Flag indicating if the image is currently visible.

itemLine

javax.swing.JCheckBoxMenuItem itemLine

Check box menu item indicating if surface should be in line mode or full mode.

label1

javax.swing.JLabel label1

Label for slider, "1".

label100

javax.swing.JLabel label100

Label for slider, "100".

label50

javax.swing.JLabel label50

Label for slider, "50".

labelZ

javax.swing.JLabel labelZ

Label that says "Z (1-100)".

LUTa

ModelLUT LUTa

LUT that dictates how the vertices of the quad mesh are colored.

mainPanel

javax.swing.JPanel mainPanel

The main control panel.

mouseDialog

JPanelMousePlotter mouseDialog

Mouse recorder dialog associated with surface plotter.

mouseRotateBehavior

com.sun.j3d.utils.behaviors.mouse.MouseRotate mouseRotateBehavior

Mouse Rotate behavior.

mouseTranslateBehavior

com.sun.j3d.utils.behaviors.mouse.MouseTranslate mouseTranslateBehavior

Mouse Translate behavior.

mouseZoomBehavior

com.sun.j3d.utils.behaviors.mouse.MouseZoom mouseZoomBehavior

Mouse Zoom behavior.

myEyePoint

javax.vecmath.Point3d myEyePoint

Initial center viewing point of the image.

objTransXY

javax.media.j3d.TransformGroup objTransXY

Transform group guiding how image is displayed.

openingMenuBar

javax.swing.JMenuBar openingMenuBar

Menu bar.

panelToolbar

javax.swing.JPanel panelToolbar

Panel that holds the toolbars.

parallelScaleT3D

javax.media.j3d.Transform3D parallelScaleT3D

Transformation matrix.

setSliderFlag

boolean setSliderFlag

Flag to indicate the first time slider name changes.

slice

int slice

Current slice of 3D image, used to figure out XY plane to plot.

sliderEvents

MouseEventVectorPlotter sliderEvents

Slider events used by the mouse recorder.

sliderFrame

javax.swing.JSlider sliderFrame

Slider for frame/slice of image.

sliderZ

javax.swing.JSlider sliderZ

3, 1-100%, dictating where the image in the surface should be displayed.

t3d_XY_t

javax.media.j3d.Transform3D t3d_XY_t

Actual transform of the image.

textZ

javax.swing.JTextField textZ

Text field displaying the percentage of the slider.

texUnitStateBXY

javax.media.j3d.TextureUnitState[] texUnitStateBXY

Texture creating appearance for the "back" of the image. Needs to be array even though there will be only 1 item.

texUnitStateFXY

javax.media.j3d.TextureUnitState[] texUnitStateFXY

Texture creating appearance for the "front" of the image. Needs to be array even though there will be only 1 item.

visibleBox

javax.swing.JCheckBox visibleBox

Check box for whether or not the image should be visible.

xRes

float xRes

X and Y resolution.

yRes

float yRes

X and Y resolution.

zSlice

int zSlice

Z slice, which image of 1-100 are we showing.

Class gov.nih.mipav.view.renderer.J3D.surfaceview.plotterview.ViewJComponentSurface extends ViewJComponentBase implements Serializable

serialVersionUID:

-870321457925828704L

Serialized Fields

cConnect

int[] cConnect

Vertex connection array.

cVertex

javax.vecmath.Point3f[] cVertex

Vertex array.

frame

RenderViewBase frame

Frame where the plotted surface is displayed.

imageA

ModelImage imageA

Structure holding image.

imageBufferA

float[] imageBufferA

Buffer which holds the pixel data.

imageExtents

int[] imageExtents

Extents of the image.

lineMode

boolean lineMode

Flag indicating if the surface is currently in line mode (true) or fill mode (false).

LUTa

ModelLUT LUTa

Lookup table for image.

lutBufferRemapped

int[] lutBufferRemapped

Used to remap the LUT appropriately.

maxBox

float maxBox

MaxBox value from the parent frame.

pixBuffer

int[] pixBuffer

Buffer used to store ARGB images of the image presently being displayed.

plottedRoot

javax.media.j3d.BranchGroup plottedRoot

Branch group that is the parent of the plotted surface.

qMesh

ModelQuadMesh qMesh

Quad mesh. This is the core of the component.

sampleSize

int sampleSize

Sample size. This determines how many triangles are used in the quad mesh.

xBox

float xBox

xBox, yBox and zBox values from the parent frame.

yBox

float yBox

xBox, yBox and zBox values from the parent frame.

zBox

float zBox

xBox, yBox and zBox values from the parent frame.

Class gov.nih.mipav.view.renderer.J3D.surfaceview.plotterview.ViewJFramePlotterView extends ViewJFrameBase implements Serializable

serialVersionUID:

8972056170229565046L

Serialized Fields

cameraPanel

javax.swing.JPanel cameraPanel

DOCUMENT ME!

compound

javax.swing.border.Border compound

Panel Border view.

config

java.awt.GraphicsConfiguration config

Configuration param, which will pass down to each render's constructor.

imagePanel

javax.swing.JPanel imagePanel

The image panel to hold one Canvas3D.

itemLine

javax.swing.JCheckBoxMenuItem itemLine

Image line mode check box.

loweredbevel

javax.swing.border.Border loweredbevel

Panel Border view.

mousePanel

javax.swing.JPanel mousePanel

DOCUMENT ME!

openingMenuBar

javax.swing.JMenuBar openingMenuBar

Menu bar.

panelToolbar

javax.swing.JPanel panelToolbar

Toolbar panel.

plotterRender

SurfacePlotter plotterRender

Surface plotter view.

raisedbevel

javax.swing.border.Border raisedbevel

Panel Border view.

screenHeight

int screenHeight

Screen width, screen height.

screenWidth

int screenWidth

Screen width, screen height.

serif12

java.awt.Font serif12

Fonts, same as MipavUtil.font12 and MipavUtil.font12B.

serif12B

java.awt.Font serif12B

Fonts, same as MipavUtil.font12 and MipavUtil.font12B.

sliderControlPanel

javax.swing.JPanel sliderControlPanel

DOCUMENT ME!

surfaceBoxPanel

javax.swing.JPanel surfaceBoxPanel

DOCUMENT ME!

surTabVector

java.util.Vector surTabVector

DOCUMENT ME!

tabbedPane

javax.swing.JTabbedPane tabbedPane

The main tabbed pane in the volume view frame.

tabVector

java.util.Vector tabVector

For each render, use the vector to store the currently active tabs.

viewPanel

javax.swing.JPanel viewPanel

Control panel for the surface renderer.

Package gov.nih.mipav.view.renderer.J3D.surfaceview.rfaview

Class gov.nih.mipav.view.renderer.J3D.surfaceview.rfaview.JDialogBurnParameter extends JDialogBase implements Serializable

serialVersionUID:

-1568251410627012713L

Serialized Fields

diameter

float diameter

DOCUMENT ME!

diameterField

javax.swing.JTextField diameterField

DOCUMENT ME!

ok

boolean ok

DOCUMENT ME!

opacity

float opacity

DOCUMENT ME!

probePanel

JPanelProbe probePanel

DOCUMENT ME!

radius

float radius

DOCUMENT ME!

time

float time

DOCUMENT ME!

timeField

javax.swing.JTextField timeField

DOCUMENT ME!

voltage

float voltage

DOCUMENT ME!

voltageField

javax.swing.JTextField voltageField

DOCUMENT ME!

volume

float volume

DOCUMENT ME!

Class gov.nih.mipav.view.renderer.J3D.surfaceview.rfaview.JPanelProbe extends JPanelRendererJ3D implements Serializable

serialVersionUID:

-2467552118438070016L

Serialized Fields

bonePresetButton

javax.swing.JButton bonePresetButton

DOCUMENT ME!

burnBackFaceCB

javax.swing.JCheckBox burnBackFaceCB

burning point back face culling check box.

burnBase

BurnBase burnBase

Burn base reference.

burnClipCB

javax.swing.JCheckBox burnClipCB

burning point clipping check box.

burnIndex

int burnIndex

Current burning point index being hightlighted.

burningPtTransVector

javax.vecmath.Vector3f burningPtTransVector

Burning point coordinate vector in world coordinate system.

burnList

javax.swing.JList burnList

Burn list that hold the burning point names.

calcButton

javax.swing.JButton calcButton

Calculat button.

center

javax.vecmath.Point3f center

Burning point coordinate.

centerLabel

javax.swing.JLabel centerLabel

burning point center label.

clipping

boolean clipping

Burning surface being clipped or not.

colorButton

javax.swing.JButton colorButton

Burning point color button.

colorChooser

ViewJColorChooser colorChooser

Color chooser when the user changes the color of the surface.

colorLabel

javax.swing.JLabel colorLabel

Burning point color label.

culling

boolean culling

Burning surface being culled ( back face bulling ) or not.

cursorMode

int cursorMode

curreent cursor nevigation mode.

diffVolumeLabel

javax.swing.JLabel diffVolumeLabel

Volume difference label for the current treatment.

diffVolumeText

javax.swing.JTextField diffVolumeText

Volume difference text.

drawingPane

JPanelProbe.DrawingPane drawingPane

Associate structure of the scroll pane to resize the panel properly.

endPtTransVector

javax.vecmath.Vector3f endPtTransVector

End point coordinate vector in the world coordinate system.

entryPointLabel

javax.swing.JLabel entryPointLabel

entry point label.

entryPointPanel

javax.swing.JPanel entryPointPanel

Panel that hold the entry point roation check box.

entryPointRotationCB

javax.swing.JCheckBox entryPointRotationCB

entry point rotation check box.

liverPresetButton

javax.swing.JButton liverPresetButton

Liver segmentation preset opacity transform function control button.

loadVisualizationButton

javax.swing.JButton loadVisualizationButton

Load button for the opacity transform function.

m_kProbeTwistLabel

javax.swing.JLabel m_kProbeTwistLabel

DOCUMENT ME!

m_kProbeTwistSlider

javax.swing.JSlider m_kProbeTwistSlider

Rotation/Twist around the direction of the probe:.

maxBox

float maxBox

The maximum of the fram box values.

noTargetTreatment

TreatmentInformation noTargetTreatment

Treatment information to be used if the user wants to burn without any target surface.

opacity

float opacity

Burning point opacity.

opacityLabel

javax.swing.JLabel opacityLabel

The opacity slider label.

opacitySlider

javax.swing.JSlider opacitySlider

burning point surface opacity slider.

opacitySliderLabels

javax.swing.JLabel[] opacitySliderLabels

burning point surface opacity slider label.

parentFrame

ViewJFrameVolumeView parentFrame

Volume view frame work reference.

probe

Probe probe

Probe reference.

probeList

javax.swing.JList probeList

Probes list.

probeResetButton

javax.swing.JToggleButton probeResetButton

Reset probe nevigation mode.

probeTargetButton

javax.swing.JToggleButton probeTargetButton

Control the tri-planar probe nevigation mode.

radiusLabel

javax.swing.JLabel radiusLabel

burning point diameter label.

resultLabel

javax.swing.JLabel resultLabel

result label to show the bone, vasculature detection information message.

saveVisualizationButton

javax.swing.JButton saveVisualizationButton

Save button for the opacity tranform function.

scroller

javax.swing.JScrollPane scroller

Scroll pane that control the resizing of the panel.

semiXLabel

javax.swing.JLabel semiXLabel

burning point semi axis X label.

semiXText

javax.swing.JTextField semiXText

burning point semi axis X text field.

semiYLabel

javax.swing.JLabel semiYLabel

burning point semi axis Y label.

semiYText

javax.swing.JTextField semiYText

burning point semi axis Y text field.

semiZLabel

javax.swing.JLabel semiZLabel

burning point semi axis Z label.

semiZText

javax.swing.JTextField semiZText

burning point semi axis Z text field.

showBurnLabels

boolean showBurnLabels

Flag indicates the show burning text label or not.

showBurnLabelsCB

javax.swing.JCheckBox showBurnLabelsCB

Show the burning text label checkbox.

skinPresetButton

javax.swing.JButton skinPresetButton

Skin segmentation preset opacity transform function control button.

sliderX

javax.swing.JSlider sliderX

The probe X slider that control the probe push and pull movements.

snapToTarget

boolean snapToTarget

Whether to snap to center of a target surface when it is selected; defaults to true.

snapToTargetCB

javax.swing.JCheckBox snapToTargetCB

Checkbox indicating whether to snap to center of a target surface when it is selected.

startPtTransVector

javax.vecmath.Vector3f startPtTransVector

Start point ( invisible ) coordinate vector in world coordinate system.

tabbedPane

javax.swing.JTabbedPane tabbedPane

The main tabbed pane in the volume view frame.

tabPanel

javax.swing.JPanel tabPanel

The main tab contrl panel.

targetList

javax.swing.JList targetList

Surface target list (tumors).

targetVolumeText

javax.swing.JTextField targetVolumeText

Label containing the volume of the current target surface.

targetXText

javax.swing.JTextField targetXText

X label for the center coordinate of the current target surface.

targetYText

javax.swing.JTextField targetYText

Y label for the center coordinate of the current target surface.

targetZText

javax.swing.JTextField targetZText

Z label for the center coordinate of the current target surface.

tipLengthCB

javax.swing.JComboBox tipLengthCB

Combo box for indicating the length of the probe tip. Currently used just by CoolTip probe.

toolBar

javax.swing.JToolBar toolBar

Tool bar.

totalVolumeLabel

javax.swing.JLabel totalVolumeLabel

Burning points total volume label.

totalVolumeText

javax.swing.JTextField totalVolumeText

Burning point total volume text.

traverseButton

javax.swing.JToggleButton traverseButton

Control the tri-planar default view nevigation mode.

treatmentVector

java.util.Vector<TreatmentInformation> treatmentVector

List of treatment sets.

volumeLabel

javax.swing.JLabel volumeLabel

buring point volume label.

volumeText

javax.swing.JTextField volumeText

burning pont volume text box.

xBox

float xBox

Parent frame box value.

xLabel

javax.swing.JLabel xLabel

burning point X, Y, Z coordinate label.

xLabelEntry

javax.swing.JLabel xLabelEntry

entry point X, Y, Z coordinate label.

xRes

float xRes

The resolutions of the (possibly respampled) image (the one shown in the renderer).

xSliderS

javax.swing.JSlider xSliderS

slider that controls the probe moves along the x direction.

xText

javax.swing.JTextField xText

burning point X, Y, Z coordinate text box.

xTextEntry

javax.swing.JTextField xTextEntry

entry point X, Y, Z coordinate text box.

yBox

float yBox

Parent frame box value.

yLabel

javax.swing.JLabel yLabel

burning point X, Y, Z coordinate label.

yLabelEntry

javax.swing.JLabel yLabelEntry

entry point X, Y, Z coordinate label.

yRes

float yRes

The resolutions of the (possibly respampled) image (the one shown in the renderer).

ySliderS

javax.swing.JSlider ySliderS

slider that controls the probe moves along the y direction.

yText

javax.swing.JTextField yText

burning point X, Y, Z coordinate text box.

yTextEntry

javax.swing.JTextField yTextEntry

entry point X, Y, Z coordinate text box.

zBox

float zBox

Parent frame box value.

zLabel

javax.swing.JLabel zLabel

burning point X, Y, Z coordinate label.

zLabelEntry

javax.swing.JLabel zLabelEntry

entry point X, Y, Z coordinate label.

zRes

float zRes

The resolutions of the (possibly respampled) image (the one shown in the renderer).

zSliderS

javax.swing.JSlider zSliderS

slider that controls the probe moves along the z direction.

zText

javax.swing.JTextField zText

burning point X, Y, Z coordinate text box.

zTextEntry

javax.swing.JTextField zTextEntry

entry point X, Y, Z coordinate text box.

Class gov.nih.mipav.view.renderer.J3D.surfaceview.rfaview.JPanelProbe.DrawingPane extends javax.swing.JPanel implements Serializable

serialVersionUID:

199157917084746068L

Package gov.nih.mipav.view.renderer.J3D.volumeview

Class gov.nih.mipav.view.renderer.J3D.volumeview.JPanelRenderOptionsRayCast extends JPanelRendererJ3D implements Serializable

serialVersionUID:

-6813615755994835860L

Serialized Fields

blurBox

javax.swing.JCheckBox blurBox

Blur image check box.

buttonPanel

javax.swing.JPanel buttonPanel

Button Panel.

colorButton

javax.swing.JButton colorButton

Color button for changing color.

colorButtonBackground

javax.swing.JButton colorButtonBackground

Color button for changing z color.

colorChooser

ViewJColorChooser colorChooser

Color chooser dialog.

diffuseButton

javax.swing.JButton diffuseButton

Diffuse color button for vertex material.

m_kRadioGroupMaxRenExtent

javax.swing.ButtonGroup m_kRadioGroupMaxRenExtent

DOCUMENT ME!

m_kRadioMaxRenExtent_1024

javax.swing.JRadioButton m_kRadioMaxRenExtent_1024

DOCUMENT ME!

m_kRadioMaxRenExtent_128

javax.swing.JRadioButton m_kRadioMaxRenExtent_128

DOCUMENT ME!

m_kRadioMaxRenExtent_256

javax.swing.JRadioButton m_kRadioMaxRenExtent_256

DOCUMENT ME!

m_kRadioMaxRenExtent_512

javax.swing.JRadioButton m_kRadioMaxRenExtent_512

DOCUMENT ME!

m_kRadioMaxRenExtent_64

javax.swing.JRadioButton m_kRadioMaxRenExtent_64

Radio Button Group for the Render Image Target size of the raycast rendered image. Target sizes options are preset to be typical texture sizes:

myParent

VolumeRendererRayCast myParent

Volume rendering parent frame.

radioButtonGroupProjections

javax.swing.ButtonGroup radioButtonGroupProjections

Button group for projections.

radioButtonOrthographic

javax.swing.JRadioButton radioButtonOrthographic

Radio Button for Orthographic rendering.

radioButtonPerspective

javax.swing.JRadioButton radioButtonPerspective

Radio Button for Perspective rendering.

scroller

javax.swing.JScrollPane scroller

Scroll pane.

scrollPanel

JPanelRenderOptionsRayCast.DrawingPanel scrollPanel

Scroll panel that holding the all the control components.

spaceText

javax.swing.JTextField spaceText

Text field of the ray trace space size.

specularButton

javax.swing.JButton specularButton

Specular color button for vertex material.

stepText

javax.swing.JTextField stepText

Text field of the ray trace step size.

Class gov.nih.mipav.view.renderer.J3D.volumeview.JPanelRenderOptionsShearWarp extends JPanelRendererJ3D implements Serializable

serialVersionUID:

4059526095627109190L

Serialized Fields

buttonPanel

javax.swing.JPanel buttonPanel

Button Panel.

colorButton

javax.swing.JButton colorButton

Color button for changing color.

colorButtonBackground

javax.swing.JButton colorButtonBackground

Color button for changing z color.

colorChooser

ViewJColorChooser colorChooser

Color chooser dialog.

myParent

VolumeRendererShearWarp myParent

Volume rendering parent frame.

radioButtonGroupProjections

javax.swing.ButtonGroup radioButtonGroupProjections

Button group for projections.

radioButtonOrthographic

javax.swing.JRadioButton radioButtonOrthographic

Radio Button for Orthographic rendering.

radioButtonPerspective

javax.swing.JRadioButton radioButtonPerspective

Radio Button for Perspective rendering.

scroller

javax.swing.JScrollPane scroller

Scroll pane.

scrollPanel

JPanelRenderOptionsShearWarp.DrawingPanel scrollPanel

Scroll panel that holding the all the control components.

stepText

javax.swing.JTextField stepText

Text field of the ray trace step size.

Class gov.nih.mipav.view.renderer.J3D.volumeview.VolumeRenderer extends RenderViewBase implements Serializable

serialVersionUID:

-6617098263675852750L

Serialized Fields

boxSliceX

ViewJComponentBoxSlice boxSliceX

The frame around the x slice.

componentImageXY

ViewJComponentRenderImage componentImageXY

Component holding the texture of the XY plane image.

currentTransform

javax.media.j3d.Transform3D currentTransform

Current transform matrix.

currentTransType

int currentTransType

Current transform type.

extents

int[] extents

Extents of image A, same as xDim, yDim, etc.

imageA

ModelImage imageA

Current image A.

imageB

ModelImage imageB

Current image B.

isRotate

boolean isRotate

Flag indicating mouse rotation, avoid image disappearing problem.

kDefaultAppearance

javax.media.j3d.Appearance kDefaultAppearance

Original Appearance obj of the ImageComponent2D texture.

kShape

javax.media.j3d.Shape3D kShape

Shape object of the volume renderer.

lightControl

JPanelLights lightControl

light control panel.

m_bMouseListen

boolean m_bMouseListen

Flag to turn mouseListener on or off.

m_bTestFrameRate

boolean m_bTestFrameRate

m_dAccumulatedTime

double m_dAccumulatedTime

Framerate Performance parameters:

m_dFrameRate

double m_dFrameRate

Framerate Performance parameters:

m_dLastTime

double m_dLastTime

Framerate Performance parameters:

m_iAccumulatedFrameCount

int m_iAccumulatedFrameCount

Framerate Performance parameters:

m_iFrameCount

int m_iFrameCount

Framerate Performance parameters:

m_iMaxTimer

int m_iMaxTimer

Framerate Performance parameters:

m_iTimer

int m_iTimer

Framerate Performance parameters:

m_kImage

java.awt.image.BufferedImage m_kImage

Buffer image for the volume renderer.

m_kImageComponent

javax.media.j3d.ImageComponent2D m_kImageComponent

Image component 2D to hold the volume renderer properties.

m_kSoftwareLightSet

SoftwareLightSet m_kSoftwareLightSet

Set of lights to use for software-based lighting.

m_kSoftwareMaterial

SoftwareMaterial m_kSoftwareMaterial

Material properties to use for software-based lighting.

m_kTextureXY

javax.media.j3d.Texture2D m_kTextureXY

2D texture of the volume renderer.

maxBox

float maxBox

Numbers dicatating the sizes of the planes based on the extents and resolutions of the image.

maxRenExtent

int maxRenExtent

max Extent of X, Y dimensions.

mouseBehaviorRotate

com.sun.j3d.utils.behaviors.mouse.MouseRotate mouseBehaviorRotate

Mouse rotate behavior.

mouseBehaviorTranslate

com.sun.j3d.utils.behaviors.mouse.MouseTranslate mouseBehaviorTranslate

Mouse translate behavior.

mouseBehaviorZoom

com.sun.j3d.utils.behaviors.mouse.MouseZoom mouseBehaviorZoom

Mouse zoom behavior.

mouseReleased

boolean mouseReleased

Flag to indicate whether the mouseReleased event triggered or not.

objBoxSliceX

javax.media.j3d.BranchGroup objBoxSliceX

Parent of the x slice.

objTransSliceX

javax.media.j3d.TransformGroup objTransSliceX

Member variables used to display the rendered image on the texture-mapped polygon, stored so that they can be updated as the render target image size is changed by the user-interface:.

objTransXY

javax.media.j3d.TransformGroup objTransXY

Group dictating how the XY plane is translated.

objXYPlane

javax.media.j3d.BranchGroup objXYPlane

Parent of the XY plane image.

optionsPanel

JPanelRendererBase optionsPanel

Dialog to turn bounding box of surface renderer on and off, and to change the color of the frame.

parallelRotation

boolean parallelRotation

Parallel rotation flag.

pBar

ViewJProgressBar pBar

Actual bar which fills with color as the percentage of completion increases.

pixBufferA_XY

int[] pixBufferA_XY

Buffer that holds image A pixel data for the XY plane, used to build displayable image.

pixBufferB_XY

int[] pixBufferB_XY

Buffer that holds image B pixel data for the XY plane, used to build displayable image.

resols

float[] resols

Resolutions of image A.

shapeBG

javax.media.j3d.BranchGroup shapeBG

DOCUMENT ME!

shapeSliceBG

javax.media.j3d.BranchGroup shapeSliceBG

DOCUMENT ME!

sliderT

javax.swing.JSlider sliderT

Sliders for the image planes.

surfaceRender

SurfaceRender surfaceRender

Surface renderer reference.

tDim

int tDim

Dimensions of image A.

textT

javax.swing.JTextField textT

Text fields that display the slice number next to the sliders.

tSlice

int tSlice

Which time slice is currently displayed.

units

int[] units

Units of measure of imageA.

updateWinlevel

boolean updateWinlevel

Update the window level flag, call by the plane renderer.

xBox

float xBox

Numbers dicatating the sizes of the planes based on the extents and resolutions of the image.

xDim

int xDim

Dimensions of image A.

yBox

float yBox

Numbers dicatating the sizes of the planes based on the extents and resolutions of the image.

yDim

int yDim

Dimensions of image A.

zBox

float zBox

Numbers dicatating the sizes of the planes based on the extents and resolutions of the image.

zDim

int zDim

Dimensions of image A.

zSlice

int zSlice

Which slice is currently displayed in the XY plane.

Class gov.nih.mipav.view.renderer.J3D.volumeview.VolumeRendererRayCast extends VolumeRenderer implements Serializable

serialVersionUID:

7864871507214707172L

Class gov.nih.mipav.view.renderer.J3D.volumeview.VolumeRendererShearWarp extends VolumeRenderer implements Serializable

serialVersionUID:

-3304622158293691309L

Package gov.nih.mipav.view.renderer.WildMagic

Class gov.nih.mipav.view.renderer.WildMagic.GPURenderBase extends WildMagic.LibApplications.OpenGLApplication.JavaApplication3D implements Serializable

serialVersionUID:

9069227710441839806L

Serialized Fields

currentLocation

WildMagic.LibFoundation.Mathematics.Vector3f currentLocation

defaultVelocityRotational

double defaultVelocityRotational

defaultVelocityTranslational

double defaultVelocityTranslational

3D MOUSE MOTION CONSTANTS

dpiScale

double dpiScale

hyperstack

VolumeImage[] hyperstack

hyperstackColormap

WildMagic.LibGraphics.Rendering.Texture hyperstackColormap

isSpaceNavCodeRunning

boolean isSpaceNavCodeRunning

m_akLights

WildMagic.LibGraphics.Rendering.Light[] m_akLights

Lights from JPanelLight

m_bDispose

boolean m_bDispose

m_bDoClip

boolean m_bDoClip

m_bExtract

boolean m_bExtract

m_bFirstDrag

boolean m_bFirstDrag

Change the mouse cursor with the first mouseDrag event

m_bInit

boolean m_bInit

Set to true when init() is called:

m_bModified

boolean m_bModified

Minimizes rendering, only render when modified is true.

m_bMouseDrag

boolean m_bMouseDrag

keeps track if the user is currently dragging with the mouse

m_bPickPending

boolean m_bPickPending

Set to true when there is a pending pick operation

m_bShared

boolean m_bShared

m_bSnapshot

boolean m_bSnapshot

Set to true when recording.

m_bSurfaceMaskUpdate

boolean m_bSurfaceMaskUpdate

Set to true when the surface mask should be recalculated.

m_bSurfaceUpdate

boolean m_bSurfaceUpdate

Set to true when the surface has been added or modified.

m_bTestFrameRate

boolean m_bTestFrameRate

For testing the frame rate:

m_bVisible

boolean m_bVisible

Flag for indicating the that Java Container is visible or not:

m_fMax

float m_fMax

Normalized volume extents:

m_fX

float m_fX

Normalized volume extents:

m_fY

float m_fY

Normalized volume extents:

m_fZ

float m_fZ

Normalized volume extents:

m_iCaptureFPS

int m_iCaptureFPS

m_iMovieCounter

int m_iMovieCounter

m_iScreenCaptureCounter

int m_iScreenCaptureCounter

Screen capture counter.

m_iXPick

int m_iXPick

Picking support:

m_iYPick

int m_iYPick

Picking support:

m_kAnimator

com.jogamp.opengl.util.Animator m_kAnimator

Animator object, displays scene in rendering loop (similar to GLUTMainLoop()

m_kCuller

WildMagic.LibGraphics.SceneGraph.Culler m_kCuller

Culling out-of-view objects:

m_kDeleteList

java.util.Vector<VolumeObject> m_kDeleteList

m_kDisplayList

java.util.Vector<VolumeObject> m_kDisplayList

List of objects displayed in the scene.

m_kPicker

WildMagic.LibGraphics.Collision.Picker m_kPicker

For processing picking:

m_kSceneToWorld

WildMagic.LibFoundation.Mathematics.Matrix4f m_kSceneToWorld

m_kTranslate

WildMagic.LibFoundation.Mathematics.Vector3f m_kTranslate

Scene translation, centers the scene:

m_kVolumeImageA

VolumeImage m_kVolumeImageA

VolumeImage for ModelImageA, contains data and textures.

m_kVolumeImageA_New

VolumeImage m_kVolumeImageA_New

m_kVolumeImageA_Old

VolumeImage m_kVolumeImageA_Old

m_kVolumeImageB

VolumeImage m_kVolumeImageB

VolumeImage for ModelImageB, contains data and textures.

m_kVolumeImageB_New

VolumeImage m_kVolumeImageB_New

m_kVolumeImageB_Old

VolumeImage m_kVolumeImageB_Old

m_kWinLevel

WindowLevel m_kWinLevel

Window-level interface.

m_kXRotate

WildMagic.LibFoundation.Mathematics.Matrix3f m_kXRotate

Basic rotations for fixed input use:

m_kYRotate

WildMagic.LibFoundation.Mathematics.Matrix3f m_kYRotate

Basic rotations for fixed input use:

m_kZRotate

WildMagic.LibFoundation.Mathematics.Matrix3f m_kZRotate

Basic rotations for fixed input use:

m_spkCull

WildMagic.LibGraphics.Rendering.CullState m_spkCull

Culling: turns backface/frontface culling on/off:

m_spkScene

WildMagic.LibGraphics.SceneGraph.Node m_spkScene

Scene-graph root node:

mouseRot

double mouseRot

nearPlane

float nearPlane

rotPower

double rotPower

rotScalar

double rotScalar

transPower

double transPower

transScalar

double transScalar

updateBoundingCube

boolean updateBoundingCube

useMouseRotationCutoffs

boolean useMouseRotationCutoffs

useMouseTranslationCutoffs

boolean useMouseTranslationCutoffs

zVector

WildMagic.LibFoundation.Mathematics.Vector3f zVector

ZXDistanceStep

float ZXDistanceStep

ZYDistanceStep

float ZYDistanceStep

ZZDistanceStep

float ZZDistanceStep

Class gov.nih.mipav.view.renderer.WildMagic.PlaneRender_WM extends GPURenderBase implements Serializable

serialVersionUID:

2025132936439496099L

Serialized Fields

isAnnotationEnabled

boolean isAnnotationEnabled

isMouseFlythru

boolean isMouseFlythru

isPathFlythru

boolean isPathFlythru

latestVolumePt

WildMagic.LibFoundation.Mathematics.Vector3f latestVolumePt

m_aaiColorSwap

int[][] m_aaiColorSwap

Axis labels color assignments.

m_aakColors

WildMagic.LibFoundation.Mathematics.ColorRGB[][] m_aakColors

Set of colors used to draw the axis labels.

m_abAxisFlip

boolean[] m_abAxisFlip

ModelImage axis flip.

m_adCos

double[] m_adCos

m_adSin

double[] m_adSin

m_afResolutions

float[] m_afResolutions

m_aiAxisOrder

int[] m_aiAxisOrder

ModelImage axis orientation.

m_aiLocalImageExtents

int[] m_aiLocalImageExtents

The image dimensions in x,y,z:.

m_aiUnits

int[] m_aiUnits

m_akCLoc

WildMagic.LibFoundation.Mathematics.Vector3f[] m_akCLoc

Camera Locations, for rendering the different Axial, Sagittal and Coronal views.

m_akCoords

WildMagic.LibFoundation.Mathematics.Vector3f[] m_akCoords

Camera Direction, UP, and Right vectors, for rendering the different Axial, Sagittal and Coronal views.

m_bCleanup

boolean m_bCleanup

m_bDrawAxes

boolean m_bDrawAxes

when true, the axis labels (P-> L-> S->) will be drawn

m_bDrawXHairs

boolean m_bDrawXHairs

Turns on drawing of the X,Y bars and the Axis labels:.

m_bIsMouseActive

boolean m_bIsMouseActive

m_bLeftMousePressed

boolean m_bLeftMousePressed

True when the left mouse has been pressed, set to false when the left mouse button is released.

m_bPatientOrientation

boolean m_bPatientOrientation

Actual image orientation.

m_bRightMousePressed

boolean m_bRightMousePressed

Flag indicating if the right mouse button is currently pressed down:

m_bShowSurface

boolean m_bShowSurface

m_bShowVOIs

boolean m_bShowVOIs

m_bUpdateSpacing

boolean m_bUpdateSpacing

m_fMaxBox

float m_fMaxBox

Numbers dictating the size of the plane based on the extents and resolutions of the image.

m_fMouseY

float m_fMouseY

For zooming with the mouse.

m_fX0

float m_fX0

lower x-bound of the texture-mapped polygon:

m_fX1

float m_fX1

upper x-bound of the texture-mapped polygon:

m_fXBox

float m_fXBox

Numbers dictating the size of the plane based on the extents and resolutions of the image.

m_fXRange

float m_fXRange

Width of the texture-mapped polygon:

m_fY0

float m_fY0

lower y-bound of the texture-mapped polygon:

m_fY1

float m_fY1

upper y-bound of the texture-mapped polygon:

m_fYBox

float m_fYBox

Numbers dictating the size of the plane based on the extents and resolutions of the image.

m_fYRange

float m_fYRange

Height of the texture-mapped polygon:

m_fZoomScale

float m_fZoomScale

Image scaling from Zoom:.

m_iCirclePts

int m_iCirclePts

m_iLabelX_SpacingX

int m_iLabelX_SpacingX

m_iLabelX_SpacingY

int m_iLabelX_SpacingY

m_iLabelY_SpacingX

int m_iLabelY_SpacingX

m_iLabelY_SpacingY

int m_iLabelY_SpacingY

m_iPlaneOrientation

int m_iPlaneOrientation

Which dimension of the ModelImage to render.

m_iSlice

int m_iSlice

Which slice is currently displayed in the XY plane.

m_kActiveImage

ModelImage m_kActiveImage

Current active image for manipulating the LUT by dragging with the right-mouse down.

m_kActiveLookupTable

ModelStorageBase m_kActiveLookupTable

The current active lookup table:

m_kBallPoint

WildMagic.LibGraphics.SceneGraph.Polyline m_kBallPoint

m_kCenter

WildMagic.LibFoundation.Mathematics.Vector3f m_kCenter

m_kLabelX

java.lang.String m_kLabelX

x-axis label:

m_kLabelXDisplay

java.lang.String m_kLabelXDisplay

m_kLabelY

java.lang.String m_kLabelY

y-axis label:

m_kParent

VolumeTriPlanarInterface m_kParent

Parent user-interface and display frame.

m_kPatientPt

WildMagic.LibFoundation.Mathematics.Vector3f m_kPatientPt

m_kPVWMatrix

WildMagic.LibFoundation.Mathematics.Matrix4f m_kPVWMatrix

m_kVOIAttr

WildMagic.LibGraphics.SceneGraph.Attributes m_kVOIAttr

m_kVolumeScale

WildMagic.LibFoundation.Mathematics.Vector3f m_kVolumeScale

m_kVolumeScaleInv

WildMagic.LibFoundation.Mathematics.Vector3f m_kVolumeScaleInv

m_kXArrow

WildMagic.LibGraphics.SceneGraph.TriMesh[] m_kXArrow

x-axis arrow

m_kYArrow

WildMagic.LibGraphics.SceneGraph.TriMesh[] m_kYArrow

y-axis arrow

m_kZState

WildMagic.LibGraphics.Rendering.ZBufferState m_kZState

m_spkScreenCamera

WildMagic.LibGraphics.Rendering.Camera m_spkScreenCamera

Drawing the axis arrows in screen-space.

Class gov.nih.mipav.view.renderer.WildMagic.VolumeRenderState extends java.lang.Object implements Serializable

serialVersionUID:

4937933351322531830L

Serialized Fields

ArbitratyEquation

WildMagic.LibFoundation.Mathematics.Matrix3f ArbitratyEquation

BackgroundColor

java.awt.Color BackgroundColor

Blend

int Blend

BlendColor

java.awt.Color BlendColor

BlueA

TransferFunction BlueA

BlueB

TransferFunction BlueB

BlueOnA

boolean BlueOnA

BlueOnB

boolean BlueOnB

BoundingBoxColor

java.awt.Color BoundingBoxColor

Camera

float[] Camera

CameraLocation

WildMagic.LibFoundation.Mathematics.Vector3f CameraLocation

Center

WildMagic.LibFoundation.Mathematics.Vector3f Center

ClipColors

java.awt.Color[] ClipColors

ClipDisplayed

boolean[] ClipDisplayed

ClipEnabled

boolean[] ClipEnabled

ClipValues

int[] ClipValues

CustomAlpha

int CustomAlpha

DestinationBlend

int DestinationBlend

DisplayRayCast

boolean DisplayRayCast

DisplaySlices

boolean DisplaySlices

DisplaySurface

boolean DisplaySurface

DualDividerLocation

int DualDividerLocation

Equation

int Equation

ExtendedState

int ExtendedState

ExtractionIntensityLevel

int ExtractionIntensityLevel

GreenA

TransferFunction GreenA

GreenB

TransferFunction GreenB

GreenOnA

boolean GreenOnA

GreenOnB

boolean GreenOnB

ImageA

VolumeImage ImageA

ImageB

VolumeImage ImageB

IPD

float IPD

Lights

WildMagic.LibGraphics.Rendering.Light[] Lights

LightSelected

int LightSelected

LUTa

ModelLUT LUTa

LUTb

ModelLUT LUTb

MainDividerLocation

int MainDividerLocation

MultiHistogram

boolean MultiHistogram

MultiHistoWidgets

java.util.Vector<ClassificationWidget> MultiHistoWidgets

ObjectLocation

float[] ObjectLocation

ObjectRotation

WildMagic.LibFoundation.Mathematics.Matrix3f ObjectRotation

Opacity

int[] Opacity

OpacityA

TransferFunction OpacityA

OpacityB

TransferFunction OpacityB

OpacityGMA

TransferFunction OpacityGMA

OpacityGMB

TransferFunction OpacityGMB

OpacityGMOnA

boolean OpacityGMOnA

OpacityGMOnB

boolean OpacityGMOnB

OtherBlue

TransferFunction OtherBlue

OtherGreen

TransferFunction OtherGreen

OtherImageDirectory

java.lang.String OtherImageDirectory

OtherImageName

java.lang.String OtherImageName

OtherLUT

ModelStorageBase OtherLUT

OtherRed

TransferFunction OtherRed

OtherTransfer

TransferFunction OtherTransfer

Perspective

boolean Perspective

PlanesDividerLocation

int PlanesDividerLocation

PlaneZoom

float[] PlaneZoom

Radiological

boolean Radiological

RedA

TransferFunction RedA

RedB

TransferFunction RedB

RedOnA

boolean RedOnA

RedOnB

boolean RedOnB

ReleasedSamples

int ReleasedSamples

RenderMode

int RenderMode

RGBa

ModelRGB RGBa

RGBb

ModelRGB RGBb

RotationSamples

int RotationSamples

SculptDrawn

boolean SculptDrawn

SculptImage

byte[] SculptImage

SculptShape

int SculptShape

SelectedSurface

int SelectedSurface

SelectedTab

int SelectedTab

Show4D

boolean Show4D

ShowAxes

boolean ShowAxes

ShowBoundingBox

boolean ShowBoundingBox

ShowCrossHairs

boolean ShowCrossHairs

ShowOrientationCube

boolean ShowOrientationCube

ShowSlice

boolean[] ShowSlice

ShowSliceBox

boolean[] ShowSliceBox

ShowVOI

boolean ShowVOI

SliceColor

java.awt.Color[] SliceColor

SourceBlend

int SourceBlend

StereoType

int StereoType

SurfaceList

java.util.Vector<SurfaceState> SurfaceList

TabbedList

java.util.Vector<java.lang.String> TabbedList

TextureEnabled

boolean TextureEnabled

TextureOn

boolean TextureOn

TransferA

TransferFunction TransferA

TransferB

TransferFunction TransferB

UseOtherImage

boolean UseOtherImage

UseOtherLUT

boolean UseOtherLUT

VolumeBlend

int VolumeBlend

WidgetSelected

int WidgetSelected

WindowSize

java.awt.Dimension WindowSize

WindowX

int WindowX

WindowY

int WindowY

Class gov.nih.mipav.view.renderer.WildMagic.VolumeTriPlanarInterface extends javax.swing.JFrame implements Serializable

serialVersionUID:

1898957906984534260L

Serialized Fields

bf_flyPanel

javax.swing.JPanel bf_flyPanel

Panel to hold the BrainSurfaceFlattener or Flythrough views.

brainsurfaceFlattenerRender

CorticalAnalysisRender brainsurfaceFlattenerRender

Rendering the brainsurfaceFlattener objects.

clipButton

javax.swing.JButton clipButton

Button to invoke all the six clipping planes.

clipDisableButton

javax.swing.JButton clipDisableButton

Button to disable all the six clipping planes.

clipGUI

JPanelClip_WM clipGUI

Clipping user-interface panel:

clipMaskButton

javax.swing.JButton clipMaskButton

Button to crop the clip volume.

clipMaskUndoButton

javax.swing.JButton clipMaskUndoButton

Button to undo crop the clip volume.

clipPlaneButton

javax.swing.JButton clipPlaneButton

Button to invoke clipping planes.

clipSaveButton

javax.swing.JButton clipSaveButton

Button to save clipped region.

customBlendGUI

JPanelCustomBlend customBlendGUI

Multihistogram panel:

displayGUI

JPanelDisplay_WM displayGUI

Display options panel:

dualPane

javax.swing.JSplitPane dualPane

For displaying the BrainSurfaceFlattener or Flythrough renderers.

flythruControl

JPanelVirtualEndoscopySetup_WM flythruControl

Flythough setup panel:

flythruMoveControl

JPanelFlythruMove flythruMoveControl

Flythough Move panel:

frameHistogram

JFrameHistogram frameHistogram

geodesicGUI

JPanelGeodesic_WM geodesicGUI

Geodesic user-interface panel:

gpuPanel

javax.swing.JPanel gpuPanel

The image panel to hold one Canvas3D.

m_akPlaneRender

PlaneRender_WM[] m_akPlaneRender

The three slice views displayed as texture-mapped polygons:.

m_b4D

boolean m_b4D

m_bDependentInterfaceInit

boolean m_bDependentInterfaceInit

m_iVOICount

int m_iVOICount

m_kAnnotationAnimationPanel

JPanelAnnotationAnimation m_kAnnotationAnimationPanel

m_kFlyThroughRender

FlyThroughRender m_kFlyThroughRender

Flythrough renderer:

m_kLightsPanel

JPanelLights_WM m_kLightsPanel

Light panel

m_kLoadButton

javax.swing.JButton m_kLoadButton

m_kRecordToggle

javax.swing.JToggleButton m_kRecordToggle

m_kSaveButton

javax.swing.JButton m_kSaveButton

m_kVOIInterface

VOILatticeManagerInterface m_kVOIInterface

m_kVolOpacityPanel

JPanelVolumeOpacity m_kVolOpacityPanel

Opacity panel.

m_kVolume4DGUI

JPanelVolume4D m_kVolume4DGUI

m_kVolumeImageA

VolumeImage m_kVolumeImageA

VolumeImage contains data and textures for ModelImage A.

m_kVolumeImageB

VolumeImage m_kVolumeImageB

VolumeImage contains data and textures for ModelImage B.

mainPane

javax.swing.JSplitPane mainPane

maxPanelWidth

int maxPanelWidth

The max width of the control panels.

menuBar

javax.swing.JMenuBar menuBar

Menu bar.

menuObj

ViewMenuBuilder menuObj

Menu items storage.

mouseGUI

JPanel3DMouse_WM mouseGUI

3D mouse user-interface panel:

multiHistogramGUI

JPanelMultiDimensionalTransfer multiHistogramGUI

Multihistogram panel:

navigationGUI

JPanelNavigation navigationGUI

Navigation mode user-interface panel

panelAxial

javax.swing.JPanel panelAxial

Axial view panel.

panelCoronal

javax.swing.JPanel panelCoronal

Coronal view panel.

panelSagittal

javax.swing.JPanel panelSagittal

Sagittal view panel.

panelToolbar

javax.swing.JPanel panelToolbar

Panel that holds the toolbars.

panelToolBarGBC

java.awt.GridBagConstraints panelToolBarGBC

Constraints on panelToolbar layout:

positionsPanel

JPanelPositions positionsPanel

prevHeight

int prevHeight

raycastRenderWM

VolumeTriPlanarRender raycastRenderWM

Volume/Slice/Surface renderer.

rendererGUI

JPanelRenderMode_WM rendererGUI

Renderer mode user-interface panel

rightPane

javax.swing.JSplitPane rightPane

The view pane that contains the image view and tri-planar view panels.

screenHeight

int screenHeight

Current frame width and height.

screenWidth

int screenWidth

Current frame width and height.

sculptGUI

JPanelSculptor_WM sculptGUI

Sculpting user-interface panel:

sliceGUI

JPanelSlices_WM sliceGUI

3D Slice-view user-interface panel:

surfaceGUI

JPanelSurface_WM surfaceGUI

3D Surface user-interface panel:

surfaceTextureGUI

JPanelSurfaceTexture_WM surfaceTextureGUI

Surface Texture user-interface panel:

tabbedPane

javax.swing.JTabbedPane tabbedPane

The main tabbed pane in the volume view frame.

toolbarBuilder

ViewToolBarBuilder toolbarBuilder

Toolbar builder reference.

triImagePanel

javax.swing.JPanel triImagePanel

Tri image planar render panels.

userInterface

ViewUserInterface userInterface

Reference to the user interface.

viewToolBar

javax.swing.JToolBar viewToolBar

The top one render view switch toolbar.

voiMenu

javax.swing.JMenu voiMenu

Class gov.nih.mipav.view.renderer.WildMagic.VolumeTriPlanarInterface.IntVector extends java.util.Vector<java.lang.Integer> implements Serializable

serialVersionUID:

-7551972247476811252L

Class gov.nih.mipav.view.renderer.WildMagic.VolumeTriPlanarRender extends VolumeTriPlanarRenderBase implements Serializable

serialVersionUID:

4387274360968910837L

Serialized Fields

altPressed

boolean altPressed

animateStep

int animateStep

annotationAnimationPanel

JPanelAnnotationAnimation annotationAnimationPanel

annotationDiameters

java.util.HashMap<java.lang.String,java.lang.Float> annotationDiameters

annotationLabelsDisplay

java.util.HashMap<java.lang.String,java.lang.Boolean> annotationLabelsDisplay

annotationNames

java.lang.String[] annotationNames

annotationPositions

VOIVector annotationPositions

annotationSpheres

java.util.HashMap<java.lang.String,VolumeSurface> annotationSpheres

annotationSpheresColors

java.util.HashMap<java.lang.String,WildMagic.LibFoundation.Mathematics.ColorRGB> annotationSpheresColors

annotationSpheresDisplay

java.util.HashMap<java.lang.String,java.lang.Boolean> annotationSpheresDisplay

annotationSpheresIndex

int annotationSpheresIndex

annotationVOIs

java.util.HashMap<java.lang.String,VOI> annotationVOIs

configuredListener

RendererListener configuredListener

m_kParent

VolumeTriPlanarInterface m_kParent

Parent user-interface and display frame.

m_kVOIInterface

VOILatticeManagerInterface m_kVOIInterface

neuriteDisplay

java.util.HashMap<java.lang.String,java.lang.Boolean> neuriteDisplay

neuriteNames

java.util.Vector<java.lang.String> neuriteNames

neuriteSurfaces

java.util.HashMap<java.lang.String,VolumeSurface[]> neuriteSurfaces

neuriteVOIs

java.util.HashMap<java.lang.String,VOI[]> neuriteVOIs

rightMousePressed

boolean rightMousePressed

shiftPressed

boolean shiftPressed

sphereScale

float sphereScale

Class gov.nih.mipav.view.renderer.WildMagic.VolumeTriPlanarRenderBase extends GPURenderBase implements Serializable

serialVersionUID:

-8415814666722429687L

Serialized Fields

animateCurve

boolean animateCurve

animateLatticeModel

LatticeModel animateLatticeModel

animateLattices

boolean animateLattices

animateSlice

boolean animateSlice

animateStop

boolean animateStop

annotatePtsCounter

int annotatePtsCounter

number of annotate points along the specified path.

annotatePtsList

java.util.Vector<WildMagic.LibFoundation.Mathematics.Vector3f> annotatePtsList

annotate path planning points list

cameraPosition

WildMagic.LibFoundation.Mathematics.Vector3f cameraPosition

container

VolumeTriPlanarRenderBase.JPanelGPU container

main container for this object, contains the scroll pane and the depth slider:

fSample_mouseDragged

float fSample_mouseDragged

sample rate when mouse is dragged.

fSample_mouseReleased

float fSample_mouseReleased

sample rate when mouse is released.

isAnnotateEnabled

boolean isAnnotateEnabled

is annotation mode is enabled or not.

isMouseControlEnabled

boolean isMouseControlEnabled

is mouse control enabled or not.

isNavigationEnabled

boolean isNavigationEnabled

is nagivation mode enabled or not.

isPathPlanningEnabled

boolean isPathPlanningEnabled

is path planning mode enabled or not.

kGeometryBranchPath

WildMagic.LibGraphics.SceneGraph.Polyline kGeometryBranchPath

kPoly

WildMagic.LibGraphics.SceneGraph.Polyline kPoly

kPolyNode

WildMagic.LibGraphics.SceneGraph.Node kPolyNode

lattice

VOIVector lattice

latticeClip

boolean latticeClip

latticeClipAxes

WildMagic.LibFoundation.Mathematics.Vector3f[] latticeClipAxes

latticeClipBox

WildMagic.LibFoundation.Mathematics.Box3f latticeClipBox

latticeClipExtents

float[] latticeClipExtents

latticeClipPos

WildMagic.LibFoundation.Mathematics.Vector3f latticeClipPos

m_afArbEquation

float[] m_afArbEquation

Arbitrary clip plane equation:

m_afArbEquationInv

float[] m_afArbEquationInv

m_akSceneTarget

WildMagic.LibGraphics.Rendering.Texture[] m_akSceneTarget

m_akSlicesColor

WildMagic.LibFoundation.Mathematics.ColorRGB[] m_akSlicesColor

m_bArbClipOn

boolean m_bArbClipOn

Enable Arbitrary clip plane:

m_bCrop

boolean m_bCrop

Set to true when cropping the volume in the shader.

m_bDisplay

boolean m_bDisplay

m_bDisplaySecond

boolean m_bDisplaySecond

Enables/Disables rendering the second pass. When disabled, the back-facing polygons of the proxy-geometry are shown instead of the volume:

m_bDropper

boolean m_bDropper

m_bErase

boolean m_bErase

m_bFirstDisplay

boolean m_bFirstDisplay

m_bFirstRender

boolean m_bFirstRender

The first time the frame is rendererd use the shader to calculate the normals for the volume data.

m_bGeodesicEnabled

boolean m_bGeodesicEnabled

Geodesic enabled on/off.

m_bPaint

boolean m_bPaint

m_bPaintCan

boolean m_bPaintCan

m_bPaintEnabled

boolean m_bPaintEnabled

Painting parameters:

m_bPickCorrespondence

boolean m_bPickCorrespondence

BrainSurfaceFlattener pick correspondence enabled on/off.

m_bPlay4D

boolean m_bPlay4D

m_bPlay4DVOIs

boolean m_bPlay4DVOIs

m_bResetImages

boolean m_bResetImages

m_bUpdateCenterOnDisplay

boolean m_bUpdateCenterOnDisplay

m_bWriteImage

boolean m_bWriteImage

m_fAnimateRate

float m_fAnimateRate

m_iAnimateCount

int m_iAnimateCount

m_iBrushSize

int m_iBrushSize

m_iExtractLevel

int m_iExtractLevel

Intensity level for GPU-surface extraction.

m_iStereo

int m_iStereo

Stereo on/off.

m_kArbitraryClip

WildMagic.LibFoundation.Mathematics.Vector4f m_kArbitraryClip

m_kArbitraryClipInv

WildMagic.LibFoundation.Mathematics.Vector4f m_kArbitraryClipInv

m_kDTIDisplay

VolumeDTI m_kDTIDisplay

DTI renderer.

m_kFBO

WildMagic.LibRenderers.OpenGLRenderer.OpenGLFrameBuffer m_kFBO

m_kFlyPathGraphCurve

FlyPathGraphCurve m_kFlyPathGraphCurve

Fly path curve.

m_kNewCenter

WildMagic.LibFoundation.Mathematics.Vector3f m_kNewCenter

m_kNormalColorPathUnvisited

WildMagic.LibFoundation.Mathematics.ColorRGB m_kNormalColorPathUnvisited

Color for the parts of the path that have not yet been visited (Dark Green)

m_kPaintColor

WildMagic.LibFoundation.Mathematics.ColorRGBA m_kPaintColor

m_kSculptor

Sculptor_WM m_kSculptor

New sculpting object for WM-based sculpting.

m_kSlices

VolumeSlices m_kSlices

3D Slice renderer.

m_kVolumeBox

VolumeBoundingBox m_kVolumeBox

Volume bounding box renderer.

m_kVolumeClip

VolumeClip m_kVolumeClip

Clipping planes renderer

m_kVolumeCube

VolumeOrientationCube m_kVolumeCube

Orientation cube renderer

m_kVolumeRayCast

VolumeRayCast m_kVolumeRayCast

GPU-based ray cast renderer.

m_pkPlane

WildMagic.LibGraphics.SceneGraph.TriMesh m_pkPlane

m_pkScreenCamera

WildMagic.LibGraphics.Rendering.Camera m_pkScreenCamera

m_spkPlaneEffect

WildMagic.LibGraphics.Effects.ShaderEffect m_spkPlaneEffect

navigationBehavior

NavigationBehavior navigationBehavior

navigation behavior.

opacityLabel

javax.swing.JLabel opacityLabel

opacitySlider

javax.swing.JSlider opacitySlider

Opacity sliders for when this renderer is displayed as a stand-alone app.

plane

WildMagic.LibGraphics.SceneGraph.TriMesh plane

planeName

java.lang.String planeName

planeVOI

VOI planeVOI

profile

boolean profile

screenShotRotateCount

int screenShotRotateCount

screenShots

java.util.Vector<java.awt.image.BufferedImage> screenShots

segmentIndex

int segmentIndex

sharedDrawable

com.jogamp.opengl.GLOffscreenAutoDrawable sharedDrawable

sharedRenderer

VolumeTriPlanarRender sharedRenderer

sliceDir

int sliceDir

sphereClip

WildMagic.LibFoundation.Mathematics.Vector3f sphereClip

sphereRadius

float sphereRadius

takeScreenShot

boolean takeScreenShot

Package gov.nih.mipav.view.renderer.WildMagic.AAM

Class gov.nih.mipav.view.renderer.WildMagic.AAM.CAAMShapeCollection extends java.util.Vector<CAAMShape> implements Serializable

Serialized Fields

m_dAvgSize

double m_dAvgSize

The average shape size (calculated during alignment).

m_MeanShapeBeforeTS

CAAMShape m_MeanShapeBeforeTS

The meanshape prior to tangent space projection (calculated during alignment).

m_szPath

java.lang.String m_szPath

Path to the .asf files (if any).

Class gov.nih.mipav.view.renderer.WildMagic.AAM.EigenvalueDecomposition extends java.lang.Object implements Serializable

Serialized Fields

d

double[] d

Arrays for internal storage of eigenvalues.

internal storage of eigenvalues.

e

double[] e

Arrays for internal storage of eigenvalues.

internal storage of eigenvalues.

H

double[][] H

Array for internal storage of nonsymmetric Hessenberg form.

internal storage of nonsymmetric Hessenberg form.

issymmetric

boolean issymmetric

Symmetry flag.

internal symmetry flag.

n

int n

Row and column dimension (square matrix).

matrix dimension.

ort

double[] ort

Working storage for nonsymmetric algorithm.

working storage for nonsymmetric algorithm.

V

double[][] V

Array for internal storage of eigenvectors.

internal storage of eigenvectors.

Class gov.nih.mipav.view.renderer.WildMagic.AAM.SingularValueDecomposition extends java.lang.Object implements Serializable

Serialized Fields

m

int m

Row and column dimensions.

row dimension.

n

int n

Row and column dimensions.

row dimension.

s

double[] s

Array for internal storage of singular values.

internal storage of singular values.

U

double[][] U

Arrays for internal storage of U and V.

internal storage of U.

V

double[][] V

Arrays for internal storage of U and V.

internal storage of U.

Package gov.nih.mipav.view.renderer.WildMagic.BallPivoting

Class gov.nih.mipav.view.renderer.WildMagic.BallPivoting.PlyWriter.NormalVector extends java.util.Vector<Point3> implements Serializable

Package gov.nih.mipav.view.renderer.WildMagic.brainflattenerview_WM

Class gov.nih.mipav.view.renderer.WildMagic.brainflattenerview_WM.CorticalAnalysisRender extends GPURenderBase implements Serializable

serialVersionUID:

-6130870790192175575L

Serialized Fields

m_aiTriIndex

int[] m_aiTriIndex

Point indices of the puncture triangle.

m_akPickColors

WildMagic.LibFoundation.Mathematics.ColorRGB[] m_akPickColors

Colors for the picked points:.

m_akTriColors

WildMagic.LibFoundation.Mathematics.ColorRGBA[] m_akTriColors

puncture triangle color

m_bCurvatureColors

boolean m_bCurvatureColors

Flag set to indicate whether curvature colors are rendered on the mesh surface. If not, then average convexity colors are rendered.

m_bDisplayLines

boolean m_bDisplayLines

Toggle latitude/longitude display on/off.

m_bFirst

boolean m_bFirst

First time the scene is rendered.

m_bInflationInitialized

boolean m_bInflationInitialized

Flag set once inflation processing has been initialized.

m_bPickCorrespondenceEnabled

boolean m_bPickCorrespondenceEnabled

Turned on when picking with the mouse is enabled:.

m_bPickPunctureEnabled

boolean m_bPickPunctureEnabled

Enable/disable picking puncture triangle

m_iNumLat

int m_iNumLat

m_iNumLon

int m_iNumLon

m_iNumPicked

int m_iNumPicked

number of picked points displayed.

m_iRunningNumPicked

int m_iRunningNumPicked

Cycle through the number of correspondence points.

m_kCortical

MjCorticalMesh_WM m_kCortical

Cortical mesh to be used in rendering scene.

m_kCylinder

VolumeSurface m_kCylinder

Cylinder renderer

m_kCylinderLines

VolumeNode m_kCylinderLines

Cylinder longitude/latitude lines.

m_kCylinderPoints

VolumeNode m_kCylinderPoints

Scene-graph node for displaying correspondence points on the cylinder.

m_kLUTConvexity

ModelLUT m_kLUTConvexity

LUT for the triangle mesh convexity colors.

m_kLUTCurvature

ModelLUT m_kLUTCurvature

local reference to ModelLUT.

m_kMeshLines

WildMagic.LibGraphics.SceneGraph.Node m_kMeshLines

TriMesh longitude/latitude lines.

m_kMeshPoints

WildMagic.LibGraphics.SceneGraph.Node m_kMeshPoints

Scene-graph node for displaying correspondence points on the TriMesh surface.

m_kPanel

JPanelBrainSurfaceFlattener_WM m_kPanel

BrainSurfaceFlattener User-Interface panel

m_kParent

VolumeTriPlanarInterface m_kParent

Parent user-interface and display frame.

m_kSphere

VolumeSurface m_kSphere

Sphere renderer.

m_kSphereLines

VolumeNode m_kSphereLines

Sphere longitude/latitude lines.

m_kSpherePoints

VolumeNode m_kSpherePoints

Scene-graph node for displaying correspondence points on the sphere.

MAX_POINTS

int MAX_POINTS

Maximum number of correspondence points.

Class gov.nih.mipav.view.renderer.WildMagic.brainflattenerview_WM.JPanelBrainSurfaceFlattener_WM extends javax.swing.JPanel implements Serializable

serialVersionUID:

-2749305357977770854L

Serialized Fields

cancelButton

javax.swing.JButton cancelButton

Cancel button is used on most dialogs. Defining it in the base allows default actions if the user presses return and the button is in focus.

m_bFileLoaded

boolean m_bFileLoaded

Set to true when a surface has been loaded

m_bFirstSurface

boolean m_bFirstSurface

Causes the surface LUT to be calculated for the first time.

m_iGridY

int m_iGridY

Keeps track of the user-interface position in the main panel.

m_kDisablePick

javax.swing.JRadioButton m_kDisablePick

Enable/disable correspondence picking

m_kDisplayButtonGroup

javax.swing.ButtonGroup m_kDisplayButtonGroup

ButtonGroup for the plane/surface display selection.

m_kDisplayPlane

javax.swing.JRadioButton m_kDisplayPlane

Toggle displaying the plane on/off

m_kDisplaySphere

javax.swing.JRadioButton m_kDisplaySphere

Toggle displaying the sphere on/off

m_kInsidePanel

javax.swing.JPanel m_kInsidePanel

Panel container.

m_kLatLonLines

javax.swing.JCheckBox m_kLatLonLines

Toggle display of latitude/longitude lines on/off.

m_kLUTa

ModelLUT m_kLUTa

Color LUT based on Volume Data

m_kLUTImageA

ModelImage m_kLUTImageA

Volume data for LUT

m_kNumLatText

javax.swing.JTextField m_kNumLatText

Text box for entering the number of latitude lines.

m_kNumLonText

javax.swing.JTextField m_kNumLonText

Text box for entering the number of longitude lines.

m_kPanelBrainsurfaceFlattenerLUT

JFrameHistogram m_kPanelBrainsurfaceFlattenerLUT

LUT Panel based on surface curvature.

m_kPickButtonGroup

javax.swing.ButtonGroup m_kPickButtonGroup

Picking button group -- switch between picking correspondence points and the puncture triangle.

m_kPickCorrespondence

javax.swing.JRadioButton m_kPickCorrespondence

Correspondence point picking.

m_kPickPuncture

javax.swing.JRadioButton m_kPickPuncture

Puncture triangle picking.

m_kTriangleMesh

WildMagic.LibGraphics.SceneGraph.TriMesh m_kTriangleMesh

Brain Surface TriMesh

m_kView

CorticalAnalysisRender m_kView

Brain Surface Renderer.

m_kVolumeViewer

VolumeTriPlanarInterface m_kVolumeViewer

Parent user-interface frame.

mainPanel

javax.swing.JPanel mainPanel

The main control.

OKButton

javax.swing.JButton OKButton

OK button is used on most dialogs. Defining it in the base allows default actions if the user presses return and the button is in focus.

scroller

javax.swing.JScrollPane scroller

The scroll pane holding the panel content. Useful when the screen is small.

serif12

java.awt.Font serif12

Fonts, same as MipavUtil.font12 and MipavUtil.font12B.

serif12B

java.awt.Font serif12B

Fonts, same as MipavUtil.font12 and MipavUtil.font12B.

Package gov.nih.mipav.view.renderer.WildMagic.Decimate

Class gov.nih.mipav.view.renderer.WildMagic.Decimate.IDList extends java.lang.Object implements Serializable

Serialized Fields

back

IDList back

ID

int ID

next

IDList next

Package gov.nih.mipav.view.renderer.WildMagic.DTI_FrameWork

Class gov.nih.mipav.view.renderer.WildMagic.DTI_FrameWork.DTIColorDisplay extends ViewJFrameBase implements Serializable

Serialized Fields

adjustExp

float adjustExp

adjust exp *

adjustExpPanel

javax.swing.JPanel adjustExpPanel

panels *

adjustExpSlider

javax.swing.JSlider adjustExpSlider

various sliders in dialog *

adjustExpTextField

javax.swing.JTextField adjustExpTextField

textfields *

alg

AlgorithmDTIColorDisplay alg

handle to the algorithm *

anisotropyBrowseButton

javax.swing.JButton anisotropyBrowseButton

buttons *

anisotropyFilename

java.lang.String anisotropyFilename

names of eigenvector and anisotropy files*

anisotropyImage

ModelImage anisotropyImage

anisotropy src image *

anisotropyLabel

javax.swing.JLabel anisotropyLabel

labels *

anisotropyMax

float anisotropyMax

anisotropy max *

anisotropyMaxPanel

javax.swing.JPanel anisotropyMaxPanel

panels *

anisotropyMaxSlider

javax.swing.JSlider anisotropyMaxSlider

various sliders in dialog *

anisotropyMaxTextField

javax.swing.JTextField anisotropyMaxTextField

textfields *

anisotropyMin

float anisotropyMin

anisotropy min *

anisotropyMinPanel

javax.swing.JPanel anisotropyMinPanel

panels *

anisotropyMinSlider

javax.swing.JSlider anisotropyMinSlider

various sliders in dialog *

anisotropyMinTextField

javax.swing.JTextField anisotropyMinTextField

textfields *

anisotropyPath

javax.swing.JTextField anisotropyPath

textfields *

bottomPanel

javax.swing.JPanel bottomPanel

panels *

captureImageButton

javax.swing.JButton captureImageButton

buttons *

colorPanel

javax.swing.JPanel colorPanel

panels *

colorRangePanel

javax.swing.JPanel colorRangePanel

panels *

colorRangeSlider

javax.swing.JSlider colorRangeSlider

various sliders in dialog *

colorRangeTextField

javax.swing.JTextField colorRangeTextField

textfields *

colorWheel

ColorWheel colorWheel

Color Wheels *

colorWheelChoicesPanel

javax.swing.JPanel colorWheelChoicesPanel

panels *

colorWheelComboBox

javax.swing.JComboBox colorWheelComboBox

color wheel choices combo box *

colorWheelPanel

javax.swing.JPanel colorWheelPanel

panels *

componentImage

ViewJComponentDTIImage componentImage

ViewJComponentDTIImage *

currentColorWheelType

java.lang.String currentColorWheelType

String indicating current color wheel type *

currentRectangle

java.awt.Rectangle currentRectangle

rectangle for screen capture*

currentResultImageSlicesLabel

javax.swing.JLabel currentResultImageSlicesLabel

labels *

dimGreenPanel

javax.swing.JPanel dimGreenPanel

panels *

dimGreenSlider

javax.swing.JSlider dimGreenSlider

various sliders in dialog *

dimGreenTextField

javax.swing.JTextField dimGreenTextField

textfields *

eigenvectorBrowseButton

javax.swing.JButton eigenvectorBrowseButton

buttons *

eigenvectorLabel

javax.swing.JLabel eigenvectorLabel

labels *

eigenvectorPath

javax.swing.JTextField eigenvectorPath

textfields *

eigvecFilename

java.lang.String eigvecFilename

names of eigenvector and anisotropy files*

eigvecSrcImage

ModelImage eigvecSrcImage

eigenvector src image *

filesPanel

javax.swing.JPanel filesPanel

panels *

flag

boolean flag

flag needed when performing restore defaults *

gamma

float gamma

gamma correction *

gammaPanel

javax.swing.JPanel gammaPanel

panels *

gammaSlider

javax.swing.JSlider gammaSlider

various sliders in dialog *

gammaTextField

javax.swing.JTextField gammaTextField

textfields *

gbc

java.awt.GridBagConstraints gbc

GridbagConstraints *

gbl

java.awt.GridBagLayout gbl

GridBagLayout *

heightResFactor

float heightResFactor

Storage for correction parameters where datasets have non isotropic values.

heuristicParametersPanel

javax.swing.JPanel heuristicParametersPanel

panels *

imageBufferA

float[] imageBufferA

Buffer used to store image intensities the presently viewed slice of image A.

in

java.io.BufferedReader in

Buffered Reader for loading params *

isMultiply

boolean isMultiply

boolean for truncate/multiply *

loadButton

javax.swing.JButton loadButton

buttons *

LUTa

ModelLUT LUTa

LUT of input image *

magButton

javax.swing.JButton magButton

buttons *

magLabel

javax.swing.JLabel magLabel

labels *

mainPanel

javax.swing.JPanel mainPanel

panels *

maxAdjustExp

float maxAdjustExp

mins and maxes for heuristic parameters*

maxAdjustExpLabel

javax.swing.JLabel maxAdjustExpLabel

labels *

maxAnisotropyMax

float maxAnisotropyMax

mins and maxes for heuristic parameters*

maxAnisotropyMaxLabel

javax.swing.JLabel maxAnisotropyMaxLabel

labels *

maxAnisotropyMin

float maxAnisotropyMin

mins and maxes for heuristic parameters*

maxAnisotropyMinLabel

javax.swing.JLabel maxAnisotropyMinLabel

labels *

maxColorRange

float maxColorRange

mins and maxes for heuristic parameters*

maxColorRangeLabel

javax.swing.JLabel maxColorRangeLabel

labels *

maxDimGreen

float maxDimGreen

mins and maxes for heuristic parameters*

maxDimGreenLabel

javax.swing.JLabel maxDimGreenLabel

labels *

maxGamma

float maxGamma

mins and maxes for heuristic parameters*

maxGammaLabel

javax.swing.JLabel maxGammaLabel

labels *

maxResultImageSlicesLabel

javax.swing.JLabel maxResultImageSlicesLabel

labels *

maxSatBlue

float maxSatBlue

mins and maxes for heuristic parameters*

maxSatBlueLabel

javax.swing.JLabel maxSatBlueLabel

labels *

maxSatVsTheta

float maxSatVsTheta

mins and maxes for heuristic parameters*

maxSatVsThetaLabel

javax.swing.JLabel maxSatVsThetaLabel

labels *

maxStevensBeta

float maxStevensBeta

mins and maxes for heuristic parameters*

maxStevensBetaLabel

javax.swing.JLabel maxStevensBetaLabel

labels *

minAdjustExp

float minAdjustExp

mins and maxes for heuristic parameters*

minAdjustExpLabel

javax.swing.JLabel minAdjustExpLabel

labels *

minAnisotropyMax

float minAnisotropyMax

mins and maxes for heuristic parameters*

minAnisotropyMaxLabel

javax.swing.JLabel minAnisotropyMaxLabel

labels *

minAnisotropyMin

float minAnisotropyMin

mins and maxes for heuristic parameters*

minAnisotropyMinLabel

javax.swing.JLabel minAnisotropyMinLabel

labels *

minColorRange

float minColorRange

mins and maxes for heuristic parameters*

minColorRangeLabel

javax.swing.JLabel minColorRangeLabel

labels *

minDimGreen

float minDimGreen

mins and maxes for heuristic parameters*

minDimGreenLabel

javax.swing.JLabel minDimGreenLabel

labels *

minGamma

float minGamma

mins and maxes for heuristic parameters*

minGammaLabel

javax.swing.JLabel minGammaLabel

labels *

minResultImageSlicesLabel

javax.swing.JLabel minResultImageSlicesLabel

labels *

minSatBlue

float minSatBlue

mins and maxes for heuristic parameters*

minSatBlueLabel

javax.swing.JLabel minSatBlueLabel

labels *

minSatVsTheta

float minSatVsTheta

mins and maxes for heuristic parameters*

minSatVsThetaLabel

javax.swing.JLabel minSatVsThetaLabel

labels *

minStevensBeta

float minStevensBeta

mins and maxes for heuristic parameters*

minStevensBetaLabel

javax.swing.JLabel minStevensBetaLabel

labels *

multRadio

javax.swing.JRadioButton multRadio

radio buttons for truncate/multiply *

nImage

int nImage

Number of slices in a 3D dataset.

nTImage

int nTImage

Number of time sequences in a 4D dataset.

numSlices

int numSlices

num slices for result image *

okButton

javax.swing.JButton okButton

buttons *

okPanel

javax.swing.JPanel okPanel

panels *

optionsPanel

javax.swing.JPanel optionsPanel

panels *

out

java.io.BufferedWriter out

Buffered Writer for saving params *

pB

float pB

blue saturation *

pC

float pC

color range *

pG

float pG

green saturation *

pixBuffer

int[] pixBuffer

Integer buffer (4 bytes that stores the concatenated Alpha (1 byte), Red (1 byte), Green ( 1 byte ), Blue (1 byte ) data. The ARGB values are generated by using the imageA intensities as a index into a LUT.

pS

float pS

saturation vs theta *

refLabel1

javax.swing.JLabel refLabel1

labels *

refLabel2

javax.swing.JLabel refLabel2

labels *

refLabel3

javax.swing.JLabel refLabel3

labels *

refPanel

javax.swing.JPanel refPanel

panels *

resols

float[] resols

Storage of the image voxel resolutions. One resolution value per dimension.

restoreDefaultsButton

javax.swing.JButton restoreDefaultsButton

buttons *

restoreDefaultsPanel

javax.swing.JPanel restoreDefaultsPanel

panels *

resultImage

ModelImage resultImage

result image *

resultImagePanel

javax.swing.JPanel resultImagePanel

panels *

resultImageSlider

javax.swing.JSlider resultImageSlider

various sliders in dialog *

resultImageSliderPanel

javax.swing.JPanel resultImageSliderPanel

panels *

resultPanel

javax.swing.JPanel resultPanel

panels *

resultScrollPanel

javax.swing.JScrollPane resultScrollPanel

scroll pane for result image *

satBluePanel

javax.swing.JPanel satBluePanel

panels *

satBlueSlider

javax.swing.JSlider satBlueSlider

various sliders in dialog *

satBlueTextField

javax.swing.JTextField satBlueTextField

textfields *

satVsThetaPanel

javax.swing.JPanel satVsThetaPanel

panels *

satVsThetaSlider

javax.swing.JSlider satVsThetaSlider

various sliders in dialog *

satVsThetaTextField

javax.swing.JTextField satVsThetaTextField

textfields *

saveButton

javax.swing.JButton saveButton

buttons *

saveLoadPanel

javax.swing.JPanel saveLoadPanel

panels *

stevensBeta

float stevensBeta

steven's beta *

stevensBetaPanel

javax.swing.JPanel stevensBetaPanel

panels *

stevensBetaSlider

javax.swing.JSlider stevensBetaSlider

various sliders in dialog *

stevensBetaTextField

javax.swing.JTextField stevensBetaTextField

textfields *

tempPanel

javax.swing.JPanel tempPanel

panels *

title

java.lang.String title

dialog title and version *

titledBorder

javax.swing.border.TitledBorder titledBorder

titled border for certain components *

toolbarBuilder

ViewToolBarBuilder toolbarBuilder

ViewToolBarBuilder *

toolbarPanel

javax.swing.JPanel toolbarPanel

panels *

topPanel

javax.swing.JPanel topPanel

panels *

truncMultPanel

javax.swing.JPanel truncMultPanel

panels *

truncMultRadioGroup

javax.swing.ButtonGroup truncMultRadioGroup

radio group for truncate/multiply *

truncRadio

javax.swing.JRadioButton truncRadio

radio buttons for truncate/multiply *

tSlice

int tSlice

Image time sequence number of image that is displayed. Zero indexed based.

type

java.lang.String type

type of color wheel ABSVAL, NOSYMM, ROTATIONALSYMM, MIRRORSYMM *

units

int[] units

Storage of the resolution units of measure. For example, mm, cm, inches ...

unMagButton

javax.swing.JButton unMagButton

buttons *

widthResFactor

float widthResFactor

Storage for correction parameters where datasets have non isotropic values.

zoom

float zoom

current zoom for result image *

zoomOneButton

javax.swing.JButton zoomOneButton

buttons *

zSlice

int zSlice

current z slice *

Class gov.nih.mipav.view.renderer.WildMagic.DTI_FrameWork.DTIPipeline extends JDialogBase implements Serializable

Serialized Fields

arrayTransMatrix

TransMatrix[] arrayTransMatrix

b0toStructMatrix

TransMatrix b0toStructMatrix

bmatValues

double[][] bmatValues

bvalues

double[] bvalues

currentImage

ModelImage currentImage

The current DWI image in the pipeline

dtiparams

DTIParameters dtiparams

DTIPreprocessing

JPanelDTIPreprocessing DTIPreprocessing

DWIDir

java.lang.String DWIDir

DWIframe

ViewJFrameImage DWIframe

DWIImage

ModelImage DWIImage

Diffusion weighted image read from file or from active image.

DWINewB0Image

ModelImage DWINewB0Image

Registered images, results from pre-processing tab:

EPIpanel

JPanelEPIDistortionCorrection EPIpanel

estTensorPanel

JPanelDTIEstimateTensor estTensorPanel

fiberTrack

JPanelDTIFiberTracking fiberTrack

goBackButton

javax.swing.JButton goBackButton

DOCUMENT ME!

gradients

double[][] gradients

importData

JPanelDTIImportData importData

inputTensorImage

ModelImage inputTensorImage

Input image for tensor estimation

mainPanel

javax.swing.JPanel mainPanel

main panel *

nextButton

javax.swing.JButton nextButton

DOCUMENT ME!

refImageNum

int refImageNum

srcBvalGradTable

javax.swing.table.DefaultTableModel srcBvalGradTable

T2frame

ViewJFrameImage T2frame

T2Image

ModelImage T2Image

Structural image as reference space (T2 image):

tabbedPane

javax.swing.JTabbedPane tabbedPane

DOCUMENT ME!

tensorImage

ModelImage tensorImage

Diffusion tensor image:

visualization

JPanelDTIVisualization visualization

Class gov.nih.mipav.view.renderer.WildMagic.DTI_FrameWork.JPanelDTIEstimateTensor extends javax.swing.JPanel implements Serializable

serialVersionUID:

-6738722246165232246L

Serialized Fields

calcTensor

javax.swing.JButton calcTensor

comboBoxDTI_Algorithm

javax.swing.JComboBox comboBoxDTI_Algorithm

menu for selecting dti algorithm:

displayExit

javax.swing.JCheckBox displayExit

Check boxes enable the user to save and display output images:

displayIntensity

javax.swing.JCheckBox displayIntensity

displayTensor

javax.swing.JCheckBox displayTensor

EPIpanel

JPanelEPIDistortionCorrection EPIpanel

m_aakDWIList

java.lang.String[][] m_aakDWIList

m_aiMatrixEntries

int[] m_aiMatrixEntries

m_bUseXRes

boolean m_bUseXRes

m_bUseYRes

boolean m_bUseYRes

m_bUseZRes

boolean m_bUseZRes

m_fMeanNoise

float m_fMeanNoise

m_fResX

float m_fResX

m_fResY

float m_fResY

m_fResZ

float m_fResZ

m_iBOrig

int m_iBOrig

m_iDimX

int m_iDimX

m_iDimY

int m_iDimY

m_iSlices

int m_iSlices

m_iWeights

int m_iWeights

m_kBMatrix

WildMagic.LibFoundation.Mathematics.GMatrixd m_kBMatrix

m_kDWIImage

ModelImage m_kDWIImage

m_kRawFormat

java.lang.String m_kRawFormat

mainPanel

javax.swing.JPanel mainPanel

main panel

maskImage

ModelImage maskImage

Mask image for the tensor calculation

outputDirTextField

javax.swing.JTextField outputDirTextField

output directory

pipeline

DTIPipeline pipeline

parent dialog

saveExit

javax.swing.JCheckBox saveExit

saveIntensity

javax.swing.JCheckBox saveIntensity

saveTensor

javax.swing.JCheckBox saveTensor

serif12

java.awt.Font serif12

tensorImage

ModelImage tensorImage

Diffusion tensor image:

textListFile

javax.swing.JTextField textListFile

DWI .list location:

textMaskimage

javax.swing.JTextField textMaskimage

mask image location:

Class gov.nih.mipav.view.renderer.WildMagic.DTI_FrameWork.JPanelDTIFiberTracking extends javax.swing.JPanel implements Serializable

serialVersionUID:

3303854496014433147L

Serialized Fields

adcImage

ModelImage adcImage

calcStats

javax.swing.AbstractButton calcStats

createADC

javax.swing.JCheckBox createADC

createColor

javax.swing.JCheckBox createColor

createEValue

javax.swing.JCheckBox createEValue

createEVector

javax.swing.JCheckBox createEVector

createFA

javax.swing.JCheckBox createFA

createRA

javax.swing.JCheckBox createRA

createTrace

javax.swing.JCheckBox createTrace

createVR

javax.swing.JCheckBox createVR

currDir

java.lang.String currDir

current directory *

displayADC

javax.swing.JCheckBox displayADC

displayColor

javax.swing.JCheckBox displayColor

displayEValue

javax.swing.JCheckBox displayEValue

displayEVector

javax.swing.JCheckBox displayEVector

displayFA

javax.swing.JCheckBox displayFA

displayRA

javax.swing.JCheckBox displayRA

displayTrace

javax.swing.JCheckBox displayTrace

displayVR

javax.swing.JCheckBox displayVR

eigenValueImage

ModelImage eigenValueImage

eigenVectorImage

ModelImage eigenVectorImage

FAImage

ModelImage FAImage

mainPanel

javax.swing.JPanel mainPanel

main panel *

outputDirTextField

javax.swing.JTextField outputDirTextField

parentFrame

javax.swing.JDialog parentFrame

Parent dialog, when this panel is created as a stand-alone dialog: *

pipeline

DTIPipeline pipeline

Parent DTI pipeline framework

raImage

ModelImage raImage

rgbImage

ModelImage rgbImage

serif12

java.awt.Font serif12

tensorImage

ModelImage tensorImage

textDTIimage

javax.swing.JTextField textDTIimage

traceImage

ModelImage traceImage

visualization

JPanelDTIVisualization visualization

vrImage

ModelImage vrImage

Class gov.nih.mipav.view.renderer.WildMagic.DTI_FrameWork.JPanelDTIImportData extends javax.swing.JPanel implements Serializable

Serialized Fields

activeDWIButton

javax.swing.JRadioButton activeDWIButton

angCorrGT

double[][] angCorrGT

DOCUMENT ME!

BMatrixButton

javax.swing.JRadioButton BMatrixButton

browseDWIButton

javax.swing.JRadioButton browseDWIButton

bvalGradAppButton

javax.swing.JButton bvalGradAppButton

DOCUMENT ME!

bvalGradFileLabel

javax.swing.JLabel bvalGradFileLabel

DOCUMENT ME!

checkSiemens

boolean checkSiemens

clearDWITableButton

javax.swing.JButton clearDWITableButton

currDir

java.lang.String currDir

current directory *

dtiparams

DTIParameters dtiparams

dtiStudioButton

javax.swing.JRadioButton dtiStudioButton

Radio button to save gradBval text file in DTIStudio format

DWIButtonPanel

javax.swing.JPanel DWIButtonPanel

DWIOpenPanel

javax.swing.JPanel DWIOpenPanel

fatshiftBox

javax.swing.JComboBox fatshiftBox

DOCUMENT ME!

fatShiftLabel

javax.swing.JLabel fatShiftLabel

DOCUMENT ME!

filebvalGradTxtName

java.lang.String filebvalGradTxtName

bValGrad test file name from user

fileInfoPARREC

FileInfoPARREC fileInfoPARREC

foldOverBox

javax.swing.JComboBox foldOverBox

DOCUMENT ME!

foldOverLabel

javax.swing.JLabel foldOverLabel

DOCUMENT ME!

frame

ViewJFrameImage frame

fslButton

javax.swing.JRadioButton fslButton

Radio button to save gradBval text file in FSL format

gradBvalText

int gradBvalText

int to determine which format user selects for gradBval test file

gradCreatetable

double[][] gradCreatetable

DOCUMENT ME!

gradientButton

javax.swing.JRadioButton gradientButton

gradOPBox

javax.swing.JComboBox gradOPBox

DOCUMENT ME!

gradOPLabel

javax.swing.JLabel gradOPLabel

DOCUMENT ME!

gradResBox

javax.swing.JComboBox gradResBox

DOCUMENT ME!

gradResLabel

javax.swing.JLabel gradResLabel

DOCUMENT ME!

gradResWOP

java.lang.String gradResWOP

invertedBox

javax.swing.JComboBox invertedBox

DOCUMENT ME!

invertedLabel

javax.swing.JLabel invertedLabel

DOCUMENT ME!

isBmatFile

boolean isBmatFile

isDWICellEditBox

javax.swing.JCheckBox isDWICellEditBox

DOCUMENT ME!

isJonesBox

javax.swing.JCheckBox isJonesBox

DOCUMENT ME!

isKirbyBox

javax.swing.JCheckBox isKirbyBox

DOCUMENT ME!

lastStackFlag

boolean lastStackFlag

loadBValGradFileButton

javax.swing.JButton loadBValGradFileButton

loadTable

javax.swing.JPanel loadTable

m_kDWIImage

ModelImage m_kDWIImage

Diffusion Tensor image.

m_kT2Image

ModelImage m_kT2Image

T2 image.

mipavStandardButton

javax.swing.JRadioButton mipavStandardButton

Radio button to save gradBval text file in mipavStandard format

mosaicToSliceAlgo

AlgorithmMosaicToSlices mosaicToSliceAlgo

negXCheckBox

javax.swing.JCheckBox negXCheckBox

DOCUMENT ME!

negYCheckBox

javax.swing.JCheckBox negYCheckBox

DOCUMENT ME!

negZCheckBox

javax.swing.JCheckBox negZCheckBox

DOCUMENT ME!

newDTIparams

DTIParameters newDTIparams

numVolumes

int numVolumes

number of Volumes in DWI Image

openDWIButton

javax.swing.JButton openDWIButton

DOCUMENT ME!

openedImageCheckBox

javax.swing.JCheckBox openedImageCheckBox

DOCUMENT ME!

openFile

ViewOpenFileUI openFile

openImageNames

java.util.Vector<java.lang.String> openImageNames

openT2Button

javax.swing.JButton openT2Button

DOCUMENT ME!

osBox

javax.swing.JComboBox osBox

DOCUMENT ME!

osLabel

javax.swing.JLabel osLabel

DOCUMENT ME!

outputTextArea

javax.swing.JTextArea outputTextArea

TextArea of main dialogfor text output.*

parDTIParams

DTIParameters parDTIParams

parNExamName

java.lang.String parNExamName

parNfoldover

java.lang.String parNfoldover

parNoffCentre

double[] parNoffCentre

parNorient

int parNorient

parNPatientPosition

java.lang.String parNPatientPosition

parNProtocolName

java.lang.String parNProtocolName

parNsliceAng

double[] parNsliceAng

parNversion

java.lang.String parNversion

patientOrientBox

javax.swing.JComboBox patientOrientBox

DOCUMENT ME!

patientOrientLabel

javax.swing.JLabel patientOrientLabel

DOCUMENT ME!

patientPosBox

javax.swing.JComboBox patientPosBox

DOCUMENT ME!

patientPosLabel

javax.swing.JLabel patientPosLabel

DOCUMENT ME!

philRelBox

javax.swing.JComboBox philRelBox

DOCUMENT ME!

philRelLabel

javax.swing.JLabel philRelLabel

DOCUMENT ME!

pipeline

DTIPipeline pipeline

rev_angCorrGT

double[][] rev_angCorrGT

DOCUMENT ME!

saveBvalGradButton

javax.swing.JButton saveBvalGradButton

saveGradchooser

javax.swing.JFileChooser saveGradchooser

chooser for save gradBval text dialog

scrollPane

javax.swing.JScrollPane scrollPane

serif12

java.awt.Font serif12

sliceAng0

double sliceAng0

sliceAng1

double sliceAng1

sliceAng2

double sliceAng2

space

java.lang.String space

DOCUMENT ME!

srcBvalGradTable

javax.swing.JTable srcBvalGradTable

srcPanel

javax.swing.JPanel srcPanel

srcTableModel

javax.swing.table.DefaultTableModel srcTableModel

table model for the srcimages.

t2FileLabel

javax.swing.JLabel t2FileLabel

DOCUMENT ME!

t2frame

ViewJFrameImage t2frame

t2OpenPanel

javax.swing.JPanel t2OpenPanel

textBvalGradFile

javax.swing.JTextField textBvalGradFile

DOCUMENT ME!

textDWIDataimage

javax.swing.JTextField textDWIDataimage

textT2image

javax.swing.JTextField textT2image

DOCUMENT ME!

ui

ViewUserInterface ui

useT2CheckBox

javax.swing.JCheckBox useT2CheckBox

DOCUMENT ME!

Class gov.nih.mipav.view.renderer.WildMagic.DTI_FrameWork.JPanelDTIParametersPanel extends JInterfaceBase implements Serializable

serialVersionUID:

2778749302064237729L

Serialized Fields

displayMode

int displayMode

glyphsList

javax.swing.JComboBox glyphsList

list to hold the glyphs type name

m_fFAMax

float m_fFAMax

m_fFAMin

float m_fFAMin

m_fFraction

float m_fFraction

m_fMaxAngle

float m_fMaxAngle

m_iCurrentGroup

int m_iCurrentGroup

Number of currently loaded fiber bundle groups.

m_iCurrentTrackCount

int m_iCurrentTrackCount

m_iDimX

int m_iDimX

m_iDimY

int m_iDimY

m_iDimZ

int m_iDimZ

m_iMaxTractLength

int m_iMaxTractLength

m_iMinTractLength

int m_iMinTractLength

m_kCExclude

WildMagic.LibFoundation.Mathematics.ColorRGB m_kCExclude

m_kCIgnore

WildMagic.LibFoundation.Mathematics.ColorRGB m_kCIgnore

m_kCInclude

WildMagic.LibFoundation.Mathematics.ColorRGB m_kCInclude

m_kColorButton

javax.swing.JButton m_kColorButton

Color button for changing the color of the fiber bundles.

m_kColorChooser

ViewJColorChooser m_kColorChooser

Color chooser for when the user wants to change the color of the fiber bundle tracts.

m_kCurrentStartList

java.util.Vector<WildMagic.LibFoundation.Mathematics.Vector3f> m_kCurrentStartList

m_kDisplaySlider

javax.swing.JSlider m_kDisplaySlider

User-control over the number of glyphs displayed in GPUVolumeRender

m_kDTIImage

ModelImage m_kDTIImage

m_kExclude

javax.swing.JRadioButton m_kExclude

m_kFAMaxThreshold

javax.swing.JTextField m_kFAMaxThreshold

m_kFAMinThreshold

javax.swing.JTextField m_kFAMinThreshold

m_kGroupList

java.util.Vector<java.lang.Integer> m_kGroupList

Keeps track of the groups of polylines loaded.

m_kIgnore

javax.swing.JRadioButton m_kIgnore

m_kImage

ModelImage m_kImage

m_kInclude

javax.swing.JRadioButton m_kInclude

m_kMaxAngle

javax.swing.JTextField m_kMaxAngle

m_kMaxLength

javax.swing.JTextField m_kMaxLength

m_kMinLength

javax.swing.JTextField m_kMinLength

m_kSliderLabel

javax.swing.JLabel m_kSliderLabel

m_kTractList

javax.swing.JList m_kTractList

The list box in the dialog for fiber bundle tracts.

m_kUseEllipsoids

javax.swing.JCheckBox m_kUseEllipsoids

Checkbox for switching between polylines and ellipsoids.

m_kUseVOICheck

javax.swing.JCheckBox m_kUseVOICheck

When selected, only tracts that intersect the VOI are displayed.

m_kUseVolumeColor

javax.swing.JCheckBox m_kUseVolumeColor

Checkbox for turning on/off volume color for the polylines.

m_kVOIList

javax.swing.JList m_kVOIList

The list box in the dialog for 3D VOIs.

m_kVOIParamsList

java.util.Vector<JPanelDTIParametersPanel.VOIParams> m_kVOIParamsList

m_kVolumeDisplay

VolumeTriPlanarRender m_kVolumeDisplay

m_kVoxelStepsize

javax.swing.JTextField m_kVoxelStepsize

parentFrame

VolumeTriPlanarInterfaceDTI parentFrame

Class gov.nih.mipav.view.renderer.WildMagic.DTI_FrameWork.JPanelDTIPreprocessing extends javax.swing.JPanel implements Serializable

serialVersionUID:

-4309868934393418962L

Serialized Fields

b0MatrixFileName

java.lang.String b0MatrixFileName

File name for the B0 to T2 transformation matrix (needed to populate the next panel in the DTIPipeline)

b0toStructMatrix

TransMatrix b0toStructMatrix

The transformation matrix describing the transformation from registering B0 to T2 image. If that step in the process is skipped, this defaults to the identity matrix:

blanklabel

javax.swing.JLabel blanklabel

buttonPanel

javax.swing.JPanel buttonPanel

coarseRateX

float coarseRateX

coarseRateY

float coarseRateY

coarseRateZ

float coarseRateZ

comboBoxCostFunct

javax.swing.JComboBox comboBoxCostFunct

DOCUMENT ME!

comboBoxDOF

javax.swing.JComboBox comboBoxDOF

DOCUMENT ME!

comboBoxInterp

javax.swing.JComboBox comboBoxInterp

DOCUMENT ME!

correctGradTransCheckbox

javax.swing.JCheckBox correctGradTransCheckbox

cost

int cost

DOCUMENT ME!

costT2

int costT2

DOCUMENT ME!

DOF

int DOF

DOCUMENT ME!

DOFT2

int DOFT2

DOCUMENT ME!

doGraph

boolean doGraph

doMultiThread

boolean doMultiThread

doSubsample

boolean doSubsample

fastMode

boolean fastMode

fineRateX

float fineRateX

fineRateY

float fineRateY

fineRateZ

float fineRateZ

imageB0

ModelImage imageB0

The B0 image from the original 4D DWI image series, extracted from the DWI volume:

imageT2

ModelImage imageT2

The T2 image that the B0 image is registered to. This may be the original T2 if it matched the extents/resultions of the other image Or it is the resampled T2 image

imageUpdatedDWI

ModelImage imageUpdatedDWI

After the B0 image is registered to the T2 image the B0 sub-volume is replaced in the original DWI image, creating a new 4D DWI image:

interp

int interp

DOCUMENT ME!

interpT2

int interpT2

DOCUMENT ME!

labelCost

javax.swing.JLabel labelCost

labelDOF

javax.swing.JLabel labelDOF

labelInternal

javax.swing.JLabel labelInternal

labelInterp

javax.swing.JLabel labelInterp

mainPanel

javax.swing.JPanel mainPanel

matrixComboBox

javax.swing.JComboBox matrixComboBox

DOCUMENT ME!

matrixDirText

javax.swing.JTextField matrixDirText

DOCUMENT ME!

maxIterations

int maxIterations

maxOfMinResol

boolean maxOfMinResol

numMinima

int numMinima

OKButton

javax.swing.JButton OKButton

openDirButton

javax.swing.JButton openDirButton

outputCommand

java.lang.String outputCommand

action command when the user presses the browse button to select the output directory:

outputDir

javax.swing.JTextField outputDir

output directory enables user to choose where to save files to.

performEPICheckbox

javax.swing.JCheckBox performEPICheckbox

pipeline

DTIPipeline pipeline

preProsLabel

javax.swing.JLabel preProsLabel

preProsText

javax.swing.JTextField preProsText

progressBar

ViewJProgressBar progressBar

Progress bar that will listen to a dialog's algorithm (and reflect current progress)

refImageNumText

javax.swing.JTextField refImageNumText

user-input for the B0 sub-volume number in the 4D DWI image

reg3

AlgorithmRegOAR3D reg3

DOCUMENT ME!

reg35

AlgorithmRegOAR35D reg35

DOCUMENT ME!

registerTo

int registerTo

result35RegImage

ModelImage result35RegImage

rotateBeginX

float rotateBeginX

rotateBeginY

float rotateBeginY

rotateBeginZ

float rotateBeginZ

rotateEndX

float rotateEndX

rotateEndY

float rotateEndY

rotateEndZ

float rotateEndZ

serif12

java.awt.Font serif12

serif12B

java.awt.Font serif12B

skipPreCheckbox

javax.swing.JCheckBox skipPreCheckbox

structOptPanel

javax.swing.JPanel structOptPanel

transformB0Checkbox

javax.swing.JCheckBox transformB0Checkbox

transformB0label

javax.swing.JLabel transformB0label

transformB0MatCheckbox

javax.swing.JCheckBox transformB0MatCheckbox

transformDWICheckbox

javax.swing.JCheckBox transformDWICheckbox

DOCUMENT ME!

transformMatDWICheckbox

javax.swing.JCheckBox transformMatDWICheckbox

Class gov.nih.mipav.view.renderer.WildMagic.DTI_FrameWork.JPanelDTIVisualization extends javax.swing.JPanel implements Serializable

serialVersionUID:

8011148684175711251L

Serialized Fields

loadButton

javax.swing.JButton loadButton

Button enabled when all required images are loaded. Pressing 'Load' launches the Volume DTI Renderer.

m_kAnisotropyImage

ModelImage m_kAnisotropyImage

Anisotropy image *

m_kDTIColorImage

ModelImage m_kDTIColorImage

result image *

m_kDTIImage

ModelImage m_kDTIImage

Diffusion Tensor image.

m_kEigenValueImage

ModelImage m_kEigenValueImage

EigenValue image *

m_kEigenVectorImage

ModelImage m_kEigenVectorImage

Eigenvector image *

m_kT2Image

ModelImage m_kT2Image

Anisotropy image *

m_kTractFile

java.io.File m_kTractFile

Tract input file.

m_kTractPath

javax.swing.JTextField m_kTractPath

Fiber bundle tract file input path name text box.

mainPanel

javax.swing.JPanel mainPanel

main panel *

parentFrame

javax.swing.JDialog parentFrame

Parent dialog, when this panel is created as a stand-alone dialog: *

textDTIColorImage

javax.swing.JTextField textDTIColorImage

Text boxes for the tensor, color image, eigen vector, eigen value, and functional anisotropy files:

textDTIimage

javax.swing.JTextField textDTIimage

Text boxes for the tensor, color image, eigen vector, eigen value, and functional anisotropy files:

textEValueImage

javax.swing.JTextField textEValueImage

Text boxes for the tensor, color image, eigen vector, eigen value, and functional anisotropy files:

textEVimage

javax.swing.JTextField textEVimage

Text boxes for the tensor, color image, eigen vector, eigen value, and functional anisotropy files:

textFAimage

javax.swing.JTextField textFAimage

Text boxes for the tensor, color image, eigen vector, eigen value, and functional anisotropy files:

textT2image

javax.swing.JTextField textT2image

Text boxes for the tensor, color image, eigen vector, eigen value, and functional anisotropy files:

Class gov.nih.mipav.view.renderer.WildMagic.DTI_FrameWork.JPanelEPIDistortionCorrection extends javax.swing.JPanel implements Serializable

serialVersionUID:

5817025147038892937L

Serialized Fields

B0MatrixFile

javax.swing.JTextField B0MatrixFile

B0toStructTransPanel

javax.swing.JPanel B0toStructTransPanel

computeDefFieldCommand

java.lang.String computeDefFieldCommand

computeDeformationFieldButton

javax.swing.JButton computeDeformationFieldButton

button for computing the deformation field:

computeEpiCommand

java.lang.String computeEpiCommand

computeEpiCorrectionButton

javax.swing.JButton computeEpiCorrectionButton

button for applying the deformation field to the input 4D image

DefLoadPanel

javax.swing.JPanel DefLoadPanel

deformationB0T2

ModelImage deformationB0T2

deformation field from registering the B0 volume to the resampled T2 volume with VABRA

deformationB0T2Text

javax.swing.JTextField deformationB0T2Text

deformedDWI

ModelImage deformedDWI

DWI image series after applying the list of deformation fields

displayDeformationField

javax.swing.JCheckBox displayDeformationField

output image display options:

displayEPIResult

javax.swing.JCheckBox displayEPIResult

displayRegisteredB0

javax.swing.JCheckBox displayRegisteredB0

DWITransPanel

javax.swing.JPanel DWITransPanel

loadAllMatrixComand

java.lang.String loadAllMatrixComand

loadB0MatrixComand

java.lang.String loadB0MatrixComand

loadDeformationFieldCommand

java.lang.String loadDeformationFieldCommand

loadDWICommand

java.lang.String loadDWICommand

loadT2Command

java.lang.String loadT2Command

button commands

mainPanel

javax.swing.JPanel mainPanel

main panel

matB0T2

TransMatrix matB0T2

Transformation matrix from registering B0 to T2.

matRegistered

TransMatrix[] matRegistered

Array of transformation matrices after registering the DWI image series to the B0 reference volume.

matricesFile

javax.swing.JTextField matricesFile

outputCommand

java.lang.String outputCommand

outputDir

javax.swing.JTextField outputDir

OutputPanel

javax.swing.JPanel OutputPanel

pipeline

DTIPipeline pipeline

reference to the DTI Pipeline

refImageNumText

javax.swing.JTextField refImageNumText

Text fields for entering the input images:

registeredB0

ModelImage registeredB0

B0 volume extracted from the DWI series.

registeredDWI

ModelImage registeredDWI

DWI image series that has been registered within series to the B0 volume.

RegisteredDWIPanel

javax.swing.JPanel RegisteredDWIPanel

registeredDWIText

javax.swing.JTextField registeredDWIText

resampledT2

ModelImage resampledT2

Structural T2 image, resampled to match the DWI image series.

resampledT2Text

javax.swing.JTextField resampledT2Text

T2loadPanel

javax.swing.JPanel T2loadPanel

Class gov.nih.mipav.view.renderer.WildMagic.DTI_FrameWork.VolumeTriPlanarInterfaceDTI extends VolumeTriPlanarInterface implements Serializable

serialVersionUID:

1898957906984534260L

Serialized Fields

DTIParametersPanel

javax.swing.JPanel DTIParametersPanel

DTIparamsPanel

JPanelDTIParametersPanel DTIparamsPanel

m_kAnisotropyImage

ModelImage m_kAnisotropyImage

Anisotropy image

m_kDTIColorImage

ModelImage m_kDTIColorImage

Diffusion Tensor image.

m_kDTIImage

ModelImage m_kDTIImage

Diffusion Tensor image.

m_kEigenValueImage

ModelImage m_kEigenValueImage

EigenValue image

m_kEigenVectorImage

ModelImage m_kEigenVectorImage

Eigenvector image

m_kParentDir

java.lang.String m_kParentDir

Class gov.nih.mipav.view.renderer.WildMagic.DTI_FrameWork.VolumeTriPlanerRenderDTI extends VolumeTriPlanarRender implements Serializable

serialVersionUID:

237088312722258458L

Serialized Fields

m_bSlicePickEnabled

boolean m_bSlicePickEnabled

m_bSlicePickPending

boolean m_bSlicePickPending

updatingFiberTrack

boolean updatingFiberTrack

Package gov.nih.mipav.view.renderer.WildMagic.flythroughview

Class gov.nih.mipav.view.renderer.WildMagic.flythroughview.FlyThroughRender extends GPURenderBase implements Serializable

serialVersionUID:

-6130870790192175575L

Serialized Fields

m_aiBranchIndexUnvisitedMax

int[] m_aiBranchIndexUnvisitedMax

This is the range of path samples for each branch that are unvisited.

m_aiBranchIndexUnvisitedMin

int[] m_aiBranchIndexUnvisitedMin

This is the range of path samples for each branch that are unvisited.

m_akColorBackup

WildMagic.LibFoundation.Mathematics.ColorRGB[] m_akColorBackup

Original surface color for undoing the pseudo-color curvature map.

m_iLastSelectedBranchIndex

int m_iLastSelectedBranchIndex

Keep track of the last branch that was selected (at a branch point).

m_kAnnotateList

FlyPathAnnotateList_WM m_kAnnotateList

Annotations along the fly path.

m_kCenter

WildMagic.LibFoundation.Mathematics.Vector3f m_kCenter

Center of Mesh

m_kControlFrame

JPanelVirtualEndoscopySetup_WM m_kControlFrame

This is the control frame which may need to be updated as the view changes.

m_kCortical

MjCorticalMesh_WM m_kCortical

Calculating the mesh curvatures.

m_kFlyPathBehavior

FlyPathBehavior_WM m_kFlyPathBehavior

Fly path behavior.

m_kFlyPathGraphCurve

FlyPathGraphCurve m_kFlyPathGraphCurve

Fly path curve.

m_kLight

WildMagic.LibGraphics.Rendering.Light m_kLight

Lighting in the scene.

m_kLightShader

SurfaceLightingEffect m_kLightShader

Lighting effect.

m_kMaskImage

ModelImage m_kMaskImage

ModelImage used to generate the fly path.

m_kMeanCurvaturesLUT

ModelLUT m_kMeanCurvaturesLUT

kMean curvature LUT. Pseudo color look up table.

m_kNormalColorPathUnvisited

WildMagic.LibFoundation.Mathematics.ColorRGB m_kNormalColorPathUnvisited

Color for the parts of the path that have not yet been visited (Dark Green)

m_kNormalColorPathVisited

WildMagic.LibFoundation.Mathematics.ColorRGB m_kNormalColorPathVisited

Color for the parts of the path that have been visited (Light Green)

m_kOptions

FlyThroughRender.SetupOptions m_kOptions

Setup options.

m_kParent

VolumeTriPlanarInterface m_kParent

Parent user-interface and display frame.

m_kRotation

WildMagic.LibGraphics.SceneGraph.Node m_kRotation

Mouse rotation.

m_kSelectColorPathUnvisited

WildMagic.LibFoundation.Mathematics.ColorRGB m_kSelectColorPathUnvisited

Color for selecting previously-unvisited parts of the path at a branch (Dark Red)

m_kSelectColorPathVisited

WildMagic.LibFoundation.Mathematics.ColorRGB m_kSelectColorPathVisited

Color for selecting previously-visited parts of the path at a branch (Red)

m_kSkeleton

Skeleton3D m_kSkeleton

3D Skeleton of the ModelImage.

m_kSurface

WildMagic.LibGraphics.SceneGraph.TriMesh m_kSurface

The surface to fly through.

m_kVolumeLayout

ModelImage3DLayout m_kVolumeLayout

3D Layout of the ModelImage.

pressed

boolean pressed

If any of the mouse move button pressed.

Class gov.nih.mipav.view.renderer.WildMagic.flythroughview.JPanelVirtualEndoscopySetup_WM extends JPanelRendererBase implements Serializable

serialVersionUID:

5676430934584329807L

Serialized Fields

contentBox

javax.swing.Box contentBox

Box layout for control panel.

continueUpdate

boolean continueUpdate

Flag indicates to continue update the surface render and plane render or not.

directory

java.lang.String directory

File name and directory.

endoscopyImage

ModelImage endoscopyImage

Loaded endoscopy image file.

fileName

java.lang.String fileName

File name and directory.

flythruButtonLoadImage

javax.swing.JButton flythruButtonLoadImage

Load image button.

flythruLabelFileName

javax.swing.JLabel flythruLabelFileName

Image file name label.

kPanelButton

javax.swing.JPanel kPanelButton

Button panel.

m_bShowMeanCurvatures

boolean m_bShowMeanCurvatures

Flag indicates to show pseudo color or not.

m_kCheckBoxShowCurvatures

javax.swing.JCheckBox m_kCheckBoxShowCurvatures

Show curvature colors check box.

m_kComboSegmentSurfaceBranchSamplesReductionFactor

javax.swing.JComboBox m_kComboSegmentSurfaceBranchSamplesReductionFactor

Surface sample reduction factor.

m_kContinueUpdate

javax.swing.JCheckBox m_kContinueUpdate

Continuous update check box.

m_kDecimalFormat

java.text.DecimalFormat m_kDecimalFormat

Used to create text representations of numbers.

m_kLabelBranch

javax.swing.JLabel m_kLabelBranch

Branch label.

m_kLabelDirection

javax.swing.JLabel m_kLabelDirection

View direction label.

m_kLabelDistance

javax.swing.JLabel m_kLabelDistance

Path distance label.

m_kLabelFileName

javax.swing.JLabel m_kLabelFileName

Automatically inserted by JBuilder Designer.

m_kLabelOrientation

javax.swing.JLabel m_kLabelOrientation

Orientation label.

m_kLabelPosition

javax.swing.JLabel m_kLabelPosition

Current path position label.

m_kLabelStepGaze

javax.swing.JLabel m_kLabelStepGaze

Step gaze label.

m_kOptions

FlyThroughRender.SetupOptions m_kOptions

Image option panel.

m_kTextBranch

javax.swing.JTextField m_kTextBranch

Current branch text box.

m_kTextDirection

javax.swing.JTextField m_kTextDirection

View direction text box.

m_kTextDistance

javax.swing.JTextField m_kTextDistance

Distance along path text box.

m_kTextMaxNumBranches

javax.swing.JTextField m_kTextMaxNumBranches

maximum number of branches created for the endoscopy view.

m_kTextMinBranchLength

javax.swing.JTextField m_kTextMinBranchLength

minimum branch length.

m_kTextOrientation

javax.swing.JTextField m_kTextOrientation

Orientation text box.

m_kTextPercentBSplineNumControlPoints

javax.swing.JTextField m_kTextPercentBSplineNumControlPoints

BSpline control points fraction of branch samples.

m_kTextPosition

javax.swing.JTextField m_kTextPosition

Position text box.

m_kTextStepGaze

javax.swing.JTextField m_kTextStepGaze

Step gaze text box.

m_kView

FlyThroughRender m_kView

Renderer for displaying the scene-graph.

scroller

javax.swing.JScrollPane scroller

Scroll pane.

scrollPanel

JPanelVirtualEndoscopySetup_WM.DrawingPanel scrollPanel

Scroll panel that holding all the control components.

updateButton

javax.swing.JButton updateButton

continue update button.

Package gov.nih.mipav.view.renderer.WildMagic.Interface

Class gov.nih.mipav.view.renderer.WildMagic.Interface.FileInfoSurfaceGiftiXML_WM extends FileInfoSurfaceRefXML implements Serializable

serialVersionUID:

819907577181061024L

Serialized Fields

connectivity

java.util.Vector<java.lang.Integer> connectivity

Vector to hold the connection index.

coordinates

java.util.Vector<WildMagic.LibFoundation.Mathematics.Vector3f> coordinates

Vector to hold the 3D coordinate positions

m_kMaterial

WildMagic.LibGraphics.Rendering.MaterialState m_kMaterial

Material properties of the surface:.

Class gov.nih.mipav.view.renderer.WildMagic.Interface.FileInfoSurfaceRefXML_WM extends FileInfoSurfaceRefXML implements Serializable

serialVersionUID:

819907577181061024L

Serialized Fields

m_kMaterial

WildMagic.LibGraphics.Rendering.MaterialState m_kMaterial

Material properties of the surface:.

Class gov.nih.mipav.view.renderer.WildMagic.Interface.JDialogDTIInput extends JInterfaceBase implements Serializable

serialVersionUID:

9207590841799033846L

Serialized Fields

m_aakDWIList

java.lang.String[][] m_aakDWIList

List of file names for the Diffusion Weighted Images, from the .path file.

m_aiMatrixEntries

int[] m_aiMatrixEntries

keeps track of unique entries in the BMatrix

m_bUseXRes

boolean m_bUseXRes

Set to true if the slice resolution is read from the .list file: (xRes)

m_bUseYRes

boolean m_bUseYRes

Set to true if the slice resolution is read from the .list file: (yRes)

m_bUseZRes

boolean m_bUseZRes

Set to true if the slice resolution is read from the .list file: (zRes)

m_fMeanNoise

float m_fMeanNoise

Mean noise vale read from the .list file

m_fResX

float m_fResX

Slice thickness read from .list file

m_fResY

float m_fResY

Slice thickness read from .list file

m_fResZ

float m_fResZ

Slice thickness read from .list file

m_iBOrig

int m_iBOrig

Number of different BMatrix rows:

m_iDimX

int m_iDimX

X-dimensions for Diffusion Weighted Images.

m_iDimY

int m_iDimY

Y-dimensions for Diffusion Weighted Images.

m_iSlices

int m_iSlices

Number of slices in the Diffusion Weighted Images series.

m_iType

int m_iType

Dialog type.

m_iWeights

int m_iWeights

Number of weights in the Diffusion Weighted Images series.

m_kAnisotropyImage

ModelImage m_kAnisotropyImage

Anisotropy image *

m_kAnisotropyPath

javax.swing.JTextField m_kAnisotropyPath

Anisotropy file input path name text box.

m_kBMatrix

WildMagic.LibFoundation.Mathematics.GMatrixd m_kBMatrix

General matrix storing BMatrix values.

m_kDTIImage

ModelImage m_kDTIImage

Diffusion Tensor image.

m_kDTIPath

javax.swing.JTextField m_kDTIPath

Diffusion Tensor file input path name text box.

m_kDWIMaskImage

ModelImage m_kDWIMaskImage

Mask image for calculating the DTI image.

m_kDWIMaskPath

javax.swing.JTextField m_kDWIMaskPath

Diffusion Weighted Images Mask file input path name text box.

m_kDWIPath

javax.swing.JTextField m_kDWIPath

Diffusion Weighted Images .list file input path name text box.

m_kEigenValueImage

ModelImage m_kEigenValueImage

EigenValue image *

m_kEigenVectorImage

ModelImage m_kEigenVectorImage

Eigenvector image *

m_kEigenVectorPath

javax.swing.JTextField m_kEigenVectorPath

EigenVector file input path name text box.

m_kLUTa

ModelLUT m_kLUTa

LUT of input image *

m_kOpenB0

javax.swing.JCheckBox m_kOpenB0

m_kParentDir

java.lang.String m_kParentDir

parent directory for the DTI output images.

m_kRawFormat

java.lang.String m_kRawFormat

raw image format read from the .list file:

m_kReconstructTracts

javax.swing.JCheckBox m_kReconstructTracts

Checkbox for tract reconstruction.

Class gov.nih.mipav.view.renderer.WildMagic.Interface.JDialogVolumeAnnotation extends JDialogAnnotation implements Serializable

serialVersionUID:

6726637420209273103L

Serialized Fields

parentPanel

JPanelAnnotationAnimation parentPanel

Class gov.nih.mipav.view.renderer.WildMagic.Interface.JFrameSurfaceMaterialProperties_WM extends javax.swing.JFrame implements Serializable

serialVersionUID:

3077827124095959620L

Serialized Fields

AFTER

int AFTER

Before/After index values for the two displayed spheres, canvases, and display panels:.

BEFORE

int BEFORE

Before/After index values for the two displayed spheres, canvases, and display panels:.

m_akMaterialPreset

WildMagic.LibGraphics.Rendering.MaterialState[] m_akMaterialPreset

Pre-defined materials

m_akSurfaceMaterial

SurfaceMaterialDisplay[] m_akSurfaceMaterial

m_bColorApplied

boolean m_bColorApplied

keeps track of whether or not color has been applied to surface (for backup on cancel)

m_fShininess

float m_fShininess

specular coefficient

m_iNumPreset

int m_iNumPreset

Preset Material's examples:.

m_iSurfaceIndex

int m_iSurfaceIndex

the index of the surface that is being changed in the JPanelSurface

m_iWhichButton

int m_iWhichButton

Which button is pressed to activate the JColorChooser:.

m_kAmbient

WildMagic.LibFoundation.Mathematics.ColorRGB m_kAmbient

Current color values:.

m_kAmbientColorButton

javax.swing.JButton m_kAmbientColorButton

Material Properties color buttons:.

m_kAnimator

com.jogamp.opengl.util.Animator m_kAnimator

m_kColorChooser

javax.swing.JColorChooser m_kColorChooser

Color Chooser dialog:.

m_kDiffuse

WildMagic.LibFoundation.Mathematics.ColorRGB m_kDiffuse

diffuse color

m_kDiffuseColorButton

javax.swing.JButton m_kDiffuseColorButton

diffuse color button

m_kEmissive

WildMagic.LibFoundation.Mathematics.ColorRGB m_kEmissive

emissive color

m_kEmissiveColorButton

javax.swing.JButton m_kEmissiveColorButton

emissive color button

m_kImagePane

javax.swing.JSplitPane m_kImagePane

Split pane for displaying the canvases side-by-side:.

m_kImagePanel

javax.swing.JPanel[] m_kImagePanel

Canvas display panels:.

m_kMainPane

javax.swing.JSplitPane m_kMainPane

Split pane for displaying the rendered spheres above the interface:.

m_kMaterialNew

WildMagic.LibGraphics.Rendering.MaterialState m_kMaterialNew

Materials for new vales and backup:.

m_kMaterialPanel

javax.swing.JPanel m_kMaterialPanel

Window display panels: Material properties buttons/slider panel:.

m_kMaterialSave

WildMagic.LibGraphics.Rendering.MaterialState m_kMaterialSave

Saved Material for backup

m_kParent

JPanelSurface_WM m_kParent

Parent class:.

m_kShininessSlider

javax.swing.JSlider m_kShininessSlider

Shininess slider.

m_kSpecular

WildMagic.LibFoundation.Mathematics.ColorRGB m_kSpecular

Specular color component

m_kSpecularColorButton

javax.swing.JButton m_kSpecularColorButton

Specular color button

Class gov.nih.mipav.view.renderer.WildMagic.Interface.JInterfaceBase extends javax.swing.JDialog implements Serializable

serialVersionUID:

1185755612726454935L

Serialized Fields

cancelButton

javax.swing.JButton cancelButton

Cancel button is used on most dialogs. Defining it in the base allows default actions if the user presses return and the button is in focus.

colorChooser

ViewJColorChooser colorChooser

Color chooser dialog.

mainPanel

javax.swing.JPanel mainPanel

The main control.

OKButton

javax.swing.JButton OKButton

OK button is used on most dialogs. Defining it in the base allows default actions if the user presses return and the button is in focus.

Class gov.nih.mipav.view.renderer.WildMagic.Interface.JInterfaceBase.DrawingPanel extends javax.swing.JPanel implements Serializable

serialVersionUID:

-6456589720445279985L

Class gov.nih.mipav.view.renderer.WildMagic.Interface.JPanel3DMouse_WM extends JInterfaceBase implements Serializable

serialVersionUID:

2858702077770704429L

Serialized Fields

buttonfine

javax.swing.JButton buttonfine

buttonnormal

javax.swing.JButton buttonnormal

chckbxfine

javax.swing.JCheckBox chckbxfine

chckbxForwardsbackwards

javax.swing.JCheckBox chckbxForwardsbackwards

chckbxLeftright

javax.swing.JCheckBox chckbxLeftright

chckbxRotationRX

javax.swing.JCheckBox chckbxRotationRX

chckbxRotationRy

javax.swing.JCheckBox chckbxRotationRy

chckbxRotationRz

javax.swing.JCheckBox chckbxRotationRz

chckbxUpdown

javax.swing.JCheckBox chckbxUpdown

gbc_1

java.awt.GridBagConstraints gbc_1

gbc_2

java.awt.GridBagConstraints gbc_2

gbc_3

java.awt.GridBagConstraints gbc_3

gbc_4

java.awt.GridBagConstraints gbc_4

gbc_5

java.awt.GridBagConstraints gbc_5

inMenu

boolean inMenu

labelX1

javax.swing.JLabel labelX1

Labels beneath sliders.

labelXEnd

javax.swing.JLabel labelXEnd

Labels beneath sliders.

labelXMid

javax.swing.JLabel labelXMid

Labels beneath sliders.

lblRotation

javax.swing.JLabel lblRotation

lblRotations

javax.swing.JLabel lblRotations

lblTranslation

javax.swing.JLabel lblTranslation

lblTranslations

javax.swing.JLabel lblTranslations

leftRighticon

javax.swing.JLabel leftRighticon

leftRighticon_1

javax.swing.JLabel leftRighticon_1

mouseRotationCutoffSlider

javax.swing.JSlider mouseRotationCutoffSlider

Mouse rotation sensitivity cutoff slider

mouseRotationSpeedSlider

javax.swing.JSlider mouseRotationSpeedSlider

Mouse rotation speed slider.

mouseTranslationCutoffSlider

javax.swing.JSlider mouseTranslationCutoffSlider

mouseTranslationSpeedSlider

javax.swing.JSlider mouseTranslationSpeedSlider

Mouse translation speed slider.

rollIcon

javax.swing.JLabel rollIcon

rotationCutoffTextField

javax.swing.JTextField rotationCutoffTextField

Text fields that display the sensitivity number next to the sliders.

scroller

javax.swing.JScrollPane scroller

The scroll pane holding the panel content. Useful when the screen is small.

serif12

java.awt.Font serif12

Fonts, same as MipavUtil.font12 and MipavUtil.font12B.

serif12B

java.awt.Font serif12B

Fonts, same as MipavUtil.font12 and MipavUtil.font12B.

spinIcon

javax.swing.JLabel spinIcon

tilticon

javax.swing.JLabel tilticon

translationCutoffTextField

javax.swing.JTextField translationCutoffTextField

zInvertCheckBox

javax.swing.JCheckBox zInvertCheckBox

Invert movement checkbox

Class gov.nih.mipav.view.renderer.WildMagic.Interface.JPanelAnnotationAnimation extends JInterfaceBase implements Serializable

Serialized Fields

annimationSlider

javax.swing.JSlider annimationSlider

colorTrigger

java.lang.String colorTrigger

defaultButtonColor

java.awt.Color defaultButtonColor

diameterNeurite

java.util.Vector<javax.swing.JTextField> diameterNeurite

displayLabel

javax.swing.JCheckBox displayLabel

displayNeurite

java.util.Vector<javax.swing.JCheckBox> displayNeurite

displaySurface

javax.swing.JCheckBox displaySurface

fontButton

javax.swing.JButton fontButton

neuriteColorButton

java.util.Vector<javax.swing.JButton> neuriteColorButton

neuriteCount

int neuriteCount

neuriteList

java.util.Vector<javax.swing.JList> neuriteList

neuriteTabbedPane

javax.swing.JTabbedPane neuriteTabbedPane

parent

VolumeTriPlanarRender parent

scroller

javax.swing.JScrollPane scroller

Scroll pane.

sphereColorButton

javax.swing.JButton sphereColorButton

sphereDiameter

javax.swing.JTextField sphereDiameter

surfaceList

javax.swing.JList surfaceList

timeLabel

javax.swing.JLabel timeLabel

Class gov.nih.mipav.view.renderer.WildMagic.Interface.JPanelClip_WM extends JInterfaceBase implements Serializable

serialVersionUID:

-3342110506544352170L

Serialized Fields

clipColor

javax.swing.JButton[] clipColor

clipLabel

javax.swing.JLabel[] clipLabel

clipPanel

javax.swing.JPanel[] clipPanel

clipSlider

javax.swing.JSlider[] clipSlider

clipText

javax.swing.JTextField[] clipText

clipValue

int[] clipValue

displayClip

javax.swing.JCheckBox[] displayClip

enableClip

javax.swing.JCheckBox[] enableClip

extract

javax.swing.JButton[] extract

labelEnd

javax.swing.JLabel[] labelEnd

labelMid

javax.swing.JLabel[] labelMid

labelStart

javax.swing.JLabel[] labelStart

scroller

javax.swing.JScrollPane scroller

The scroll pane holding the panel content. Used when the screen is small.

scrollPanel

javax.swing.JPanel scrollPanel

Scroll panel that holding all the control components.

tabbedPane

javax.swing.JTabbedPane tabbedPane

Tabbed Panel that hold the each clipping planes control box.

thicknessSlider

javax.swing.JSlider thicknessSlider

Class gov.nih.mipav.view.renderer.WildMagic.Interface.JPanelCustomBlend extends JInterfaceBase implements Serializable

serialVersionUID:

-6719268114423090548L

Serialized Fields

alphaSlider

javax.swing.JSlider alphaSlider

colorButton

javax.swing.JButton colorButton

m_bUpdate

boolean m_bUpdate

m_kBlendEquationColor

javax.swing.JComboBox m_kBlendEquationColor

The combo box for the Blend Equation mode to display.

m_kDstBlend

javax.swing.JComboBox m_kDstBlend

m_kLogicOp

javax.swing.JComboBox m_kLogicOp

The combo box for the Logic Operation mode to display.

m_kSrcBlend

javax.swing.JComboBox m_kSrcBlend

scroller

javax.swing.JScrollPane scroller

The scroll pane holding the panel content. Useful when the screen is small.

Class gov.nih.mipav.view.renderer.WildMagic.Interface.JPanelDisplay_WM extends JInterfaceBase implements Serializable

serialVersionUID:

926266253314679850L

Serialized Fields

boundingCheck

javax.swing.JCheckBox boundingCheck

Check box for turning box on and off.

cameraNearPlane

javax.swing.JSlider cameraNearPlane

Slider for moving the camera near-plane in/out from the eye position.

cameraXLabel

javax.swing.JLabel cameraXLabel

Camera move parameter labels

cameraXTurnLabel

javax.swing.JLabel cameraXTurnLabel

Camera turn parameter labels

cameraYLabel

javax.swing.JLabel cameraYLabel

Camera move parameter labels

cameraYTurnLabel

javax.swing.JLabel cameraYTurnLabel

Camera turn parameter labels

cameraZLabel

javax.swing.JLabel cameraZLabel

Camera move parameter labels

colorButton

javax.swing.JButton colorButton

Color button for changing color.

colorButtonBackground

javax.swing.JButton colorButtonBackground

Color button for changing z color.

cubePanel

javax.swing.JPanel cubePanel

Panel for the rotation cube.

cubicCheck

javax.swing.JCheckBox cubicCheck

Check box for cubic control.

flag

boolean flag

Flag indicating if the red bounding box is on or off.

objectXRotLabel

javax.swing.JLabel objectXRotLabel

Object rotation parameter labels.

objectYRotLabel

javax.swing.JLabel objectYRotLabel

Object rotation parameter labels.

objectZRotLabel

javax.swing.JLabel objectZRotLabel

Object rotation parameter labels.

planeConstantSlider

javax.swing.JSlider planeConstantSlider

Slider to adjust the front clipping plane constant.

radioButtonGroupProjections

javax.swing.ButtonGroup radioButtonGroupProjections

Button group for projections.

radioButtonOrthographic

javax.swing.JRadioButton radioButtonOrthographic

Radio Button for Orthographic rendering.

radioButtonPerspective

javax.swing.JRadioButton radioButtonPerspective

Radio Button for Perspective rendering.

scroller

javax.swing.JScrollPane scroller

The scroll pane holding the panel content. Useful when the screen is small.

scrollPanel

JInterfaceBase.DrawingPanel scrollPanel

Scroll panel that holding the all the control components.

serif12

java.awt.Font serif12

Fonts, same as MipavUtil.font12 and MipavUtil.font12B.

serif12B

java.awt.Font serif12B

Fonts, same as MipavUtil.font12 and MipavUtil.font12B.

viewAlignedButton

javax.swing.JRadioButton viewAlignedButton

Radio Button for Perspective rendering.

viewButton

javax.swing.JRadioButton viewButton

Radio Button for Orthographic rendering.

viewTextureButtonGroup

javax.swing.ButtonGroup viewTextureButtonGroup

Button group for projections.

xCameraMove

float xCameraMove

Camera move parameter values.

xCameraMoveText

javax.swing.JTextField xCameraMoveText

Camera move parameter text-field.

xCameraTurn

float xCameraTurn

Camera move parameter values

xCameraTurnText

javax.swing.JTextField xCameraTurnText

Camera move parameter text-field

xObjectRotate

float xObjectRotate

Object rotation angle parameter values.

xObjectRotateText

javax.swing.JTextField xObjectRotateText

Object rotation parameter text-field.

yCameraMove

float yCameraMove

Camera move parameter values.

yCameraMoveText

javax.swing.JTextField yCameraMoveText

Camera move parameter text-field.

yCameraTurn

float yCameraTurn

Camera move parameter values

yCameraTurnText

javax.swing.JTextField yCameraTurnText

Camera move parameter text-field

yObjectRotate

float yObjectRotate

Object rotation angle parameter values.

yObjectRotateText

javax.swing.JTextField yObjectRotateText

Object rotation parameter text-field.

zCameraMove

float zCameraMove

Camera move parameter values.

zCameraMoveText

javax.swing.JTextField zCameraMoveText

Camera move parameter text-field.

zObjectRotate

float zObjectRotate

Object rotation angle parameter values.

zObjectRotateText

javax.swing.JTextField zObjectRotateText

Object rotation parameter text-field.

Class gov.nih.mipav.view.renderer.WildMagic.Interface.JPanelGeodesic_WM extends JInterfaceBase implements Serializable

serialVersionUID:

4382184418236793404L

Serialized Fields

drawLabel

javax.swing.JLabel drawLabel

Geodesic line draw control label.

m_fDijkstraCurrent

float m_fDijkstraCurrent

Current Dijkstra path length.

m_fDijkstraPrevious

float m_fDijkstraPrevious

Previous Dijkstra path length.

m_fDijkstraTotal

float m_fDijkstraTotal

Total Dijkstra path length.

m_fEuclidianCurrent

float m_fEuclidianCurrent

Values for the current path length between the last two selected points:

m_fEuclidianPrevious

float m_fEuclidianPrevious

Values for the previous current path length between the last two selected points:

m_fEuclidianTotal

float m_fEuclidianTotal

Values for the total path lengths:.

m_fGeodesicSmoothCurrent

float m_fGeodesicSmoothCurrent

Current Geodesic path length

m_fGeodesicSmoothPrevious

float m_fGeodesicSmoothPrevious

Previous Geodesic path length

m_fGeodesicSmoothTotal

float m_fGeodesicSmoothTotal

Total Geodesic path length

m_kCheckLivewire

javax.swing.JCheckBox m_kCheckLivewire

Toggle between LiveWire Interaction and point & click interaction:.

m_kClearAllCutsButton

javax.swing.JButton m_kClearAllCutsButton

Clearsall cuts.

m_kClearAllGeodesicButton

javax.swing.JButton m_kClearAllGeodesicButton

Clearsall Geodesic components.

m_kClearLastCutButton

javax.swing.JButton m_kClearLastCutButton

Clear the last cut.

m_kClearLastGeodesicButton

javax.swing.JButton m_kClearLastGeodesicButton

Button for deleting the geodesic.

m_kCutGeodesicButton

javax.swing.JButton m_kCutGeodesicButton

Button for cutting the mesh along the geodesic:.

m_kDijkstraDistance

javax.swing.JLabel m_kDijkstraDistance

Label displaying the current Dijkstra path length.

m_kDijkstraDistanceValueLast

javax.swing.JLabel m_kDijkstraDistanceValueLast

Label displaying the previous Dijkstra path length.

m_kDijkstraDistanceValueTotal

javax.swing.JLabel m_kDijkstraDistanceValueTotal

Label displaying the total Dijkstra path length.

m_kDisplayButtonGroup

javax.swing.ButtonGroup m_kDisplayButtonGroup

ButtonGroup for the different path display options.

m_kDisplayDijkstra

javax.swing.JRadioButton m_kDisplayDijkstra

Display Dijkstra's path.

m_kDisplayEuclidian

javax.swing.JRadioButton m_kDisplayEuclidian

Display the Euclidian path.

m_kDisplayGeodesic

javax.swing.JRadioButton m_kDisplayGeodesic

Radio buttons for displaying the smoothed geodesic, dijkstra's path, or the euclidian path:.

m_kDrawGeodesicButton

javax.swing.JToggleButton m_kDrawGeodesicButton

Geodesic drawing interface Toggle button is down while points are added to the curve:.

m_kEuclidianDistance

javax.swing.JLabel m_kEuclidianDistance

Label displaying the current Euclidian path length.

m_kEuclidianDistanceValueLast

javax.swing.JLabel m_kEuclidianDistanceValueLast

Label displaying the previous Euclidian path length.

m_kEuclidianDistanceValueTotal

javax.swing.JLabel m_kEuclidianDistanceValueTotal

Label displaying the total Euclidian path length.

m_kFinishClosedGeodesicButton

javax.swing.JButton m_kFinishClosedGeodesicButton

Close and finish the Geodesic path.

m_kFinishOpenGeodesicButton

javax.swing.JButton m_kFinishOpenGeodesicButton

Finish the Geodesic path without closing.

m_kGeodesicSmoothDistance

javax.swing.JLabel m_kGeodesicSmoothDistance

Label displaying the current Geodesic path length.

m_kGeodesicSmoothDistanceValueLast

javax.swing.JLabel m_kGeodesicSmoothDistanceValueLast

Label displaying the previous Geodesic path length.

m_kGeodesicSmoothDistanceValueTotal

javax.swing.JLabel m_kGeodesicSmoothDistanceValueTotal

Label displaying the total Geodesic path length.

m_kGeodesicToggleWireframe

javax.swing.JToggleButton m_kGeodesicToggleWireframe

Toggle wireframe

m_kSurfacePanel

JPanelSurface_WM m_kSurfacePanel

Surface panel.

scroller

javax.swing.JScrollPane scroller

The scroll pane holding the panel content. Useful when the screen is small.

scrollPanel

JInterfaceBase.DrawingPanel scrollPanel

Scroll panel that holding the all the control components.

surfaceGeodesic

Geodesic_WM surfaceGeodesic

Geodesic reference.

surPickLabel

javax.swing.JLabel surPickLabel

Label to indicate that enable Surface pickable before drawing geodesic line.

Class gov.nih.mipav.view.renderer.WildMagic.Interface.JPanelLights_WM extends JInterfaceBase implements Serializable

serialVersionUID:

8549491288085975699L

Serialized Fields

ambientRadio

javax.swing.JRadioButton ambientRadio

Radio button for different light type.

colorButton

javax.swing.JButton colorButton

Color button, checkBox On/Off.

colorLabel

javax.swing.JLabel colorLabel

Color label.

controlPanel

javax.swing.JPanel controlPanel

Control panel.

controlPanelBox

javax.swing.Box controlPanelBox

Control panel box that hold the control panel.

directionalRadio

javax.swing.JRadioButton directionalRadio

Directional light radio botton.

drawPanel

javax.swing.JPanel drawPanel

Scroll panel reference.

intensitySlider

javax.swing.JSlider intensitySlider

Intensity slider.

iSelect

int iSelect

index of currently selected one.

labelIntensity

javax.swing.JLabel labelIntensity

Light intensity label.

labelIntensityBegin

javax.swing.JLabel labelIntensityBegin

Light intensity label begin.

labelIntensityEnd

javax.swing.JLabel labelIntensityEnd

Light intensity label end.

labelIntensityMid

javax.swing.JLabel labelIntensityMid

Light intensity label middle.

list

javax.swing.JList list

List of lights.

m_aiLightScale

int[] m_aiLightScale

Light scale factor array.

m_akLights

WildMagic.LibGraphics.Rendering.Light[] m_akLights

The structure for the light bulbs.

m_kLabelPosX

javax.swing.JLabel m_kLabelPosX

Label for slider X position.

m_kLabelPosY

javax.swing.JLabel m_kLabelPosY

Label for slider Y position.

m_kLabelPosZ

javax.swing.JLabel m_kLabelPosZ

Label for slider Z position.

m_kLabelTrgX

javax.swing.JLabel m_kLabelTrgX

Label for X light target position.

m_kLabelTrgY

javax.swing.JLabel m_kLabelTrgY

Label for Y light target position.

m_kLabelTrgZ

javax.swing.JLabel m_kLabelTrgZ

Label for Z light target position.

m_kSliderPosX

javax.swing.JSlider m_kSliderPosX

Light x position slider.

m_kSliderPosY

javax.swing.JSlider m_kSliderPosY

Light y position slider.

m_kSliderPosZ

javax.swing.JSlider m_kSliderPosZ

Light z position slider.

m_kSliderTrgX

javax.swing.JSlider m_kSliderTrgX

Light x target position slider.

m_kSliderTrgY

javax.swing.JSlider m_kSliderTrgY

Light y target position slider.

m_kSliderTrgZ

javax.swing.JSlider m_kSliderTrgZ

Light z target position slider.

m_kTextPosX

javax.swing.JTextField m_kTextPosX

X position text field.

m_kTextPosY

javax.swing.JTextField m_kTextPosY

Y position text field.

m_kTextPosZ

javax.swing.JTextField m_kTextPosZ

Z position text field.

m_kTextTrgX

javax.swing.JTextField m_kTextTrgX

X target position text field.

m_kTextTrgY

javax.swing.JTextField m_kTextTrgY

Y target position text field.

m_kTextTrgZ

javax.swing.JTextField m_kTextTrgZ

Z target position text field.

maxBox

float maxBox

x, y, z box size.

onOffCheckBox

javax.swing.JCheckBox onOffCheckBox

Light turn on/off check box.

onOffLabel

javax.swing.JLabel onOffLabel

Light turn on/off label.

pointRadio

javax.swing.JRadioButton pointRadio

Point light radio button.

scroller

javax.swing.JScrollPane scroller

Scroll pane.

scrollPanel

javax.swing.JPanel scrollPanel

Scroll the control panel when the frame changes size.

spotRadio

javax.swing.JRadioButton spotRadio

Spot light radio button.

textIntensity

javax.swing.JTextField textIntensity

Light intensity textfield.

xBox

float xBox

x, y, z box size.

yBox

float yBox

x, y, z box size.

zBox

float zBox

x, y, z box size.

Class gov.nih.mipav.view.renderer.WildMagic.Interface.JPanelMultiDimensionalTransfer extends JInterfaceBase implements Serializable

serialVersionUID:

926266253314679850L

Serialized Fields

alphaSlider

javax.swing.JSlider alphaSlider

Alpha blend slider.

boundaryEmphasisSlider

javax.swing.JSlider boundaryEmphasisSlider

Boundary emphasis slider slider.

colorButton

javax.swing.JButton colorButton

Color button for changing color.

gmAxis

ViewJComponentGraphAxes gmAxis

helpPanel

javax.swing.JPanel helpPanel

histogramPanel

javax.swing.JPanel histogramPanel

Panel containing the 2D Histogram display canvas:

imageAxis

ViewJComponentGraphAxes imageAxis

Graph axes helper classes for displaying the axes of the 2D Histogram:

loadButton

javax.swing.JButton loadButton

Read new multi-histogram widgets from file.

m_kGroup

javax.swing.ButtonGroup m_kGroup

Button group for the widget type:

m_kMultiHistogram

VolumeImageMultiDimensionalTransfer m_kMultiHistogram

Displays the 2D Histogram and widgets:

saveButton

javax.swing.JButton saveButton

Save the current multi-histogram widgets to file.

scroller

javax.swing.JScrollPane scroller

The scroll pane holding the panel content. Useful when the screen is small.

scrollPanel

javax.swing.JPanel scrollPanel

Scroll panel that holding the all the control components.

Class gov.nih.mipav.view.renderer.WildMagic.Interface.JPanelNavigation extends JInterfaceBase implements Serializable

serialVersionUID:

3015333092796701354L

Serialized Fields

addAnnotateButton

javax.swing.JToggleButton addAnnotateButton

button for adding annotation points for the path planning

cameraRotationDegreeLabel

javax.swing.JLabel cameraRotationDegreeLabel

camera rotation degree label

cameraRotationDegreeSlider

javax.swing.JSlider cameraRotationDegreeSlider

camera rotation degree slider

clearPathButton

javax.swing.JButton clearPathButton

cleaning the planned path button.

createPathButton

javax.swing.JButton createPathButton

create path planning path button.

mouseControlRadio

javax.swing.JRadioButton mouseControlRadio

Radio check button for mouse control.

navigationCheckBox

javax.swing.JCheckBox navigationCheckBox

Navigation (fly-thru) checkbox

pathPlanningRadio

javax.swing.JRadioButton pathPlanningRadio

Radio check button the path planning.

radioButtonGroupFlyMode

javax.swing.ButtonGroup radioButtonGroupFlyMode

radio check button for fly-thru mode.

scroller

javax.swing.JScrollPane scroller

The scroll pane holding the panel content. Useful when the screen is small.

Class gov.nih.mipav.view.renderer.WildMagic.Interface.JPanelPositions extends JInterfaceBase implements Serializable

serialVersionUID:

4578542603991193148L

Serialized Fields

absoluteLabel

javax.swing.JLabel absoluteLabel

Labels for the current absolute position:.

absoluteLabelVals

javax.swing.JLabel[] absoluteLabelVals

Labels for the current absolute position values:.

absolutePanel

javax.swing.JPanel absolutePanel

JPanel containing the absoulte position labels:.

modelViewLabel

javax.swing.JLabel modelViewLabel

Labels for the current position in 3D ModelView coordinates.

modelViewLabelVals

javax.swing.JLabel[] modelViewLabelVals

Displayed values for the current position in 3D ModelView coordinates.

neurologicalView

javax.swing.JRadioButton neurologicalView

panelLabels

javax.swing.JPanel panelLabels

Panel containing the position labels:.

patientSliceLabel

javax.swing.JLabel patientSliceLabel

Labels for the current position in PatientSlice coordinates.

patientSliceLabelVals

javax.swing.JLabel[] patientSliceLabelVals

Displayed values for the current position in PatientSlice coordinates.

radiologicalView

javax.swing.JRadioButton radiologicalView

scannerLabel

javax.swing.JLabel scannerLabel

Labels for the current scanner position:.

scannerLabelVals

javax.swing.JLabel[] scannerLabelVals

Labels for the current scanner position values:.

scannerPanel

javax.swing.JPanel scannerPanel

JPanel containing the scanner position labels:.

Class gov.nih.mipav.view.renderer.WildMagic.Interface.JPanelRenderMode_WM extends JInterfaceBase implements Serializable

serialVersionUID:

3015333092796701354L

Serialized Fields

cameraRotationDegreeLabel

javax.swing.JLabel cameraRotationDegreeLabel

camera rotation degree label

cameraRotationDegreeSlider

javax.swing.JSlider cameraRotationDegreeSlider

camera rotation degree slider

m_fIPD

float m_fIPD

IPD number.

m_kDisplaySlicesCheck

javax.swing.JCheckBox m_kDisplaySlicesCheck

Turn display 3D Slices on/off

m_kDisplaySurfaceCheck

javax.swing.JCheckBox m_kDisplaySurfaceCheck

Turn display 3D TriMesh Surface on/off

m_kDisplayVOICheck

javax.swing.JCheckBox m_kDisplayVOICheck

Turn display VOIs on/off

m_kDisplayVolumeCheck

javax.swing.JCheckBox m_kDisplayVolumeCheck

Turn display volume on/off

m_kExtractTriMesh

javax.swing.JButton m_kExtractTriMesh

Button for extracting a TriMesh surface based on the ray-cast volume rendered in Surface mode

m_kIntensityTF

javax.swing.JTextField m_kIntensityTF

Text box for setting the intensity level for extraction.

m_kIPDSlider

javax.swing.JSlider m_kIPDSlider

Opacity slider.

m_kStereoModeCB

javax.swing.JComboBox m_kStereoModeCB

The combo box for the polygon mode to display.

m_kVolumeBlendSlider

javax.swing.JSlider m_kVolumeBlendSlider

Volume alpha-blending slider.

m_kVolumeSamplesSliderMouseDragged

javax.swing.JSlider m_kVolumeSamplesSliderMouseDragged

Volume number of samples slider when mouse Dragged.

m_kVolumeSamplesSliderMouseReleased

javax.swing.JSlider m_kVolumeSamplesSliderMouseReleased

Volume number of samples slider when mouse released.

mkCurrent

javax.swing.JLabel mkCurrent

Label that gives current value of slider.

mouseRotationSpeedSlider

javax.swing.JSlider mouseRotationSpeedSlider

Mouse rotation speed slider.

mouseTranslationSpeedSlider

javax.swing.JSlider mouseTranslationSpeedSlider

Mouse translation speed slider.

mouseZoomSpeedSlider

javax.swing.JSlider mouseZoomSpeedSlider

Mouse zoom speed slider.

radioCOMPOSITE

javax.swing.JRadioButton radioCOMPOSITE

Radio button of the COMPOSITE mode option.

radioCustom

javax.swing.JRadioButton radioCustom

Radio button of the Custom blend mode option.

radioMIP

javax.swing.JRadioButton radioMIP

Radio button of the MIP mode option.

radioMULTIHISTO

javax.swing.JCheckBox radioMULTIHISTO

Checkbox for the Multi-histo mode option.

radioSURFACE

javax.swing.JRadioButton radioSURFACE

Radio button of the SURFACE mode option.

radioSURFACEFAST

javax.swing.JRadioButton radioSURFACEFAST

Radio button of the SURFACE mode option.

radioSurrenderCOMPOSITE

javax.swing.JRadioButton radioSurrenderCOMPOSITE

Radio button of the surface render composite mode.

radioXRAY

javax.swing.JRadioButton radioXRAY

Radio button of the XRAY mode option.

scroller

javax.swing.JScrollPane scroller

The scroll pane holding the panel content. Useful when the screen is small.

serif12

java.awt.Font serif12

Fonts, same as MipavUtil.font12 and MipavUtil.font12B.

serif12B

java.awt.Font serif12B

Fonts, same as MipavUtil.font12 and MipavUtil.font12B.

Class gov.nih.mipav.view.renderer.WildMagic.Interface.JPanelSculptor_WM extends JInterfaceBase implements Serializable

serialVersionUID:

4235930260988710821L

Serialized Fields

lineButton

javax.swing.JToggleButton lineButton

Line shape button.

m_iSculptHeight

int m_iSculptHeight

Window width information for Sculpting.

m_iSculptWidth

int m_iSculptWidth

Window width information for Sculpting.

m_kApplyAllButton

javax.swing.JButton m_kApplyAllButton

Button to apply sculpt region to the volume.

m_kApplySculptButton

javax.swing.JButton m_kApplySculptButton

Button to apply sculpt region to the volume.

m_kClearDrawOutlineButton

javax.swing.JButton m_kClearDrawOutlineButton

Button for clearing the sculpt region.

m_kDrawOutlineButton

javax.swing.JToggleButton m_kDrawOutlineButton

Toggle button is down while the mouse is used to draw the sculpt outline.

m_kInvertOutlineButton

javax.swing.JButton m_kInvertOutlineButton

Button for inverting the sculpt region.

m_kSaveSculptButton

javax.swing.JButton m_kSaveSculptButton

Button to save the sculpt image.

m_kUndoAllButton

javax.swing.JButton m_kUndoAllButton

m_kUndoSculptButton

javax.swing.JButton m_kUndoSculptButton

Button to undo the sculpt and restor the original volume.

rectButton

javax.swing.JToggleButton rectButton

Rectangle shape button.

scroller

javax.swing.JScrollPane scroller

The scroll pane holding the panel content. Useful when the screen is small.

scrollPanel

JInterfaceBase.DrawingPanel scrollPanel

Scroll panel that holding the all the control components.

toolbarBuilder

ViewToolBarBuilder toolbarBuilder

Toolbar builder reference.

Class gov.nih.mipav.view.renderer.WildMagic.Interface.JPanelSlices_WM extends JInterfaceBase implements Serializable

serialVersionUID:

-8359831093707979536L

Serialized Fields

boundingBoxPanel

javax.swing.JPanel boundingBoxPanel

Bounding box control panel.

boundingCheck

javax.swing.JCheckBox[] boundingCheck

Check box for turning bounding boxes on and off.

boxX

javax.swing.JCheckBox boxX

Check boxes that turn the image plane on and off.

boxY

javax.swing.JCheckBox boxY

Check boxes that turn the image plane on and off.

boxZ

javax.swing.JCheckBox boxZ

Check boxes that turn the image plane on and off.

colorButton

javax.swing.JButton[] colorButton

Color button for changing bounding box color.

controlPanel

javax.swing.JPanel controlPanel

Main panel for sliders.

labelT

javax.swing.JLabel labelT

Labels next to sliders.

labelX

javax.swing.JLabel labelX

Labels next to sliders.

labelX1

javax.swing.JLabel labelX1

Labels beneath sliders.

labelXEnd

javax.swing.JLabel labelXEnd

Labels beneath sliders.

labelXMid

javax.swing.JLabel labelXMid

Labels beneath sliders.

labelY

javax.swing.JLabel labelY

Labels next to sliders.

labelY1

javax.swing.JLabel labelY1

Labels beneath sliders.

labelYEnd

javax.swing.JLabel labelYEnd

Labels beneath sliders.

labelYMid

javax.swing.JLabel labelYMid

Labels beneath sliders.

labelZ

javax.swing.JLabel labelZ

Labels next to sliders.

labelZ1

javax.swing.JLabel labelZ1

Labels beneath sliders.

labelZEnd

javax.swing.JLabel labelZEnd

Labels beneath sliders.

labelZMid

javax.swing.JLabel labelZMid

Labels beneath sliders.

opacityControlPanel

javax.swing.JPanel opacityControlPanel

Opacity control panel.

opacityLabelX

javax.swing.JLabel opacityLabelX

The opacity slider label.

opacityLabelY

javax.swing.JLabel opacityLabelY

The opacity slider label.

opacityLabelZ

javax.swing.JLabel opacityLabelZ

The opacity slider label.

opacitySliderLabelsX

javax.swing.JLabel[] opacitySliderLabelsX

The labels below the opacity slider.

opacitySliderLabelsY

javax.swing.JLabel[] opacitySliderLabelsY

The labels below the opacity slider.

opacitySliderLabelsZ

javax.swing.JLabel[] opacitySliderLabelsZ

The labels below the opacity slider.

opacitySliderX

javax.swing.JSlider opacitySliderX

Opacity slider, not enabled yet.

opacitySliderY

javax.swing.JSlider opacitySliderY

Opacity slider, not enabled yet.

opacitySliderZ

javax.swing.JSlider opacitySliderZ

Opacity slider, not enabled yet.

scroller

javax.swing.JScrollPane scroller

The scroll pane holding the panel content. Useful when the screen is small.

scrollPanel

JInterfaceBase.DrawingPanel scrollPanel

Scroll panel that holding the all the control components.

sliceVisible

boolean[] sliceVisible

Flags indicating if the image slices are on or off.

sliderT

javax.swing.JSlider sliderT

Sliders for the image planes.

sliderX

javax.swing.JSlider sliderX

Sliders for the image planes.

sliderY

javax.swing.JSlider sliderY

Sliders for the image planes.

sliderZ

javax.swing.JSlider sliderZ

Sliders for the image planes.

tDim

int tDim

x, y, z and time dimension values.

textT

javax.swing.JTextField textT

Text fields that display the slice number next to the sliders.

textX

javax.swing.JTextField textX

Text fields that display the slice number next to the sliders.

textY

javax.swing.JTextField textY

Text fields that display the slice number next to the sliders.

textZ

javax.swing.JTextField textZ

Text fields that display the slice number next to the sliders.

tSlice

int tSlice

Which time slice is currently displayed.

xDim

int xDim

x, y, z and time dimension values.

xOpacitySlice

int xOpacitySlice

x, y, z opacity slider values.

xProbe

int xProbe

Probe x, y, z position.

xSlice

int xSlice

Which slice is currently displayed in the ZY plane.

yDim

int yDim

x, y, z and time dimension values.

yOpacitySlice

int yOpacitySlice

x, y, z opacity slider values.

yProbe

int yProbe

Probe x, y, z position.

ySlice

int ySlice

Which slice is currently displayed in the XZ plane.

zDim

int zDim

x, y, z and time dimension values.

zOpacitySlice

int zOpacitySlice

x, y, z opacity slider values.

zProbe

int zProbe

Probe x, y, z position.

zSlice

int zSlice

Which slice is currently displayed in the XY plane.

Class gov.nih.mipav.view.renderer.WildMagic.Interface.JPanelSurface_WM extends JInterfaceBase implements Serializable

serialVersionUID:

-4600563188022683359L

Serialized Fields

areaLabel

javax.swing.JLabel areaLabel

The area label.

areaText

javax.swing.JTextField areaText

Displays the area of triangle.

colorButton

javax.swing.JButton colorButton

The color button, which calls a color chooser.

colorLabel

javax.swing.JLabel colorLabel

The color button label.

comboLabel

javax.swing.JLabel comboLabel

The polygon mode combo box label.

convexHull

javax.swing.JButton convexHull

Smooth button.

decimateButton

javax.swing.JButton decimateButton

Decimate button.

decimationPercentage

double decimationPercentage

Decimation Percentage

detailLabel

javax.swing.JLabel detailLabel

The level of detail slider label.

detailSlider

javax.swing.JSlider detailSlider

Level of detail slider.

detailSliderLabels

javax.swing.JLabel[] detailSliderLabels

The labels below the detail slider.

extractConnected

javax.swing.JButton extractConnected

Smooth button.

invertNormals

javax.swing.JButton invertNormals

Smooth button.

listModel

javax.swing.DefaultListModel<java.lang.String> listModel

m_akSurfaceStates

java.util.Vector<SurfaceState> m_akSurfaceStates

m_kAdvancedMaterialOptionsButton

javax.swing.JButton m_kAdvancedMaterialOptionsButton

The material options button, which launches the material editor window.

m_kSurfacePaint

SurfacePaint_WM m_kSurfacePaint

Paint tool-bar (contained in the SurfacePaint class)

m_kSurfaceTextureButton

javax.swing.JButton m_kSurfaceTextureButton

Opens SurfaceTexture dialog:.

opacityLabel

javax.swing.JLabel opacityLabel

The opacity slider label.

opacitySlider

javax.swing.JSlider opacitySlider

Opacity slider, not enabled yet.

opacitySliderLabels

javax.swing.JLabel[] opacitySliderLabels

The labels below the opacity slider.

polygonModeCB

javax.swing.JComboBox polygonModeCB

The combo box for the polygon mode to display.

polylineCounter

int polylineCounter

constant polyline counter

polylineCounterList

javax.swing.DefaultListModel polylineCounterList

Polyline counter list

polylineList

javax.swing.JList polylineList

Polyline list box in the dialog for surfaces.

savePLYSurfaceButton

javax.swing.JButton savePLYSurfaceButton

Save .PLY surface button.

saveSTLSurfaceButton

javax.swing.JButton saveSTLSurfaceButton

Save .STL surface button.

saveSurfaceButton

javax.swing.JButton saveSurfaceButton

Save surface button.

scroller

javax.swing.JScrollPane scroller

The scroll pane holding the panel content. Useful when the screen is small.

smooth1Button

javax.swing.JButton smooth1Button

Smooth button.

smooth2Button

javax.swing.JButton smooth2Button

Smooth button.

smooth3Button

javax.swing.JButton smooth3Button

Smooth button.

subdivideTriangles

javax.swing.JButton subdivideTriangles

Smooth button.

surfaceBackFaceCB

javax.swing.JCheckBox surfaceBackFaceCB

Check Box for surface back face culling.

surfaceClipCB

javax.swing.JCheckBox surfaceClipCB

Check Box for surface clpping of the volume render.

surfaceList

javax.swing.JList<java.lang.String> surfaceList

The list box in the dialog for surfaces.

surfacePickableCB

javax.swing.JCheckBox surfacePickableCB

Check Box for surface picking.

surfaceTransparencyCB

javax.swing.JCheckBox surfaceTransparencyCB

Check Box for surface transparency.

tmesh

TriangleMesh[] tmesh

triangle mesh for decimation.

triangleLabel

javax.swing.JLabel triangleLabel

The number of triangles label.

triangleText

javax.swing.JTextField triangleText

Displays the number of triangles.

volumeCoordsCheck

javax.swing.JCheckBox volumeCoordsCheck

loads mesh files in basic volume coordinates

volumeLabel

javax.swing.JLabel volumeLabel

The volume label.

volumeText

javax.swing.JTextField volumeText

Displays the volume of triangle.

Class gov.nih.mipav.view.renderer.WildMagic.Interface.JPanelSurfaceTexture_WM extends JInterfaceBase implements Serializable

serialVersionUID:

7562070328632922435L

Serialized Fields

m_kSurfacePanel

JPanelSurface_WM m_kSurfacePanel

Surface panel

mHistogram

JFrameHistogram mHistogram

Display the independent LUT for Black/White images.

mImageA

ModelImage mImageA

ModelImage used to generate the 3D texture:.

mImageALink

ModelImage mImageALink

Reference to ModelImage A for linking the texture to the imageA LUT.

mImageAsTextureCheck

javax.swing.JCheckBox mImageAsTextureCheck

RadioButton for turing on the surface image texture:.

mImageButtonGroup

javax.swing.ButtonGroup mImageButtonGroup

Grouping the radio buttons:.

mImageDirName

java.lang.String mImageDirName

Stores the currently-loaded ModelImage directory name:.

mImageFileName

java.lang.String mImageFileName

Stores the currently-loaded ModelImage file name:.

mImageFileNameLabel

javax.swing.JLabel mImageFileNameLabel

Display the currently-loaded ModelImage file name:.

mLoadImageButton

javax.swing.JButton mLoadImageButton

Load a new ModelImage:.

mLUTButtonGroup

javax.swing.ButtonGroup mLUTButtonGroup

Grouping the radio buttons:.

mLUTImageA

ModelImage mLUTImageA

Independent ModelImage for independent LUT.

mLUTModel

ModelStorageBase mLUTModel

The LUT associated with the ModelImage imageA:.

mLUTSeparate

ModelStorageBase mLUTSeparate

The LUT associated with the independent texture LUT:.

mModelImageRadioButton

javax.swing.JRadioButton mModelImageRadioButton

Use the ModelImage LUT.

mModelLUTRadioButton

javax.swing.JRadioButton mModelLUTRadioButton

Use the ModelImage LUT.

mNewImageRadioButton

javax.swing.JRadioButton mNewImageRadioButton

Use a separate LUT.

mNewLUTRadioButton

javax.swing.JRadioButton mNewLUTRadioButton

Use a separate LUT.

Class gov.nih.mipav.view.renderer.WildMagic.Interface.JPanelVolume4D extends JInterfaceBase implements Serializable

serialVersionUID:

-5083630753484806459L

Serialized Fields

m_k4DSlider

javax.swing.JSlider m_k4DSlider

m_kFrameRateSlider

javax.swing.JSlider m_kFrameRateSlider

scroller

javax.swing.JScrollPane scroller

The scroll pane holding the panel content. Useful when the screen is small.

Class gov.nih.mipav.view.renderer.WildMagic.Interface.SurfaceExtractor extends WildMagic.LibImagics.Extraction.ExtractSurfaceTetra implements Serializable

Serialized Fields

dicomMatrix

TransMatrix dicomMatrix

Dicom Matrix

direction

int[] direction

Surface direction

m_fXDelta

float m_fXDelta

Relative voxel size.

m_fYDelta

float m_fYDelta

Relative voxel size.

m_fZDelta

float m_fZDelta

Relative voxel size.

startLocation

float[] startLocation

Surface 3D location

Class gov.nih.mipav.view.renderer.WildMagic.Interface.SurfaceExtractorCubes extends WildMagic.LibImagics.Extraction.ExtractSurfaceCubes implements Serializable

Serialized Fields

dicomMatrix

TransMatrix dicomMatrix

Dicom Matrix

m_afStartLocation

float[] m_afStartLocation

Surface 3D location

m_aiDirection

int[] m_aiDirection

Surface direction

m_fXDelta

float m_fXDelta

Relative voxel size.

m_fYDelta

float m_fYDelta

Relative voxel size.

m_fZDelta

float m_fZDelta

Relative voxel size.

Class gov.nih.mipav.view.renderer.WildMagic.Interface.SurfacePaint_WM extends JInterfaceBase implements Serializable

serialVersionUID:

-3767599197318881261L

Serialized Fields

m_bEnabled

boolean m_bEnabled

Enables painting

m_kPanel

JPanelSurface_WM m_kPanel

Surface panel.

mBrushSize

int mBrushSize

current paint brush size

mBrushSizeText

javax.swing.JTextField mBrushSizeText

Paint brush size text field

mButtonGroup

javax.swing.ButtonGroup mButtonGroup

Button group for paint functions:

mColorChooser

javax.swing.JColorChooser mColorChooser

Color Chooser dialog.

mColorPaintButton

javax.swing.JButton mColorPaintButton

Color selection button

mDropperButton

javax.swing.JToggleButton mDropperButton

Paint dropper button

mEraseAllButton

javax.swing.JButton mEraseAllButton

Erase all button

mEraserButton

javax.swing.JToggleButton mEraserButton

Eraser paint button

mOpacity

float mOpacity

Current paint opacity

mOpacityPaintButton

javax.swing.JButton mOpacityPaintButton

Opacity paint button

mPaintBrushButton

javax.swing.JToggleButton mPaintBrushButton

Paint brush button

mPaintCanButton

javax.swing.JToggleButton mPaintCanButton

Paint can button

mPaintColor

WildMagic.LibFoundation.Mathematics.ColorRGBA mPaintColor

Current paint color

mPaintGrowDialog

JDialogPaintGrow mPaintGrowDialog

Paint Grow Dialog.

mPaintToolBar

javax.swing.JToolBar mPaintToolBar

Paint user-interface ToolBar

Class gov.nih.mipav.view.renderer.WildMagic.Interface.SurfaceState extends java.lang.Object implements Serializable

serialVersionUID:

-489331431277320685L

Serialization Methods

readObject

private void readObject(java.io.ObjectInputStream in)
                 throws java.io.IOException,
                        java.lang.ClassNotFoundException

Throws:

java.io.IOException

java.lang.ClassNotFoundException

writeObject

private void writeObject(java.io.ObjectOutputStream out)
                  throws java.io.IOException

Throws:

java.io.IOException

Serialized Fields

BackfaceCull

boolean BackfaceCull

Clip

boolean Clip

Fill

WildMagic.LibGraphics.Rendering.WireframeState.FillMode Fill

Material

WildMagic.LibGraphics.Rendering.MaterialState Material

Name

java.lang.String Name

Opacity

float Opacity

Pickable

boolean Pickable

SurfaceColor

java.awt.Color SurfaceColor

TransparencyOn

boolean TransparencyOn

Package gov.nih.mipav.view.renderer.WildMagic.Knees

Class gov.nih.mipav.view.renderer.WildMagic.Knees.JDialogCreateHEDpngFiles extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

axial_index

int axial_index

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

coronal_index

int coronal_index

endIndex

int endIndex

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImagesOrientation

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientation

keyImagesOrientationCED

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientationCED

keyImagesOrientationMask

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientationMask

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

nameTableImages

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImages

nameTableImagesCED

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImagesCED

nameTableImagesMask

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImagesMask

sagittal_index

int sagittal_index

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

startIndex

int startIndex

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.Knees.JDialogCreateHEDpngFilesTest extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

axial_index

int axial_index

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

coronal_index

int coronal_index

endIndex

int endIndex

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImagesOrientation

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientation

keyImagesOrientationCED

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientationCED

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices dir.

nameTableImages

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImages

nameTableImagesCED

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImagesCED

nameTableImagesMask

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImagesMask

sagittal_index

int sagittal_index

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

startIndex

int startIndex

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.Knees.JDialogCreateProbMap extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropImage

ModelImage cropImage

result cropped image.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImageChooser

javax.swing.JFileChooser keyImageChooser

key images variables.

keyImageDirectory

java.lang.String keyImageDirectory

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector

java.util.Vector<java.lang.String> keyImageVector

image vector to hold the image names.

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector

java.util.Vector<java.lang.String> keyImageVOIVector

voi vector to hold the VOI names.

labelAxis

javax.swing.JLabel labelAxis

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

srcImage

ModelImage srcImage

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.Knees.JDialogFemurTraceSectionsNetherland extends JDialogBase implements Serializable

serialVersionUID:

-7360089445422224259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

axis region

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

Cropped image region.

boxYmin

int boxYmin

Cropped image region.

buttonImageFAT

javax.swing.JButton buttonImageFAT

buttonImageFATCED

javax.swing.JButton buttonImageFATCED

buttonImageGRE

javax.swing.JButton buttonImageGRE

buttonImageGRECED

javax.swing.JButton buttonImageGRECED

buttonModel

javax.swing.JButton buttonModel

buttonPanel

javax.swing.JPanel buttonPanel

cedImageFAT

ModelImage cedImageFAT

cedImageGRE

ModelImage cedImageGRE

close_length

int close_length

cornerEdgePattern

CornerEdgePattern cornerEdgePattern

cutOffPoint

WildMagic.LibFoundation.Mathematics.Vector3f cutOffPoint

cutOffPointInner

WildMagic.LibFoundation.Mathematics.Vector3f cutOffPointInner

cutOffPointOuter

WildMagic.LibFoundation.Mathematics.Vector3f cutOffPointOuter

edgePattern

RegularEdgePattern edgePattern

endPt

int endPt

endSlice

int endSlice

endSliceImageNames

java.util.Vector<java.lang.String> endSliceImageNames

endSliceImages

java.util.Vector<ModelImage> endSliceImages

endSliceRange

java.util.Vector<JDialogFemurTraceSectionsNetherland.Range> endSliceRange

endSliceRangeNames

java.util.Vector<java.lang.String> endSliceRangeNames

fatCEDImageChooser

javax.swing.JFileChooser fatCEDImageChooser

fatCEDImageDirectory

java.lang.String fatCEDImageDirectory

fatCEDImageName

java.lang.String fatCEDImageName

fatImage

ModelImage fatImage

fatImageChooser

javax.swing.JFileChooser fatImageChooser

target image variables.

fatImageDirectory

java.lang.String fatImageDirectory

fatImageName

java.lang.String fatImageName

firstAssigned

boolean firstAssigned

firstTimeCheckMidShaft

boolean firstTimeCheckMidShaft

greCEDImageChooser

javax.swing.JFileChooser greCEDImageChooser

greCEDImageDirectory

java.lang.String greCEDImageDirectory

greCEDImageName

java.lang.String greCEDImageName

greImage

ModelImage greImage

greImageChooser

javax.swing.JFileChooser greImageChooser

greImageDirectory

java.lang.String greImageDirectory

greImageName

java.lang.String greImageName

group

int group

GROUP_1

int GROUP_1

group_1_endSlice

int group_1_endSlice

GROUP_10

int GROUP_10

group_10_endSlice

int group_10_endSlice

GROUP_2

int GROUP_2

group_2_endSlice

int group_2_endSlice

GROUP_3

int GROUP_3

group_3_endSlice

int group_3_endSlice

GROUP_4

int GROUP_4

group_4_endSlice

int group_4_endSlice

GROUP_5

int GROUP_5

group_5_endSlice

int group_5_endSlice

GROUP_6

int GROUP_6

group_6_endSlice

int group_6_endSlice

GROUP_7

int GROUP_7

group_7_endSlice

int group_7_endSlice

GROUP_8

int GROUP_8

group_8_endSlice

int group_8_endSlice

GROUP_9

int GROUP_9

group_9_endSlice

int group_9_endSlice

growingPlate

GrowingPlatePattern growingPlate

holesPattern

HolesPattern holesPattern

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageStackFuzzyCfat

java.util.Vector<java.util.Vector<ModelImage>> imageStackFuzzyCfat

imageStackFuzzyCgre

java.util.Vector<java.util.Vector<ModelImage>> imageStackFuzzyCgre

labelAxis

javax.swing.JLabel labelAxis

labelImageFAT

javax.swing.JLabel labelImageFAT

Target image directory.

labelImageFATCED

javax.swing.JLabel labelImageFATCED

Target image directory.

labelImageGRE

javax.swing.JLabel labelImageGRE

GRE image directory.

labelImageGRECED

javax.swing.JLabel labelImageGRECED

Target image directory.

labelModel

javax.swing.JLabel labelModel

key image directory.

labelWhichLeg

javax.swing.JLabel labelWhichLeg

leftLegRadio

javax.swing.JRadioButton leftLegRadio

mainPanel

javax.swing.JPanel mainPanel

midPt

int midPt

model

C_AAMMODEL model

AAM model reference.

modelChooser

javax.swing.JFileChooser modelChooser

key images variables.

modelDirectory

java.lang.String modelDirectory

regionPattern

RegionPattern regionPattern

rightLegRadio

javax.swing.JRadioButton rightLegRadio

slicesPts

java.util.Hashtable<java.lang.Integer,java.util.Hashtable<java.lang.Integer,JDialogFemurTraceSectionsNetherland.Line>> slicesPts

startPt

int startPt

startSlice

int startSlice

textFieldImageFAT

javax.swing.JTextField textFieldImageFAT

textFieldImageFATCED

javax.swing.JTextField textFieldImageFATCED

textFieldImageGRE

javax.swing.JTextField textFieldImageGRE

textFieldImageGRECED

javax.swing.JTextField textFieldImageGRECED

textFieldModel

javax.swing.JTextField textFieldModel

thisFrame

ViewJFrameImage thisFrame

UI

ViewUserInterface UI

The main user interface.

voiNewFinal

VOI voiNewFinal

voiVectorFinal

VOIVector voiVectorFinal

weakEdgePatternHorizontal

WeakConnectedEdgePatternHorizontal weakEdgePatternHorizontal

weakEdgePatternVertical

WeakConnectedEdgePatternVertical weakEdgePatternVertical

whichLeg

int whichLeg

xBounds

int[] xBounds

Cropped region bounding.

yBounds

int[] yBounds

zBounds

int[] zBounds

Class gov.nih.mipav.view.renderer.WildMagic.Knees.JDialogFemurTraceSectionsNIH extends JDialogBase implements Serializable

serialVersionUID:

-7360089445422224259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

axis region

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

Cropped image region.

boxYmin

int boxYmin

Cropped image region.

buttonImageFAT

javax.swing.JButton buttonImageFAT

buttonImageGRE

javax.swing.JButton buttonImageGRE

buttonModel

javax.swing.JButton buttonModel

buttonPanel

javax.swing.JPanel buttonPanel

close_length

int close_length

cornerEdgePattern

CornerEdgePattern cornerEdgePattern

cutOffPoint

WildMagic.LibFoundation.Mathematics.Vector3f cutOffPoint

cutOffPointInner

WildMagic.LibFoundation.Mathematics.Vector3f cutOffPointInner

cutOffPointOuter

WildMagic.LibFoundation.Mathematics.Vector3f cutOffPointOuter

edgePattern

RegularEdgePattern edgePattern

endPt

int endPt

endSlice

int endSlice

endSliceImageNames

java.util.Vector<java.lang.String> endSliceImageNames

endSliceImages

java.util.Vector<ModelImage> endSliceImages

endSliceRange

java.util.Vector<JDialogFemurTraceSectionsNIH.Range> endSliceRange

endSliceRangeNames

java.util.Vector<java.lang.String> endSliceRangeNames

fatImage

ModelImage fatImage

fatImageChooser

javax.swing.JFileChooser fatImageChooser

target image variables.

fatImageDirectory

java.lang.String fatImageDirectory

fatImageName

java.lang.String fatImageName

firstAssigned

boolean firstAssigned

firstTimeCheckMidShaft

boolean firstTimeCheckMidShaft

gaussianMap

ModelImage gaussianMap

greImage

ModelImage greImage

greImageChooser

javax.swing.JFileChooser greImageChooser

greImageDirectory

java.lang.String greImageDirectory

greImageName

java.lang.String greImageName

group

int group

GROUP_1

int GROUP_1

group_1_endSlice

int group_1_endSlice

GROUP_10

int GROUP_10

group_10_endSlice

int group_10_endSlice

GROUP_2

int GROUP_2

group_2_endSlice

int group_2_endSlice

GROUP_3

int GROUP_3

group_3_endSlice

int group_3_endSlice

GROUP_4

int GROUP_4

group_4_endSlice

int group_4_endSlice

GROUP_5

int GROUP_5

group_5_endSlice

int group_5_endSlice

GROUP_6

int GROUP_6

group_6_endSlice

int group_6_endSlice

GROUP_7

int GROUP_7

group_7_endSlice

int group_7_endSlice

GROUP_8

int GROUP_8

group_8_endSlice

int group_8_endSlice

GROUP_9

int GROUP_9

group_9_endSlice

int group_9_endSlice

holesPattern

HolesPattern holesPattern

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageStackFuzzyC

java.util.Vector<java.util.Vector<ModelImage>> imageStackFuzzyC

labelAxis

javax.swing.JLabel labelAxis

labelImageFAT

javax.swing.JLabel labelImageFAT

Target image directory.

labelImageGRE

javax.swing.JLabel labelImageGRE

GRE image directory.

labelModel

javax.swing.JLabel labelModel

key image directory.

labelWhichLeg

javax.swing.JLabel labelWhichLeg

leftLegRadio

javax.swing.JRadioButton leftLegRadio

mainPanel

javax.swing.JPanel mainPanel

midPt

int midPt

model

C_AAMMODEL model

AAM model reference.

modelChooser

javax.swing.JFileChooser modelChooser

key images variables.

modelDirectory

java.lang.String modelDirectory

regionPattern

RegionPattern regionPattern

rightLegRadio

javax.swing.JRadioButton rightLegRadio

slicesPts

java.util.Hashtable<java.lang.Integer,java.util.Hashtable<java.lang.Integer,JDialogFemurTraceSectionsNIH.Line>> slicesPts

startPt

int startPt

startSlice

int startSlice

textFieldImageFAT

javax.swing.JTextField textFieldImageFAT

textFieldImageGRE

javax.swing.JTextField textFieldImageGRE

textFieldModel

javax.swing.JTextField textFieldModel

thisFrame

ViewJFrameImage thisFrame

UI

ViewUserInterface UI

The main user interface.

voiNewFinal

VOI voiNewFinal

voiVectorFinal

VOIVector voiVectorFinal

weakEdgePatternHorizontal

WeakConnectedEdgePatternHorizontal weakEdgePatternHorizontal

weakEdgePatternVertical

WeakConnectedEdgePatternVertical weakEdgePatternVertical

whichLeg

int whichLeg

xBounds

int[] xBounds

Cropped region bounding.

yBounds

int[] yBounds

zBounds

int[] zBounds

Class gov.nih.mipav.view.renderer.WildMagic.Knees.JDialogFemurTraceSectionsSeparateNetherland extends JDialogBase implements Serializable

serialVersionUID:

-7360089445422224259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

axis region

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

Cropped image region.

boxYmin

int boxYmin

Cropped image region.

buttonImageFAT

javax.swing.JButton buttonImageFAT

buttonImageFATCED

javax.swing.JButton buttonImageFATCED

buttonImageGRE

javax.swing.JButton buttonImageGRE

buttonImageGRECED

javax.swing.JButton buttonImageGRECED

buttonModel

javax.swing.JButton buttonModel

buttonPanel

javax.swing.JPanel buttonPanel

cedImageFAT

ModelImage cedImageFAT

cedImageGRE

ModelImage cedImageGRE

cornerEdgePattern

CornerEdgePattern cornerEdgePattern

cutOffPoint

WildMagic.LibFoundation.Mathematics.Vector3f cutOffPoint

cutOffPointInner

WildMagic.LibFoundation.Mathematics.Vector3f cutOffPointInner

cutOffPointOuter

WildMagic.LibFoundation.Mathematics.Vector3f cutOffPointOuter

edgePattern

RegularEdgePattern edgePattern

endPt

int endPt

endSlice

int endSlice

endSliceImageNames

java.util.Vector<java.lang.String> endSliceImageNames

endSliceImages

java.util.Vector<ModelImage> endSliceImages

endSliceRange

java.util.Vector<JDialogFemurTraceSectionsSeparateNetherland.Range> endSliceRange

endSliceRangeNames

java.util.Vector<java.lang.String> endSliceRangeNames

fatCEDImageChooser

javax.swing.JFileChooser fatCEDImageChooser

fatCEDImageDirectory

java.lang.String fatCEDImageDirectory

fatCEDImageName

java.lang.String fatCEDImageName

fatImage

ModelImage fatImage

fatImageChooser

javax.swing.JFileChooser fatImageChooser

target image variables.

fatImageDirectory

java.lang.String fatImageDirectory

fatImageName

java.lang.String fatImageName

firstAssigned

boolean firstAssigned

greCEDImageChooser

javax.swing.JFileChooser greCEDImageChooser

greCEDImageDirectory

java.lang.String greCEDImageDirectory

greCEDImageName

java.lang.String greCEDImageName

greImage

ModelImage greImage

greImageChooser

javax.swing.JFileChooser greImageChooser

greImageDirectory

java.lang.String greImageDirectory

greImageName

java.lang.String greImageName

group

int group

GROUP_1

int GROUP_1

group_1_endSlice

int group_1_endSlice

GROUP_10

int GROUP_10

group_10_endSlice

int group_10_endSlice

GROUP_2

int GROUP_2

group_2_endSlice

int group_2_endSlice

GROUP_3

int GROUP_3

group_3_endSlice

int group_3_endSlice

GROUP_4

int GROUP_4

group_4_endSlice

int group_4_endSlice

GROUP_5

int GROUP_5

group_5_endSlice

int group_5_endSlice

GROUP_6

int GROUP_6

group_6_endSlice

int group_6_endSlice

GROUP_7

int GROUP_7

group_7_endSlice

int group_7_endSlice

GROUP_8

int GROUP_8

group_8_endSlice

int group_8_endSlice

GROUP_9

int GROUP_9

group_9_endSlice

int group_9_endSlice

holesPattern

HolesPattern holesPattern

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageStackFuzzyCfat

java.util.Vector<java.util.Vector<ModelImage>> imageStackFuzzyCfat

imageStackFuzzyCgre

java.util.Vector<java.util.Vector<ModelImage>> imageStackFuzzyCgre

labelAxis

javax.swing.JLabel labelAxis

labelImageFAT

javax.swing.JLabel labelImageFAT

Target image directory.

labelImageFATCED

javax.swing.JLabel labelImageFATCED

Target image directory.

labelImageGRE

javax.swing.JLabel labelImageGRE

GRE image directory.

labelImageGRECED

javax.swing.JLabel labelImageGRECED

Target image directory.

labelModel

javax.swing.JLabel labelModel

key image directory.

labelWhichLeg

javax.swing.JLabel labelWhichLeg

leftLegRadio

javax.swing.JRadioButton leftLegRadio

mainPanel

javax.swing.JPanel mainPanel

midPt

int midPt

model

C_AAMMODEL model

AAM model reference.

modelChooser

javax.swing.JFileChooser modelChooser

key images variables.

modelDirectory

java.lang.String modelDirectory

regionPattern

RegionPattern regionPattern

rightLegRadio

javax.swing.JRadioButton rightLegRadio

slicesPts

java.util.Hashtable<java.lang.Integer,java.util.Hashtable<java.lang.Integer,JDialogFemurTraceSectionsSeparateNetherland.Line>> slicesPts

startPt

int startPt

startSlice

int startSlice

textFieldImageFAT

javax.swing.JTextField textFieldImageFAT

textFieldImageFATCED

javax.swing.JTextField textFieldImageFATCED

textFieldImageGRE

javax.swing.JTextField textFieldImageGRE

textFieldImageGRECED

javax.swing.JTextField textFieldImageGRECED

textFieldModel

javax.swing.JTextField textFieldModel

thisFrame

ViewJFrameImage thisFrame

UI

ViewUserInterface UI

The main user interface.

voiNewFinal

VOI voiNewFinal

voiVectorFinal

VOIVector voiVectorFinal

weakEdgePatternHorizontal

WeakConnectedEdgePatternHorizontal weakEdgePatternHorizontal

weakEdgePatternVertical

WeakConnectedEdgePatternVertical weakEdgePatternVertical

whichLeg

int whichLeg

xBounds

int[] xBounds

Cropped region bounding.

yBounds

int[] yBounds

zBounds

int[] zBounds

Class gov.nih.mipav.view.renderer.WildMagic.Knees.JDialogKnees_3DReconstrucion extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiNameHashtable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>>> voiNameHashtable

Class gov.nih.mipav.view.renderer.WildMagic.Knees.JDialogKnees_90_data_train_extraction extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

axial_index

int axial_index

axialList

java.util.Hashtable<java.lang.String,ModelImage> axialList

axialMaskList

java.util.Hashtable<java.lang.String,ModelImage> axialMaskList

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTableAxial

java.util.Hashtable<java.lang.String,ModelImage> cedTableAxial

cedTableCoronal

java.util.Hashtable<java.lang.String,ModelImage> cedTableCoronal

cedTableSagittal

java.util.Hashtable<java.lang.String,ModelImage> cedTableSagittal

coronal_index

int coronal_index

coronalList

java.util.Hashtable<java.lang.String,ModelImage> coronalList

coronalMaskList

java.util.Hashtable<java.lang.String,ModelImage> coronalMaskList

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImageMasksTransform

java.util.Hashtable<java.lang.String,ModelImage> keyImageMasksTransform

keyImages

java.util.Hashtable<java.lang.String,ModelImage> keyImages

image vector to hold the actual images.

keyImagesCrop

java.util.Vector<ModelImage> keyImagesCrop

keyImagesScaleIntensity

java.util.Vector<ModelImage> keyImagesScaleIntensity

keyImagesTransform

java.util.Hashtable<java.lang.String,ModelImage> keyImagesTransform

keyImageVOIs

java.util.Vector<ModelImage> keyImageVOIs

voi vector to hold the actual vois.

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskImages

java.util.Hashtable<java.lang.String,ModelImage> maskImages

nameTable

java.util.Hashtable<java.lang.String,java.lang.String> nameTable

nameVOITable

java.util.Hashtable<java.lang.String,java.lang.String> nameVOITable

noCasesList

java.util.Vector<java.lang.String> noCasesList

List of patients need work. 2966L 3225L 6205L 6909R 9717L 9808R 3022L 8868R 5733L 8121L 8136L 9808L 7654R (wrong fem VOI, it's FAT GRE VOI) 2911L (miss patella) 5271R (miss femur) 4983L (miss femur) 5026L (miss femur,need work) 9808R (miss femur) 1959L (femur VOI wrong)

origTable

java.util.Hashtable<java.lang.String,java.lang.String> origTable

sagittal_index

int sagittal_index

sagittalList

java.util.Hashtable<java.lang.String,ModelImage> sagittalList

sagittalMaskList

java.util.Hashtable<java.lang.String,ModelImage> sagittalMaskList

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.Knees.JDialogKnees2DSlicesAtlasPngConverter extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

keyImageVector3

java.util.Vector<java.lang.String> keyImageVector3

keyImageVector4

java.util.Vector<java.lang.String> keyImageVector4

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

keyImageVOIVector2

java.util.Vector<java.lang.String> keyImageVOIVector2

keyImageVOIVector3

java.util.Vector<java.lang.String> keyImageVOIVector3

keyImageVOIVector4

java.util.Vector<java.lang.String> keyImageVOIVector4

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.Knees.JDialogKneesLearnFromFailure64TestCase extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropImage

ModelImage cropImage

result cropped image.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImageChooser

javax.swing.JFileChooser keyImageChooser

key images variables.

keyImageDirectory

java.lang.String keyImageDirectory

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector

java.util.Vector<java.lang.String> keyImageVector

image vector to hold the image names.

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector

java.util.Vector<java.lang.String> keyImageVOIVector

voi vector to hold the VOI names.

keyImageVOIVectorAAM

java.util.Vector<java.lang.String> keyImageVOIVectorAAM

labelAxis

javax.swing.JLabel labelAxis

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

table1

java.util.Hashtable<java.lang.Integer,JDialogKneesLearnFromFailure64TestCase.ImageAttributes> table1

table2

java.util.Hashtable<java.lang.Integer,JDialogKneesLearnFromFailure64TestCase.ImageAttributes> table2

table3

java.util.Hashtable<java.lang.Integer,JDialogKneesLearnFromFailure64TestCase.ImageAttributes> table3

table4

java.util.Hashtable<java.lang.Integer,JDialogKneesLearnFromFailure64TestCase.ImageAttributes> table4

table5

java.util.Hashtable<java.lang.Integer,JDialogKneesLearnFromFailure64TestCase.ImageAttributes> table5

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.Knees.JDialogKneesMapFromMRIandCED extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

endIndex

int endIndex

imageHashtable

java.util.Hashtable<java.lang.Integer,ModelImage> imageHashtable

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> imageTable

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImagesOrientation

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientation

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

keyImageVector3

java.util.Vector<java.lang.String> keyImageVector3

keyImageVector4

java.util.Vector<java.lang.String> keyImageVector4

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

keyImageVOIVector2

java.util.Vector<java.lang.String> keyImageVOIVector2

keyImageVOIVector3

java.util.Vector<java.lang.String> keyImageVOIVector3

keyImageVOIVector4

java.util.Vector<java.lang.String> keyImageVOIVector4

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskImageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> maskImageTable

maskTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<ModelImage>> maskTable

nameTableImages

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImages

newImageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> newImageTable

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

startIndex

int startIndex

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,VOI> voiHashtable

Class gov.nih.mipav.view.renderer.WildMagic.Knees.JDialogLearnFromFailure64Knees extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropImage

ModelImage cropImage

result cropped image.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImageChooser

javax.swing.JFileChooser keyImageChooser

key images variables.

keyImageDirectory

java.lang.String keyImageDirectory

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector

java.util.Vector<java.lang.String> keyImageVector

image vector to hold the image names.

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector

java.util.Vector<java.lang.String> keyImageVOIVector

voi vector to hold the VOI names.

keyImageVOIVectorAAM

java.util.Vector<java.lang.String> keyImageVOIVectorAAM

labelAxis

javax.swing.JLabel labelAxis

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.Knees.JDialogPatellaTraceSectionsNetherland extends JDialogBase implements Serializable

serialVersionUID:

-7360089445422224259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

axis region

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

Cropped image region.

boxYmin

int boxYmin

Cropped image region.

buttonImageFAT

javax.swing.JButton buttonImageFAT

buttonImageGRE

javax.swing.JButton buttonImageGRE

buttonModel

javax.swing.JButton buttonModel

buttonPanel

javax.swing.JPanel buttonPanel

cornerEdgePattern

CornerEdgePattern cornerEdgePattern

edgePattern

RegularEdgePattern edgePattern

endPt

int endPt

endSlice

int endSlice

endSliceImageNames

java.util.Vector<java.lang.String> endSliceImageNames

endSliceImages

java.util.Vector<ModelImage> endSliceImages

endSliceRange

java.util.Vector<JDialogPatellaTraceSectionsNetherland.Range> endSliceRange

endSliceRangeNames

java.util.Vector<java.lang.String> endSliceRangeNames

fatImage

ModelImage fatImage

fatImageChooser

javax.swing.JFileChooser fatImageChooser

target image variables.

fatImageDirectory

java.lang.String fatImageDirectory

fatImageName

java.lang.String fatImageName

firstAssigned

boolean firstAssigned

greImage

ModelImage greImage

greImageChooser

javax.swing.JFileChooser greImageChooser

greImageDirectory

java.lang.String greImageDirectory

greImageName

java.lang.String greImageName

holesPattern

HolesPattern holesPattern

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageStackFuzzyC

java.util.Vector<java.util.Vector<ModelImage>> imageStackFuzzyC

labelAxis

javax.swing.JLabel labelAxis

labelImageFAT

javax.swing.JLabel labelImageFAT

Target image directory.

labelImageGRE

javax.swing.JLabel labelImageGRE

GRE image directory.

labelModel

javax.swing.JLabel labelModel

key image directory.

mainPanel

javax.swing.JPanel mainPanel

midPt

int midPt

model

C_AAMMODEL model

AAM model reference.

modelChooser

javax.swing.JFileChooser modelChooser

key images variables.

modelDirectory

java.lang.String modelDirectory

numSteps

int numSteps

regionPattern

RegionPattern regionPattern

slicesPts

java.util.Hashtable<java.lang.Integer,java.util.Hashtable<java.lang.Integer,JDialogPatellaTraceSectionsNetherland.Line>> slicesPts

startPt

int startPt

startSlice

int startSlice

tenPercent

int tenPercent

textFieldImageFAT

javax.swing.JTextField textFieldImageFAT

textFieldImageGRE

javax.swing.JTextField textFieldImageGRE

textFieldModel

javax.swing.JTextField textFieldModel

twentyPercent

int twentyPercent

UI

ViewUserInterface UI

The main user interface.

voiNewFinal

VOI voiNewFinal

voiVectorFinal

VOIVector voiVectorFinal

weakEdgePatternHorizontal

WeakConnectedEdgePatternHorizontal weakEdgePatternHorizontal

weakEdgePatternVertical

WeakConnectedEdgePatternVertical weakEdgePatternVertical

xBounds

int[] xBounds

Cropped region bounding.

yBounds

int[] yBounds

zBounds

int[] zBounds

Class gov.nih.mipav.view.renderer.WildMagic.Knees.JDialogPatellaTraceSectionsNIH extends JDialogBase implements Serializable

serialVersionUID:

-7360089445422224259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

axis region

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

Cropped image region.

boxYmin

int boxYmin

Cropped image region.

buttonImageFAT

javax.swing.JButton buttonImageFAT

buttonImageGRE

javax.swing.JButton buttonImageGRE

buttonModel

javax.swing.JButton buttonModel

buttonPanel

javax.swing.JPanel buttonPanel

cornerEdgePattern

CornerEdgePattern cornerEdgePattern

edgePattern

RegularEdgePattern edgePattern

endPt

int endPt

endSlice

int endSlice

endSliceImageNames

java.util.Vector<java.lang.String> endSliceImageNames

endSliceImages

java.util.Vector<ModelImage> endSliceImages

endSliceRange

java.util.Vector<JDialogPatellaTraceSectionsNIH.Range> endSliceRange

endSliceRangeNames

java.util.Vector<java.lang.String> endSliceRangeNames

fatImage

ModelImage fatImage

fatImageChooser

javax.swing.JFileChooser fatImageChooser

target image variables.

fatImageDirectory

java.lang.String fatImageDirectory

fatImageName

java.lang.String fatImageName

firstAssigned

boolean firstAssigned

gaussianMap

ModelImage gaussianMap

greImage

ModelImage greImage

greImageChooser

javax.swing.JFileChooser greImageChooser

greImageDirectory

java.lang.String greImageDirectory

greImageName

java.lang.String greImageName

holesPattern

HolesPattern holesPattern

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageStackFuzzyC

java.util.Vector<java.util.Vector<ModelImage>> imageStackFuzzyC

labelAxis

javax.swing.JLabel labelAxis

labelImageFAT

javax.swing.JLabel labelImageFAT

Target image directory.

labelImageGRE

javax.swing.JLabel labelImageGRE

GRE image directory.

labelModel

javax.swing.JLabel labelModel

key image directory.

mainPanel

javax.swing.JPanel mainPanel

midPt

int midPt

model

C_AAMMODEL model

AAM model reference.

modelChooser

javax.swing.JFileChooser modelChooser

key images variables.

modelDirectory

java.lang.String modelDirectory

numSteps

int numSteps

slicesPts

java.util.Hashtable<java.lang.Integer,java.util.Hashtable<java.lang.Integer,JDialogPatellaTraceSectionsNIH.Line>> slicesPts

startPt

int startPt

startSlice

int startSlice

tenPercent

int tenPercent

textFieldImageFAT

javax.swing.JTextField textFieldImageFAT

textFieldImageGRE

javax.swing.JTextField textFieldImageGRE

textFieldModel

javax.swing.JTextField textFieldModel

twentyPercent

int twentyPercent

UI

ViewUserInterface UI

The main user interface.

voiNewFinal

VOI voiNewFinal

voiVectorFinal

VOIVector voiVectorFinal

weakEdgePatternHorizontal

WeakConnectedEdgePatternHorizontal weakEdgePatternHorizontal

weakEdgePatternVertical

WeakConnectedEdgePatternVertical weakEdgePatternVertical

xBounds

int[] xBounds

Cropped region bounding.

yBounds

int[] yBounds

zBounds

int[] zBounds

Class gov.nih.mipav.view.renderer.WildMagic.Knees.JDialogSK10_MRI_CED_map_pre extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageTable

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImagesOrientation

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientation

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

maskImageTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> maskImageTable

maskTable

java.util.Hashtable<java.lang.String,java.util.Vector<ModelImage>> maskTable

nameTableImages

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImages

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.Knees.JDialogSK10_MRI_map_nopre extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageTable

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImagesOrientation

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientation

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskImageTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> maskImageTable

maskTable

java.util.Hashtable<java.lang.String,java.util.Vector<ModelImage>> maskTable

nameTableImages

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImages

newImageTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> newImageTable

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.Knees.JDialogSKI_10_2D_axial_no_pre extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

axial_index

int axial_index

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

coronal_index

int coronal_index

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImagesOrientation

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientation

keyImagesOrientationMask

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientationMask

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

nameTableImages

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImages

nameTableImagesCED

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImagesCED

nameTableImagesMask

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImagesMask

readImageChooser

javax.swing.JFileChooser readImageChooser

readImageDirectory

java.lang.String readImageDirectory

sagittal_index

int sagittal_index

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

saveImageDirectory_test

java.lang.String saveImageDirectory_test

saveImageDirectory_train

java.lang.String saveImageDirectory_train

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.Knees.JDialogSKI_10_3D_orthogonal_pre extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

axial_index

int axial_index

axialList

java.util.Hashtable<java.lang.String,ModelImage> axialList

axialMaskList

java.util.Hashtable<java.lang.String,ModelImage> axialMaskList

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTableAxial

java.util.Hashtable<java.lang.String,ModelImage> cedTableAxial

cedTableCoronal

java.util.Hashtable<java.lang.String,ModelImage> cedTableCoronal

cedTableSagittal

java.util.Hashtable<java.lang.String,ModelImage> cedTableSagittal

coronal_index

int coronal_index

coronalList

java.util.Hashtable<java.lang.String,ModelImage> coronalList

coronalMaskList

java.util.Hashtable<java.lang.String,ModelImage> coronalMaskList

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImageMasksTransform

java.util.Hashtable<java.lang.String,ModelImage> keyImageMasksTransform

keyImagesOrientation

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientation

keyImagesOrientationMask

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientationMask

keyImagesTransform

java.util.Hashtable<java.lang.String,ModelImage> keyImagesTransform

labelKeyImage

javax.swing.JLabel labelKeyImage

labelSaveImage

javax.swing.JLabel labelSaveImage

maskThresAxial

java.util.Hashtable<java.lang.String,ModelImage> maskThresAxial

nameTableImages

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImages

nameTableImagesCED

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImagesCED

nameTableImagesMask

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImagesMask

readImageChooser

javax.swing.JFileChooser readImageChooser

readImageDirectory

java.lang.String readImageDirectory

sagittal_index

int sagittal_index

sagittalList

java.util.Hashtable<java.lang.String,ModelImage> sagittalList

sagittalMaskList

java.util.Hashtable<java.lang.String,ModelImage> sagittalMaskList

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

saveImageDirectory_test

java.lang.String saveImageDirectory_test

saveImageDirectory_train

java.lang.String saveImageDirectory_train

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

Class gov.nih.mipav.view.renderer.WildMagic.Knees.JDialogSKI10_femur_eval_no_pre extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Hashtable<java.lang.String,ModelImage> keyImages

image vector to hold the actual images.

keyImagesOrientation

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientation

keyImagesOrientationMask

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientationMask

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskThresAxial

java.util.Hashtable<java.lang.String,ModelImage> maskThresAxial

nameTable

java.util.Hashtable<java.lang.String,java.lang.String> nameTable

nameTableImages

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImages

nameTableImagesMask

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImagesMask

nameVOI_GT_Table

java.util.Hashtable<java.lang.String,java.lang.String> nameVOI_GT_Table

nameVOITable

java.util.Hashtable<java.lang.String,java.lang.String> nameVOITable

origTable

java.util.Hashtable<java.lang.String,java.lang.String> origTable

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

seg_nameTable

java.util.Hashtable<java.lang.String,java.lang.String> seg_nameTable

seg_nameVOITable

java.util.Hashtable<java.lang.String,java.lang.String> seg_nameVOITable

segKeyImages

java.util.Hashtable<java.lang.String,ModelImage> segKeyImages

segMaskImages

java.util.Hashtable<java.lang.String,ModelImage> segMaskImages

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.Knees.JDialogSKI10_femur_eval_pre extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTableAxial

java.util.Hashtable<java.lang.String,ModelImage> cedTableAxial

cedTableCoronal

java.util.Hashtable<java.lang.String,ModelImage> cedTableCoronal

cedTableSagittal

java.util.Hashtable<java.lang.String,ModelImage> cedTableSagittal

imageNameHashtable

java.util.Hashtable<java.lang.String,java.lang.String> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImageMasksTransform

java.util.Hashtable<java.lang.String,ModelImage> keyImageMasksTransform

keyImages

java.util.Hashtable<java.lang.String,ModelImage> keyImages

image vector to hold the actual images.

keyImagesOrientation

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientation

keyImagesOrientationMask

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientationMask

keyImagesTransform

java.util.Hashtable<java.lang.String,ModelImage> keyImagesTransform

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskImages

java.util.Hashtable<java.lang.String,ModelImage> maskImages

maskThresAxial

java.util.Hashtable<java.lang.String,ModelImage> maskThresAxial

nameTable

java.util.Hashtable<java.lang.String,java.lang.String> nameTable

nameTableImages

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImages

nameTableImagesMask

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImagesMask

nameVOI_GT_Table

java.util.Hashtable<java.lang.String,java.lang.String> nameVOI_GT_Table

nameVOITable

java.util.Hashtable<java.lang.String,java.lang.String> nameVOITable

origTable

java.util.Hashtable<java.lang.String,java.lang.String> origTable

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

seg_nameTable

java.util.Hashtable<java.lang.String,java.lang.String> seg_nameTable

seg_nameVOITable

java.util.Hashtable<java.lang.String,java.lang.String> seg_nameVOITable

segKeyImages

java.util.Hashtable<java.lang.String,ModelImage> segKeyImages

segMaskImages

java.util.Hashtable<java.lang.String,ModelImage> segMaskImages

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiNameHashtable

java.util.Hashtable<java.lang.String,java.lang.String> voiNameHashtable

Class gov.nih.mipav.view.renderer.WildMagic.Knees.JDialogTrainingListGenerator extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

keyImageVector

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>>> keyImageVector

keyImageVOIVector

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>>> keyImageVOIVector

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.Knees.Knees_90_data_train_extraction extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

axial_index

int axial_index

axialList

java.util.Hashtable<java.lang.String,ModelImage> axialList

axialMaskList

java.util.Hashtable<java.lang.String,ModelImage> axialMaskList

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTableAxial

java.util.Hashtable<java.lang.String,ModelImage> cedTableAxial

cedTableCoronal

java.util.Hashtable<java.lang.String,ModelImage> cedTableCoronal

cedTableSagittal

java.util.Hashtable<java.lang.String,ModelImage> cedTableSagittal

coronal_index

int coronal_index

coronalList

java.util.Hashtable<java.lang.String,ModelImage> coronalList

coronalMaskList

java.util.Hashtable<java.lang.String,ModelImage> coronalMaskList

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImageMasksTransform

java.util.Hashtable<java.lang.String,ModelImage> keyImageMasksTransform

keyImages

java.util.Hashtable<java.lang.String,ModelImage> keyImages

image vector to hold the actual images.

keyImagesCrop

java.util.Vector<ModelImage> keyImagesCrop

keyImagesScaleIntensity

java.util.Vector<ModelImage> keyImagesScaleIntensity

keyImagesTransform

java.util.Hashtable<java.lang.String,ModelImage> keyImagesTransform

keyImageVOIs

java.util.Vector<ModelImage> keyImageVOIs

voi vector to hold the actual vois.

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskImages

java.util.Hashtable<java.lang.String,ModelImage> maskImages

nameTable

java.util.Hashtable<java.lang.String,java.lang.String> nameTable

nameVOITable

java.util.Hashtable<java.lang.String,java.lang.String> nameVOITable

noCasesList

java.util.Vector<java.lang.String> noCasesList

List of patients need work. 2966L 3225L 6205L 6909R 9717L 9808R 3022L 8868R 5733L 8121L 8136L 9808L 7654R (wrong fem VOI, it's FAT GRE VOI) 2911L (miss patella) 5271R (miss femur) 4983L (miss femur) 5026L (miss femur,need work) 9808R (miss femur) 1959L (femur VOI wrong)

origTable

java.util.Hashtable<java.lang.String,java.lang.String> origTable

sagittal_index

int sagittal_index

sagittalList

java.util.Hashtable<java.lang.String,ModelImage> sagittalList

sagittalMaskList

java.util.Hashtable<java.lang.String,ModelImage> sagittalMaskList

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Package gov.nih.mipav.view.renderer.WildMagic.Navigation

Class gov.nih.mipav.view.renderer.WildMagic.Navigation.NavigationPicker extends WildMagic.LibGraphics.Collision.Picker implements Serializable

serialVersionUID:

-9171618026409224678L

Serialized Fields

m_fTMax

float m_fTMax

m_fTMin

float m_fTMin

m_kDirection

WildMagic.LibFoundation.Mathematics.Vector3f m_kDirection

m_kOrigin

WildMagic.LibFoundation.Mathematics.Vector3f m_kOrigin

Records

java.util.Vector<WildMagic.LibGraphics.Collision.PickRecord> Records

Picking records along the mouse click point.

Package gov.nih.mipav.view.renderer.WildMagic.ProstateFramework

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogAAMClassification extends JDialogBase implements Serializable

serialVersionUID:

-7360089445422224259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

axis region

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

Cropped image region.

boxYmin

int boxYmin

Cropped image region.

buttonImageTarget

javax.swing.JButton buttonImageTarget

buttonModel

javax.swing.JButton buttonModel

buttonPanel

javax.swing.JPanel buttonPanel

cropTargetImage

ModelImage cropTargetImage

endSlice

int endSlice

endSliceImageNames

java.util.Vector<java.lang.String> endSliceImageNames

endSliceImages

java.util.Vector<ModelImage> endSliceImages

endSliceRange

java.util.Vector<JDialogAAMClassification.Range> endSliceRange

endSliceRangeNames

java.util.Vector<java.lang.String> endSliceRangeNames

groupCropImages

java.util.Hashtable<java.lang.Integer,java.util.Vector<ModelImage>> groupCropImages

groupRefImages

java.util.Hashtable<java.lang.Integer,java.util.Vector<ModelImage>> groupRefImages

groupTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<JDialogAAMClassification.ModelString>> groupTable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

labelAxis

javax.swing.JLabel labelAxis

labelImageTarget

javax.swing.JLabel labelImageTarget

Target image directory.

labelModel

javax.swing.JLabel labelModel

key image directory.

mainPanel

javax.swing.JPanel mainPanel

markedVOI

java.util.Hashtable<java.lang.Integer,java.lang.Integer> markedVOI

model

C_AAMMODEL model

AAM model reference.

modelChooser

javax.swing.JFileChooser modelChooser

key images variables.

modelDirectory

java.lang.String modelDirectory

sampleImage

ModelImage sampleImage

shapeDescriptor

java.util.Vector<JDialogAAMClassification.ShapeFactor> shapeDescriptor

shapeVector

java.util.Vector<JDialogAAMClassification.PolygonShapeInfo> shapeVector

startSlice

int startSlice

statData

java.util.Vector<java.util.Vector<java.lang.Float>> statData

targetImage

ModelImage targetImage

targetImageChooser

javax.swing.JFileChooser targetImageChooser

target image variables.

targetImageDirectory

java.lang.String targetImageDirectory

targetImageName

java.lang.String targetImageName

textFieldImageTarget

javax.swing.JTextField textFieldImageTarget

textFieldModel

javax.swing.JTextField textFieldModel

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

Cropped region bounding.

yBounds

int[] yBounds

zBounds

int[] zBounds

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogAAMClassificationExt extends JDialogBase implements Serializable

serialVersionUID:

-7360089445422224259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

axis region

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

Cropped image region.

boxYmin

int boxYmin

Cropped image region.

buttonImageTarget

javax.swing.JButton buttonImageTarget

buttonModel

javax.swing.JButton buttonModel

buttonPanel

javax.swing.JPanel buttonPanel

cropTargetImage

ModelImage cropTargetImage

endSlice

int endSlice

endSliceImageNames

java.util.Vector<java.lang.String> endSliceImageNames

endSliceImages

java.util.Vector<ModelImage> endSliceImages

endSliceRange

java.util.Vector<JDialogAAMClassificationExt.Range> endSliceRange

endSliceRangeNames

java.util.Vector<java.lang.String> endSliceRangeNames

groupCropImages

java.util.Hashtable<java.lang.Integer,java.util.Vector<ModelImage>> groupCropImages

groupRefImages

java.util.Hashtable<java.lang.Integer,java.util.Vector<ModelImage>> groupRefImages

groupTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<JDialogAAMClassificationExt.ModelString>> groupTable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector

java.util.Vector<java.lang.String> keyImageVector

image vector to hold the image names.

labelAxis

javax.swing.JLabel labelAxis

labelImageTarget

javax.swing.JLabel labelImageTarget

Target image directory.

labelModel

javax.swing.JLabel labelModel

key image directory.

mainPanel

javax.swing.JPanel mainPanel

markedVOI

java.util.Hashtable<java.lang.Integer,java.lang.Integer> markedVOI

model

C_AAMMODEL model

AAM model reference.

modelChooser

javax.swing.JFileChooser modelChooser

key images variables.

modelDirectory

java.lang.String modelDirectory

sampleImage

ModelImage sampleImage

shapeDescriptor

java.util.Vector<JDialogAAMClassificationExt.ShapeFactor> shapeDescriptor

shapeVector

java.util.Vector<JDialogAAMClassificationExt.PolygonShapeInfo> shapeVector

startSlice

int startSlice

statData

java.util.Vector<java.util.Vector<java.lang.Float>> statData

targetImage

ModelImage targetImage

targetImageChooser

javax.swing.JFileChooser targetImageChooser

target image variables.

targetImageDirectory

java.lang.String targetImageDirectory

targetImageName

java.lang.String targetImageName

testImageDir

java.lang.String testImageDir

textFieldImageTarget

javax.swing.JTextField textFieldImageTarget

textFieldModel

javax.swing.JTextField textFieldModel

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

Cropped region bounding.

yBounds

int[] yBounds

zBounds

int[] zBounds

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogAAMplusSVM extends JDialogBase implements Serializable

serialVersionUID:

-7360089445452224259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

axis panel.

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

cropped image boundary info.

boxYmin

int boxYmin

cropped image boundary info.

buttonImageTarget

javax.swing.JButton buttonImageTarget

buttonModel

javax.swing.JButton buttonModel

buttonPanel

javax.swing.JPanel buttonPanel

buttonSVMModel

javax.swing.JButton buttonSVMModel

cropTargetImage

ModelImage cropTargetImage

endSlice

int endSlice

endSliceImageNames

java.util.Vector<java.lang.String> endSliceImageNames

Ending slice check references for apex and base.

endSliceImages

java.util.Vector<ModelImage> endSliceImages

endSliceRange

java.util.Vector<JDialogAAMplusSVM.Range> endSliceRange

endSliceRangeNames

java.util.Vector<java.lang.String> endSliceRangeNames

featureArray

Features[] featureArray

featureArraySVM

FeaturesSVM[] featureArraySVM

finalImage

ModelImage finalImage

groupCropImages

java.util.Hashtable<java.lang.Integer,java.util.Vector<ModelImage>> groupCropImages

groupRefImages

java.util.Hashtable<java.lang.Integer,java.util.Vector<ModelImage>> groupRefImages

groupTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<JDialogAAMplusSVM.ModelString>> groupTable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

image panel.

labelAxis

javax.swing.JLabel labelAxis

labelImageTarget

javax.swing.JLabel labelImageTarget

Target image directory.

labelModel

javax.swing.JLabel labelModel

key image directory.

labelSVMModel

javax.swing.JLabel labelSVMModel

mainPanel

javax.swing.JPanel mainPanel

markedVOI

java.util.Hashtable<java.lang.Integer,java.lang.Integer> markedVOI

VOI vector to fix the wrong segmentation contour after AAM segmentation.

model

C_AAMMODEL model

AAM model reference.

modelChooser

javax.swing.JFileChooser modelChooser

key images variables.

modelDirectory

java.lang.String modelDirectory

models

java.util.Hashtable<java.lang.Integer,java.util.Hashtable<java.lang.Integer,JDialogAAMplusSVM.ImageModel>> models

SVM model.

modelsSVM

java.util.Hashtable<java.lang.Integer,java.util.Hashtable<java.lang.Integer,JDialogAAMplusSVM.ImageModelSVM>> modelsSVM

SVM model vector.

modelStructure

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,JDialogAAMplusSVM.ImageAttribute>> modelStructure

SVM model vector.

sampleImage

ModelImage sampleImage

shapeDescriptor

java.util.Vector<JDialogAAMplusSVM.ShapeFactor> shapeDescriptor

shape descriptor vector of VOI contours after AAM segmentation.

sortModelStructure

java.util.Hashtable<java.lang.Integer,java.util.Hashtable<java.lang.String,JDialogAAMplusSVM.ImageAttribute>> sortModelStructure

SVM model vector after sorted by name.

startSlice

int startSlice

Current segmentation processing slice range, which is between silce 3 and 20. This constraint is imposed by the SVM training model. Due to the manual drawing the non-prostate regions for SVM training, the human guided training process is time consuming. Currently, we only train the SVM models from slice 3 to slice 20. Later, if we have time, we will apply to more slices.

statData

java.util.Vector<java.util.Vector<java.lang.Float>> statData

statistic data corresponding to marked VOI vector.

svmModelChooser

javax.swing.JFileChooser svmModelChooser

SVM model panel.

svmModelDirectory

java.lang.String svmModelDirectory

svmModelName

java.lang.String svmModelName

targetImage

ModelImage targetImage

target image references.

targetImageChooser

javax.swing.JFileChooser targetImageChooser

target image variables.

targetImageDirectory

java.lang.String targetImageDirectory

targetImageName

java.lang.String targetImageName

textFieldImageTarget

javax.swing.JTextField textFieldImageTarget

textFieldModel

javax.swing.JTextField textFieldModel

textFieldSVMModel

javax.swing.JTextField textFieldSVMModel

UI

ViewUserInterface UI

The main user interface.

voiNewFinal

VOI voiNewFinal

voiVectorNewFinal

VOIVector voiVectorNewFinal

xBounds

int[] xBounds

yBounds

int[] yBounds

zBounds

int[] zBounds

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogCopyFiles extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropImage

ModelImage cropImage

result cropped image.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageHashtable

java.util.Hashtable<java.lang.String,ModelImage> imageHashtable

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImageChooser

javax.swing.JFileChooser keyImageChooser

key images variables.

keyImageDirectory

java.lang.String keyImageDirectory

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

keyImageVector3

java.util.Vector<java.lang.String> keyImageVector3

keyImageVector4

java.util.Vector<java.lang.String> keyImageVector4

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

keyImageVOIVector2

java.util.Vector<java.lang.String> keyImageVOIVector2

keyImageVOIVector3

java.util.Vector<java.lang.String> keyImageVOIVector3

keyImageVOIVector4

java.util.Vector<java.lang.String> keyImageVOIVector4

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelAxis

javax.swing.JLabel labelAxis

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,VOI> voiHashtable

voiNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtable

voiNameHashtableNathan

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtableNathan

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogCreateProbMap64 extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropImage

ModelImage cropImage

result cropped image.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImageChooser

javax.swing.JFileChooser keyImageChooser

key images variables.

keyImageDirectory

java.lang.String keyImageDirectory

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector

java.util.Vector<java.lang.String> keyImageVector

image vector to hold the image names.

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector

java.util.Vector<java.lang.String> keyImageVOIVector

voi vector to hold the VOI names.

labelAxis

javax.swing.JLabel labelAxis

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

srcImage

ModelImage srcImage

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogCreateProbMapConvert extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropImage

ModelImage cropImage

result cropped image.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImageChooser

javax.swing.JFileChooser keyImageChooser

key images variables.

keyImageDirectory

java.lang.String keyImageDirectory

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector

java.util.Vector<java.lang.String> keyImageVector

image vector to hold the image names.

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector

java.util.Vector<java.lang.String> keyImageVOIVector

voi vector to hold the VOI names.

labelAxis

javax.swing.JLabel labelAxis

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

srcImage

ModelImage srcImage

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogGenerateEndingSlices extends JDialogBase implements Serializable

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

boxYmin

int boxYmin

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cropAlgo

AlgorithmAddMargins cropAlgo

DOCUMENT ME!

cropImage

ModelImage cropImage

DOCUMENT ME!

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

group

javax.swing.ButtonGroup group

image

ModelImage image

DOCUMENT ME!

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImageChooser

javax.swing.JFileChooser keyImageChooser

keyImageDirectory

java.lang.String keyImageDirectory

keyImageName

java.lang.String keyImageName

keyImages

java.util.Vector<ModelImage> keyImages

keyImageVector

java.util.Vector<java.lang.String> keyImageVector

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

keyImageVOIVector

java.util.Vector<java.lang.String> keyImageVOIVector

labelAxis

javax.swing.JLabel labelAxis

labelKeyImage

javax.swing.JLabel labelKeyImage

labelSaveImage

javax.swing.JLabel labelSaveImage

modelList

java.util.Vector<java.util.Vector<java.lang.String>> modelList

radioButtonSVMBinary

javax.swing.JRadioButton radioButtonSVMBinary

radioButtonSVMMulticlass

javax.swing.JRadioButton radioButtonSVMMulticlass

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

saveImageName

java.lang.String saveImageName

svmOptionsPanel

javax.swing.JPanel svmOptionsPanel

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

trainGroupPanel

javax.swing.JPanel trainGroupPanel

trainGroupTextfield

javax.swing.JTextField trainGroupTextfield

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

DOCUMENT ME!

yBounds

int[] yBounds

DOCUMENT ME!

zBounds

int[] zBounds

DOCUMENT ME!

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogLoadProstateMask extends JDialogBase implements Serializable

Serialized Fields

defaultPts

int defaultPts

elementNum

int elementNum

DOCUMENT ME!

groupNum

int groupNum

DOCUMENT ME!

idObjectsAlgo2D

AlgorithmMorphology2D idObjectsAlgo2D

image

ModelImage image

DOCUMENT ME!

max

float max

DOCUMENT ME!

min

float min

DOCUMENT ME!

originalBuffer

double[] originalBuffer

outputType

int outputType

Same data-type, binary, or unsigned byte mask.

particleAlgo2D

AlgorithmMorphology2D particleAlgo2D

smoothAlgo

AlgorithmBSmooth smoothAlgo

thresholdAlgo

AlgorithmThresholdDual thresholdAlgo

DOCUMENT ME!

trim

boolean trim

DOCUMENT ME!

UI

ViewUserInterface UI

The main user interface.

voiColor

java.awt.Color voiColor

DOCUMENT ME!

VOIs

ViewVOIVector VOIs

DOCUMENT ME!

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogPromise12_2DVolumetrieHED extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

axial_index

int axial_index

axialList

java.util.Vector<ModelImage> axialList

axialMaskList

java.util.Vector<ModelImage> axialMaskList

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTableAxial

java.util.Hashtable<java.lang.Integer,ModelImage> cedTableAxial

cedTableCoronal

java.util.Hashtable<java.lang.Integer,ModelImage> cedTableCoronal

cedTableSagittal

java.util.Hashtable<java.lang.Integer,ModelImage> cedTableSagittal

coronal_index

int coronal_index

coronalList

java.util.Vector<ModelImage> coronalList

coronalMaskList

java.util.Vector<ModelImage> coronalMaskList

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImagesMask

java.util.Vector<ModelImage> keyImagesMask

keyImagesN4Crop

java.util.Vector<ModelImage> keyImagesN4Crop

keyImagesScaleIntensity

java.util.Vector<ModelImage> keyImagesScaleIntensity

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

sagittal_index

int sagittal_index

sagittalList

java.util.Vector<ModelImage> sagittalList

sagittalMaskList

java.util.Vector<ModelImage> sagittalMaskList

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogPromise12_2DVolumetrieHED_map extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

axialList

java.util.Vector<ModelImage> axialList

axis

int axis

axisList

javax.swing.JComboBox axisList

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

coronalList

java.util.Vector<ModelImage> coronalList

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropImage

ModelImage cropImage

result cropped image.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageHashtable

java.util.Hashtable<java.lang.Integer,ModelImage> imageHashtable

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> imageTable

keyImageChooser

javax.swing.JFileChooser keyImageChooser

key images variables.

keyImageDirectory

java.lang.String keyImageDirectory

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

keyImageVector3

java.util.Vector<java.lang.String> keyImageVector3

keyImageVector4

java.util.Vector<java.lang.String> keyImageVector4

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

keyImageVOIVector2

java.util.Vector<java.lang.String> keyImageVOIVector2

keyImageVOIVector3

java.util.Vector<java.lang.String> keyImageVOIVector3

keyImageVOIVector4

java.util.Vector<java.lang.String> keyImageVOIVector4

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelAxis

javax.swing.JLabel labelAxis

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskImageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> maskImageTable

maskTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<ModelImage>> maskTable

newImageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> newImageTable

sagittalList

java.util.Vector<ModelImage> sagittalList

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,VOI> voiHashtable

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogPromise12_mhg_to_nii extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImagesCrop

java.util.Vector<ModelImage> keyImagesCrop

keyImagesMask

java.util.Vector<ModelImage> keyImagesMask

keyImagesScaleIntensity

java.util.Vector<ModelImage> keyImagesScaleIntensity

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogPromise12ConvertMask extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImagesN4

java.util.Vector<ModelImage> keyImagesN4

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

keyImageVOIs

java.util.Vector<ModelImage> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIsTransformN4

java.util.Vector<ModelImage> keyImageVOIsTransformN4

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogPromise12ConvertRestoOnePointFiveTest extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImagesTransform

java.util.Vector<ModelImage> keyImagesTransform

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

keyImageVOIs

java.util.Vector<ModelImage> keyImageVOIs

voi vector to hold the actual vois.

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogPromise12ConvertRestoOnePointFiveTrain extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImagesN4

java.util.Vector<ModelImage> keyImagesN4

keyImagesN4Transform

java.util.Vector<ModelImage> keyImagesN4Transform

keyImagesTransform

java.util.Vector<ModelImage> keyImagesTransform

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogPromise12CropAndNormalizeTest extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImagesScaleIntensity

java.util.Vector<ModelImage> keyImagesScaleIntensity

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogPromise12CropAndNormalizeTrain extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImagesCrop

java.util.Vector<ModelImage> keyImagesCrop

keyImagesN4

java.util.Vector<ModelImage> keyImagesN4

keyImagesN4Crop

java.util.Vector<ModelImage> keyImagesN4Crop

keyImagesScaleIntensity

java.util.Vector<ModelImage> keyImagesScaleIntensity

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogPromise12NIHDataToNii extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

axial_index

int axial_index

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTableAxial

java.util.Hashtable<java.lang.String,ModelImage> cedTableAxial

cedTableCoronal

java.util.Hashtable<java.lang.String,ModelImage> cedTableCoronal

cedTableSagittal

java.util.Hashtable<java.lang.String,ModelImage> cedTableSagittal

coronal_index

int coronal_index

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Hashtable<java.lang.String,ModelImage> keyImages

image vector to hold the actual images.

keyImagesOrientation

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientation

keyImagesOrientationCED

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientationCED

keyImagesOrientationMask

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientationMask

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

nameTable

java.util.Hashtable<java.lang.String,java.lang.String> nameTable

nameTableImages

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImages

nameTableImagesCED

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImagesCED

nameTableImagesMask

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImagesMask

nameVOITable

java.util.Hashtable<java.lang.String,java.lang.String> nameVOITable

origTable

java.util.Hashtable<java.lang.String,java.lang.String> origTable

sagittal_index

int sagittal_index

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogPromise12Train3DCnns extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

count

int count

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImagesCrop

java.util.Vector<ModelImage> keyImagesCrop

keyImagesMask

java.util.Vector<ModelImage> keyImagesMask

keyImagesScaleIntensity

java.util.Vector<ModelImage> keyImagesScaleIntensity

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

xRandom

RandomNumberGen xRandom

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogPromise12Train3DCnnsSmall extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

count

int count

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImagesCrop

java.util.Vector<ModelImage> keyImagesCrop

keyImagesMask

java.util.Vector<ModelImage> keyImagesMask

keyImagesScaleIntensity

java.util.Vector<ModelImage> keyImagesScaleIntensity

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

xRandom

RandomNumberGen xRandom

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DHEDmap extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropImage

ModelImage cropImage

result cropped image.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> imageTable

keyImageChooser

javax.swing.JFileChooser keyImageChooser

key images variables.

keyImageDirectory

java.lang.String keyImageDirectory

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

keyImageVector3

java.util.Vector<java.lang.String> keyImageVector3

keyImageVector4

java.util.Vector<java.lang.String> keyImageVector4

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

keyImageVOIVector2

java.util.Vector<java.lang.String> keyImageVOIVector2

keyImageVOIVector3

java.util.Vector<java.lang.String> keyImageVOIVector3

keyImageVOIVector4

java.util.Vector<java.lang.String> keyImageVOIVector4

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelAxis

javax.swing.JLabel labelAxis

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<ModelImage>> maskTable

newImageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> newImageTable

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DHEDmapCg extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropImage

ModelImage cropImage

result cropped image.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageHashtable

java.util.Hashtable<java.lang.String,ModelImage> imageHashtable

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageTable

keyImageChooser

javax.swing.JFileChooser keyImageChooser

key images variables.

keyImageDirectory

java.lang.String keyImageDirectory

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

keyImageVector3

java.util.Vector<java.lang.String> keyImageVector3

keyImageVector4

java.util.Vector<java.lang.String> keyImageVector4

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

keyImageVOIVector2

java.util.Vector<java.lang.String> keyImageVOIVector2

keyImageVOIVector3

java.util.Vector<java.lang.String> keyImageVOIVector3

keyImageVOIVector4

java.util.Vector<java.lang.String> keyImageVOIVector4

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelAxis

javax.swing.JLabel labelAxis

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskImageTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> maskImageTable

maskTable

java.util.Hashtable<java.lang.String,java.util.Vector<ModelImage>> maskTable

newImageTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> newImageTable

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,VOI> voiHashtable

voiNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtable

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DHEDmapMICCAI extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

imageHashtable

java.util.Hashtable<java.lang.Integer,ModelImage> imageHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> imageTable

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskImageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> maskImageTable

maskTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<ModelImage>> maskTable

newImageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> newImageTable

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,VOI> voiHashtable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DHEDmapMICCAI_ced_scale extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

imageHashtable

java.util.Hashtable<java.lang.Integer,ModelImage> imageHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> imageTable

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskImageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> maskImageTable

maskTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<ModelImage>> maskTable

newImageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> newImageTable

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,VOI> voiHashtable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DHEDmapMICCAI_conversion extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

imageHashtable

java.util.Hashtable<java.lang.Integer,ModelImage> imageHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> imageTable

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskImageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> maskImageTable

maskTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<ModelImage>> maskTable

newImageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> newImageTable

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,VOI> voiHashtable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DHEDmapSPIE_2017 extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

imageHashtable

java.util.Hashtable<java.lang.Integer,ModelImage> imageHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> imageTable

keyImageVectorMap

java.util.Vector<java.lang.String> keyImageVectorMap

keyImageVectorOrigImg

java.util.Vector<java.lang.String> keyImageVectorOrigImg

keyImageVOIVectorMap

java.util.Vector<java.lang.String> keyImageVOIVectorMap

keyImageVOIVectorOrigImg

java.util.Vector<java.lang.String> keyImageVOIVectorOrigImg

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskImageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> maskImageTable

maskTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<ModelImage>> maskTable

newImageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> newImageTable

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,VOI> voiHashtable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasConverter extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropImage

ModelImage cropImage

result cropped image.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImageChooser

javax.swing.JFileChooser keyImageChooser

key images variables.

keyImageDirectory

java.lang.String keyImageDirectory

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector

java.util.Vector<java.lang.String> keyImageVector

image vector to hold the image names.

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector

java.util.Vector<java.lang.String> keyImageVOIVector

voi vector to hold the VOI names.

labelAxis

javax.swing.JLabel labelAxis

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasCopyGTstl extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

origImageTableName

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>> origImageTableName

origVOITableName

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>> origVOITableName

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

srcImageTable

java.util.Hashtable<java.lang.String,java.util.Vector<ModelImage>> srcImageTable

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiNameHashtable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>> voiNameHashtable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverter extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropImage

ModelImage cropImage

result cropped image.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImageChooser

javax.swing.JFileChooser keyImageChooser

key images variables.

keyImageDirectory

java.lang.String keyImageDirectory

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

keyImageVector3

java.util.Vector<java.lang.String> keyImageVector3

keyImageVector4

java.util.Vector<java.lang.String> keyImageVector4

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

keyImageVOIVector2

java.util.Vector<java.lang.String> keyImageVOIVector2

keyImageVOIVector3

java.util.Vector<java.lang.String> keyImageVOIVector3

keyImageVOIVector4

java.util.Vector<java.lang.String> keyImageVOIVector4

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelAxis

javax.swing.JLabel labelAxis

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverter_JMI extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> cedTable_ext

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropImage

ModelImage cropImage

result cropped image.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

cropTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> cropTable_ext

cropVoiTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> cropVoiTable_ext

imageHashtableCg_ext

java.util.Hashtable<java.lang.Integer,ModelImage> imageHashtableCg_ext

imageHashtableWp_ext

java.util.Hashtable<java.lang.Integer,ModelImage> imageHashtableWp_ext

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImageChooser

javax.swing.JFileChooser keyImageChooser

key images variables.

keyImageDirectory

java.lang.String keyImageDirectory

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

keyImageVector3

java.util.Vector<java.lang.String> keyImageVector3

keyImageVector4

java.util.Vector<java.lang.String> keyImageVector4

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

keyImageVOIVector2

java.util.Vector<java.lang.String> keyImageVOIVector2

keyImageVOIVector3

java.util.Vector<java.lang.String> keyImageVOIVector3

keyImageVOIVector4

java.util.Vector<java.lang.String> keyImageVOIVector4

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelAxis

javax.swing.JLabel labelAxis

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

scaleCedTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> scaleCedTable_ext

scaleImageTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> scaleImageTable_ext

scaleIntensityTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> scaleIntensityTable_ext

scaleVoiTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> scaleVoiTable_ext

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> voiTable_ext

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverter3DSurface extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

dicomTable

java.util.Hashtable<java.lang.String,java.lang.Integer> dicomTable

imageHashtable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,ModelImage>> imageHashtable

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

origImageTable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,ModelImage>> origImageTable

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

srcImageTable

java.util.Hashtable<java.lang.String,java.util.Vector<ModelImage>> srcImageTable

srcVOITable

java.util.Hashtable<java.lang.String,java.util.Vector<VOI>> srcVOITable

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<VOI>> voiHashtable

voiNameHashtable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>> voiNameHashtable

voiTable

java.util.Hashtable<java.lang.String,java.lang.Integer> voiTable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverter3DSurfaceEdgeMap extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

imageHashtableExtra

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,ModelImage>> imageHashtableExtra

imageNameHashtableExtra

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>>> imageNameHashtableExtra

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageTable

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskImageTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> maskImageTable

maskTable

java.util.Hashtable<java.lang.String,java.util.Vector<ModelImage>> maskTable

newImageTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> newImageTable

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverter3DSurfaceEdgeMapGT extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageTable

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskImageTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> maskImageTable

maskTable

java.util.Hashtable<java.lang.String,java.util.Vector<ModelImage>> maskTable

origImageTable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,ModelImage>> origImageTable

origImageTableName

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>> origImageTableName

origVOITableName

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>> origVOITableName

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverter3DSurfaceEnergyMap extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

dicomTable

java.util.Hashtable<java.lang.String,java.lang.Integer> dicomTable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageTable

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskImageTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> maskImageTable

maskTable

java.util.Hashtable<java.lang.String,java.util.Vector<ModelImage>> maskTable

origImageTable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,ModelImage>> origImageTable

origImageTableName

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>> origImageTableName

origVOITableName

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>> origVOITableName

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiTable

java.util.Hashtable<java.lang.String,java.lang.Integer> voiTable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverter3DSurfaceTest extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropImage

ModelImage cropImage

result cropped image.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

dicomTable

java.util.Hashtable<java.lang.String,java.lang.Integer> dicomTable

imageHashtable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,ModelImage>> imageHashtable

imageHashtableExtra

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,ModelImage>> imageHashtableExtra

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>>> imageNameHashtable

imageNameHashtableExtra

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>>> imageNameHashtableExtra

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImageChooser

javax.swing.JFileChooser keyImageChooser

key images variables.

keyImageDirectory

java.lang.String keyImageDirectory

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

keyImageVector3

java.util.Vector<java.lang.String> keyImageVector3

keyImageVector4

java.util.Vector<java.lang.String> keyImageVector4

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

keyImageVOIVector2

java.util.Vector<java.lang.String> keyImageVOIVector2

keyImageVOIVector3

java.util.Vector<java.lang.String> keyImageVOIVector3

keyImageVOIVector4

java.util.Vector<java.lang.String> keyImageVOIVector4

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelAxis

javax.swing.JLabel labelAxis

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

origImageTable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,ModelImage>> origImageTable

origImageTableName

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>> origImageTableName

origVOITableName

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>> origVOITableName

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

srcImageTable

java.util.Hashtable<java.lang.String,java.util.Vector<ModelImage>> srcImageTable

srcVOITable

java.util.Hashtable<java.lang.String,java.util.Vector<VOI>> srcVOITable

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<VOI>> voiHashtable

voiNameHashtable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>> voiNameHashtable

voiTable

java.util.Hashtable<java.lang.String,java.lang.Integer> voiTable

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverter3DSurfaceTrainAndTest extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageHashtableExtra

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,ModelImage>> imageHashtableExtra

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>>> imageNameHashtable

imageNameHashtableExtra

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>>> imageNameHashtableExtra

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

keyImageVector3

java.util.Vector<java.lang.String> keyImageVector3

keyImageVector4

java.util.Vector<java.lang.String> keyImageVector4

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

keyImageVOIVector2

java.util.Vector<java.lang.String> keyImageVOIVector2

keyImageVOIVector3

java.util.Vector<java.lang.String> keyImageVOIVector3

keyImageVOIVector4

java.util.Vector<java.lang.String> keyImageVOIVector4

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

origImageTable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,ModelImage>> origImageTable

origImageTableName

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>> origImageTableName

origVOITableName

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>> origVOITableName

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

srcImageTable

java.util.Hashtable<java.lang.String,java.util.Vector<ModelImage>> srcImageTable

srcVOITable

java.util.Hashtable<java.lang.String,java.util.Vector<VOI>> srcVOITable

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiNameHashtable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>> voiNameHashtable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverterCentralGland extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

imageHashtable

java.util.Hashtable<java.lang.String,ModelImage> imageHashtable

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,VOI> voiHashtable

voiNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverterCentralGland_CED_scale extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

axis

int axis

axisList

javax.swing.JComboBox axisList

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTable

java.util.Hashtable<java.lang.String,ModelImage> cedTable

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropImage

ModelImage cropImage

result cropped image.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageHashtable

java.util.Hashtable<java.lang.String,ModelImage> imageHashtable

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImageChooser

javax.swing.JFileChooser keyImageChooser

key images variables.

keyImageDirectory

java.lang.String keyImageDirectory

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

keyImageVector3

java.util.Vector<java.lang.String> keyImageVector3

keyImageVector4

java.util.Vector<java.lang.String> keyImageVector4

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

keyImageVOIVector2

java.util.Vector<java.lang.String> keyImageVOIVector2

keyImageVOIVector3

java.util.Vector<java.lang.String> keyImageVOIVector3

keyImageVOIVector4

java.util.Vector<java.lang.String> keyImageVOIVector4

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelAxis

javax.swing.JLabel labelAxis

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

scaleCedTable

java.util.Hashtable<java.lang.String,ModelImage> scaleCedTable

scaleImageTable

java.util.Hashtable<java.lang.String,ModelImage> scaleImageTable

scaleVoiTable

java.util.Hashtable<java.lang.String,ModelImage> scaleVoiTable

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,VOI> voiHashtable

voiNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtable

voiTable

java.util.Hashtable<java.lang.String,ModelImage> voiTable

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverterCentralGland_CED_scale_boundary_test extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTable

java.util.Hashtable<java.lang.String,ModelImage> cedTable

imageHashtable

java.util.Hashtable<java.lang.String,ModelImage> imageHashtable

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

scaleCedTable

java.util.Hashtable<java.lang.String,ModelImage> scaleCedTable

scaleImageTable

java.util.Hashtable<java.lang.String,ModelImage> scaleImageTable

scaleVoiTable

java.util.Hashtable<java.lang.String,ModelImage> scaleVoiTable

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtable

voiTable

java.util.Hashtable<java.lang.String,ModelImage> voiTable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverterCentralGland_CED_scale_boundary_train extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTable

java.util.Hashtable<java.lang.String,ModelImage> cedTable

imageHashtable

java.util.Hashtable<java.lang.String,ModelImage> imageHashtable

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

scaleCedTable

java.util.Hashtable<java.lang.String,ModelImage> scaleCedTable

scaleImageTable

java.util.Hashtable<java.lang.String,ModelImage> scaleImageTable

scaleVoiTable

java.util.Hashtable<java.lang.String,ModelImage> scaleVoiTable

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,VOI> voiHashtable

voiNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtable

voiTable

java.util.Hashtable<java.lang.String,ModelImage> voiTable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverterCentralGland_CED_scale_test extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTable

java.util.Hashtable<java.lang.String,ModelImage> cedTable

imageHashtable

java.util.Hashtable<java.lang.String,ModelImage> imageHashtable

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

scaleCedTable

java.util.Hashtable<java.lang.String,ModelImage> scaleCedTable

scaleImageTable

java.util.Hashtable<java.lang.String,ModelImage> scaleImageTable

scaleVoiTable

java.util.Hashtable<java.lang.String,ModelImage> scaleVoiTable

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,VOI> voiHashtable

voiNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtable

voiTable

java.util.Hashtable<java.lang.String,ModelImage> voiTable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverterCentralGland_CED_scale_train extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTable

java.util.Hashtable<java.lang.String,ModelImage> cedTable

imageHashtable

java.util.Hashtable<java.lang.String,ModelImage> imageHashtable

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

scaleCedTable

java.util.Hashtable<java.lang.String,ModelImage> scaleCedTable

scaleImageTable

java.util.Hashtable<java.lang.String,ModelImage> scaleImageTable

scaleVoiTable

java.util.Hashtable<java.lang.String,ModelImage> scaleVoiTable

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,VOI> voiHashtable

voiNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtable

voiTable

java.util.Hashtable<java.lang.String,ModelImage> voiTable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverterCentralGland_miccai extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedHashtable

java.util.Hashtable<java.lang.String,ModelImage> cedHashtable

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageHashtable

java.util.Hashtable<java.lang.String,ModelImage> imageHashtable

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,VOI> voiHashtable

voiNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtable

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverterMICCAI extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVOIs

java.util.Vector<ModelImage> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverterMICCAI_boundary_ced_scale extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedImages

java.util.Vector<ModelImage> cedImages

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVOIs

java.util.Vector<ModelImage> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskVOIImages

java.util.Vector<ModelImage> maskVOIImages

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

transCEDImages

java.util.Vector<ModelImage> transCEDImages

transKeyImages

java.util.Vector<ModelImage> transKeyImages

transVOIImages

java.util.Vector<ModelImage> transVOIImages

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverterMICCAI_boundary_ced_scale_test extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedImages

java.util.Vector<ModelImage> cedImages

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVOIs

java.util.Vector<ModelImage> keyImageVOIs

voi vector to hold the actual vois.

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskVOIImages

java.util.Vector<ModelImage> maskVOIImages

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

transCEDImages

java.util.Vector<ModelImage> transCEDImages

transKeyImages

java.util.Vector<ModelImage> transKeyImages

transVOIImages

java.util.Vector<ModelImage> transVOIImages

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverterMICCAI_ced_scale extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedImages

java.util.Vector<ModelImage> cedImages

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVOIs

java.util.Vector<ModelImage> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

transCEDImages

java.util.Vector<ModelImage> transCEDImages

transKeyImages

java.util.Vector<ModelImage> transKeyImages

transVOIImages

java.util.Vector<ModelImage> transVOIImages

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverterMICCAI_ced_scale_test extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedImages

java.util.Vector<ModelImage> cedImages

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

transCEDImages

java.util.Vector<ModelImage> transCEDImages

transKeyImages

java.util.Vector<ModelImage> transKeyImages

transVOIImages

java.util.Vector<ModelImage> transVOIImages

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverterMICCAI_ced_scale_train extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedImages

java.util.Vector<ModelImage> cedImages

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVOIs

java.util.Vector<ModelImage> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

transCEDImages

java.util.Vector<ModelImage> transCEDImages

transKeyImages

java.util.Vector<ModelImage> transKeyImages

transVOIImages

java.util.Vector<ModelImage> transVOIImages

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverterMICCAI_conversion extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedImages

java.util.Vector<ModelImage> cedImages

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVOIs

java.util.Vector<ModelImage> keyImageVOIs

voi vector to hold the actual vois.

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverterTest extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropImage

ModelImage cropImage

result cropped image.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

keyImageVector3

java.util.Vector<java.lang.String> keyImageVector3

keyImageVector4

java.util.Vector<java.lang.String> keyImageVector4

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

keyImageVOIVector2

java.util.Vector<java.lang.String> keyImageVOIVector2

keyImageVOIVector3

java.util.Vector<java.lang.String> keyImageVOIVector3

keyImageVOIVector4

java.util.Vector<java.lang.String> keyImageVOIVector4

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverterTest_JMI extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> cedTable_ext

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

cropTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> cropTable_ext

cropVoiTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> cropVoiTable_ext

imageHashtableCg_ext

java.util.Hashtable<java.lang.Integer,ModelImage> imageHashtableCg_ext

imageHashtableWp_ext

java.util.Hashtable<java.lang.Integer,ModelImage> imageHashtableWp_ext

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

keyImageVector3

java.util.Vector<java.lang.String> keyImageVector3

keyImageVector4

java.util.Vector<java.lang.String> keyImageVector4

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

keyImageVOIVector2

java.util.Vector<java.lang.String> keyImageVOIVector2

keyImageVOIVector3

java.util.Vector<java.lang.String> keyImageVOIVector3

keyImageVOIVector4

java.util.Vector<java.lang.String> keyImageVOIVector4

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

scaleCedTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> scaleCedTable_ext

scaleImageTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> scaleImageTable_ext

scaleIntensityTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> scaleIntensityTable_ext

scaleVoiTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> scaleVoiTable_ext

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> voiTable_ext

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverterTrain extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropImage

ModelImage cropImage

result cropped image.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

keyImageVector3

java.util.Vector<java.lang.String> keyImageVector3

keyImageVector4

java.util.Vector<java.lang.String> keyImageVector4

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

keyImageVOIVector2

java.util.Vector<java.lang.String> keyImageVOIVector2

keyImageVOIVector3

java.util.Vector<java.lang.String> keyImageVOIVector3

keyImageVOIVector4

java.util.Vector<java.lang.String> keyImageVOIVector4

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverterTrain_JMI extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

boxYmin

int boxYmin

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> cedTable_ext

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

cropTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> cropTable_ext

cropVoiTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> cropVoiTable_ext

imageHashtableCg_ext

java.util.Hashtable<java.lang.Integer,ModelImage> imageHashtableCg_ext

imageHashtableWp_ext

java.util.Hashtable<java.lang.Integer,ModelImage> imageHashtableWp_ext

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

keyImageVector3

java.util.Vector<java.lang.String> keyImageVector3

keyImageVector4

java.util.Vector<java.lang.String> keyImageVector4

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

keyImageVOIVector2

java.util.Vector<java.lang.String> keyImageVOIVector2

keyImageVOIVector3

java.util.Vector<java.lang.String> keyImageVOIVector3

keyImageVOIVector4

java.util.Vector<java.lang.String> keyImageVOIVector4

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

scaleCedTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> scaleCedTable_ext

scaleImageTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> scaleImageTable_ext

scaleIntensityTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> scaleIntensityTable_ext

scaleVoiTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> scaleVoiTable_ext

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiTable_ext

java.util.Hashtable<java.lang.Integer,ModelImage> voiTable_ext

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesPngTextFileConverter extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

saved 2D slices atlas dir.

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesPngTextFileConverterCentralGland extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesPngTextFileConverterMICCAI extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesPngTextFileConverterTest extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> imageTable

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

maskTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<ModelImage>> maskTable

newImageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> newImageTable

newVOITable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> newVOITable

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

saved 2D slices atlas dir.

UI

ViewUserInterface UI

The main user interface.

voiTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> voiTable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesPngTextFileConverterTestCentralGland extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

imageTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageTable

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

maskTable

java.util.Hashtable<java.lang.String,java.util.Vector<ModelImage>> maskTable

newImageTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> newImageTable

newVOITable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> newVOITable

voiTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiTable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DSlicesReconstrucion extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

dicomTable

java.util.Hashtable<java.lang.String,java.lang.Integer> dicomTable

imageHashtable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,ModelImage>> imageHashtable

imageHashtableExtra

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,ModelImage>> imageHashtableExtra

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>>> imageNameHashtable

imageNameHashtableExtra

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>>> imageNameHashtableExtra

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageTable

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskImageTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> maskImageTable

maskTable

java.util.Hashtable<java.lang.String,java.util.Vector<ModelImage>> maskTable

newImageTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> newImageTable

origImageTable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,ModelImage>> origImageTable

origImageTableName

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>> origImageTableName

origVOITableName

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>> origVOITableName

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

srcImageTable

java.util.Hashtable<java.lang.String,java.util.Vector<ModelImage>> srcImageTable

srcVOITable

java.util.Hashtable<java.lang.String,java.util.Vector<VOI>> srcVOITable

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<VOI>> voiHashtable

voiNameHashtable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>> voiNameHashtable

voiTable

java.util.Hashtable<java.lang.String,java.lang.Integer> voiTable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate2DVolumetricHEDMiccaiProstate12 extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstate3DReconstruction extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageTable

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskImageTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> maskImageTable

maskTable

java.util.Hashtable<java.lang.String,java.util.Vector<ModelImage>> maskTable

newImageTable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> newImageTable

origImageTable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,ModelImage>> origImageTable

origImageTableName

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>> origImageTableName

origVOITableName

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>> origVOITableName

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateBoundaryFeatureTrain extends JDialogScriptableBase implements Serializable

Serialized Fields

buttonModelFileName

javax.swing.JButton buttonModelFileName

buttonTrainFileName

javax.swing.JButton buttonTrainFileName

featuresTrainingPanel

javax.swing.JPanel featuresTrainingPanel

group

javax.swing.ButtonGroup group

modelFileDirAbs

java.lang.String modelFileDirAbs

modelFileName

java.lang.String modelFileName

modelFilePanel

javax.swing.JPanel modelFilePanel

radioButtonSVMBinary

javax.swing.JRadioButton radioButtonSVMBinary

radioButtonSVMMulticlass

javax.swing.JRadioButton radioButtonSVMMulticlass

svmOptionsPanel

javax.swing.JPanel svmOptionsPanel

svmTrainingBinary

boolean svmTrainingBinary

textModelFileName

javax.swing.JTextField textModelFileName

textTrainFileName

javax.swing.JTextField textTrainFileName

trainFileDirAbs

java.lang.String trainFileDirAbs

trainFileName

java.lang.String trainFileName

trainFilePanel

javax.swing.JPanel trainFilePanel

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateCheckPngFile extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropImage

ModelImage cropImage

result cropped image.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

globalCounter

int globalCounter

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImageChooser

javax.swing.JFileChooser keyImageChooser

key images variables.

keyImageDirectory

java.lang.String keyImageDirectory

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector

java.util.Vector<java.lang.String> keyImageVector

image vector to hold the image names.

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector

java.util.Vector<java.lang.String> keyImageVOIVector

voi vector to hold the VOI names.

keyImageVOIVectorAAM

java.util.Vector<java.lang.String> keyImageVOIVectorAAM

labelAxis

javax.swing.JLabel labelAxis

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

table1

java.util.Hashtable<java.lang.Integer,JDialogProstateCheckPngFile.ImageAttributes> table1

table2

java.util.Hashtable<java.lang.Integer,JDialogProstateCheckPngFile.ImageAttributes> table2

table3

java.util.Hashtable<java.lang.Integer,JDialogProstateCheckPngFile.ImageAttributes> table3

table4

java.util.Hashtable<java.lang.Integer,JDialogProstateCheckPngFile.ImageAttributes> table4

table5

java.util.Hashtable<java.lang.Integer,JDialogProstateCheckPngFile.ImageAttributes> table5

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateEvaluationSegmentation extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

fileNameTable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>>> fileNameTable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateEvaluationSegmentation_jmi extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

aam_Table

java.util.Hashtable<java.lang.Integer,java.lang.String> aam_Table

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

ced_Table

java.util.Hashtable<java.lang.Integer,java.lang.String> ced_Table

fileNameTable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>>> fileNameTable

gtTable

java.util.Hashtable<java.lang.Integer,java.lang.String> gtTable

hed_Table

java.util.Hashtable<java.lang.Integer,java.lang.String> hed_Table

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateExtractCEFeature extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194239L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

axis region.

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

cropped image boundary.

boxYmin

int boxYmin

cropped image boundary.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

coherenceEnhancingDiffusionFilter

boolean coherenceEnhancingDiffusionFilter

Coherence Enhancing Diffusion filter.

cropAlgo

AlgorithmAddMargins cropAlgo

crop image algorithm

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image, crop from 512x512 to central prostate gland region.

cropKeyImagesCE

java.util.Vector<java.util.Vector<ModelImage>> cropKeyImagesCE

cropped CE image vector.

gaborFilter

boolean gaborFilter

gabor filter.

gaussianFilter

boolean gaussianFilter

gussian filter.

gmFilter

boolean gmFilter

gradient magnitude filter.

haralickFeatureNumber

int haralickFeatureNumber

Haralick feature numbers.

haralickFilter

boolean haralickFilter

haralick filter.

hurstFilter

boolean hurstFilter

Hurst index.

IHN3CorrectionFilter

boolean IHN3CorrectionFilter

Inhomogeneity N3 correction.

imageIntensityFilter

boolean imageIntensityFilter

image intensity.

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

2D slices image selection panel.

invertFilter

boolean invertFilter

Haralick invert filter.

keyImageChooser

javax.swing.JFileChooser keyImageChooser

2D slice images file chooser.

keyImageDirectory

java.lang.String keyImageDirectory

2D slices image directory.

keyImages

java.util.Vector<ModelImage> keyImages

key images vector.

keyImageVector

java.util.Vector<java.lang.String> keyImageVector

key images names vector.

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

key image VOIs vector.

keyImageVOIVector

java.util.Vector<java.lang.String> keyImageVOIVector

key image VOI names vector.

labelAxis

javax.swing.JLabel labelAxis

labelKeyImage

javax.swing.JLabel labelKeyImage

2D Slices key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

Save features directory.

meanFilter

boolean meanFilter

Haralick mean filter.

medianFilter

boolean medianFilter

Haralick median filter.

modeFilter

boolean modeFilter

Haralick mode filter.

numberFeatures

int numberFeatures

number features being saved.

radioButtonSVMBinary

javax.swing.JRadioButton radioButtonSVMBinary

SVM option button.

radioButtonSVMMulticlass

javax.swing.JRadioButton radioButtonSVMMulticlass

regisotropicDiffusionFilter

boolean regisotropicDiffusionFilter

Anisotropic Diffusion filter.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

Saved features directory.

saveImageDirectory

java.lang.String saveImageDirectory

svmTrainingBinary

boolean svmTrainingBinary

flag to indicate is SVM training with binary class or multi-class.

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

textureAlgo

AlgorithmProstateFeaturesSaveAutoTrain textureAlgo

Algorithm to save Hurst index and Haralick features.

UI

ViewUserInterface UI

The main user interface.

waveletFeatureNumber

int waveletFeatureNumber

wavelet feature number.

waveletFilter

boolean waveletFilter

Wavelet filter.

xBounds

int[] xBounds

x dimension bounds

yBounds

int[] yBounds

y dimension bound

zBounds

int[] zBounds

z dimension bound

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateFeaturesClassification extends JDialogScriptableBase implements Serializable

Serialized Fields

buttonModelFileName

javax.swing.JButton buttonModelFileName

buttonOutputFileName

javax.swing.JButton buttonOutputFileName

buttonTrainFileName

javax.swing.JButton buttonTrainFileName

modelFileDirAbs

java.lang.String modelFileDirAbs

modelFileName

java.lang.String modelFileName

modelFilePanel

javax.swing.JPanel modelFilePanel

outputFileDirAbs

java.lang.String outputFileDirAbs

outputFileName

java.lang.String outputFileName

outputFilePanel

javax.swing.JPanel outputFilePanel

textModelFileName

javax.swing.JTextField textModelFileName

textOutputFileName

javax.swing.JTextField textOutputFileName

textTrainFileName

javax.swing.JTextField textTrainFileName

trainFileDirAbs

java.lang.String trainFileDirAbs

trainFileName

java.lang.String trainFileName

trainFilePanel

javax.swing.JPanel trainFilePanel

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateFeaturesTrain extends JDialogScriptableBase implements Serializable

Serialized Fields

buttonModelFileName

javax.swing.JButton buttonModelFileName

buttonTrainFileName

javax.swing.JButton buttonTrainFileName

modelFileDirAbs

java.lang.String modelFileDirAbs

modelFileName

java.lang.String modelFileName

modelFilePanel

javax.swing.JPanel modelFilePanel

textModelFileName

javax.swing.JTextField textModelFileName

textTrainFileName

javax.swing.JTextField textTrainFileName

trainFileDirAbs

java.lang.String trainFileDirAbs

trainFileName

java.lang.String trainFileName

trainFilePanel

javax.swing.JPanel trainFilePanel

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateImageCategorize extends JDialogBase implements Serializable

serialVersionUID:

-7360089445412224259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

axis region

buttonGroup

javax.swing.JButton buttonGroup

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonPanel

javax.swing.JPanel buttonPanel

groupChooser

javax.swing.JFileChooser groupChooser

group variables.

groupDirectory

java.lang.String groupDirectory

groupIndex

int groupIndex

group index.

groupName

java.lang.String groupName

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageVector

java.util.Vector<java.lang.String> imageVector

image and voi string vector.

imageVOIs

java.util.Vector<VOI[]> imageVOIs

VOI vector.

keyImageChooser

javax.swing.JFileChooser keyImageChooser

key images variables.

keyImageDirectory

java.lang.String keyImageDirectory

keyImageName

java.lang.String keyImageName

labelAxis

javax.swing.JLabel labelAxis

labelGroup

javax.swing.JLabel labelGroup

Save group directory.

labelKeyImage

javax.swing.JLabel labelKeyImage

Key image related variables.

sliceImages

java.util.Vector<ModelImage> sliceImages

image vector.

textFieldGroup

javax.swing.JTextField textFieldGroup

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

UI

ViewUserInterface UI

The main user interface.

voiVector

java.util.Vector<java.lang.String> voiVector

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateISBIfinalSurfaceCompare extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

dicomTable

java.util.Hashtable<java.lang.String,java.lang.Integer> dicomTable

imageHashtable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,ModelImage>> imageHashtable

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

origImageTable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,ModelImage>> origImageTable

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

srcImageTable

java.util.Hashtable<java.lang.String,java.util.Vector<ModelImage>> srcImageTable

srcVOITable

java.util.Hashtable<java.lang.String,java.util.Vector<VOI>> srcVOITable

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<VOI>> voiHashtable

voiNameHashtable

java.util.Hashtable<java.lang.String,java.lang.String> voiNameHashtable

voiTable

java.util.Hashtable<java.lang.String,java.lang.Integer> voiTable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateISBIfinalSurfaceConvertNII extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

origImageTable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,ModelImage>> origImageTable

origImageTableName

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>> origImageTableName

origVOITableName

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>> origVOITableName

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateISBIfinalSurfaceEvalSeg extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

fileNameTable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>>> fileNameTable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateJMI_2017_HEDmap extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageHashtable

java.util.Hashtable<java.lang.Integer,ModelImage> imageHashtable

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> imageTable

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector2

java.util.Vector<java.lang.String> keyImageVector2

keyImageVector3

java.util.Vector<java.lang.String> keyImageVector3

keyImageVector4

java.util.Vector<java.lang.String> keyImageVector4

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

keyImageVOIVector2

java.util.Vector<java.lang.String> keyImageVOIVector2

keyImageVOIVector3

java.util.Vector<java.lang.String> keyImageVOIVector3

keyImageVOIVector4

java.util.Vector<java.lang.String> keyImageVOIVector4

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskImageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> maskImageTable

maskTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<ModelImage>> maskTable

newImageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> newImageTable

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,VOI> voiHashtable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateJMI_2017_VOI_converter extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonSaveImage

javax.swing.JButton buttonSaveImage

imageHashtable

java.util.Hashtable<java.lang.Integer,ModelImage> imageHashtable

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> imageTable

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector

java.util.Vector<java.lang.String> keyImageVector

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector

java.util.Vector<java.lang.String> keyImageVOIVector

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskImageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> maskImageTable

maskTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<ModelImage>> maskTable

newImageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> newImageTable

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,VOI> voiHashtable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateLearnFromFailure64TestCase extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropImage

ModelImage cropImage

result cropped image.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImageChooser

javax.swing.JFileChooser keyImageChooser

key images variables.

keyImageDirectory

java.lang.String keyImageDirectory

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector

java.util.Vector<java.lang.String> keyImageVector

image vector to hold the image names.

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector

java.util.Vector<java.lang.String> keyImageVOIVector

voi vector to hold the VOI names.

keyImageVOIVectorAAM

java.util.Vector<java.lang.String> keyImageVOIVectorAAM

labelAxis

javax.swing.JLabel labelAxis

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

table1

java.util.Hashtable<java.lang.Integer,JDialogProstateLearnFromFailure64TestCase.ImageAttributes> table1

table2

java.util.Hashtable<java.lang.Integer,JDialogProstateLearnFromFailure64TestCase.ImageAttributes> table2

table3

java.util.Hashtable<java.lang.Integer,JDialogProstateLearnFromFailure64TestCase.ImageAttributes> table3

table4

java.util.Hashtable<java.lang.Integer,JDialogProstateLearnFromFailure64TestCase.ImageAttributes> table4

table5

java.util.Hashtable<java.lang.Integer,JDialogProstateLearnFromFailure64TestCase.ImageAttributes> table5

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateLearnFromFailure64TrainingCase extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

axis

int axis

axisList

javax.swing.JComboBox axisList

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropImage

ModelImage cropImage

result cropped image.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

globalCounter

int globalCounter

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImageChooser

javax.swing.JFileChooser keyImageChooser

key images variables.

keyImageDirectory

java.lang.String keyImageDirectory

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector

java.util.Vector<java.lang.String> keyImageVector

image vector to hold the image names.

keyImageVOIs

java.util.Vector<VOI[]> keyImageVOIs

voi vector to hold the actual vois.

keyImageVOIVector

java.util.Vector<java.lang.String> keyImageVOIVector

voi vector to hold the VOI names.

keyImageVOIVectorAAM

java.util.Vector<java.lang.String> keyImageVOIVectorAAM

labelAxis

javax.swing.JLabel labelAxis

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

table1

java.util.Hashtable<java.lang.Integer,JDialogProstateLearnFromFailure64TrainingCase.ImageAttributes> table1

table2

java.util.Hashtable<java.lang.Integer,JDialogProstateLearnFromFailure64TrainingCase.ImageAttributes> table2

table3

java.util.Hashtable<java.lang.Integer,JDialogProstateLearnFromFailure64TrainingCase.ImageAttributes> table3

table4

java.util.Hashtable<java.lang.Integer,JDialogProstateLearnFromFailure64TrainingCase.ImageAttributes> table4

table5

java.util.Hashtable<java.lang.Integer,JDialogProstateLearnFromFailure64TrainingCase.ImageAttributes> table5

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateSaveBoundaryFeature2D extends JDialogBase implements Serializable

serialVersionUID:

2408406330754526954L

Serialized Fields

buttonSavedFileName

javax.swing.JButton buttonSavedFileName

classificationImage

ModelImage classificationImage

coherenceEnhancingDiffusionFilter

boolean coherenceEnhancingDiffusionFilter

distanceFilter

boolean distanceFilter

gaborFilter

boolean gaborFilter

gaussianFilter

boolean gaussianFilter

gmFilter

boolean gmFilter

haralickFeatureNumber

int haralickFeatureNumber

haralickFilter

boolean haralickFilter

haralickImagesNumber

int haralickImagesNumber

hurstFilter

boolean hurstFilter

IHN3CorrectionFilter

boolean IHN3CorrectionFilter

image

ModelImage image

imageIntensityFilter

boolean imageIntensityFilter

imageOriginNumber

int imageOriginNumber

invertFilter

boolean invertFilter

meanFilter

boolean meanFilter

medianFilter

boolean medianFilter

modeFilter

boolean modeFilter

numberFeatures

int numberFeatures

regisotropicDiffusionFilter

boolean regisotropicDiffusionFilter

resultImage

ModelImage resultImage

savedFileDirAbs

java.lang.String savedFileDirAbs

savedFileName

java.lang.String savedFileName

savedFilePanel

javax.swing.JPanel savedFilePanel

testSample

boolean testSample

textSavedFileName

javax.swing.JTextField textSavedFileName

textureAlgo

AlgorithmProstateBoundaryFeature2D textureAlgo

tracingSliceNumber

int tracingSliceNumber

waveletFeatureNumber

int waveletFeatureNumber

waveletFilter

boolean waveletFilter

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateSaveFeatures extends JDialogScriptableBase implements Serializable

serialVersionUID:

2408406330754526954L

Serialized Fields

asm

boolean asm

DOCUMENT ME!

asmCheckBox

javax.swing.JCheckBox asmCheckBox

DOCUMENT ME!

blueButton

javax.swing.JRadioButton blueButton

DOCUMENT ME!

buttonSavedFileName

javax.swing.JButton buttonSavedFileName

centroids

float[] centroids

DOCUMENT ME!

classificationImage

ModelImage[] classificationImage

colorGroup

javax.swing.ButtonGroup colorGroup

DOCUMENT ME!

colorPanel

javax.swing.JPanel colorPanel

DOCUMENT ME!

contrast

boolean contrast

DOCUMENT ME!

contrastCheckBox

javax.swing.JCheckBox contrastCheckBox

DOCUMENT ME!

correlation

boolean correlation

DOCUMENT ME!

correlationCheckBox

javax.swing.JCheckBox correlationCheckBox

DOCUMENT ME!

cropBackground

boolean cropBackground

DOCUMENT ME!

cropCheckbox

javax.swing.JCheckBox cropCheckbox

DOCUMENT ME!

dissimilarity

boolean dissimilarity

DOCUMENT ME!

dissimilarityCheckBox

javax.swing.JCheckBox dissimilarityCheckBox

DOCUMENT ME!

distanceFilter

boolean distanceFilter

distanceFilterCheckBox

javax.swing.JCheckBox distanceFilterCheckBox

distanceFilterPanel

javax.swing.JPanel distanceFilterPanel

distancePanel

javax.swing.JPanel distancePanel

DOCUMENT ME!

endTol

float endTol

DOCUMENT ME!

energy

boolean energy

DOCUMENT ME!

energyCheckBox

javax.swing.JCheckBox energyCheckBox

DOCUMENT ME!

entropy

boolean entropy

DOCUMENT ME!

entropyCheckBox

javax.swing.JCheckBox entropyCheckBox

DOCUMENT ME!

ew

boolean ew

DOCUMENT ME!

ewCheckBox

javax.swing.JCheckBox ewCheckBox

DOCUMENT ME!

fcmAlgo

AlgorithmFuzzyCMeans fcmAlgo

DOCUMENT ME!

filterPanel

javax.swing.JPanel filterPanel

DOCUMENT ME!

freqU

float freqU

DOCUMENT ME!

freqV

float freqV

DOCUMENT ME!

fuzzyCMeanFilter

boolean fuzzyCMeanFilter

fuzzyCMeanFilterCheckBox

javax.swing.JCheckBox fuzzyCMeanFilterCheckBox

fuzzyCMeanPanel

javax.swing.JPanel fuzzyCMeanPanel

DOCUMENT ME!

fuzzyOnly

javax.swing.JRadioButton fuzzyOnly

DOCUMENT ME!

gaborFilter

boolean gaborFilter

gaborFilterCheckBox

javax.swing.JCheckBox gaborFilterCheckBox

gaborPanel

javax.swing.JPanel gaborPanel

greenButton

javax.swing.JRadioButton greenButton

DOCUMENT ME!

greyLevels

int greyLevels

Number of grey levels used if data must be rescaled

haralickImagesNumber

int haralickImagesNumber

haralickPanel

javax.swing.JPanel haralickPanel

hardFuzzyBoth

javax.swing.JRadioButton hardFuzzyBoth

DOCUMENT ME!

hardOnly

javax.swing.JRadioButton hardOnly

DOCUMENT ME!

homogeneity

boolean homogeneity

DOCUMENT ME!

homogeneityCheckBox

javax.swing.JCheckBox homogeneityCheckBox

DOCUMENT ME!

image

ModelImage image

DOCUMENT ME!

imageFuzzyCMeanNumber

int imageFuzzyCMeanNumber

imageOriginCheckBox

javax.swing.JCheckBox imageOriginCheckBox

imageOriginFilter

boolean imageOriginFilter

imageOriginNumber

int imageOriginNumber

imageOriginPanel

javax.swing.JPanel imageOriginPanel

imageVOIGroup

javax.swing.ButtonGroup imageVOIGroup

DOCUMENT ME!

imageVOIPanel

javax.swing.JPanel imageVOIPanel

DOCUMENT ME!

invariantCheckBox

javax.swing.JCheckBox invariantCheckBox

DOCUMENT ME!

invariantDir

boolean invariantDir

DOCUMENT ME!

inverseOrder1

boolean inverseOrder1

DOCUMENT ME!

inverseOrder1CheckBox

javax.swing.JCheckBox inverseOrder1CheckBox

DOCUMENT ME!

labelEndTol

javax.swing.JLabel labelEndTol

DOCUMENT ME!

labelExpo

javax.swing.JLabel labelExpo

DOCUMENT ME!

labelFU

javax.swing.JLabel labelFU

DOCUMENT ME!

labelFV

javax.swing.JLabel labelFV

DOCUMENT ME!

labelJacobi

javax.swing.JLabel labelJacobi

DOCUMENT ME!

labelMaxIter

javax.swing.JLabel labelMaxIter

DOCUMENT ME!

labelNClasses

javax.swing.JLabel labelNClasses

DOCUMENT ME!

labelNPyramid

javax.swing.JLabel labelNPyramid

DOCUMENT ME!

labelOffsetDistance

javax.swing.JLabel labelOffsetDistance

DOCUMENT ME!

labelRescaling

javax.swing.JLabel labelRescaling

labelSignal

javax.swing.JLabel labelSignal

DOCUMENT ME!

labelSmooth

javax.swing.JLabel labelSmooth

DOCUMENT ME!

labelSU

javax.swing.JLabel labelSU

DOCUMENT ME!

labelSV

javax.swing.JLabel labelSV

DOCUMENT ME!

labelTheta

javax.swing.JLabel labelTheta

DOCUMENT ME!

labelWindowSize

javax.swing.JLabel labelWindowSize

DOCUMENT ME!

locationCheckBox

javax.swing.JCheckBox locationCheckBox

locationEnabled

boolean locationEnabled

locationFilterPanel

javax.swing.JPanel locationFilterPanel

locationPanel

javax.swing.JPanel locationPanel

maxIter

int maxIter

DOCUMENT ME!

maxProbability

boolean maxProbability

DOCUMENT ME!

maxProbabilityCheckBox

javax.swing.JCheckBox maxProbabilityCheckBox

DOCUMENT ME!

mean

boolean mean

DOCUMENT ME!

meanCheckBox

javax.swing.JCheckBox meanCheckBox

DOCUMENT ME!

nClasses

int nClasses

DOCUMENT ME!

nesw

boolean nesw

DOCUMENT ME!

neswCheckBox

javax.swing.JCheckBox neswCheckBox

DOCUMENT ME!

nPyramid

int nPyramid

DOCUMENT ME!

ns

boolean ns

DOCUMENT ME!

nsCheckBox

javax.swing.JCheckBox nsCheckBox

DOCUMENT ME!

numberFiltersAdditional

int numberFiltersAdditional

numDirections

int numDirections

DOCUMENT ME!

numOperators

int numOperators

DOCUMENT ME!

offsetDistance

int offsetDistance

DOCUMENT ME!

oneJacobiIter

int oneJacobiIter

DOCUMENT ME!

oneSmooth

float oneSmooth

DOCUMENT ME!

outputGainField

boolean outputGainField

private JCheckBox calcGainFieldCheckbox;.

presentNumber

int presentNumber

DOCUMENT ME!

promenance

boolean promenance

promenanceCheckBox

javax.swing.JCheckBox promenanceCheckBox

q

float q

DOCUMENT ME!

redButton

javax.swing.JRadioButton redButton

DOCUMENT ME!

regionFlag

boolean regionFlag

DOCUMENT ME!

resultImage

ModelImage[] resultImage

DOCUMENT ME!

resultNumber

int resultNumber

DOCUMENT ME!

RGBOffset

int RGBOffset

DOCUMENT ME!

savedFileDirAbs

java.lang.String savedFileDirAbs

savedFileName

java.lang.String savedFileName

savedFilePanel

javax.swing.JPanel savedFilePanel

scalePanel

javax.swing.JPanel scalePanel

DOCUMENT ME!

segmentation

int segmentation

DOCUMENT ME!

segmentationGroup

javax.swing.ButtonGroup segmentationGroup

DOCUMENT ME!

segmentationPanel

javax.swing.JPanel segmentationPanel

DOCUMENT ME!

senw

boolean senw

DOCUMENT ME!

senwCheckBox

javax.swing.JCheckBox senwCheckBox

DOCUMENT ME!

shade

boolean shade

shadeCheckBox

javax.swing.JCheckBox shadeCheckBox

sigmaU

float sigmaU

DOCUMENT ME!

sigmaV

float sigmaV

DOCUMENT ME!

standardDeviation

boolean standardDeviation

DOCUMENT ME!

standardDeviationCheckBox

javax.swing.JCheckBox standardDeviationCheckBox

DOCUMENT ME!

testSample

boolean testSample

textEndTol

javax.swing.JTextField textEndTol

DOCUMENT ME!

textExpo

javax.swing.JTextField textExpo

DOCUMENT ME!

textFU

javax.swing.JTextField textFU

DOCUMENT ME!

textFV

javax.swing.JTextField textFV

DOCUMENT ME!

textMaxIter

javax.swing.JTextField textMaxIter

DOCUMENT ME!

textNClasses

javax.swing.JTextField textNClasses

DOCUMENT ME!

textNPyramid

javax.swing.JTextField textNPyramid

DOCUMENT ME!

textOffsetDistance

javax.swing.JTextField textOffsetDistance

DOCUMENT ME!

textOneJacobiIter

javax.swing.JTextField textOneJacobiIter

DOCUMENT ME!

textOneSmooth

javax.swing.JTextField textOneSmooth

DOCUMENT ME!

textRescaling

javax.swing.JTextField textRescaling

textSavedFileName

javax.swing.JTextField textSavedFileName

textSignal

javax.swing.JTextField textSignal

DOCUMENT ME!

textSU

javax.swing.JTextField textSU

DOCUMENT ME!

textSV

javax.swing.JTextField textSV

DOCUMENT ME!

textTheta

javax.swing.JTextField textTheta

DOCUMENT ME!

textTwoJacobiIter

javax.swing.JTextField textTwoJacobiIter

DOCUMENT ME!

textTwoSmooth

javax.swing.JTextField textTwoSmooth

DOCUMENT ME!

textureAlgo

AlgorithmProstateFeatures textureAlgo

DOCUMENT ME!

textWindowSize

javax.swing.JTextField textWindowSize

DOCUMENT ME!

theta

float theta

DOCUMENT ME!

threshold

float threshold

DOCUMENT ME!

twoJacobiIter

int twoJacobiIter

DOCUMENT ME!

twoSmooth

float twoSmooth

DOCUMENT ME!

variance

boolean variance

DOCUMENT ME!

varianceCheckBox

javax.swing.JCheckBox varianceCheckBox

DOCUMENT ME!

VOIRegions

javax.swing.JRadioButton VOIRegions

DOCUMENT ME!

wholeImage

javax.swing.JRadioButton wholeImage

DOCUMENT ME!

windowSize

int windowSize

DOCUMENT ME!

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateSaveFeatures2D extends JDialogBase implements Serializable

serialVersionUID:

2408406330754526954L

Serialized Fields

buttonSavedFileName

javax.swing.JButton buttonSavedFileName

classificationImage

ModelImage classificationImage

coherenceEnhancingDiffusionFilter

boolean coherenceEnhancingDiffusionFilter

distanceFilter

boolean distanceFilter

gaborFilter

boolean gaborFilter

gaussianFilter

boolean gaussianFilter

gmFilter

boolean gmFilter

haralickFeatureNumber

int haralickFeatureNumber

haralickFilter

boolean haralickFilter

haralickImagesNumber

int haralickImagesNumber

hurstFilter

boolean hurstFilter

IHN3CorrectionFilter

boolean IHN3CorrectionFilter

image

ModelImage image

imageIntensityFilter

boolean imageIntensityFilter

imageOriginNumber

int imageOriginNumber

invertFilter

boolean invertFilter

meanFilter

boolean meanFilter

medianFilter

boolean medianFilter

modeFilter

boolean modeFilter

numberFeatures

int numberFeatures

regisotropicDiffusionFilter

boolean regisotropicDiffusionFilter

resultImage

ModelImage resultImage

savedFileDirAbs

java.lang.String savedFileDirAbs

savedFileName

java.lang.String savedFileName

savedFilePanel

javax.swing.JPanel savedFilePanel

testSample

boolean testSample

textSavedFileName

javax.swing.JTextField textSavedFileName

textureAlgo

AlgorithmProstateFeatures2D textureAlgo

tracingSliceNumber

int tracingSliceNumber

waveletFeatureNumber

int waveletFeatureNumber

waveletFilter

boolean waveletFilter

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateSegmentationRegBSpline3D extends JDialogBase implements Serializable

Serialized Fields

endVOIAxial

int endVOIAxial

endVOICoronal

int endVOICoronal

endVOISagittal

int endVOISagittal

imageAxial

ModelImage imageAxial

imageCoronal

ModelImage imageCoronal

imageSagittal

ModelImage imageSagittal

labelAxis

javax.swing.JLabel labelAxis

labelCoronal

javax.swing.JLabel labelCoronal

labelEndVOIAxial

javax.swing.JLabel labelEndVOIAxial

labelEndVOICoronal

javax.swing.JLabel labelEndVOICoronal

labelEndVOISagittal

javax.swing.JLabel labelEndVOISagittal

labelMidVOIAxial

javax.swing.JLabel labelMidVOIAxial

labelMidVOICoronal

javax.swing.JLabel labelMidVOICoronal

labelMidVOISagittal

javax.swing.JLabel labelMidVOISagittal

labelSagittal

javax.swing.JLabel labelSagittal

labelStartVOIAxial

javax.swing.JLabel labelStartVOIAxial

labelStartVOICoronal

javax.swing.JLabel labelStartVOICoronal

labelStartVOISagittal

javax.swing.JLabel labelStartVOISagittal

midVOIAxial

int midVOIAxial

midVOICoronal

int midVOICoronal

midVOISagittal

int midVOISagittal

radioBSpline

javax.swing.JRadioButton radioBSpline

radioOAR

javax.swing.JRadioButton radioOAR

startVOIAxial

int startVOIAxial

startVOICoronal

int startVOICoronal

startVOISagittal

int startVOISagittal

textFieldEndVOIAxial

javax.swing.JTextField textFieldEndVOIAxial

textFieldEndVOICoronal

javax.swing.JTextField textFieldEndVOICoronal

textFieldEndVOISagittal

javax.swing.JTextField textFieldEndVOISagittal

textFieldMidVOIAxial

javax.swing.JTextField textFieldMidVOIAxial

textFieldMidVOICoronal

javax.swing.JTextField textFieldMidVOICoronal

textFieldMidVOISagittal

javax.swing.JTextField textFieldMidVOISagittal

textFieldStartVOIAxial

javax.swing.JTextField textFieldStartVOIAxial

textFieldStartVOICoronal

javax.swing.JTextField textFieldStartVOICoronal

textFieldStartVOISagittal

javax.swing.JTextField textFieldStartVOISagittal

tracingSliceNumber

int tracingSliceNumber

number of slices to trace, start from the apex and base VOIs

UI

ViewUserInterface UI

global user interface to get the three active images.

useBSpline

boolean useBSpline

Flag to indicate to use B-Spline registration or OAR registration

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateSegmentationRegBSpline3DFast extends JDialogBase implements Serializable

Serialized Fields

endVOIAxial

int endVOIAxial

endVOICoronal

int endVOICoronal

endVOISagittal

int endVOISagittal

imageAxial

ModelImage imageAxial

imageCoronal

ModelImage imageCoronal

imageSagittal

ModelImage imageSagittal

labelAxis

javax.swing.JLabel labelAxis

labelCoronal

javax.swing.JLabel labelCoronal

labelEndVOIAxial

javax.swing.JLabel labelEndVOIAxial

labelEndVOICoronal

javax.swing.JLabel labelEndVOICoronal

labelEndVOISagittal

javax.swing.JLabel labelEndVOISagittal

labelMidVOIAxial

javax.swing.JLabel labelMidVOIAxial

labelMidVOICoronal

javax.swing.JLabel labelMidVOICoronal

labelMidVOISagittal

javax.swing.JLabel labelMidVOISagittal

labelSagittal

javax.swing.JLabel labelSagittal

labelStartVOIAxial

javax.swing.JLabel labelStartVOIAxial

labelStartVOICoronal

javax.swing.JLabel labelStartVOICoronal

labelStartVOISagittal

javax.swing.JLabel labelStartVOISagittal

midVOIAxial

int midVOIAxial

midVOICoronal

int midVOICoronal

midVOISagittal

int midVOISagittal

radioBSpline

javax.swing.JRadioButton radioBSpline

radioOAR

javax.swing.JRadioButton radioOAR

startVOIAxial

int startVOIAxial

startVOICoronal

int startVOICoronal

startVOISagittal

int startVOISagittal

textFieldEndVOIAxial

javax.swing.JTextField textFieldEndVOIAxial

textFieldEndVOICoronal

javax.swing.JTextField textFieldEndVOICoronal

textFieldEndVOISagittal

javax.swing.JTextField textFieldEndVOISagittal

textFieldMidVOIAxial

javax.swing.JTextField textFieldMidVOIAxial

textFieldMidVOICoronal

javax.swing.JTextField textFieldMidVOICoronal

textFieldMidVOISagittal

javax.swing.JTextField textFieldMidVOISagittal

textFieldStartVOIAxial

javax.swing.JTextField textFieldStartVOIAxial

textFieldStartVOICoronal

javax.swing.JTextField textFieldStartVOICoronal

textFieldStartVOISagittal

javax.swing.JTextField textFieldStartVOISagittal

tracingSliceNumber

int tracingSliceNumber

number of slices to trace, start from the apex and base VOIs

UI

ViewUserInterface UI

global user interface to get the three active images.

useBSpline

boolean useBSpline

Flag to indicate to use B-Spline registration or OAR registration

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateSPIEcancerChallenge extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

boxXmax

int boxXmax

boxXmin

int boxXmin

boxYmax

int boxYmax

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

boxYmin

int boxYmin

bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTable

java.util.Hashtable<java.lang.Integer,ModelImage> cedTable

cropAlgo

AlgorithmAddMargins cropAlgo

crop margin algorithm.

cropKeyImages

java.util.Vector<ModelImage> cropKeyImages

cropped key image vector.

cropTable

java.util.Hashtable<java.lang.Integer,ModelImage> cropTable

imageHashtable

java.util.Hashtable<java.lang.Integer,ModelImage> imageHashtable

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

scaleCedTable

java.util.Hashtable<java.lang.Integer,ModelImage> scaleCedTable

scaleImageTable

java.util.Hashtable<java.lang.Integer,ModelImage> scaleImageTable

scaleIntensityTable

java.util.Hashtable<java.lang.Integer,ModelImage> scaleIntensityTable

scaleVoiTable

java.util.Hashtable<java.lang.Integer,ModelImage> scaleVoiTable

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

transformTable

java.util.Hashtable<java.lang.Integer,ModelImage> transformTable

UI

ViewUserInterface UI

The main user interface.

voiNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtable

xBounds

int[] xBounds

X cropped region bounds.

yBounds

int[] yBounds

Y cropped region bounds.

zBounds

int[] zBounds

Z cropped region bound.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateSPIEcancerChallenge_HEDmap_image_alone extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

imageHashtable

java.util.Hashtable<java.lang.Integer,ModelImage> imageHashtable

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> imageTable

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskImageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> maskImageTable

maskTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<ModelImage>> maskTable

newImageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> newImageTable

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,VOI> voiHashtable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateSPIEcancerChallenge_HEDmap_mri_ced extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

imageHashtable

java.util.Hashtable<java.lang.Integer,ModelImage> imageHashtable

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

imageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> imageTable

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVector5

java.util.Vector<java.lang.String> keyImageVector5

keyImageVOIVector5

java.util.Vector<java.lang.String> keyImageVOIVector5

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

maskImageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> maskImageTable

maskTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<ModelImage>> maskTable

newImageTable

java.util.Hashtable<java.lang.Integer,java.util.Vector<java.lang.String>> newImageTable

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,VOI> voiHashtable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateSPIEcancerChallenge_noCED extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTable

java.util.Hashtable<java.lang.Integer,ModelImage> cedTable

cropTable

java.util.Hashtable<java.lang.Integer,ModelImage> cropTable

imageHashtable

java.util.Hashtable<java.lang.Integer,ModelImage> imageHashtable

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

scaleCedTable

java.util.Hashtable<java.lang.Integer,ModelImage> scaleCedTable

scaleImageTable

java.util.Hashtable<java.lang.Integer,ModelImage> scaleImageTable

scaleIntensityTable

java.util.Hashtable<java.lang.Integer,ModelImage> scaleIntensityTable

scaleVoiTable

java.util.Hashtable<java.lang.Integer,ModelImage> scaleVoiTable

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

transformTable

java.util.Hashtable<java.lang.Integer,ModelImage> transformTable

UI

ViewUserInterface UI

The main user interface.

voiNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateSPIEcancerChallengeNIH_boundary_train extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTable

java.util.Hashtable<java.lang.String,ModelImage> cedTable

imageHashtable

java.util.Hashtable<java.lang.String,ModelImage> imageHashtable

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

scaleCedTable

java.util.Hashtable<java.lang.String,ModelImage> scaleCedTable

scaleImageTable

java.util.Hashtable<java.lang.String,ModelImage> scaleImageTable

scaleIntensityTable

java.util.Hashtable<java.lang.String,ModelImage> scaleIntensityTable

scaleVoiTable

java.util.Hashtable<java.lang.String,ModelImage> scaleVoiTable

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,VOI> voiHashtable

voiNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtable

voiTable

java.util.Hashtable<java.lang.String,ModelImage> voiTable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateSPIEcancerChallengeNIH_train extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTable

java.util.Hashtable<java.lang.String,ModelImage> cedTable

imageHashtableCg

java.util.Hashtable<java.lang.String,ModelImage> imageHashtableCg

imageHashtableWp

java.util.Hashtable<java.lang.String,ModelImage> imageHashtableWp

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

scaleCedTable

java.util.Hashtable<java.lang.String,ModelImage> scaleCedTable

scaleImageTable

java.util.Hashtable<java.lang.String,ModelImage> scaleImageTable

scaleIntensityTable

java.util.Hashtable<java.lang.String,ModelImage> scaleIntensityTable

scaleVoiTable

java.util.Hashtable<java.lang.String,ModelImage> scaleVoiTable

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtableCg

java.util.Hashtable<java.lang.String,VOI> voiHashtableCg

voiHashtableWp

java.util.Hashtable<java.lang.String,VOI> voiHashtableWp

voiNameHashtableCg

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtableCg

voiNameHashtableWp

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtableWp

voiTable

java.util.Hashtable<java.lang.String,ModelImage> voiTable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateSPIEcancerChallengeNIH_train_ced extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTable

java.util.Hashtable<java.lang.String,ModelImage> cedTable

imageHashtableCg

java.util.Hashtable<java.lang.String,ModelImage> imageHashtableCg

imageHashtableWp

java.util.Hashtable<java.lang.String,ModelImage> imageHashtableWp

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Vector<ModelImage> keyImages

image vector to hold the actual images.

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

scaleCedTable

java.util.Hashtable<java.lang.String,ModelImage> scaleCedTable

scaleImageTable

java.util.Hashtable<java.lang.String,ModelImage> scaleImageTable

scaleIntensityTable

java.util.Hashtable<java.lang.String,ModelImage> scaleIntensityTable

scaleVoiTable

java.util.Hashtable<java.lang.String,ModelImage> scaleVoiTable

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,VOI> voiHashtable

voiNameHashtableCg

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtableCg

voiNameHashtableWp

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtableWp

voiTable

java.util.Hashtable<java.lang.String,ModelImage> voiTable

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateSPIEcancerChallengeNIH_train_ced_ext extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTable

java.util.Hashtable<java.lang.String,ModelImage> cedTable

cedTable_ext

java.util.Hashtable<java.lang.String,ModelImage> cedTable_ext

cropTable_ext

java.util.Hashtable<java.lang.String,ModelImage> cropTable_ext

cropVoiTable_ext

java.util.Hashtable<java.lang.String,ModelImage> cropVoiTable_ext

imageHashtableCg

java.util.Hashtable<java.lang.String,ModelImage> imageHashtableCg

imageHashtableCg_ext

java.util.Hashtable<java.lang.String,ModelImage> imageHashtableCg_ext

imageHashtableWp

java.util.Hashtable<java.lang.String,ModelImage> imageHashtableWp

imageHashtableWp_ext

java.util.Hashtable<java.lang.String,ModelImage> imageHashtableWp_ext

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable

imageNameHashtable_ext

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable_ext

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

scaleCedTable

java.util.Hashtable<java.lang.String,ModelImage> scaleCedTable

scaleCedTable_ext

java.util.Hashtable<java.lang.String,ModelImage> scaleCedTable_ext

scaleImageTable

java.util.Hashtable<java.lang.String,ModelImage> scaleImageTable

scaleImageTable_ext

java.util.Hashtable<java.lang.String,ModelImage> scaleImageTable_ext

scaleIntensityTable

java.util.Hashtable<java.lang.String,ModelImage> scaleIntensityTable

scaleIntensityTable_ext

java.util.Hashtable<java.lang.String,ModelImage> scaleIntensityTable_ext

scaleVoiTable

java.util.Hashtable<java.lang.String,ModelImage> scaleVoiTable

scaleVoiTable_ext

java.util.Hashtable<java.lang.String,ModelImage> scaleVoiTable_ext

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

transformTable_ext

java.util.Hashtable<java.lang.String,ModelImage> transformTable_ext

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,VOI> voiHashtable

voiNameHashtableCg

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtableCg

voiNameHashtableCg_ext

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtableCg_ext

voiNameHashtableWp

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtableWp

voiNameHashtableWp_ext

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtableWp_ext

voiTable

java.util.Hashtable<java.lang.String,ModelImage> voiTable

voiTable_ext

java.util.Hashtable<java.lang.String,ModelImage> voiTable_ext

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateSPIEcancerChallengeNIH_train_ced_ext_wp extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTable

java.util.Hashtable<java.lang.String,ModelImage> cedTable

cedTable_ext

java.util.Hashtable<java.lang.String,ModelImage> cedTable_ext

cropTable_ext

java.util.Hashtable<java.lang.String,ModelImage> cropTable_ext

cropVoiTable_ext

java.util.Hashtable<java.lang.String,ModelImage> cropVoiTable_ext

imageHashtableCg

java.util.Hashtable<java.lang.String,ModelImage> imageHashtableCg

imageHashtableCg_ext

java.util.Hashtable<java.lang.String,ModelImage> imageHashtableCg_ext

imageHashtableWp

java.util.Hashtable<java.lang.String,ModelImage> imageHashtableWp

imageHashtableWp_ext

java.util.Hashtable<java.lang.String,ModelImage> imageHashtableWp_ext

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable

imageNameHashtable_ext

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable_ext

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

scaleCedTable

java.util.Hashtable<java.lang.String,ModelImage> scaleCedTable

scaleCedTable_ext

java.util.Hashtable<java.lang.String,ModelImage> scaleCedTable_ext

scaleImageTable

java.util.Hashtable<java.lang.String,ModelImage> scaleImageTable

scaleImageTable_ext

java.util.Hashtable<java.lang.String,ModelImage> scaleImageTable_ext

scaleIntensityTable

java.util.Hashtable<java.lang.String,ModelImage> scaleIntensityTable

scaleIntensityTable_ext

java.util.Hashtable<java.lang.String,ModelImage> scaleIntensityTable_ext

scaleVoiTable

java.util.Hashtable<java.lang.String,ModelImage> scaleVoiTable

scaleVoiTable_ext

java.util.Hashtable<java.lang.String,ModelImage> scaleVoiTable_ext

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

transformTable_ext

java.util.Hashtable<java.lang.String,ModelImage> transformTable_ext

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,VOI> voiHashtable

voiNameHashtableCg

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtableCg

voiNameHashtableCg_ext

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtableCg_ext

voiNameHashtableWp

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtableWp

voiNameHashtableWp_ext

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtableWp_ext

voiTable

java.util.Hashtable<java.lang.String,ModelImage> voiTable

voiTable_ext

java.util.Hashtable<java.lang.String,ModelImage> voiTable_ext

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateXReRunWholeProstate extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

algoTrans

AlgorithmTransform algoTrans

axial_index

int axial_index

axialList

java.util.Hashtable<java.lang.String,ModelImage> axialList

axialMaskList

java.util.Hashtable<java.lang.String,ModelImage> axialMaskList

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTable

java.util.Hashtable<java.lang.String,ModelImage> cedTable

cedTable_ext

java.util.Hashtable<java.lang.String,ModelImage> cedTable_ext

cedTableAxial

java.util.Hashtable<java.lang.String,ModelImage> cedTableAxial

cedTableCoronal

java.util.Hashtable<java.lang.String,ModelImage> cedTableCoronal

cedTableSagittal

java.util.Hashtable<java.lang.String,ModelImage> cedTableSagittal

coronal_index

int coronal_index

coronalList

java.util.Hashtable<java.lang.String,ModelImage> coronalList

coronalMaskList

java.util.Hashtable<java.lang.String,ModelImage> coronalMaskList

cropTable_ext

java.util.Hashtable<java.lang.String,ModelImage> cropTable_ext

cropVoiTable_ext

java.util.Hashtable<java.lang.String,ModelImage> cropVoiTable_ext

endIndex

int endIndex

imageHashtableCg

java.util.Hashtable<java.lang.String,ModelImage> imageHashtableCg

imageHashtableCg_ext

java.util.Hashtable<java.lang.String,ModelImage> imageHashtableCg_ext

imageHashtableWp

java.util.Hashtable<java.lang.String,ModelImage> imageHashtableWp

imageHashtableWp_ext

java.util.Hashtable<java.lang.String,ModelImage> imageHashtableWp_ext

imageNameHashtable

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable

imageNameHashtable_ext

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageNameHashtable_ext

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

sagittal_index

int sagittal_index

sagittalList

java.util.Hashtable<java.lang.String,ModelImage> sagittalList

sagittalMaskList

java.util.Hashtable<java.lang.String,ModelImage> sagittalMaskList

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

scaleCedTable

java.util.Hashtable<java.lang.String,ModelImage> scaleCedTable

scaleCedTable_ext

java.util.Hashtable<java.lang.String,ModelImage> scaleCedTable_ext

scaleImageTable

java.util.Hashtable<java.lang.String,ModelImage> scaleImageTable

scaleImageTable_ext

java.util.Hashtable<java.lang.String,ModelImage> scaleImageTable_ext

scaleIntensityTable

java.util.Hashtable<java.lang.String,ModelImage> scaleIntensityTable

scaleIntensityTable_ext

java.util.Hashtable<java.lang.String,ModelImage> scaleIntensityTable_ext

scaleVoiTable

java.util.Hashtable<java.lang.String,ModelImage> scaleVoiTable

scaleVoiTable_ext

java.util.Hashtable<java.lang.String,ModelImage> scaleVoiTable_ext

startIndex

int startIndex

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

transformTable

java.util.Hashtable<java.lang.String,ModelImage> transformTable

transformTable_ext

java.util.Hashtable<java.lang.String,ModelImage> transformTable_ext

UI

ViewUserInterface UI

The main user interface.

voiHashtable

java.util.Hashtable<java.lang.String,VOI> voiHashtable

voiNameHashtableCg

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtableCg

voiNameHashtableCg_ext

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtableCg_ext

voiNameHashtableWp

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtableWp

voiNameHashtableWp_ext

java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> voiNameHashtableWp_ext

voiTable

java.util.Hashtable<java.lang.String,ModelImage> voiTable

voiTable_ext

java.util.Hashtable<java.lang.String,ModelImage> voiTable_ext

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateXReRunWholeProstateTestPatches extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

axial_index

int axial_index

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTableAxial

java.util.Hashtable<java.lang.String,ModelImage> cedTableAxial

cedTableCoronal

java.util.Hashtable<java.lang.String,ModelImage> cedTableCoronal

cedTableSagittal

java.util.Hashtable<java.lang.String,ModelImage> cedTableSagittal

coronal_index

int coronal_index

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Hashtable<java.lang.String,ModelImage> keyImages

image vector to hold the actual images.

keyImagesOrientation

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientation

keyImagesOrientationCED

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientationCED

keyImagesOrientationMask

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientationMask

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

nameTable

java.util.Hashtable<java.lang.String,java.lang.String> nameTable

nameTableImages

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImages

nameTableImagesCED

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImagesCED

nameTableImagesMask

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImagesMask

nameVOITable

java.util.Hashtable<java.lang.String,java.lang.String> nameVOITable

origTable

java.util.Hashtable<java.lang.String,java.lang.String> origTable

sagittal_index

int sagittal_index

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogProstateXReRunWholeProstateTrainPatches extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

axial_index

int axial_index

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonSaveImage

javax.swing.JButton buttonSaveImage

cedTableAxial

java.util.Hashtable<java.lang.String,ModelImage> cedTableAxial

cedTableCoronal

java.util.Hashtable<java.lang.String,ModelImage> cedTableCoronal

cedTableSagittal

java.util.Hashtable<java.lang.String,ModelImage> cedTableSagittal

coronal_index

int coronal_index

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImages

java.util.Hashtable<java.lang.String,ModelImage> keyImages

image vector to hold the actual images.

keyImagesOrientation

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientation

keyImagesOrientationCED

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientationCED

keyImagesOrientationMask

java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientationMask

keyImageVector1

java.util.Vector<java.lang.String> keyImageVector1

keyImageVOIVector1

java.util.Vector<java.lang.String> keyImageVOIVector1

labelKeyImage

javax.swing.JLabel labelKeyImage

key image directory.

labelSaveImage

javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

nameTable

java.util.Hashtable<java.lang.String,java.lang.String> nameTable

nameTableImages

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImages

nameTableImagesCED

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImagesCED

nameTableImagesMask

java.util.Hashtable<java.lang.String,java.lang.String> nameTableImagesMask

nameVOITable

java.util.Hashtable<java.lang.String,java.lang.String> nameVOITable

origTable

java.util.Hashtable<java.lang.String,java.lang.String> origTable

sagittal_index

int sagittal_index

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogRenameDirs extends JDialogBase implements Serializable

Serialized Fields

axisList

javax.swing.JComboBox axisList

buttonKeyImage

javax.swing.JButton buttonKeyImage

buttonPanel

javax.swing.JPanel buttonPanel

imageSelectionPanel

javax.swing.JPanel imageSelectionPanel

keyImageChooser

javax.swing.JFileChooser keyImageChooser

keyImageDirectory

java.lang.String keyImageDirectory

labelAxis

javax.swing.JLabel labelAxis

labelKeyImage

javax.swing.JLabel labelKeyImage

textFieldKeyImage

javax.swing.JTextField textFieldKeyImage

UI

ViewUserInterface UI

The main user interface.

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.JDialogShuffleList extends JDialogBase implements Serializable

serialVersionUID:

-7360089445417194259L

Serialized Fields

saveImageChooser

javax.swing.JFileChooser saveImageChooser

saveImageDirectory

java.lang.String saveImageDirectory

textFieldSaveImage

javax.swing.JTextField textFieldSaveImage

saved 2D slices atlas dir.

UI

ViewUserInterface UI

The main user interface.

xRandom

RandomNumberGen xRandom

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.PlaneRenderProstate extends GPURenderBase implements Serializable

serialVersionUID:

2025132936439496099L

Serialized Fields

levelSetStack

PointStack levelSetStack

m_aaiColorSwap

int[][] m_aaiColorSwap

Axis labels color assignments.

m_aakColors

WildMagic.LibFoundation.Mathematics.ColorRGB[][] m_aakColors

Set of colors used to draw the axis labels.

m_abAxisFlip

boolean[] m_abAxisFlip

ModelImage axis flip.

m_adCos

double[] m_adCos

m_adSin

double[] m_adSin

m_afAverages

float[][] m_afAverages

m_aiAxisOrder

int[] m_aiAxisOrder

ModelImage axis orientation.

m_aiIndexValues

int[][] m_aiIndexValues

m_aiLocalImageExtents

int[] m_aiLocalImageExtents

The image dimensions in x,y,z:.

m_aiLocalImageFactors

int[] m_aiLocalImageFactors

The image dimension factors in x,y,z:.

m_akCLoc

WildMagic.LibFoundation.Mathematics.Vector3f[] m_akCLoc

Camera Locations, for rendering the different Axial, Sagittal and Coronal views.

m_akCoords

WildMagic.LibFoundation.Mathematics.Vector3f[] m_akCoords

Camera Direction, UP, and Right vectors, for rendering the different Axial, Sagittal and Coronal views.

m_akSteps

WildMagic.LibFoundation.Mathematics.Vector2f[][] m_akSteps

m_aucData

byte[] m_aucData

m_bDrawAxes

boolean m_bDrawAxes

when true, the axis labels (P-> L-> S->) will be drawn

m_bDrawLevelSet

boolean m_bDrawLevelSet

m_bDrawOval

boolean m_bDrawOval

m_bDrawPolyline

boolean m_bDrawPolyline

m_bDrawRect

boolean m_bDrawRect

m_bDrawVOI

boolean m_bDrawVOI

m_bDrawXHairs

boolean m_bDrawXHairs

Turns on drawing of the X,Y bars and the Axis labels:.

m_bFirstDrag

boolean m_bFirstDrag

Change the mouse cursor with the first mouseDrag event

m_bFirstVOI

boolean m_bFirstVOI

m_bLeftMousePressed

boolean m_bLeftMousePressed

True when the left mouse has been pressed, set to false when the left mouse button is released.

m_bPatientOrientation

boolean m_bPatientOrientation

Actual image orientation.

m_bPointer

boolean m_bPointer

m_bRightMousePressed

boolean m_bRightMousePressed

Flag indicating if the right mouse button is currently pressed down:

m_bSelected

boolean m_bSelected

m_bShowSurface

boolean m_bShowSurface

m_bUpdateSpacing

boolean m_bUpdateSpacing

m_bUpdateVOI

boolean m_bUpdateVOI

m_fMaxBox

float m_fMaxBox

Numbers dictating the size of the plane based on the extents and resolutions of the image.

m_fMouseX

float m_fMouseX

For zooming with the mouse.

m_fMouseY

float m_fMouseY

m_fX0

float m_fX0

lower x-bound of the texture-mapped polygon:

m_fX1

float m_fX1

upper x-bound of the texture-mapped polygon:

m_fXBox

float m_fXBox

Numbers dictating the size of the plane based on the extents and resolutions of the image.

m_fXRange

float m_fXRange

Width of the texture-mapped polygon:

m_fY0

float m_fY0

lower y-bound of the texture-mapped polygon:

m_fY1

float m_fY1

upper y-bound of the texture-mapped polygon:

m_fYBox

float m_fYBox

Numbers dictating the size of the plane based on the extents and resolutions of the image.

m_fYRange

float m_fYRange

Height of the texture-mapped polygon:

m_fZoomScale

float m_fZoomScale

Image scaling from Zoom:.

m_i_

int m_i_

m_iCirclePts

int m_iCirclePts

m_iCurrentVOIPoint

int m_iCurrentVOIPoint

m_iLabelX_SpacingX

int m_iLabelX_SpacingX

m_iLabelX_SpacingY

int m_iLabelX_SpacingY

m_iLabelY_SpacingX

int m_iLabelY_SpacingX

m_iLabelY_SpacingY

int m_iLabelY_SpacingY

m_iM

int m_iM

m_iMM

int m_iMM

m_iP

int m_iP

m_iPlaneOrientation

int m_iPlaneOrientation

Which dimension of the ModelImage to render.

m_iPP

int m_iPP

m_iSlice

int m_iSlice

Which slice is currently displayed in the XY plane.

m_iVOICount

int m_iVOICount

m_kActiveImage

ModelImage m_kActiveImage

Current active image for manipulating the LUT by dragging with the right-mouse down.

m_kActiveLookupTable

ModelStorageBase m_kActiveLookupTable

The current active lookup table:

m_kBallPoint

WildMagic.LibGraphics.SceneGraph.TriMesh m_kBallPoint

m_kCenter

WildMagic.LibFoundation.Mathematics.Vector3f m_kCenter

m_kCopyVOI

PlaneRenderProstate.LocalVolumeVOI m_kCopyVOI

m_kCurrentVOI

PlaneRenderProstate.LocalVolumeVOI m_kCurrentVOI

m_kLabelX

java.lang.String m_kLabelX

x-axis label:

m_kLabelXDisplay

java.lang.String m_kLabelXDisplay

m_kLabelY

java.lang.String m_kLabelY

y-axis label:

m_kParent

VolumeTriPlanarInterface m_kParent

Parent user-interface and display frame.

m_kPatientPt

WildMagic.LibFoundation.Mathematics.Vector3f m_kPatientPt

m_kVOIAttr

WildMagic.LibGraphics.SceneGraph.Attributes m_kVOIAttr

m_kVOIList

PlaneRenderProstate.LocalVolumeVOIVector[] m_kVOIList

m_kVolumeScale

WildMagic.LibFoundation.Mathematics.Vector3f m_kVolumeScale

m_kVolumeScaleInv

WildMagic.LibFoundation.Mathematics.Vector3f m_kVolumeScaleInv

m_kWinLevel

WindowLevel m_kWinLevel

Window-level interface.

m_kXArrow

WildMagic.LibGraphics.SceneGraph.TriMesh[] m_kXArrow

x-axis arrow

m_kYArrow

WildMagic.LibGraphics.SceneGraph.TriMesh[] m_kYArrow

y-axis arrow

m_kZState

WildMagic.LibGraphics.Rendering.ZBufferState m_kZState

m_spkScreenCamera

WildMagic.LibGraphics.Rendering.Camera m_spkScreenCamera

Drawing the axis arrows in screen-space.

map

java.util.BitSet map

stack

java.util.Stack<int[]> stack

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.svm_toy extends java.applet.Applet implements Serializable

Serialized Fields

buffer

java.awt.Image buffer

buffer_gc

java.awt.Graphics buffer_gc

current_value

byte current_value

point_list

java.util.Vector<svm_toy.point> point_list

XLEN

int XLEN

YLEN

int YLEN

Package gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.liblinearsvm

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.liblinearsvm.InvalidInputDataException extends java.lang.Exception implements Serializable

serialVersionUID:

2945131732407207308L

Serialized Fields

_file

java.io.File _file

_line

int _line

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.liblinearsvm.Model extends java.lang.Object implements Serializable

serialVersionUID:

-6456047576741854834L

Serialized Fields

bias

double bias

label

int[] label

label of each class

nr_class

int nr_class

nr_feature

int nr_feature

solverType

SolverType solverType

w

double[] w

feature weight array

Package gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.libsvm

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.libsvm.svm_model extends java.lang.Object implements Serializable

Serialized Fields

l

int l

label

int[] label

nr_class

int nr_class

nSV

int[] nSV

param

svm_parameter param

probA

double[] probA

probB

double[] probB

rho

double[] rho

SV

svm_node[][] SV

sv_coef

double[][] sv_coef

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.libsvm.svm_node extends java.lang.Object implements Serializable

Serialized Fields

index

int index

value

double value

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.libsvm.svm_parameter extends java.lang.Object implements Serializable

Serialized Fields

C

double C

cache_size

double cache_size

coef0

double coef0

degree

int degree

eps

double eps

gamma

double gamma

kernel_type

int kernel_type

nr_weight

int nr_weight

nu

double nu

p

double p

probability

int probability

shrinking

int shrinking

svm_type

int svm_type

weight

double[] weight

weight_label

int[] weight_label

Class gov.nih.mipav.view.renderer.WildMagic.ProstateFramework.libsvm.svm_problem extends java.lang.Object implements Serializable

Serialized Fields

l

int l

x

svm_node[][] x

y

double[] y

Package gov.nih.mipav.view.renderer.WildMagic.Render

Class gov.nih.mipav.view.renderer.WildMagic.Render.BoundingBoxEffect extends WildMagic.LibGraphics.Effects.ShaderEffect implements Serializable

serialVersionUID:

7377691694355531644L

Serialized Fields

background

WildMagic.LibFoundation.Mathematics.ColorRGB background

color

WildMagic.LibFoundation.Mathematics.ColorRGB color

origin

WildMagic.LibFoundation.Mathematics.Vector3f origin

plane

WildMagic.LibFoundation.Mathematics.Vector3f plane

range

WildMagic.LibFoundation.Mathematics.Vector3f range

scale

WildMagic.LibFoundation.Mathematics.Vector3f scale

Class gov.nih.mipav.view.renderer.WildMagic.Render.ImageReduceEffect extends WildMagic.LibGraphics.Effects.ShaderEffect implements Serializable

serialVersionUID:

8646199208619749718L

Serialized Fields

m_dNumSamples

double m_dNumSamples

Class gov.nih.mipav.view.renderer.WildMagic.Render.ImageRegistrationGPU extends WildMagic.LibApplications.OpenGLApplication.JavaApplication3D implements Serializable

serialVersionUID:

3444862706603129509L

Serialized Fields

m_afBracket

float[] m_afBracket

m_afBracketB

float[] m_afBracketB

m_afPt

float[] m_afPt

m_afStartPoint

float[] m_afStartPoint

m_afUnitDirections

float[] m_afUnitDirections

m_akCollapse2D

VolumeHistogramEffect m_akCollapse2D

m_akCollapseColumns

VolumeHistogramEffect m_akCollapseColumns

m_akCollapseRows

VolumeHistogramEffect m_akCollapseRows

m_akImageReduceEntropy

ImageReduceEffect m_akImageReduceEntropy

m_bCalcLineMin

boolean m_bCalcLineMin

m_bCleanUp

boolean m_bCleanUp

m_bDisplay

boolean m_bDisplay

m_bDispose

boolean m_bDispose

m_bDisposeComplete

boolean m_bDisposeComplete

m_bInit

boolean m_bInit

m_bStatus

boolean m_bStatus

m_dHx

double m_dHx

m_dHxy

double m_dHxy

m_dHy

double m_dHy

m_dOverlap

double m_dOverlap

m_fDim

float m_fDim

m_fMinDist

float m_fMinDist

m_fPtLength

float m_fPtLength

m_fRigid

float m_fRigid

m_fUnitTolerance

float m_fUnitTolerance

m_iRenderLoops

int m_iRenderLoops

m_kAlpha

WildMagic.LibGraphics.Rendering.AlphaState m_kAlpha

m_kBracketNewOut

WildMagic.LibRenderers.OpenGLRenderer.OpenGLFrameBuffer m_kBracketNewOut

m_kBracketOut

WildMagic.LibRenderers.OpenGLRenderer.OpenGLFrameBuffer m_kBracketOut

m_kBracketPoints

WildMagic.LibGraphics.SceneGraph.Polypoint m_kBracketPoints

m_kCalcTransform

LineMinimizationEffect m_kCalcTransform

m_kEntropyOut

WildMagic.LibRenderers.OpenGLRenderer.OpenGLFrameBuffer m_kEntropyOut

m_kEntropyPoints2D

WildMagic.LibGraphics.SceneGraph.Polypoint m_kEntropyPoints2D

m_kFrame

javax.swing.JFrame m_kFrame

m_kFromOrigin

WildMagic.LibFoundation.Mathematics.Matrix4f m_kFromOrigin

m_kFromOriginInv

WildMagic.LibFoundation.Mathematics.Matrix4f m_kFromOriginInv

m_kHistogramOutput

WildMagic.LibRenderers.OpenGLRenderer.OpenGLFrameBuffer m_kHistogramOutput

m_kHistogramOutputB

WildMagic.LibRenderers.OpenGLRenderer.OpenGLFrameBuffer m_kHistogramOutputB

m_kHistogramPoints2D

WildMagic.LibGraphics.SceneGraph.Polypoint m_kHistogramPoints2D

m_kImageA

ModelSimpleImage m_kImageA

m_kImageB

ModelSimpleImage m_kImageB

m_kImageEffectDual

VolumeHistogramEffect m_kImageEffectDual

m_kImageLineMinDual

LineMinimizationEffect m_kImageLineMinDual

m_kImageLineMinPass2a

LineMinimizationEffect m_kImageLineMinPass2a

m_kImagePointsDual

WildMagic.LibGraphics.SceneGraph.Polypoint m_kImagePointsDual

m_kImageTransform

WildMagic.LibFoundation.Mathematics.Matrix4f m_kImageTransform

m_kImageTransformd

WildMagic.LibFoundation.Mathematics.Matrix4d m_kImageTransformd

m_kMoving

ModelSimpleImage m_kMoving

m_kNameA

java.lang.String m_kNameA

m_kNameB

java.lang.String m_kNameB

m_kTarget

ModelSimpleImage m_kTarget

m_kTextureA

WildMagic.LibGraphics.Rendering.Texture m_kTextureA

m_kTextureB

WildMagic.LibGraphics.Rendering.Texture m_kTextureB

m_kToOrigin

WildMagic.LibFoundation.Mathematics.Matrix4f m_kToOrigin

m_kToOriginInv

WildMagic.LibFoundation.Mathematics.Matrix4f m_kToOriginInv

m_kTransformOut

WildMagic.LibRenderers.OpenGLRenderer.OpenGLFrameBuffer m_kTransformOut

m_kTransformPoints

WildMagic.LibGraphics.SceneGraph.Polypoint m_kTransformPoints

Class gov.nih.mipav.view.renderer.WildMagic.Render.LineMinimizationEffect extends WildMagic.LibGraphics.Effects.ShaderEffect implements Serializable

serialVersionUID:

7303288656271198298L

Serialized Fields

m_afPt

float[] m_afPt

m_afStartPoint

float[] m_afStartPoint

m_afUnitDirections

float[] m_afUnitDirections

m_aiExtents

int[] m_aiExtents

m_dNumSamples

float m_dNumSamples

m_fDim

float m_fDim

m_fMin1

float m_fMin1

m_fMin2

float m_fMin2

m_fMinDist

float m_fMinDist

m_fPtLength

float m_fPtLength

m_fRigid

float m_fRigid

m_fScale1

float m_fScale1

m_fScale2

float m_fScale2

m_fUnitTolerance

float m_fUnitTolerance

m_iHeight

int m_iHeight

m_iWidth

int m_iWidth

m_kFromOrigin

WildMagic.LibFoundation.Mathematics.Matrix4f m_kFromOrigin

m_kToOrigin

WildMagic.LibFoundation.Mathematics.Matrix4f m_kToOrigin

Class gov.nih.mipav.view.renderer.WildMagic.Render.MipavLightingEffect extends WildMagic.LibGraphics.Effects.ShaderEffect implements Serializable

serialVersionUID:

4315576697840371407L

Class gov.nih.mipav.view.renderer.WildMagic.Render.OrderIndpTransparencyEffect extends WildMagic.LibGraphics.Effects.ShaderEffect implements Serializable

serialVersionUID:

-1254697242675646161L

Class gov.nih.mipav.view.renderer.WildMagic.Render.PolylineVector extends java.util.Vector<WildMagic.LibGraphics.SceneGraph.Polyline> implements Serializable

serialVersionUID:

-7579112007899203250L

Class gov.nih.mipav.view.renderer.WildMagic.Render.ScaledTextureEffect extends WildMagic.LibGraphics.Effects.ShaderEffect implements Serializable

serialVersionUID:

-2514458768937685922L

Serialized Fields

m_fScale

float m_fScale

Class gov.nih.mipav.view.renderer.WildMagic.Render.SurfaceClipEffect extends VolumeClipEffect implements Serializable

serialVersionUID:

8502686732859951115L

Class gov.nih.mipav.view.renderer.WildMagic.Render.SurfaceExtractImage extends WildMagic.LibGraphics.Rendering.GraphicsImage implements Serializable

serialVersionUID:

-8778385831984000534L

Serialized Fields

Data

int[] Data

Max

int Max

Min

int Min

TriTable

java.util.Vector<int[]> TriTable

Class gov.nih.mipav.view.renderer.WildMagic.Render.SurfaceLightingEffect extends VolumeClipEffect implements Serializable

serialVersionUID:

5100923838093263591L

Serialized Fields

m_bPerPixelLighting

boolean m_bPerPixelLighting

m_bUseNewImage

boolean m_bUseNewImage

m_bUseNewLUT

boolean m_bUseNewLUT

m_fBlend

float m_fBlend

m_iReverseFace

int m_iReverseFace

m_kColorMapNew

WildMagic.LibGraphics.Rendering.GraphicsImage m_kColorMapNew

m_kImageNew

ModelImage m_kImageNew

m_kLUTNew

ModelStorageBase m_kLUTNew

m_kPPixelLighting

WildMagic.LibGraphics.Shaders.PixelShader m_kPPixelLighting

m_kPVertexLighting

WildMagic.LibGraphics.Shaders.PixelShader m_kPVertexLighting

m_kVolumeImage

VolumeImage m_kVolumeImage

m_kVolumeImageNew

WildMagic.LibGraphics.Rendering.GraphicsImage m_kVolumeImageNew

m_kVolumeLUTNew

WildMagic.LibGraphics.Rendering.Texture m_kVolumeLUTNew

m_kVolumeTextureNew

WildMagic.LibGraphics.Rendering.Texture m_kVolumeTextureNew

m_kVPixelLighting

WildMagic.LibGraphics.Shaders.VertexShader m_kVPixelLighting

m_kVVertexLighting

WildMagic.LibGraphics.Shaders.VertexShader m_kVVertexLighting

Class gov.nih.mipav.view.renderer.WildMagic.Render.SurfaceMaterialDisplay extends WildMagic.LibApplications.OpenGLApplication.JavaApplication3D implements Serializable

serialVersionUID:

1567185245264397021L

Serialized Fields

m_akLights

WildMagic.LibGraphics.Rendering.Light[] m_akLights

m_bInit

boolean m_bInit

m_bMain

boolean m_bMain

m_kCuller

WildMagic.LibGraphics.SceneGraph.Culler m_kCuller

m_kLightShader

MipavLightingEffect m_kLightShader

m_pkMaterial

WildMagic.LibGraphics.Rendering.MaterialState m_pkMaterial

m_spkScene

WildMagic.LibGraphics.SceneGraph.Node m_spkScene

m_spkSphere

WildMagic.LibGraphics.SceneGraph.TriMesh m_spkSphere

Class gov.nih.mipav.view.renderer.WildMagic.Render.VolumeCalcEffect extends VolumeClipEffect implements Serializable

serialVersionUID:

-4844378132828150930L

Serialized Fields

m_afMinMax

float[] m_afMinMax

stores the gradient magnitude filter on/off value:

m_bIsColor

boolean m_bIsColor

When true the volume data is color.

Class gov.nih.mipav.view.renderer.WildMagic.Render.VolumeClipEffect extends WildMagic.LibGraphics.Effects.ShaderEffect implements Serializable

serialVersionUID:

-833857381096103948L

Serialized Fields

m_aafClipData

float[][] m_aafClipData

stores t=clip plane information:

m_afClipAll

boolean[] m_afClipAll

Turn clipping on/off per-axis aligned clip plane, eye-clip planes and arbitrary plane.

m_afClipOBBAxis0

float[] m_afClipOBBAxis0

m_afClipOBBAxis1

float[] m_afClipOBBAxis1

m_afClipOBBAxis2

float[] m_afClipOBBAxis2

m_afClipOBBExtent

float[] m_afClipOBBExtent

m_afClipSphereCenter

float[] m_afClipSphereCenter

m_afClipSphereScale

float[] m_afClipSphereScale

m_afDoClip

float[] m_afDoClip

Turn clipping on/off.

m_afVolumeMatrix

float[] m_afVolumeMatrix

m_bClipOBB

boolean m_bClipOBB

m_bClipSphere

boolean m_bClipSphere

Class gov.nih.mipav.view.renderer.WildMagic.Render.VolumeHistogramEffect extends WildMagic.LibGraphics.Effects.ShaderEffect implements Serializable

serialVersionUID:

547439954218104278L

Serialized Fields

m_aiExtents

int[] m_aiExtents

m_fMin1

float m_fMin1

m_fMin2

float m_fMin2

m_fScale1

float m_fScale1

m_fScale2

float m_fScale2

m_fUseZSlice

float m_fUseZSlice

m_fZSlice

float m_fZSlice

m_iHeight

int m_iHeight

m_iWidth

int m_iWidth

m_kImageTransform

WildMagic.LibFoundation.Mathematics.Matrix4f m_kImageTransform

m_kImageTransformd

WildMagic.LibFoundation.Mathematics.Matrix4d m_kImageTransformd

Class gov.nih.mipav.view.renderer.WildMagic.Render.VolumeImage extends java.lang.Object implements Serializable

serialVersionUID:

-7254697711265907746L

Serialization Methods

readObject

private void readObject(java.io.ObjectInputStream in)
                 throws java.io.IOException,
                        java.lang.ClassNotFoundException

Throws:

java.io.IOException

java.lang.ClassNotFoundException

writeObject

private void writeObject(java.io.ObjectOutputStream out)
                  throws java.io.IOException

Throws:

java.io.IOException

Serialized Fields

m_akGradientMagMinMax

WildMagic.LibFoundation.Mathematics.Vector2f[] m_akGradientMagMinMax

3D sub-images (4D data)

m_akHistoTCoord

WildMagic.LibFoundation.Mathematics.Vector2f[] m_akHistoTCoord

Texture coordinates for displaying histogram in 2D

m_bGMInit

boolean m_bGMInit

Set to true if the Gradient Magnitude texture map has been initialized.

m_bHistoInit

boolean m_bHistoInit

Set to true when the multi-histogram histogram texture has been initialized.

m_bNormalsInit

boolean m_bNormalsInit

Set to true if the Normal Map has been initialized.

m_fDRRNormalize

float m_fDRRNormalize

m_fMax

float m_fMax

Image scale factors for display in 3D

m_fX

float m_fX

Image scale factors for display in 3D

m_fY

float m_fY

Image scale factors for display in 3D

m_fZ

float m_fZ

Image scale factors for display in 3D

m_iMaxExtent

int m_iMaxExtent

m_iTimeSlice

int m_iTimeSlice

Current position in time (4D data)

m_iTimeSteps

int m_iTimeSteps

Total number of time-slices (4D data)

m_kColorMap

WildMagic.LibGraphics.Rendering.GraphicsImage m_kColorMap

Data storage for color map:

m_kColorMapTarget

WildMagic.LibGraphics.Rendering.Texture m_kColorMapTarget

Texture object for color map:

m_kDir

java.lang.String m_kDir

Directory for calculated images

m_kHisto

WildMagic.LibGraphics.Rendering.GraphicsImage[] m_kHisto

Histogram data for multi-histogram interface

m_kHistoTarget

WildMagic.LibGraphics.Rendering.Texture m_kHistoTarget

Texture object for data:

m_kImage

ModelImage m_kImage

Reference to ModelImage image

m_kImageGM

ModelImage m_kImageGM

m_kLUT

ModelLUT m_kLUT

ModelLUT

m_kNormal

WildMagic.LibGraphics.Rendering.GraphicsImage[] m_kNormal

Data storage for normals:

m_kNormalMapTarget

WildMagic.LibGraphics.Rendering.Texture m_kNormalMapTarget

Texture object for normal map:

m_kOpacityMap_GM

WildMagic.LibGraphics.Rendering.GraphicsImage m_kOpacityMap_GM

GraphicsImage contains GM opacity transfer function data:

m_kOpacityMapTarget_GM

WildMagic.LibGraphics.Rendering.Texture m_kOpacityMapTarget_GM

Texture contains texture filter modes and GraphicsImage for opacity transfer function:

m_kPostfix

java.lang.String m_kPostfix

Image name post-fix typically either 'A' or 'B'

m_kRGBT

ModelRGB m_kRGBT

ModelRGB

m_kScratchTarget

WildMagic.LibGraphics.Rendering.Texture m_kScratchTarget

Texture object for GPU computations:

m_kSurfaceImage

WildMagic.LibGraphics.Rendering.GraphicsImage m_kSurfaceImage

Data storage for surfaces:

m_kSurfaceTarget

WildMagic.LibGraphics.Rendering.Texture m_kSurfaceTarget

Texture object for surfaces:

m_kVolume

WildMagic.LibGraphics.Rendering.GraphicsImage[] m_kVolume

Data storage for volume:

m_kVolumeGM

WildMagic.LibGraphics.Rendering.GraphicsImage[] m_kVolumeGM

Data storage for volume gradient magnitude:

m_kVolumeGMTarget

WildMagic.LibGraphics.Rendering.Texture m_kVolumeGMTarget

Texture object for volume gradient magnitude data:

m_kVolumeTarget

WildMagic.LibGraphics.Rendering.Texture m_kVolumeTarget

Texture object for data:

opacityTransferFn

TransferFunction opacityTransferFn

surfaceColor

java.util.Vector<WildMagic.LibFoundation.Mathematics.ColorRGB> surfaceColor

A vector of BitSet masks, one for each surface loaded into the viewer.

surfaceMask

java.util.Vector<java.util.BitSet> surfaceMask

A vector of BitSet masks, one for each surface loaded into the viewer.

surfaceNames

java.util.Vector<java.lang.String> surfaceNames

A vector of the mask names, so they can be accessed by name:

Class gov.nih.mipav.view.renderer.WildMagic.Render.VolumeImageCrop extends VolumeImageViewer implements Serializable

serialVersionUID:

-3884075404385493867L

Serialized Fields

m_kClipEffect

VolumeClipEffect m_kClipEffect

m_kVolumeViewMatrix

float[] m_kVolumeViewMatrix

Class gov.nih.mipav.view.renderer.WildMagic.Render.VolumeImageExtract extends VolumeImageViewer implements Serializable

serialVersionUID:

5118167091752659025L

Serialized Fields

m_afNewResolutions

float[] m_afNewResolutions

m_aiNewExtents

int[] m_aiNewExtents

m_bDisplayFirst

boolean m_bDisplayFirst

m_bDisplaySecond

boolean m_bDisplaySecond

m_iExtractLevel

int m_iExtractLevel

Intensity level for GPU-surface extraction.

m_kCalcImage

WildMagic.LibGraphics.Rendering.GraphicsImage m_kCalcImage

m_kCalcImage2

SurfaceExtractImage m_kCalcImage2

m_kClipEffect

VolumeClipEffect m_kClipEffect

m_pkVolumeCalcTarget

WildMagic.LibGraphics.Rendering.Texture m_pkVolumeCalcTarget

m_pkVolumeCalcTarget2

WildMagic.LibGraphics.Rendering.Texture m_pkVolumeCalcTarget2

m_spkEffect2

VolumeCalcEffect m_spkEffect2

Class gov.nih.mipav.view.renderer.WildMagic.Render.VolumeImageSurfaceMask extends VolumeImageViewer implements Serializable

serialVersionUID:

-6880453836501887284L

Serialized Fields

m_bCreateMaskImage

boolean m_bCreateMaskImage

m_kDisplayList

java.util.Vector<VolumeObject> m_kDisplayList

m_kOutputImage

ModelImage m_kOutputImage

m_kOutputMask

java.util.BitSet m_kOutputMask

m_kSurfaceClip

SurfaceClipEffect[] m_kSurfaceClip

Class gov.nih.mipav.view.renderer.WildMagic.Render.VolumeImageViewer extends WildMagic.LibApplications.OpenGLApplication.JavaApplication3D implements Serializable

serialVersionUID:

-2042201391319899982L

Serialized Fields

dpiScale

double dpiScale

elapsedTime

double elapsedTime

Elapsed time (in milliseconds) -- time it took for algorithm to run.

m_bDisplay

boolean m_bDisplay

m_bDispose

boolean m_bDispose

m_bInit

boolean m_bInit

m_iSlice

int m_iSlice

m_kAnimator

com.jogamp.opengl.util.Animator m_kAnimator

m_kCull

WildMagic.LibGraphics.Rendering.CullState m_kCull

m_kCuller

WildMagic.LibGraphics.SceneGraph.Culler m_kCuller

m_kFrame

java.awt.Frame m_kFrame

m_kParent

VolumeTriPlanarInterface m_kParent

m_kVolumeImage

VolumeImage m_kVolumeImage

m_pkPlane

WildMagic.LibGraphics.SceneGraph.TriMesh m_pkPlane

m_spkEffect

WildMagic.LibGraphics.Effects.ShaderEffect m_spkEffect

m_spkScene

WildMagic.LibGraphics.SceneGraph.Node m_spkScene

startTime

long startTime

Class gov.nih.mipav.view.renderer.WildMagic.Render.VolumePlaneEffect extends WildMagic.LibGraphics.Effects.ShaderEffect implements Serializable

serialVersionUID:

-5399442879177045664L

Serialized Fields

m_bShowSurface

boolean m_bShowSurface

m_bTransparent

boolean m_bTransparent

m_fBlend

float m_fBlend

m_kPShader

WildMagic.LibGraphics.Shaders.PixelShader m_kPShader

m_kVolumeImageA

VolumeImage m_kVolumeImageA

Shared volume data and textures.

m_kVolumeImageB

VolumeImage m_kVolumeImageB

Shared volume data and textures.

rgbA

ModelRGB rgbA

rgbB

ModelRGB rgbB

Class gov.nih.mipav.view.renderer.WildMagic.Render.VolumePreRenderEffect extends WildMagic.LibGraphics.Effects.ShaderEffect implements Serializable

serialVersionUID:

-9019623746108147953L

Serialized Fields

m_kPos

WildMagic.LibFoundation.Mathematics.Vector3f m_kPos

Class gov.nih.mipav.view.renderer.WildMagic.Render.VolumeShaderEffectMultiPass extends VolumeClipEffect implements Serializable

serialVersionUID:

5580825290512790813L

Serialized Fields

m_aafLight

float[][] m_aafLight

m_afABBlendParam

float[] m_afABBlendParam

m_afBlendParam

float[] m_afBlendParam

m_akLevWidget

ClassificationWidgetState[] m_akLevWidget

m_bGradientMag

boolean m_bGradientMag

m_bMultiHisto

boolean m_bMultiHisto

m_fMaxLength

float m_fMaxLength

m_fSamples

float m_fSamples

m_iBlend

int m_iBlend

m_iDstBlend

int m_iDstBlend

m_iPasses

int m_iPasses

m_iSrcBlend

int m_iSrcBlend

m_iUsedWidgets

int m_iUsedWidgets

m_iWhichShader

int m_iWhichShader

Indicates which shader to use (MIP, DDR, CMP, SUR, CMP_SUR, MULTIHISTO):

m_kBlendColor

WildMagic.LibFoundation.Mathematics.ColorRGBA m_kBlendColor

m_kPShaderCMP

WildMagic.LibGraphics.Shaders.PixelShader m_kPShaderCMP

PixelShader program and data for Composite mode:

m_kRGBT

ModelRGB m_kRGBT

m_kSceneTarget

WildMagic.LibGraphics.Rendering.Texture m_kSceneTarget

Reference to the SceneImage texture:

m_kVolumeImageA

VolumeImage m_kVolumeImageA

Shared volume data and textures.

m_kVolumeImageB

VolumeImage m_kVolumeImageB

Shared volume data and textures.

m_pkVShader

WildMagic.LibGraphics.Shaders.VertexShader m_pkVShader

Class gov.nih.mipav.view.renderer.WildMagic.Render.VolumeShaderEffectMultiPassDynamic extends VolumeShaderEffectMultiPass implements Serializable

serialVersionUID:

-4552046274082477860L

Class gov.nih.mipav.view.renderer.WildMagic.Render.VolumeVOIEffect extends WildMagic.LibGraphics.Effects.ShaderEffect implements Serializable

serialVersionUID:

8243388938991470076L

Serialized Fields

minRange

float minRange

Class gov.nih.mipav.view.renderer.WildMagic.Render.VSEMD_MultipleImages extends VolumeShaderEffectMultiPass implements Serializable

serialVersionUID:

-4552046274082477860L

Serialized Fields

hyperstack

VolumeImage[] hyperstack

hyperstackColormap

WildMagic.LibGraphics.Rendering.Texture hyperstackColormap

imageOn

boolean[] imageOn

lut

java.lang.String[] lut

Package gov.nih.mipav.view.renderer.WildMagic.Render.MultiDimensionalTransfer

Class gov.nih.mipav.view.renderer.WildMagic.Render.MultiDimensionalTransfer.CircleClassificationWidget extends ClassificationWidget implements Serializable

serialVersionUID:

-4180814068815939724L

Serialization Methods

readObject

private void readObject(java.io.ObjectInputStream in)
                 throws java.io.IOException,
                        java.lang.ClassNotFoundException

Read a new CircleClassificationWidget from the input stream.

Throws:

java.io.IOException

java.lang.ClassNotFoundException

writeObject

private void writeObject(java.io.ObjectOutputStream out)
                  throws java.io.IOException

Stream this object to disk.

Throws:

java.io.IOException

Serialized Fields

m_fCenterScale

float m_fCenterScale

Distance scale used to position the center sphere control-point out from the center of the circle/ellipse.

m_fRadiusX

float m_fRadiusX

The radius of the circle in the x-direction.

m_fRadiusY

float m_fRadiusY

The radius of the circle in the y-direction.

m_kCenterDir

WildMagic.LibFoundation.Mathematics.Vector2f m_kCenterDir

Direction used to position the center sphere control-point out from the center of the circle/ellipse.

Class gov.nih.mipav.view.renderer.WildMagic.Render.MultiDimensionalTransfer.ClassificationWidget extends java.lang.Object implements Serializable

serialVersionUID:

8150358952544808439L

Serialization Methods

readObject

private void readObject(java.io.ObjectInputStream in)
                 throws java.io.IOException,
                        java.lang.ClassNotFoundException

Read this object from disk:

Throws:

java.io.IOException

java.lang.ClassNotFoundException

writeObject

private void writeObject(java.io.ObjectOutputStream out)
                  throws java.io.IOException

Stream this object to disk.

Throws:

java.io.IOException

Serialized Fields

m_iHeight

int m_iHeight

Canvas width and height

m_iWidth

int m_iWidth

Canvas width and height

m_kLowerSphere

WildMagic.LibGraphics.SceneGraph.TriMesh m_kLowerSphere

The lower-sphere control point of the widget, controls the shape/size of the widget

m_kMiddleSphere

WildMagic.LibGraphics.SceneGraph.TriMesh m_kMiddleSphere

The middle-sphere control point of the widget, controls the color transfer function inside the widget.

m_kMouseOffset

WildMagic.LibFoundation.Mathematics.Vector2f m_kMouseOffset

Mouse offset used for dragging the widget. Stored in screen (MouseEvent) coordinates

m_kOutline

WildMagic.LibGraphics.SceneGraph.Polyline m_kOutline

Polyline outlines the widget in red when selected, or blue when non selected.

m_kPicked

WildMagic.LibGraphics.SceneGraph.Spatial m_kPicked

Currently picked, or active part of this widget, may be the mesh or one of the control-point spheres. When null no part of this widget is currently active.

m_kTMax

WildMagic.LibFoundation.Mathematics.Vector2f m_kTMax

Maximum texture coordinates for the 2D histogram. The 2D Histogram is truncated based on a minimum threshold value, so the entire histogram may not be used depending on the data.

m_kTMin

WildMagic.LibFoundation.Mathematics.Vector2f m_kTMin

Minimum texture coordinates for the 2D histogram. The 2D Histogram is truncated based on a minimum threshold value, so the entire histogram may not be used depending on the data.

m_kUpperSphere

WildMagic.LibGraphics.SceneGraph.TriMesh m_kUpperSphere

The upper-sphere control point of the widget, controls the shape/size of the widget

m_kWidget

WildMagic.LibGraphics.SceneGraph.Node m_kWidget

The top-level node containing the widget graphic data structures (triangle meshes and transformations)

m_kWidgetEfect

ClassificationWidgetEffect m_kWidgetEfect

The shader effect used to render the inside color transfer function of the widget, based on the position of the widget and the position of the middle (green) sphere control-point.

m_kWidgetMesh

WildMagic.LibGraphics.SceneGraph.TriMesh m_kWidgetMesh

The TriMesh representing the shape of the widget.

m_kWidgetState

ClassificationWidgetState m_kWidgetState

Shader effect state, for reading from disk:

Class gov.nih.mipav.view.renderer.WildMagic.Render.MultiDimensionalTransfer.ClassificationWidgetEffect extends WildMagic.LibGraphics.Effects.TextureEffect implements Serializable

serialVersionUID:

3379141203039832123L

Serialization Methods

readObject

public void readObject(java.io.ObjectInputStream in)
                throws java.io.IOException,
                       java.lang.ClassNotFoundException

Read this object from disk.

Throws:

java.io.IOException

java.lang.ClassNotFoundException

writeObject

public void writeObject(java.io.ObjectOutputStream out)
                 throws java.io.IOException

Stream this object to disk.

Throws:

java.io.IOException

Serialized Fields

m_kCurrentText

java.lang.String m_kCurrentText

Current GLSL code for the widget program.

m_kLUTMap

WildMagic.LibGraphics.Rendering.Texture m_kLUTMap

color look-up table Texture:

m_kLUTName

java.lang.String m_kLUTName

color look-up table name.

m_kTexture

WildMagic.LibGraphics.Rendering.Texture m_kTexture

Texture used in the histogram.

m_kWidgetState

ClassificationWidgetState m_kWidgetState

Current state of the widget encapsulated in the GLSL parameters needed for the Volume renderer GLSL program:

mainPixelShader1

java.lang.String mainPixelShader1

First part of the GLSL code for the pixel shader program for all widgets:

mainPixelShader2

java.lang.String mainPixelShader2

GLSL main code part 2 for all widget types.

mainPixelShaderCircle

java.lang.String mainPixelShaderCircle

GLSL function call for the circle widget:

mainPixelShaderSquare

java.lang.String mainPixelShaderSquare

GLSL function call for the square widget:

mainPixelShaderTriangle

java.lang.String mainPixelShaderTriangle

GLSL function call for the triangle widget:

Class gov.nih.mipav.view.renderer.WildMagic.Render.MultiDimensionalTransfer.ClassificationWidgetState extends java.lang.Object implements Serializable

serialVersionUID:

711728604033191355L

Serialized Fields

BoundaryEmphasis

float[] BoundaryEmphasis

contribution of the boundary emphasis slider and therefor the contribution of the 2nd derivative of the data.

Center

float[] Center

Widget Center:

Color

float[] Color

Default color for the color transfer function is white:

InvertLUT

boolean InvertLUT

LeftLine

float[] LeftLine

Transfer function left line:

MidLine

float[] MidLine

Transfer function mid-line:

Radius

float[] Radius

Transfer function radius:

RightLine

float[] RightLine

Transfer function right line:

Shift

float[] Shift

Transfer function shift:

Type

int Type

UseColorMap

float[] UseColorMap

turns the widget color map on/off in the GLSL shader code.

UseWidget

float[] UseWidget

turns the widget on/off in the GLSL shader code.

XRatio

float[] XRatio

Transfer function y-ratios:

YRatio

float[] YRatio

Transfer function y-ratios:

Class gov.nih.mipav.view.renderer.WildMagic.Render.MultiDimensionalTransfer.SquareClassificationWidget extends ClassificationWidget implements Serializable

serialVersionUID:

-4180814068815939724L

Serialization Methods

readObject

private void readObject(java.io.ObjectInputStream in)
                 throws java.io.IOException,
                        java.lang.ClassNotFoundException

Read this object from disk:

Throws:

java.io.IOException

java.lang.ClassNotFoundException

writeObject

private void writeObject(java.io.ObjectOutputStream out)
                  throws java.io.IOException

Stream this object to disk.

Throws:

java.io.IOException

Serialized Fields

m_fCenterX

float m_fCenterX

Current parameterized coordinates for the center control point in X (used to maintain relative position when resizing the widget).

m_fCenterY

float m_fCenterY

Current parameterized coordinates for the center control point in Y (used to maintain relative position when resizing the widget).

Class gov.nih.mipav.view.renderer.WildMagic.Render.MultiDimensionalTransfer.TriangleClassificationWidget extends ClassificationWidget implements Serializable

serialVersionUID:

-3903003012355432310L

Serialization Methods

readObject

private void readObject(java.io.ObjectInputStream in)
                 throws java.io.IOException,
                        java.lang.ClassNotFoundException

Read this object from disk.

Throws:

java.io.IOException

java.lang.ClassNotFoundException

writeObject

private void writeObject(java.io.ObjectOutputStream out)
                  throws java.io.IOException

Stream this object to disk.

Throws:

java.io.IOException

Serialized Fields

m_fCenterX

float m_fCenterX

Current parameterized coordinates for the center control point in X (used to maintain relative position when resizing the widget).

m_fCenterY

float m_fCenterY

Current parameterized coordinates for the center control point in Y (used to maintain relative position when resizing the widget).

m_kLeftSphere

WildMagic.LibGraphics.SceneGraph.TriMesh m_kLeftSphere

Class gov.nih.mipav.view.renderer.WildMagic.Render.MultiDimensionalTransfer.VolumeImageMultiDimensionalTransfer extends VolumeImageViewer implements Serializable

serialVersionUID:

401740242306942355L

Serialized Fields

container

javax.swing.JPanel container

main container for this object:

m_akWidgets

java.util.Vector<ClassificationWidget> m_akWidgets

The list of widgets displayed on the 2D Histogram.

m_bAdded

boolean m_bAdded

When true a new Widget was added with the mouse.

m_bFirstAdded

boolean m_bFirstAdded

m_bPickPending

boolean m_bPickPending

When true there is a pending mouse pick to process.

m_bUpdateLev

boolean m_bUpdateLev

m_iCurrent

int m_iCurrent

The ID of the active and previously active widget.

m_iLUTIndex

int m_iLUTIndex

m_iMouseButton

int m_iMouseButton

Stores which button was pressed during mouse drag.

m_iMouseX

int m_iMouseX

Stores the mouse position for picking.

m_iMouseY

int m_iMouseY

Stores the mouse position for picking.

m_iPicked

int m_iPicked

The ID of the

m_iPrevious

int m_iPrevious

The ID of the active and previously active widget.

m_kCurrentColor

WildMagic.LibFoundation.Mathematics.ColorRGBA m_kCurrentColor

The current color to use to create a new Widget.

m_kInterface

JInterfaceBase m_kInterface

Reference to the containing JPanel.

m_kTMax

WildMagic.LibFoundation.Mathematics.Vector2f m_kTMax

m_kTMin

WildMagic.LibFoundation.Mathematics.Vector2f m_kTMin

The bounds on the 2D Histogram texture coordinates used to display the 2D Histogram. The texture coordinates are clamped to show only the portions of the texture that are above a threshold value.

m_kWidgetType

java.lang.String m_kWidgetType

Defines the current selected widget type.

MAX_WIDGETS

int MAX_WIDGETS

The maximum number of widgets that can be added to the display. More can be added, but then the Volume Renderer GLSL program should be changed to add the new widgets.

Package gov.nih.mipav.view.renderer.WildMagic.TBI

Class gov.nih.mipav.view.renderer.WildMagic.TBI.JDialogConvertVOITBI extends JDialogSaveMergedVOIs implements Serializable

Serialized Fields

buttonCoronal

javax.swing.JButton buttonCoronal

Choose button for each VOI and ply file.

buttonPanel

javax.swing.JPanel buttonPanel

Button panel to hold the OK button, Cancel button, and Help button.

buttonPly

javax.swing.JButton buttonPly

Choose button for each VOI and ply file.

CoronalVOIs

InstanceVOI CoronalVOIs

labelCoronalVOI

javax.swing.JLabel labelCoronalVOI

labelPlyFile

javax.swing.JLabel labelPlyFile

PlyInstance

InstanceVOI PlyInstance

Ply file instance. This instance only uses the file dir and file name.

textFieldCoronalVOI

javax.swing.JTextField textFieldCoronalVOI

Text field for each VOI and ply file.

textFieldPlyFile

javax.swing.JTextField textFieldPlyFile

Text field for each VOI and ply file.

VOIsPanel

javax.swing.JPanel VOIsPanel

Class gov.nih.mipav.view.renderer.WildMagic.TBI.JDialogSurfaceReconstructionTBI extends JDialogSurfaceReconstruction implements Serializable

Serialized Fields

BallPivotingPanel

javax.swing.JPanel BallPivotingPanel

buttonInputFile

javax.swing.JButton buttonInputFile

buttonOutputFile

javax.swing.JButton buttonOutputFile

buttonPanel

javax.swing.JPanel buttonPanel

Button panel to hold the OK button, Cancel button, and Help button.

chooser

javax.swing.JFileChooser chooser

directoryInput

java.lang.String directoryInput

directoryOutput

java.lang.String directoryOutput

file_suffix

java.lang.String file_suffix

fileNameInput

java.lang.String fileNameInput

fileNameOutput

java.lang.String fileNameOutput

msgPanel

javax.swing.JPanel msgPanel

Msg box to show the Prostate surface analysis related info.

plyInputFilePanel

javax.swing.JPanel plyInputFilePanel

plyOutputFilePanel

javax.swing.JPanel plyOutputFilePanel

textFieldAngleThreshold

javax.swing.JTextField textFieldAngleThreshold

textFieldBallRadius

javax.swing.JTextField textFieldBallRadius

textFieldClusteringRadius

javax.swing.JTextField textFieldClusteringRadius

textFieldInputFile

javax.swing.JTextField textFieldInputFile

textFieldOutputFile

javax.swing.JTextField textFieldOutputFile

UI

ViewUserInterface UI

Package gov.nih.mipav.view.renderer.WildMagic.WormUntwisting

Class gov.nih.mipav.view.renderer.WildMagic.WormUntwisting.JPanelAnnotations extends JInterfaceBase implements Serializable

serialVersionUID:

-9056581285643263551L

Serialized Fields

annotationGroupList

javax.swing.ListSelectionModel annotationGroupList

annotationGroupTable

javax.swing.JTable annotationGroupTable

annotationGroupTableModel

javax.swing.table.DefaultTableModel annotationGroupTableModel

annotationList

javax.swing.ListSelectionModel annotationList

annotationListPanel

javax.swing.JSplitPane annotationListPanel

annotationPanel

javax.swing.JSplitPane annotationPanel

annotationTable

javax.swing.JTable annotationTable

annotationTableModel

javax.swing.table.DefaultTableModel annotationTableModel

configured

boolean configured

createCurve

javax.swing.JButton createCurve

ctrlKey

boolean ctrlKey

currentAnnotationTableRow

int currentAnnotationTableRow

currentName

java.lang.String currentName

displayChannel

int displayChannel

displayGroupLabel

javax.swing.JCheckBox displayGroupLabel

displayLabel

javax.swing.JCheckBox displayLabel

displayMidline

javax.swing.JCheckBox displayMidline

displaySurface

javax.swing.JCheckBox displaySurface

firstClick

boolean firstClick

imageA

VolumeImage imageA

kScrollPane

javax.swing.JScrollPane kScrollPane

mask

ModelImage mask

mesh

WildMagic.LibGraphics.SceneGraph.TriMesh mesh

previewMode

boolean previewMode

searchField

javax.swing.JTextField searchField

searchFieldSize

java.awt.Dimension searchFieldSize

searchIndex

int searchIndex

segmentationContour

VOIContour segmentationContour

segmentationCurve

VOI segmentationCurve

selectedPrefix

java.lang.String selectedPrefix

sharedAnnotationPanel

JPanelAnnotations sharedAnnotationPanel

surfacState

SurfaceState surfacState

thresholdMax

javax.swing.JTextField thresholdMax

thresholdMin

javax.swing.JTextField thresholdMin

useLatticeMarkers

boolean useLatticeMarkers

voiManager

VOILatticeManagerInterface voiManager

volumeClip

javax.swing.JCheckBox volumeClip

volumeRadius

javax.swing.JSlider volumeRadius

volumeRenderer

VolumeTriPlanarRender volumeRenderer

Class gov.nih.mipav.view.renderer.WildMagic.WormUntwisting.JPanelCurves extends JInterfaceBase implements Serializable

serialVersionUID:

-9056581285643263551L

Serialized Fields

ctrlKey

boolean ctrlKey

curveList

java.util.Vector<java.lang.String> curveList

curvesList

javax.swing.ListSelectionModel curvesList

curvesPanel

javax.swing.JPanel curvesPanel

curvesTable

javax.swing.JTable curvesTable

curveTableModel

javax.swing.table.DefaultTableModel curveTableModel

displayLabel

javax.swing.JCheckBox displayLabel

imageA

VolumeImage imageA

previewMode

boolean previewMode

voiManager

VOILatticeManagerInterface voiManager

volumeRenderer

VolumeTriPlanarRender volumeRenderer

Class gov.nih.mipav.view.renderer.WildMagic.WormUntwisting.JPanelLattice extends JInterfaceBase implements Serializable

serialVersionUID:

-9056581285643263551L

Serialized Fields

annotationList

javax.swing.ListSelectionModel annotationList

annotationPanel

javax.swing.JSplitPane annotationPanel

annotationTable

javax.swing.JTable annotationTable

annotationTableModel

javax.swing.table.DefaultTableModel annotationTableModel

clipDistance

javax.swing.JSlider clipDistance

clipLattice

javax.swing.JCheckBox clipLattice

ctrlKey

boolean ctrlKey

displayLattice

javax.swing.JCheckBox displayLattice

displaySeam

javax.swing.JCheckBox displaySeam

ellipseCross

javax.swing.JCheckBox ellipseCross

ellipseDiameter

javax.swing.JSlider ellipseDiameter

ellipseModel

javax.swing.JRadioButton ellipseModel

imageA

ModelImage imageA

latticePosition

javax.swing.JSlider latticePosition

previewMode

boolean previewMode

splineModel

javax.swing.JRadioButton splineModel

viewPoint

javax.swing.JCheckBox viewPoint

voiManager

VOILatticeManagerInterface voiManager

wormData

WormData wormData

Class gov.nih.mipav.view.renderer.WildMagic.WormUntwisting.VOIWormAnnotation extends VOIText implements Serializable

serialVersionUID:

4256240928835686605L

Serialized Fields

isCurveAnnotation

boolean isCurveAnnotation

isSeamCell

boolean isSeamCell

latticeSegment

int latticeSegment

minDistance

float minDistance

minUntwistDistance

float minUntwistDistance

minUntwistPt

WildMagic.LibFoundation.Mathematics.Vector3f minUntwistPt

modified

boolean modified

retwist

boolean retwist

selected

boolean selected

selectionOffset

WildMagic.LibFoundation.Mathematics.Vector3f selectionOffset

showSelected

VOIContour[] showSelected

showSelectedVOI

VOI showSelectedVOI

slice

int slice

untwistPt

WildMagic.LibFoundation.Mathematics.Vector3f untwistPt