A B C D E F G H I J K L M N O P Q R S T U V W

A

about(Container) - Static method in class uk.ac.ed.ph.signal.PopUpOptions

add(Complex, Complex) - Static method in class jfftw.Complex

Static add method with two parameters

add(int, double) - Method in class jfftw.ComplexDataArray

Add a double to real part of element

add(int, double, double) - Method in class jfftw.ComplexDataArray

Add a Complex to specified

add(int, double) - Method in class jfftw.DataArray

Method to add a real double to an element in one-dimensions.

add(int, int, double) - Method in class jfftw.DataArray

Method to add a real double to an element in two-dimensions.

add(int, int, int, double) - Method in class jfftw.DataArray

Method to add a real double to an element in three-dimensions.

add(int, double, double) - Method in class jfftw.DataArray

Method to add a complex to an element in one-dimensions.

add(int, Complex) - Method in class jfftw.DataArray

Method to add a Complex to an element in one-dimensions.

add(int, int, Complex) - Method in class jfftw.DataArray

Method to add a Complex to an element in two-dimensions.

add(int, int, int, Complex) - Method in class jfftw.DataArray

Method to add a Complex to an element in three-dimensions.

add(DataArray) - Method in class jfftw.DataArray

Method to add a specified DataArray to the current DataArray, both must be the same size.

add(int, double) - Method in class jfftw.RealDataArray

Add a double to an element

add(int, double, double) - Method in class jfftw.RealDataArray

Add a Complex specified by two doubles to an element

add(Diagram2DPanel) - Method in class uk.ac.ed.ph.signal.Diagram2DFrame

Method to add a Diagram2DPanel to the frame.

add(Diagram2DComponent) - Method in class uk.ac.ed.ph.signal.Diagram2DPanel

Method to add Component to the Diagram

add(int, int, double) - Method in class uk.ac.ed.ph.signal.Image

Add a value to a pixel

add(Point2i, double) - Method in class uk.ac.ed.ph.signal.Image

Add a value to a pixel

add(Image) - Method in class uk.ac.ed.ph.signal.Image

Method to add a specified Image to the current Image, both must be the same size.

add(int, double) - Method in class uk.ac.ed.ph.signal.Signal

Method to add a scalar to an element.

add(int, double, double) - Method in class uk.ac.ed.ph.signal.Signal

Method to add a complex to an element.

add(int, Complex) - Method in class uk.ac.ed.ph.signal.Signal

Method to add a Complex to an element.

add(Signal) - Method in class uk.ac.ed.ph.signal.Signal

Method to add a specified Signal to the current Signal, both must be the same size.

addComponent(Diagram2DComponent) - Method in class uk.ac.ed.ph.signal.Diagram2D

Method to add a DiagramComponent to the current Diagram

addGaussianDependantNoise(DataArray, double) - Static method in class uk.ac.ed.ph.signal.Noise

Static method to add signal dependant noise to a DataArray.

addGuassianIndependantNoise(RealSignal, double) - Static method in class uk.ac.ed.ph.signal.Noise

Static method to add Guassian signal indepent noies to a RealSignal

addGuassianIndependantNoise(RealImage, double) - Static method in class uk.ac.ed.ph.signal.Noise

Static method to add Guassian signal indepent noise to a RealImage

addGuassianIndependantNoise(DataArray, double) - Static method in class uk.ac.ed.ph.signal.Noise

Static method to add Guassian signal indepent noies to a general DataArray.

addImage(BufferedImage) - Method in class uk.ac.ed.ph.signal.ImageFrame

Method to add a Bufferer image to the DisplayPanel This alse set panel size and repaints to display the image.

addImage(RealImage) - Method in class uk.ac.ed.ph.signal.ImageFrame

Method to add an OpticalImage to the frame.

addImage(BufferedImage) - Method in class uk.ac.ed.ph.signal.ImagePanel

Methed to add a BufferedImage to the display

addImage(RealImage) - Method in class uk.ac.ed.ph.signal.ImagePanel

Method to add an OpticalImage

addPlanFlag(int) - Method in class jfftw.FFTW

Method to add to the plan flag

addPoissonNoise(RealImage, double) - Static method in class uk.ac.ed.ph.signal.Noise

Static method to add Poisson noise to a RealImage specifying the average number of photons per pixel.

addPoissonNoise(DataArray, double) - Static method in class uk.ac.ed.ph.signal.Noise

Static method to add Poisson noise to a gneral DataArray after apply a scaling factor.

addTo(Complex) - Method in class jfftw.Complex

Method to add to the current Complex

addTo(double, double) - Method in class jfftw.Complex

Void method to add to the current Complex

ApertureColour - Static variable in class uk.ac.ed.ph.signal.Colour

Colour of Apertures is diagrams

areValid - Variable in class uk.ac.ed.ph.signal.Statistics

ArgonBlueGreen() - Static method in class uk.ac.ed.ph.signal.Colour

Static method to get a Argon blue-green colour

ArgonGreen() - Static method in class uk.ac.ed.ph.signal.Colour

Static method to get a Argon blue-green colour

ArrayUtil - Class in jfftw

Class containing some useful static method to manipulate double arrays containing complex data used in jfftw.

ArrayUtil() - Constructor for class jfftw.ArrayUtil

averageKernel(int, int) - Static method in class uk.ac.ed.ph.signal.ImageFilterKernel

Static to form an average kernel with all elements constant of specified size

AxisColour - Static variable in class uk.ac.ed.ph.signal.Colour

Colour of optical axis on Diagrams

B

BackgroundColour - Static variable in class uk.ac.ed.ph.signal.Colour

General background (defaults to white)

BACKWARD - Static variable in class jfftw.FFTW

Flag for backward (on inverse) FFT

Bartlett - Class in uk.ac.ed.ph.signal

Class to implement the Bartlett (or triangle) window

Bartlett() - Constructor for class uk.ac.ed.ph.signal.Bartlett

Default constrcuor to form window on zero length

Bartlett(int) - Constructor for class uk.ac.ed.ph.signal.Bartlett

Constructor to for a Barttlett window of specifed length

Blackman - Class in uk.ac.ed.ph.signal

Class to implement the Blackman window of 0.42 - 0.5*cos(2pi t) + 0.08*cos(4pi t)

Blackman() - Constructor for class uk.ac.ed.ph.signal.Blackman

Default constrcuor to form window on zero length

Blackman(int) - Constructor for class uk.ac.ed.ph.signal.Blackman

Constructor to for a Blackman window of specifed length

blankcopy() - Method in class uk.ac.ed.ph.signal.RealImage

Method to forms a blacnk copy of the corrent RealImage with all parameters copyied, but the image data left blank.

Blue() - Static method in class uk.ac.ed.ph.signal.Colour

Static method to get OpticsConstant.BLUE colour

BOTH - Static variable in class jfftw.Complex

Static to specify both parts of a Complex number

bounds - Variable in class uk.ac.ed.ph.signal.Diagram2DPanel

C

calculate() - Method in class uk.ac.ed.ph.signal.RealStatistics

Void method to calculate (re re-calculate) the statitics

calculate() - Method in class uk.ac.ed.ph.signal.Statistics

Method to trigger calculation / recalculation of statistics, overloaded by extending classes.

calculateStatistics() - Method in class uk.ac.ed.ph.signal.RealImage

Method to calcualte the statisticse, even if they are currently flagged as valid.

centre() - Method in class uk.ac.ed.ph.signal.ImageFrame

Centre the image on the current display (should work for all display sizes)

centreFourier() - Method in class jfftw.DataArray

Method to form centred Fourier using applying checker pattern to shift DC the centre of the array.

centreFourier() - Method in class uk.ac.ed.ph.signal.Image

Method to take the Centre Fourier tranform of the data and also set the underlying sampling

centreFourier() - Method in class uk.ac.ed.ph.signal.Signal

Method to form centred Fourier using applying checker pattern to shift DC the centre of the array.

checker() - Method in class jfftw.ComplexDataArray

Method to apply a +/1 checker patterns to the Complex data, used to form centred FFTW.

checker() - Method in class jfftw.DataArray

Abstract method to apply a checker pattern to shift the centre

checker() - Method in class jfftw.RealDataArray

Method to apply a checker in either Real or Fourier space.

clear() - Method in class jfftw.DataArray

Method to clear the databuffer by setting all elements to zero.

clear() - Method in class uk.ac.ed.ph.signal.Diagram2D

clear() - Method in class uk.ac.ed.ph.signal.Diagram2DPanel

Method to clear the DiagramPanel

clearWisdom() - Method in class jfftw.FFTW

Void method to clear the wisdom information

clone() - Method in class jfftw.Complex

Method to clone the current Complex

clone() - Method in class jfftw.ComplexDataArray

Form a deep clone of current ComplexDataArray, including data.

clone() - Method in class jfftw.RealDataArray

Form a deep clone of current RealDataArray, including data.

clone() - Method in class uk.ac.ed.ph.signal.ComplexImage

Methed to clone the current image, inclduing the data

clone() - Method in class uk.ac.ed.ph.signal.ComplexSignal

Methed to clone the current signal, inclduing the data

clone() - Method in class uk.ac.ed.ph.signal.Grid2d

Method to return a clone of the current grid

clone() - Method in class uk.ac.ed.ph.signal.ImageFilterKernel

Method to clone the current SignalFilterkernel

clone() - Method in class uk.ac.ed.ph.signal.RealImage

Methed to clone the current image, inclduing the data

clone() - Method in class uk.ac.ed.ph.signal.RealSignal

Method to clone the current RealDataArray

Colour - Class in uk.ac.ed.ph.signal

Class to give a range of colours for diagrams

Colour() - Constructor for class uk.ac.ed.ph.signal.Colour

ColourScale - Class in uk.ac.ed.ph.signal

Class to implement a ColorSpace for direct display of Float/Double images.

ColourScale() - Constructor for class uk.ac.ed.ph.signal.ColourScale

Default consturctor

Complex - Class in jfftw

Class to handle Complex numbers and arithmetic.

Complex(double, double) - Constructor for class jfftw.Complex

Constructor for Complex with two doubles

Complex(double) - Constructor for class jfftw.Complex

Constructor for Complex with real part only

Complex() - Constructor for class jfftw.Complex

Default constructor for Complex with both real and imaginary zero

Complex(Complex) - Constructor for class jfftw.Complex

Constructor for Complex with Complex parameter

ComplexDataArray - Class in jfftw

Class to handle Complex Data arrays in either Real or Fourier space.

ComplexDataArray(int, int, int) - Constructor for class jfftw.ComplexDataArray

Constructor to form a three-dimensional ComplexDataArray, which defaults to FFTW.REAL space.

ComplexDataArray(int, int) - Constructor for class jfftw.ComplexDataArray

Constructor to form a two-dimensional ComplexDataArray, which defaults to FFTW.REAL space.

ComplexDataArray(int) - Constructor for class jfftw.ComplexDataArray

Constructor to form a one-dimensional ComplexDataArray, which defaults to FFTW.REAL space.

ComplexDataArray(ComplexDataArray) - Constructor for class jfftw.ComplexDataArray

Form a ComplexDataArray with all parameters taken from the specified ComplexDataArray.

ComplexDataArray(int, int, int, double[]) - Constructor for class jfftw.ComplexDataArray

Form a general ComplexDataArray with specified dimensional and supplied data array, which is NOT copied, it is used internally.

ComplexDataArray(RealDataArray) - Constructor for class jfftw.ComplexDataArray

Form a ComplexData array with real part of the data coming from a RealDataArray, the imaginary part being zero.

ComplexDataArray(BufferedImage, int) - Constructor for class jfftw.ComplexDataArray

Constructor to form the a two-dimensional ComplexDataArray from a band of a Java BufferedImage.

ComplexImage - Class in uk.ac.ed.ph.signal

Class to manipulate Complex monochrome images with the underlying data held in a one-dimensional double array compatible with jfftw.

ComplexImage(int, int) - Constructor for class uk.ac.ed.ph.signal.ComplexImage

Constrcuor to form a new ComplexImage of specified size

ComplexImage(ComplexImage) - Constructor for class uk.ac.ed.ph.signal.ComplexImage

Constrcuor to form new ComplexImage being a copy of the specified ComplexImage

ComplexImage(RealImage) - Constructor for class uk.ac.ed.ph.signal.ComplexImage

Constrcuor to form new ComplexImage with the Real part being taken from the scecified RealImage

ComplexSignal - Class in uk.ac.ed.ph.signal

Class to deal with and process Complex Signals where the signal is held as an interleaved array of doubles.

ComplexSignal(int) - Constructor for class uk.ac.ed.ph.signal.ComplexSignal

Constrcutor to form a ComplexSignal with specified number of data points.

ComplexSignal(double[], double[]) - Constructor for class uk.ac.ed.ph.signal.ComplexSignal

Constrctor to forma ComplexSignal from a real and imaginary double[] arrays

ComplexSignal(ComplexSignal) - Constructor for class uk.ac.ed.ph.signal.ComplexSignal

Constrcuor to forma ComplexSignal with all information taked fromthe specifed ComplexSignal inclduing a copy of the data

ComplexSignal(RealSignal) - Constructor for class uk.ac.ed.ph.signal.ComplexSignal

Constrcuor to forma ComplexSignal with all information taked from the RealSignal only work if RealSignal in in REAL space

conj() - Method in class jfftw.Complex

The Complex conjugate of the current Complex

conjugate(double[]) - Static method in class jfftw.ArrayUtil

Method to take form the conjugate of an interleaved array by taking the negative of imaginary parts.

conjugate(double[][]) - Static method in class jfftw.ArrayUtil

Method to take form the conjugate of a split array by taking the negative of imaginary parts.

conjugate(int) - Method in class jfftw.ComplexDataArray

Form the conjugate of the element on one-dimensions by negating the imaginary parts.

conjugate(int) - Method in class jfftw.DataArray

Method to form the Complex conjugate of an element in one-dimensions.

conjugate(int, int) - Method in class jfftw.DataArray

Method to form the Complex conjugate of an element in two-dimensions.

conjugate(int, int, int) - Method in class jfftw.DataArray

Method to form the Complex conjugate of an element in three-dimensions.

conjugate() - Method in class jfftw.DataArray

Method to take conjugate of the whole DataBuffer.

conjugate(int) - Method in class jfftw.RealDataArray

Form the conjugate of the ith Complex element.

conjugate(int, int) - Method in class uk.ac.ed.ph.signal.Image

Method to form the Complex conjugate of an element.

conjugate(Point2i) - Method in class uk.ac.ed.ph.signal.Image

Method to form the Complex conjugate of an element.

conjugate() - Method in class uk.ac.ed.ph.signal.Image

Method to take conjugate of the whole Image If data is real this call is ignored.

conjugate(int) - Method in class uk.ac.ed.ph.signal.Signal

Method to form the Complex conjugate of an element.

conjugate() - Method in class uk.ac.ed.ph.signal.Signal

Method to take conjugate of the whole Signal.

conversionFlag - Variable in class jfftw.DataArray

Flag for Complex to double conversion, initially defaults to Complex.MODULUS

convolve(ImageFilterKernel) - Method in class uk.ac.ed.ph.signal.RealImage

Methdo to convolve the current image with a kernel in real space.

convolveElement(RealImage, int, int) - Method in class uk.ac.ed.ph.signal.ImageFilterKernel

convolveElement(double[], int, int, int, int) - Method in class uk.ac.ed.ph.signal.ImageFilterKernel

Lowlevel method to convolve kernel with image data where the image data is supplied as a double[] array

currentWidth - Variable in class jfftw.DataArray

Current width span of data, this will alter under FFTs of real data.

D

data - Variable in class uk.ac.ed.ph.signal.Image

The data array that hold the actual data

data - Variable in class uk.ac.ed.ph.signal.Signal

The DataArray to hold the data

data - Variable in class uk.ac.ed.ph.signal.Statistics

DataArray - Class in jfftw

Abstract Class type to manipulate hold data for FFTW methods.

DataArray() - Constructor for class jfftw.DataArray

dataBuffer - Variable in class jfftw.DataArray

Internal data buffer holding the data in double[] array

depth - Variable in class jfftw.DataArray

Depth or third size of the data array

diagram - Variable in class uk.ac.ed.ph.signal.Diagram2DPanel

Diagram2D - Class in uk.ac.ed.ph.signal

Class to Hold a Vector of Diagram2DComponents in the vector.

Diagram2D() - Constructor for class uk.ac.ed.ph.signal.Diagram2D

Default constrcuor to form a blank Compound

Diagram2DComponent - Interface in uk.ac.ed.ph.signal

Interface for drawable Graphics2D objects.

Diagram2DFrame - Class in uk.ac.ed.ph.signal

JFrame for diagrams with basic menu to save and hide fames.

Diagram2DFrame(String, Diagram2DPanel) - Constructor for class uk.ac.ed.ph.signal.Diagram2DFrame

Constrcuor to Create frame with spefied title and Diagram Panel.

Diagram2DFrame(String) - Constructor for class uk.ac.ed.ph.signal.Diagram2DFrame

Constrcuor to greater frame with spefied title

Diagram2DPanel - Class in uk.ac.ed.ph.signal

Class to implement a DiagramPanel, being an extended JPanel with internal Mouse control allowing for interactive zooming.

Diagram2DPanel(Diagram2D) - Constructor for class uk.ac.ed.ph.signal.Diagram2DPanel

Default constructor to DiagramPanel containg the spefied Daigram default white background.

Diagram2DPanel() - Constructor for class uk.ac.ed.ph.signal.Diagram2DPanel

Default constructor to DiagramPanel containg a blank Diagram.

drag - Variable in class uk.ac.ed.ph.signal.Diagram2DPanel

draw(Graphics2D) - Method in class uk.ac.ed.ph.signal.Diagram2D

Method to graw the Compound object

draw(Graphics2D) - Method in interface uk.ac.ed.ph.signal.Diagram2DComponent

Method to draw the component in specified Graphics2D context.

E

endDrag - Variable in class uk.ac.ed.ph.signal.Diagram2DPanel

errorStream - Variable in class jfftw.DataArray

PrintStream on which errors are printed.

errorStream - Static variable in class jfftw.FFTW

PrintStream for warning and error messages.

ESTIMATE - Static variable in class jfftw.FFTW

Flag for quick and dirty plan search (fast, but no optimal)

EXHAUSTIVE - Static variable in class jfftw.FFTW

Flag for exhaustive plan search (very slow)

exit(Container) - Static method in class uk.ac.ed.ph.signal.PopUpOptions

exportWisdom(File) - Method in class jfftw.FFTW

Boolean method to export the current wisdom to a file

extract(int, int, int, int, int, int) - Method in class uk.ac.ed.ph.signal.ComplexImage

Method to extract a region of an Complex image into a` new ComplexImage

extract(int, int, int, int) - Method in class uk.ac.ed.ph.signal.ComplexImage

Method to extract a region of an Complex image into a` new ComplexImage with samples of 1 in both direction.

extract(int, int, int) - Method in class uk.ac.ed.ph.signal.ComplexSignal

Method to extarct a lengtn of Signal into a new ComplexSignal

extract(int, int) - Method in class uk.ac.ed.ph.signal.ComplexSignal

Method to extarct a length of Signal into a new ComplexSignal

extract(double, double) - Method in class uk.ac.ed.ph.signal.ComplexSignal

Method to extarct a length of Signal into a new ComplexSignal

extract(int, int, int, int, int, int) - Method in class uk.ac.ed.ph.signal.RealImage

Method to extract a region of an current image into a` new RealImage

extract(int, int, int, int) - Method in class uk.ac.ed.ph.signal.RealImage

Method to extract a region of an real image into a` new RealImage with samples of 1 in both direction.

extract(int, int, int) - Method in class uk.ac.ed.ph.signal.RealSignal

Method to extarct a lengtn of Signal into a new RealSignal

extract(int, int) - Method in class uk.ac.ed.ph.signal.RealSignal

Method to extarct a length of Signal into a new RealSignal

F

fftw - Static variable in class jfftw.DataArray

Static FFTW object used for taking the ffts, this is loaded statically once and pass shared to all instances.

FFTW - Class in jfftw

Basic class for Java access to the fftw3 library to take Fourier Transforms or one-dimensional, two-dimensional or three-dimensional data held in double[] arrays.

FFTW() - Constructor for class jfftw.FFTW

Default constructor, do nothing but load the sharable library.

FFTW(FFTW) - Constructor for class jfftw.FFTW

Constructor to for a new FFTW, being a copy of the specified one.

FFTW(boolean) - Constructor for class jfftw.FFTW

Constructor with flag to optionally load the system wisdom file.

FFTW(File) - Constructor for class jfftw.FFTW

Constructor to load specified wisdom file.

FFTW(String) - Constructor for class jfftw.FFTW

Constructor to load specified wisdom file specified by name.

FFTWComplex - Class in jfftw

Class to implement simple one-off Complex to Complex Fourier transforms using jfftw as a native library.

FFTWComplex() - Constructor for class jfftw.FFTWComplex

Default constructor which load sharable library and sets defaults.

FFTWComplex(FFTW) - Constructor for class jfftw.FFTWComplex

Constructor to form a FFTWComplex from a FFTW, The PlanFlag is also copied.

FFTWComplex(boolean) - Constructor for class jfftw.FFTWComplex

Constructor to optionally load system wisdom file

FFTWComplex(File) - Constructor for class jfftw.FFTWComplex

Constructor to load specified wisdom file

FFTWComplex(String) - Constructor for class jfftw.FFTWComplex

Constructor to load specified wisdom file by name

FFTWReal - Class in jfftw

Class to implement simple one-off Real to Complex and Complex to RealFourier transforms using fftw as a native library.

FFTWReal() - Constructor for class jfftw.FFTWReal

Default constructor.

FFTWReal(FFTW) - Constructor for class jfftw.FFTWReal

Constructor to for a FFTWReal from a FFTW, The PlanFlag is also copied.

FFTWReal(boolean) - Constructor for class jfftw.FFTWReal

Constructor to optionally load system wisdom file if available.

FFTWReal(File) - Constructor for class jfftw.FFTWReal

Constructor to load specified wisdom file is available.

FFTWReal(String) - Constructor for class jfftw.FFTWReal

Constructor to load specified wisdom file by name.

fill(double) - Method in class uk.ac.ed.ph.signal.FilterKernel

Method to set the elements of the kernel to a constant

fill(Surface) - Method in class uk.ac.ed.ph.signal.Image

Method to fill the image with a Surface

fillSine(double, double, double, double) - Method in class uk.ac.ed.ph.signal.Signal

Method to fill the signal with a sin() function using the sample time.

FilterKernel - Class in uk.ac.ed.ph.signal

Abstract class for a Filter Kernel, normally used via the two extending classes.

FilterKernel() - Constructor for class uk.ac.ed.ph.signal.FilterKernel

Constuctor to for Kernel with default title

FilterKernel(String) - Constructor for class uk.ac.ed.ph.signal.FilterKernel

Constuctor to for Kernel with specified title

fmt - Static variable in class uk.ac.ed.ph.signal.Signal

Format string for output

FocalPlaneColour - Static variable in class uk.ac.ed.ph.signal.Colour

Colour of focal planes on Diagrams

formatConversion(Container, String) - Static method in class uk.ac.ed.ph.signal.PopUpOptions

formatElement(int) - Method in class uk.ac.ed.ph.signal.ComplexSignal

formatElement(int) - Method in class uk.ac.ed.ph.signal.RealSignal

Format an elemenst

FORWARD - Static variable in class jfftw.FFTW

Flag for forward FFT

fourier() - Method in class jfftw.ComplexDataArray

Method to take in-place fft.

fourier() - Method in class jfftw.DataArray

Abstract method to form the un-shifted Fourier transform

FOURIER - Static variable in class jfftw.FFTW

Flag for Fourier space

fourier() - Method in class jfftw.RealDataArray

Method to take in-place fft.

fourier() - Method in class uk.ac.ed.ph.signal.Image

Method to take the Fourier tranform of the data and also set the underlying sampling

fourier() - Method in class uk.ac.ed.ph.signal.Signal

Method to take the unshifted Fourier transform.

frame - Variable in class uk.ac.ed.ph.signal.Diagram2DFrame

from(Complex) - Method in class jfftw.Complex

Subtract the current Complex FROM specified value returning a new Complex

from(double, double) - Method in class jfftw.Complex

Subtract the current Complex FROM specified value retuning a new Complex

from(double) - Method in class jfftw.Complex

Subtract the current Complex from a scalar returning a new Complex

fromCIEXYZ(float[]) - Method in class uk.ac.ed.ph.signal.ColourScale

fromPGMFile(File) - Static method in class uk.ac.ed.ph.signal.RealImage

Static method to read PGM image File of type P2 (assi) and P5 (raw)

fromPGMFile(String) - Static method in class uk.ac.ed.ph.signal.RealImage

Static method to read a PGM image of type P2 (asci) and P5 (raw) by filename

fromPGMStream(DataInputStream) - Static method in class uk.ac.ed.ph.signal.RealImage

Static method to read a RealImage from a pgm file, formatted P2 and raw P5 pgm files are supported

fromRGB(float[]) - Method in class uk.ac.ed.ph.signal.ColourScale

Implements fromfromRGB (not used)

fromTextFile(File) - Static method in class uk.ac.ed.ph.signal.ComplexSignal

Static to read in ComplexSignal from text data file with two or three doubles per line

fromTextFile(String) - Static method in class uk.ac.ed.ph.signal.ComplexSignal

Static to read in ComplexSignal from text data file with two doubles per line

fromTextFile(File) - Static method in class uk.ac.ed.ph.signal.ImageFilterKernel

Static method to real a filter kernel from a text file File

fromTextFile(String) - Static method in class uk.ac.ed.ph.signal.ImageFilterKernel

Static method to real a filter kernel from a text file by filename

fromTextFile(String, int, int) - Static method in class uk.ac.ed.ph.signal.RealImage

Read a RealImage from a asci file that contains only the with one pixel per number in any format accepted by Double.parseDouble().

fromTextFile(File) - Static method in class uk.ac.ed.ph.signal.RealSignal

Static to read in RealSignal from text data file with two or three doubles per line

fromTextFile(String) - Static method in class uk.ac.ed.ph.signal.RealSignal

Static to read in ComplexSignal from text data file with two doubles per line

Function - Class in uk.ac.ed.ph.signal

Abstarct class to implemet a real Function in one dimension.

Function() - Constructor for class uk.ac.ed.ph.signal.Function

G

gamma - Variable in class uk.ac.ed.ph.signal.ColourScale

Gamma correction value

GammaControl - Class in uk.ac.ed.ph.signal

Class to implement an interactive Gamma and range control panel with three sliders

GammaControl(ColourScale, Container) - Constructor for class uk.ac.ed.ph.signal.GammaControl

GammaGreyScale - Class in uk.ac.ed.ph.signal

ColourScale to give a Gamma grey scale with a min/max

GammaGreyScale(double, double, double) - Constructor for class uk.ac.ed.ph.signal.GammaGreyScale

Constructor setting min and max and gamma

GammaGreyScale(double, double) - Constructor for class uk.ac.ed.ph.signal.GammaGreyScale

Constructor setting min and max (gamma defaults to 1.0)

GammaGreyScale() - Constructor for class uk.ac.ed.ph.signal.GammaGreyScale

GammaGreyScale(ColourScale) - Constructor for class uk.ac.ed.ph.signal.GammaGreyScale

Form a GammaGreyScale from the supplied ColourScale where lower and upper pixel values are retained.

getBounds() - Method in class uk.ac.ed.ph.signal.Diagram2D

Method to bet the bounds

getBounds() - Method in interface uk.ac.ed.ph.signal.Diagram2DComponent

Method to get the bounds of the object.

getBufferedImage() - Method in class uk.ac.ed.ph.signal.RealImage

Method to get the image as a displayable BufferedImage of type double.

getCentre() - Method in class uk.ac.ed.ph.signal.Grid2d

Method to get the centre (actually the super class)

getChooserReadFile(String, FileFilter) - Static method in class uk.ac.ed.ph.signal.PopUpOptions

Method to Popup a read file chooser bases on specifed directory.

getChooserWriteFile(String, FileFilter) - Static method in class uk.ac.ed.ph.signal.PopUpOptions

Method to Popup a save file chooser bases on specifed directory.

getColourScale() - Method in class uk.ac.ed.ph.signal.ImagePanel

Method to get the colourscale of the current image.

getColourScale() - Method in class uk.ac.ed.ph.signal.RealImage

Method to get the ColourScale

getColumn(int) - Method in class uk.ac.ed.ph.signal.ComplexImage

Method to get a Column as a ComplexSignal

getColumn(int) - Method in class uk.ac.ed.ph.signal.RealImage

Method to get a Column as a RealSignal, valid only for image in real space.

getComplex(double[], int) - Static method in class jfftw.ArrayUtil

Static method to get the ith Complex element from an interleaved array where real part is in 2*i and imaginary in 2*i + 1.

getComplex(double[], double[], int) - Static method in class jfftw.ArrayUtil

Static method to get the ith Complex element from a split array consisting of real and imaginary parts.

getComplex(double[][], int) - Static method in class jfftw.ArrayUtil

Static method to get the ith Complex element from a split array consisting of real and imaginary parts in a [2][] array

getComplex(int) - Method in class jfftw.ComplexDataArray

Method to get a Complex element in one-dimensional case.

getComplex(int) - Method in class jfftw.DataArray

Method to get the value of Complex element in one-dimensions case.

getComplex(int, int) - Method in class jfftw.DataArray

Method to get the value of a Complex element in two-dimensions.

getComplex(int, int, int) - Method in class jfftw.DataArray

Method to get the value of a Complex element in three-dimensions

getComplex(int) - Method in class jfftw.RealDataArray

Method to get a Complex in one-dimensional case.

getComplex(int, int) - Method in class uk.ac.ed.ph.signal.Image

Method to get a Complex data point

getComplex(Point2i) - Method in class uk.ac.ed.ph.signal.Image

Method to get a Complex data point

getComplex(int) - Method in class uk.ac.ed.ph.signal.Signal

Method to get a Complex data point

getComplex(double) - Method in class uk.ac.ed.ph.signal.Signal

Method to get the Complex closest to the analogue value

getConversion() - Method in class jfftw.DataArray

Method to get the current Complex to double conversion flag.

getConversion() - Method in class uk.ac.ed.ph.signal.Image

Method to get the current complex to real conversion flag

getConversion() - Method in class uk.ac.ed.ph.signal.Signal

Get the Complex to real conversion flag

getCurrentWidth() - Method in class jfftw.DataArray

Method to get the current width data width.

getCurrentWidth() - Method in class uk.ac.ed.ph.signal.Signal

Get the current width of the sample

getDataArray() - Method in class uk.ac.ed.ph.signal.ComplexImage

Method to get the underlying ComplexDataArray

getDataArray() - Method in class uk.ac.ed.ph.signal.ComplexSignal

Method to get the DataArray

getDataArray() - Method in class uk.ac.ed.ph.signal.RealImage

Method to get the underlying RealDataArray

getDataArray() - Method in class uk.ac.ed.ph.signal.RealSignal

Method to get the DataArray

getDataArray() - Method in class uk.ac.ed.ph.signal.Statistics

Method to get the Signal

getDataBuffer() - Method in class jfftw.DataArray

Method to get the current internal dataBuffer as a double[].

getDataBuffer() - Method in class uk.ac.ed.ph.signal.Image

Method to get the underlying data buffer as a one-dimensional array of double[]

getDataBuffer() - Method in class uk.ac.ed.ph.signal.Signal

Method to get the underlying double[] databuffer

getDeltaX() - Method in class uk.ac.ed.ph.signal.Grid2d

Get the x sample internal

getDeltaY() - Method in class uk.ac.ed.ph.signal.Grid2d

Get the y sample internal

getDepth() - Method in class jfftw.DataArray

Method to get the data depth (tertiary direction).

getDiagram2D() - Method in class uk.ac.ed.ph.signal.Diagram2DPanel

Method to get the Diagram object

getDouble(int) - Method in class jfftw.Complex

Method to get double, converted from current Complex as specified by the conversion flag.

getDouble(int) - Method in class jfftw.ComplexDataArray

Method to get the double value of the element on one-dimensions where the Complex real conversion is controlled by setConversion(), which defaults to Complex.MODULUS.

getDouble(int) - Method in class jfftw.DataArray

Method to get value of double element in one-dimension.

getDouble(int, int) - Method in class jfftw.DataArray

Method to get value of double element in two-dimensions.

getDouble(int, int, int) - Method in class jfftw.DataArray

Method to get value of double element in three-dimensions

getDouble(int) - Method in class jfftw.RealDataArray

Method to get value of element as a double.

getDouble(int, int) - Method in class uk.ac.ed.ph.signal.Image

Method to get a double pixel value

getDouble(int) - Method in class uk.ac.ed.ph.signal.Signal

Method to get a double data point.

getDouble(double) - Method in class uk.ac.ed.ph.signal.Signal

Method to get the Double closest to the analogue value

getDoubleValue(int, int, int) - Method in class uk.ac.ed.ph.signal.Image

Method to get a from Complex data type with conversion to a double given by the control flag

getElement(int, int) - Method in class uk.ac.ed.ph.signal.ImageFilterKernel

Get the value of the kernel element in the range start -> end

getEnd() - Method in class uk.ac.ed.ph.signal.ImageFilterKernel

Method to get the end index

getFFTW() - Method in class jfftw.ComplexDataArray

Method to get underlying FFTWComplex

getFFTW() - Method in class jfftw.DataArray

Method to return the underlying FFTW class.

getFFTW() - Method in class jfftw.RealDataArray

Method to get underlying FFTWReal

getFileName(Container) - Static method in class uk.ac.ed.ph.signal.PopUpOptions

getGamma() - Method in class uk.ac.ed.ph.signal.ColourScale

Meth ot oget the current gamma

getGreyBufferedImage(double, double) - Method in class uk.ac.ed.ph.signal.RealImage

Method to get the RealImage as a BYTE_GRAY BufferedImage which can be displayed with specified min/max.

getHeight() - Method in class jfftw.DataArray

Method to get the data height (secondary direction).

getHeight() - Method in class uk.ac.ed.ph.signal.Grid2d

Method to get the height

getHeight() - Method in class uk.ac.ed.ph.signal.ImageFilterKernel

Method to get the height of the kernel

getImag() - Method in class jfftw.Complex

Get the imag part

getImage(int, int) - Method in class uk.ac.ed.ph.signal.Diagram2DPanel

Method to get to Diagram as a coloured BuffererImage

getImage() - Method in class uk.ac.ed.ph.signal.ImagePanel

Method to get the image displayed image

getImage(int, int) - Method in class uk.ac.ed.ph.signal.ImagePanel

Method get the Displayed image, overrides the default version in Diagram2DPanel

getKernelData() - Method in class uk.ac.ed.ph.signal.FilterKernel

Method to get the kernel double array

getLowerLimit() - Method in class uk.ac.ed.ph.signal.ColourScale

Method to get the lower limit

getMax() - Method in class uk.ac.ed.ph.signal.RealStatistics

Get the maximum value

getMean() - Method in class uk.ac.ed.ph.signal.RealStatistics

Get the mean value

getMin() - Method in class uk.ac.ed.ph.signal.RealStatistics

Get the minimum value

getNormalisation() - Method in class jfftw.DataArray

Method to get the normalisation flag.

getPanel() - Method in class uk.ac.ed.ph.signal.Diagram2DFrame

Method to get the Diagram2DPanel display in the frame

getPlanFlag() - Method in class jfftw.FFTW

Method to get the plan flag

getPlot() - Method in class uk.ac.ed.ph.signal.Function

Method to get the Plot object.

getPlot() - Method in class uk.ac.ed.ph.signal.Signal

Method to get the internal plot (if there is one)

getPlotPoints() - Method in class uk.ac.ed.ph.signal.Function

Method to get the number of plotpoints

getPoint(int, int) - Method in class uk.ac.ed.ph.signal.Grid2d

Method to get the real (double), location of a pixel located at i,j taking into account the centre and sampling intervals

getPoint(Point2i) - Method in class uk.ac.ed.ph.signal.Grid2d

Method to get the real (double), location of a pixel located at i,j taking into account the centre and sampling intervals

getPower() - Method in class uk.ac.ed.ph.signal.RealStatistics

Get the power value

getReal() - Method in class jfftw.Complex

Get the real part

getRealDataArray(int) - Method in class jfftw.DataArray

Get the current DataArray as a RealData array using the specified conversion flag.

getRealDataArray() - Method in class jfftw.DataArray

Get the current DataArray are a RealDataArray using the internal conversion flag

getRealImage(int) - Method in class uk.ac.ed.ph.signal.ComplexImage

Method to get RealImage with conversion determined by the conversion flag

getRealSignal(int) - Method in class uk.ac.ed.ph.signal.Signal

Get the current Signal as a RealSignal array using the specified conversion flag.

getRealSignal() - Method in class uk.ac.ed.ph.signal.Signal

Get the current Signal as a RealSignal using the internal conversion flag

getRow(int) - Method in class uk.ac.ed.ph.signal.ComplexImage

Method to get a row as a ComplexSignal

getRow(int) - Method in class uk.ac.ed.ph.signal.RealImage

Method to get a Row as a RealSignal, valid only for image in real space.

getSample(Point2d) - Method in class uk.ac.ed.ph.signal.Grid2d

Method to get the pixel location closest to the point specifed by x,y talking into account the centre and sampling internal.

getSample(double) - Method in class uk.ac.ed.ph.signal.Signal

Method to get the index of the samples closest t the speciied time, will be -1 of outside the Signal

getSampleInterval() - Method in class uk.ac.ed.ph.signal.Signal

Method to get the sample interval

getSamplePoint(Point2d) - Method in class uk.ac.ed.ph.signal.Grid2d

Method to get the scaled sample location at as Point2d

getSpace() - Method in class jfftw.DataArray

Method to get the current space description flag.

getSpace() - Method in class uk.ac.ed.ph.signal.Image

Methdo to get the Space

getSpace() - Method in class uk.ac.ed.ph.signal.Signal

Method to get the space flag

getStart() - Method in class uk.ac.ed.ph.signal.ImageFilterKernel

Method to get the start index

getStart() - Method in class uk.ac.ed.ph.signal.Signal

Get the signal start time

getStatistics() - Method in class uk.ac.ed.ph.signal.RealImage

Method to get the RealStatistics, which will be calcualte if they are not currently valid.

getTime(int) - Method in class uk.ac.ed.ph.signal.Signal

Get the time of the nth sample point, this will be a frequency if the data is in Fourier space.

getTitle() - Method in class uk.ac.ed.ph.signal.FilterKernel

Method to get the title

getTitle() - Method in class uk.ac.ed.ph.signal.Image

Method Get the title

getTitle() - Method in class uk.ac.ed.ph.signal.Signal

Method Get the title

getType() - Method in class jfftw.DataArray

Method to get the type (actually the class name) as a String.

getType() - Method in class uk.ac.ed.ph.signal.Image

Method to get the type

getType() - Method in class uk.ac.ed.ph.signal.Signal

Method to get the type

getUpperLimit() - Method in class uk.ac.ed.ph.signal.ColourScale

Method to get the upper limit

getValid() - Method in class uk.ac.ed.ph.signal.Statistics

Method to get valid flag

getValue(double) - Method in class uk.ac.ed.ph.signal.Function

Method to get the value as specific value

getValue(double, double) - Method in class uk.ac.ed.ph.signal.Surface

Method to get the value at specified position

getValue(Point2d) - Method in class uk.ac.ed.ph.signal.Surface

Method to get value at specified position

getVariance() - Method in class uk.ac.ed.ph.signal.RealStatistics

Get the variance value

getVersion() - Method in class jfftw.FFTW

Method to get the version string

getWeight(double) - Method in class uk.ac.ed.ph.signal.Bartlett

methdo to calcualte the Bartlett window

getWeight(double) - Method in class uk.ac.ed.ph.signal.Blackman

method to calcualte the Blackman window

getWeight(double) - Method in class uk.ac.ed.ph.signal.Hamming

methdo to calcualte the Hamming window

getWeight(double) - Method in class uk.ac.ed.ph.signal.Hanning

methdo to calcualte the Hanning window

getWeight(int) - Method in class uk.ac.ed.ph.signal.Window

Method to return the window weight for integer parameter, but be in the range 0 -> length-1

getWeight(double) - Method in class uk.ac.ed.ph.signal.Window

Method to return the window weight for double parameter, but be in the range 0 -> 1.0.

getWidth() - Method in class jfftw.DataArray

Method to get the data width (primary direction).

getWidth() - Method in class uk.ac.ed.ph.signal.Grid2d

Method to get the width

getWidth() - Method in class uk.ac.ed.ph.signal.ImageFilterKernel

Method to get the width of the kernel

getWidth() - Method in class uk.ac.ed.ph.signal.Signal

Get the width of the sample

getWisdom() - Method in class jfftw.FFTW

Method to get the wisdom information as a String

getXCentre() - Method in class uk.ac.ed.ph.signal.Grid2d

Method to get the x location of the centre

getXRange() - Method in class uk.ac.ed.ph.signal.Grid2d

get the horizontal range

getYCentre() - Method in class uk.ac.ed.ph.signal.Grid2d

Method to get the y location of the centre

getYRange() - Method in class uk.ac.ed.ph.signal.Grid2d

get the vertical range

Green() - Static method in class uk.ac.ed.ph.signal.Colour

Static method to get OpticsConstant.GREEN colour

grid - Variable in class uk.ac.ed.ph.signal.ImagePanel

Grid2d - Class in uk.ac.ed.ph.signal

Class to implement a two dimensional regular grid used access Images using continuous variables.

Grid2d() - Constructor for class uk.ac.ed.ph.signal.Grid2d

Default constructor, of width and height 0, and sample interval 1.0

Grid2d(int, int) - Constructor for class uk.ac.ed.ph.signal.Grid2d

Constructor to setup Grid2d with sample interval of 1.0 and centre at 0,0

Grid2d(int, int, double) - Constructor for class uk.ac.ed.ph.signal.Grid2d

Constructor to setup Grid2d with specfied grid

Grid2d(int, int, double, double) - Constructor for class uk.ac.ed.ph.signal.Grid2d

Constructor to setup Grid2d with specified sample interval

Grid2d(Grid2d) - Constructor for class uk.ac.ed.ph.signal.Grid2d

Conststructor to setup a grid being the copy of the specified grid

H

Hamming - Class in uk.ac.ed.ph.signal

Class to implement the Hamming window of 0.54-0.46*cos(2pi t)

Hamming() - Constructor for class uk.ac.ed.ph.signal.Hamming

Default constrcuor to form window on zero length

Hamming(int) - Constructor for class uk.ac.ed.ph.signal.Hamming

Constructor to for a Hamming window of specifed length

Hanning - Class in uk.ac.ed.ph.signal

Class to implement the Hanning window of 0.5-0.5*cos(2pi t)

Hanning() - Constructor for class uk.ac.ed.ph.signal.Hanning

Default constrcuor to form window on zero length

Hanning(int) - Constructor for class uk.ac.ed.ph.signal.Hanning

Constructor to for a Hanning window of specifed length

height - Variable in class jfftw.DataArray

Height or secondary size of data array.

height - Variable in class uk.ac.ed.ph.signal.Grid2d

HeNe() - Static method in class uk.ac.ed.ph.signal.Colour

Static method to get a HeNe colour

I

i - Variable in class jfftw.Complex

The imaginary part

IMAG - Static variable in class jfftw.Complex

Static to specify imaginary part of Complex number

Image - Class in uk.ac.ed.ph.signal

General class to handle images, always called via the extending classes of RealImage and ComplexImage

Image() - Constructor for class uk.ac.ed.ph.signal.Image

Default constructor to do nothing but setup the underlying class

Image(int, int) - Constructor for class uk.ac.ed.ph.signal.Image

Setup image of size w by h, but do not allocated DataArray.

Image(Image) - Constructor for class uk.ac.ed.ph.signal.Image

Setup image size and sample parameters from speficied image, but do not allocate array.

image - Variable in class uk.ac.ed.ph.signal.ImagePanel

ImageFilterKernel - Class in uk.ac.ed.ph.signal

Class to define a Signal Filter Kernel.

ImageFilterKernel(int, int) - Constructor for class uk.ac.ed.ph.signal.ImageFilterKernel

Constuctor to for a kernel of specified size defaulting to zero.

ImageFilterKernel(int, int, double[]) - Constructor for class uk.ac.ed.ph.signal.ImageFilterKernel

Constrcuor to form a kernel of specified size with the kernel elements supplied in a one dimensional array

ImageFilterKernel(ImageFilterKernel) - Constructor for class uk.ac.ed.ph.signal.ImageFilterKernel

Constuctor to for a kernel specified by a SignalFilterKernel.

ImageFrame - Class in uk.ac.ed.ph.signal

Class to display an image on with simple zooms

ImageFrame(String) - Constructor for class uk.ac.ed.ph.signal.ImageFrame

Constrcutor for a DisplayImage with specfied title

ImagePanel - Class in uk.ac.ed.ph.signal

Class to display a image in a JPanel with resampling and scaling.

ImagePanel() - Constructor for class uk.ac.ed.ph.signal.ImagePanel

Default constuctor to form a blank DisplayPanel

ImagePanel(BufferedImage) - Constructor for class uk.ac.ed.ph.signal.ImagePanel

Constructor to form s DisplayPanel with a BufferedImage

InputOutputPlaneColour - Static variable in class uk.ac.ed.ph.signal.Colour

Colour of Input and Output planes on Diagrams

interleave(double[], double[]) - Static method in class jfftw.ArrayUtil

Static method to take two double arrays normally holding real and imaginary parts and interleave them to a single array.

interleave(double[][]) - Static method in class jfftw.ArrayUtil

Static method to take split array normally holding real and imaginary parts and interleave them to a single array.

isComplex() - Method in class jfftw.DataArray

Method to determine if the current data is Complex.

isNaN() - Method in class jfftw.Complex

Test of either components set to NaN

J

jfftw - package jfftw

K

kernel - Variable in class uk.ac.ed.ph.signal.FilterKernel

L

laplacianKernel() - Static method in class uk.ac.ed.ph.signal.ImageFilterKernel

Static method to from the 3by3 laplacian kernel

length() - Method in class jfftw.DataArray

Method to get the length of the internal double[] dataBuffer

LinearGreyScale - Class in uk.ac.ed.ph.signal

ColourScale to give a linear grey scale with a min/max

LinearGreyScale(double, double) - Constructor for class uk.ac.ed.ph.signal.LinearGreyScale

Constructor setting min and max

LinearGreyScale() - Constructor for class uk.ac.ed.ph.signal.LinearGreyScale

Default constrcuor with min defaulting to 0.0 and max to 1.0

LinearGreyScale(ColourScale) - Constructor for class uk.ac.ed.ph.signal.LinearGreyScale

Form a linear greyscale from specifed ColourScale where lower and upper are copied.

loaded - Static variable in class jfftw.FFTW

Boolean to determine in the sharable library has been loaded successfully.

loadWisdom() - Method in class jfftw.FFTW

Boolean method to load system wisdom file

loadWisdom(File) - Method in class jfftw.FFTW

Boolean method to load wisdom file from specified File

loadWisdom(String) - Method in class jfftw.FFTW

Boolean method to load (or add) wisdom from a String.

LOG_POWER - Static variable in class jfftw.Complex

Static to specify Log Power of a Complex

logPower() - Method in class jfftw.Complex

Get the log power, being defines at log(r*r + i*i + 1.0)

lowerLimit - Variable in class uk.ac.ed.ph.signal.ColourScale

Lowest pixel limit

M

mainMenu() - Method in class uk.ac.ed.ph.signal.Diagram2DFrame

Method to get the main menu

MAX_VALUE - Static variable in class uk.ac.ed.ph.signal.ColourScale

maxPlotRange - Variable in class uk.ac.ed.ph.signal.Function

Upper range of plot

median(ImageFilterKernel) - Method in class uk.ac.ed.ph.signal.RealImage

Method to median the current image with a kernel in real space.

median(int, int) - Method in class uk.ac.ed.ph.signal.RealImage

Method to apply a smoothing median filter of specified size

medianElement(double[], int, int, int, int) - Method in class uk.ac.ed.ph.signal.ImageFilterKernel

Lowlevel method to multiply kernel with image data and form the median where the image data is supplied as a double[] array

medianElement(RealImage, int, int) - Method in class uk.ac.ed.ph.signal.ImageFilterKernel

MenuBarColour - Static variable in class uk.ac.ed.ph.signal.Colour

Colour for menu bars

menuColour - Variable in class uk.ac.ed.ph.signal.Diagram2DFrame

MIN_VALUE - Static variable in class uk.ac.ed.ph.signal.ColourScale

minPlotRange - Variable in class uk.ac.ed.ph.signal.Function

Lower range of plot

minus(Complex) - Method in class jfftw.Complex

Subtract a complex from the current retuning a new Complex

minus(double, double) - Method in class jfftw.Complex

Subtract a complex from the current returning a new Complex

minus(double) - Method in class jfftw.Complex

Subtract a real number from the current retuning a new Complex

MODULUS - Static variable in class jfftw.Complex

Static to specify the modulus of a Complex number

modulus() - Method in class jfftw.Complex

Get the modulus of the Complex

MODULUS_SQUARED - Static variable in class jfftw.Complex

Static to specify the modulus squared of a Complex number

modulusSq() - Method in class jfftw.Complex

Get the modulus squared of the Complex

mouseClicked(MouseEvent) - Method in class uk.ac.ed.ph.signal.Diagram2DPanel

mouseClicked(MouseEvent) - Method in class uk.ac.ed.ph.signal.ImagePanel

mouseDragged(MouseEvent) - Method in class uk.ac.ed.ph.signal.Diagram2DPanel

mouseEntered(MouseEvent) - Method in class uk.ac.ed.ph.signal.Diagram2DPanel

mouseExited(MouseEvent) - Method in class uk.ac.ed.ph.signal.Diagram2DPanel

mouseMoved(MouseEvent) - Method in class uk.ac.ed.ph.signal.Diagram2DPanel

mousePressed(MouseEvent) - Method in class uk.ac.ed.ph.signal.Diagram2DPanel

mouseReleased(MouseEvent) - Method in class uk.ac.ed.ph.signal.Diagram2DPanel

mult(double[], int, double) - Static method in class jfftw.ArrayUtil

Multiply specifed element of interleaved array by a double

mult(double[], int, double, double) - Static method in class jfftw.ArrayUtil

Multiply specifed element of interleaved array by a complex specified as two doubles.

mult(double[], int, Complex) - Static method in class jfftw.ArrayUtil

Multiply specifed element of interleaved array by a complex.

mult(double[], double) - Static method in class jfftw.ArrayUtil

Method to multiply an interleaved array by a double.

mult(double[][], double) - Static method in class jfftw.ArrayUtil

Method to multiply a split array by a double.

mult(double[], double, double) - Static method in class jfftw.ArrayUtil

Method to multiply a interleaved array by a complex specified as two doubles.

mult(double[], Complex) - Static method in class jfftw.ArrayUtil

Method to multiply an interleaved array by a complex.

mult(double[][], double, double) - Static method in class jfftw.ArrayUtil

Method to multiply a split array by a complex specified as two doubles.

mult(double[][], Complex) - Static method in class jfftw.ArrayUtil

Method to multiply a split array by a complex.

mult(double[], double[]) - Static method in class jfftw.ArrayUtil

Method to multiply two complex interleaved data arrays placing the result in the first.

mult(double[][], double[][]) - Static method in class jfftw.ArrayUtil

Methed to multiply two split arrays puttin the result in the first.

mult(double) - Method in class jfftw.Complex

Multiply the current by a scalar returning a new Complex

mult(double, double) - Method in class jfftw.Complex

Multiply the current by a specified Complex, returning a new Complex.

mult(Complex) - Method in class jfftw.Complex

Multiply the current by a specified Complex, returning a new Complex.

mult(Complex, Complex) - Static method in class jfftw.Complex

Static mult method with two parameters

mult(int, double) - Method in class jfftw.ComplexDataArray

Multiply an element by a double

mult(int, double, double) - Method in class jfftw.ComplexDataArray

Multiply an element by a Complex specified

mult(int, double) - Method in class jfftw.DataArray

Method to multiple an element by a double in one-dimensions.

mult(int, int, double) - Method in class jfftw.DataArray

Method to multiple an element by a double in two-dimensions.

mult(int, int, int, double) - Method in class jfftw.DataArray

Method to multiple an element by a double in three-dimensions.

mult(int, double, double) - Method in class jfftw.DataArray

Method to multiply an element by a Complex in one-dimension.

mult(int, Complex) - Method in class jfftw.DataArray

Method to multiply an element by a Complex in one-dimension.

mult(int, int, Complex) - Method in class jfftw.DataArray

Method to multiply an element by a Complex in two-dimension.

mult(int, int, int, Complex) - Method in class jfftw.DataArray

Method to multiply an element by a Complex in three-dimension.

mult(double) - Method in class jfftw.DataArray

Method to muliply the whole DataArray by a scalar

mult(double, double) - Method in class jfftw.DataArray

Method to multiply the whole DataArray by a complex specifed as two doubles.

mult(Complex) - Method in class jfftw.DataArray

Method to multiply the whole DataArray by a Complex.

mult(DataArray) - Method in class jfftw.DataArray

Method to multiply the current DataArray by a specified DataArray which must be of the same size, the result overwriting the contents of the current DataArray.

mult(int, double) - Method in class jfftw.RealDataArray

Multiply an element by a double, works in both real and fourier space.

mult(int, double, double) - Method in class jfftw.RealDataArray

Multiply an element by a Complex specified by two doubles in Fourier space.

mult(int, int, double) - Method in class uk.ac.ed.ph.signal.Image

Multiply a pixel by a double

mult(Point2i, double) - Method in class uk.ac.ed.ph.signal.Image

Multiply a pixel by a double

mult(int, int, Complex) - Method in class uk.ac.ed.ph.signal.Image

Multiply a pixel by a Complex

mult(Point2i, Complex) - Method in class uk.ac.ed.ph.signal.Image

Multiply a pixel by a Complex

mult(double) - Method in class uk.ac.ed.ph.signal.Image

Method to muliply the whole Image by a scalar

mult(double, double) - Method in class uk.ac.ed.ph.signal.Image

Method to multiply the whole Image by a complex specifed as two doubles.

mult(Complex) - Method in class uk.ac.ed.ph.signal.Image

Method to multiply the whole Image by a Complex.

mult(Image) - Method in class uk.ac.ed.ph.signal.Image

Method to multiply the current Image by a specified Image which must be of the same size, the result overwriting the contents of the current Image.

mult(int, double) - Method in class uk.ac.ed.ph.signal.Signal

Method to multiply an element by a scalar

mult(int, double, double) - Method in class uk.ac.ed.ph.signal.Signal

Method to multiply an element by a Complex

mult(int, Complex) - Method in class uk.ac.ed.ph.signal.Signal

Method to multiply an element by a Complex.

mult(double) - Method in class uk.ac.ed.ph.signal.Signal

Method to muliply the whole Signal by a scalar

mult(double, double) - Method in class uk.ac.ed.ph.signal.Signal

Method to multiply the whole Signal by a complex specifed as two doubles.

mult(Complex) - Method in class uk.ac.ed.ph.signal.Signal

Method to multiply the whole Signal by a Complex.

mult(Signal) - Method in class uk.ac.ed.ph.signal.Signal

Method to multiply the current Signal by a specified Signal which must be of the same size, the result overwriting the contents of the current Signal.

multBy(double, double) - Method in class jfftw.Complex

Method to mult the current Complex by specified Complex

multBy(Complex) - Method in class jfftw.Complex

Method to mult the current Complex by specified Complex

multBy(double) - Method in class jfftw.Complex

Method to mult the current Complex by specified real

multConj(Complex) - Method in class jfftw.Complex

Multiply the current by the conjugate of the specified Complex retuning a new Complex

multConjugate(double[], double[]) - Static method in class jfftw.ArrayUtil

Method to multiply a interleaves complex arrays with the complex conjugate of an interfeaved array, placing the result in the first.

multConjugate(double[][], double[][]) - Static method in class jfftw.ArrayUtil

Methed to multiply first array by complex conjugate of teh second.

multConjugate(DataArray) - Method in class jfftw.DataArray

Method to multiply the current DataArray by the Complex Conjugate of specified DataArray which must be of the same size the result overwriting the contents of the current DataArray.

multConjugate(Image) - Method in class uk.ac.ed.ph.signal.Image

Method to multiply the current Image by the Complex Conjugate of specified Image which must be of the same size the result overwriting the contents of the current Image.

multConjugate(Signal) - Method in class uk.ac.ed.ph.signal.Signal

Method to multiply the current Signal by the Complex Conjugate of specified Signal which must be of the same size the result overwriting the contents of the current Signal.

N

Noise - Class in uk.ac.ed.ph.signal

Class to add noise to signals and images

Noise() - Constructor for class uk.ac.ed.ph.signal.Noise

normaliseDB() - Method in class jfftw.DataArray

Protected method to normalise the data buffer

O

ObjectImagePlaneColour - Static variable in class uk.ac.ed.ph.signal.Colour

Colour of Object/Image Planes on diagrams

oneDimensional(double[], int, boolean) - Method in class jfftw.FFTWComplex

Method to take one-dimensional Complex FFT with the data supplied in a one-dimensional interleaved double array with real parts in even elements, and imaginary in the odd elements.

oneDimensional(double[][], int, boolean) - Method in class jfftw.FFTWComplex

Method to take a Complex one-dimensional FFT with the real and imaging data split format in a two-dimensional array of size [2][length] with the the i th component with real in the [0][i] element and the imaginary element in the [1][i] element.

oneDimensionalBackward(double[]) - Method in class jfftw.FFTWReal

Method to take a one dimensional Backward FFT of a complex hermition array to give Real output.

oneDimensionalForward(double[]) - Method in class jfftw.FFTWReal

Method to take a one dimensional Forward FFT of a real data array of n elements.

over(double) - Method in class jfftw.Complex

Divide the current Complex by a scalar returning a new Complex

over(double, double) - Method in class jfftw.Complex

Divide the current by specified Complex returning new Complex

over(Complex) - Method in class jfftw.Complex

Divide the current by specified Complex returning new Complex

P

paintComponent(Graphics) - Method in class uk.ac.ed.ph.signal.Diagram2DPanel

Overload method to repaint the JPanel

paintComponent(Graphics) - Method in class uk.ac.ed.ph.signal.ImagePanel

Methed on overload paintComponent that actually displays the bounded image.

panel - Variable in class uk.ac.ed.ph.signal.Diagram2DFrame

PATIENT - Static variable in class jfftw.FFTW

Flag for patient plan search (medium slow)

PHASE - Static variable in class jfftw.Complex

Static to specify the phase of a Complex number

phase() - Method in class jfftw.Complex

Get the phase from atan2(i,r) method.

planFlag - Variable in class jfftw.FFTW

Integer to set to the current plan in use by the package.

plot - Variable in class uk.ac.ed.ph.signal.Signal

Plot holding graphical information.

plus(Complex) - Method in class jfftw.Complex

Add a complex to the current returning a new Complex.

plus(double, double) - Method in class jfftw.Complex

Add a complex to the current returning a new Complex

plus(double) - Method in class jfftw.Complex

Add a real number to the current returning a new Complex.

PopUpOptions - Class in uk.ac.ed.ph.signal

PopUpOptions() - Constructor for class uk.ac.ed.ph.signal.PopUpOptions

powerSpectrum(boolean) - Method in class jfftw.DataArray

Method to get the PowerSpectrum as a RealDataArray In data is in real space, then it is automatically Fourier transformed using centreFourier.

powerSpectrum(boolean) - Method in class uk.ac.ed.ph.signal.Signal

Method to get the PowerSpectrum as a RealDataArray In data is in real space, then it is automatically Fourier transformed using centreFourier.

PrincipalPlaneColour - Static variable in class uk.ac.ed.ph.signal.Colour

Colour of Principal Planes of Diagrams

Q

QuadricSurfaceColour - Static variable in class uk.ac.ed.ph.signal.Colour

Colour of curved lens/ or mirror surfaces.

R

r - Variable in class jfftw.Complex

The real part

readFailure(Container, String) - Static method in class uk.ac.ed.ph.signal.PopUpOptions

readImage(File) - Static method in class uk.ac.ed.ph.signal.RealImage

General ReadImage static method with will read pgm, and any format accepted by the ImageIO (currently pnp,jpeg and gif).

readImage(String) - Static method in class uk.ac.ed.ph.signal.RealImage

General ReadImage static method with will read pgm, and any format accepted by the ImageIO (currently pnp,jpeg and gif).

readImageIO(File, int) - Static method in class uk.ac.ed.ph.signal.RealImage

Static method to read a RealImage a from jpeg/png/gif using the ImageIO inetrface.

readWisdom(File) - Static method in class jfftw.FFTW

Static method to read a Wisdom file into a String

REAL - Static variable in class jfftw.Complex

Static to specify real part of Complex number

REAL - Static variable in class jfftw.FFTW

Flag for Real space

RealDataArray - Class in jfftw

Class to handle Real Data arrays in either Real or Fourier space.

RealDataArray(int, int, int) - Constructor for class jfftw.RealDataArray

Constructor to form a three-dimensional RealDataArray in real space.

RealDataArray(int, int) - Constructor for class jfftw.RealDataArray

Constructor to form a two-dimensional RealDataArray, in real space.

RealDataArray(int) - Constructor for class jfftw.RealDataArray

Constructor to form a one-dimensional RealDataArray, in real space.

RealDataArray(RealDataArray) - Constructor for class jfftw.RealDataArray

Form a RealDataArray with all parameters taken from the specified RealDataArray.

RealDataArray(int, int, int, double[]) - Constructor for class jfftw.RealDataArray

Forms a general RealDataArray taking its data from the a supplied double[] assumed to be in the correct (row) order.

RealDataArray(BufferedImage, int) - Constructor for class jfftw.RealDataArray

Constructor to form the a two-dimensional RealDataArray from a band of a Java BufferedImage.

RealImage - Class in uk.ac.ed.ph.signal

Class to read and maniulate real monochrone images held as doubles.

RealImage(int, int) - Constructor for class uk.ac.ed.ph.signal.RealImage

Construcor to form RealImage of specified size in real space with the pixel values defaulting to zero.

RealImage(RealImage) - Constructor for class uk.ac.ed.ph.signal.RealImage

Constrcuor to form new RealImage being a copy of the specified RealImage including the image data.

RealImage(RealImage, boolean) - Constructor for class uk.ac.ed.ph.signal.RealImage

Constrcuor to form new RealImage being a copy of the specified RealImage.

RealImage(ComplexImage, int) - Constructor for class uk.ac.ed.ph.signal.RealImage

Constuctor to form a RealImage from a ComplexImage with a conversion flag

RealImage(ComplexImage) - Constructor for class uk.ac.ed.ph.signal.RealImage

Constuctor to form a RealImage from a ComplexImage with default conversion flag

RealImage(RealDataArray) - Constructor for class uk.ac.ed.ph.signal.RealImage

Constuctor to form a RealImage from a specifed RealDataArray

RealSignal - Class in uk.ac.ed.ph.signal

Class to deal with and process Real Signals where the signal is held as an 1 dimensial array of doubles.

RealSignal(int) - Constructor for class uk.ac.ed.ph.signal.RealSignal

Constrcutor to form a RealSignal with specified number of data points.

RealSignal(double[]) - Constructor for class uk.ac.ed.ph.signal.RealSignal

Constrctor to form a RealSignal double[] array.

RealSignal(RealDataArray) - Constructor for class uk.ac.ed.ph.signal.RealSignal

Constrctor to form a RealSignal a ReadDataArray.

RealSignal(RealSignal) - Constructor for class uk.ac.ed.ph.signal.RealSignal

Constructor to for a RealSignal with parameeters and data from a specifed RealSignal.

RealSignal(ComplexSignal, int) - Constructor for class uk.ac.ed.ph.signal.RealSignal

Constuctor top form a RealSignal from a ComplexSignal with a conversion flag

RealStatistics - Class in uk.ac.ed.ph.signal

Class to form the statistics of a RealSignal or RealImage, which must be in REAL space.

RealStatistics(RealImage) - Constructor for class uk.ac.ed.ph.signal.RealStatistics

Constructor to form the RealStatistics of a RealImage.

RealStatistics(RealSignal) - Constructor for class uk.ac.ed.ph.signal.RealStatistics

Constructor to form the RealStatistics of a RealSignal

RealStatistics(RealDataArray) - Constructor for class uk.ac.ed.ph.signal.RealStatistics

Constructor to form the RealStatistics for a RealDataArray

Red() - Static method in class uk.ac.ed.ph.signal.Colour

Static method to get OpticsConstant.RED colour

RefractiveIndexColour(double) - Static method in class uk.ac.ed.ph.signal.Colour

Satic method to give a glass colour given by the refractive index.

resetBounds() - Method in class uk.ac.ed.ph.signal.Diagram2DPanel

Internal method to reset the bounds to

resetBounds() - Method in class uk.ac.ed.ph.signal.ImagePanel

Method to reset the bound to the default size

reverse - Variable in class uk.ac.ed.ph.signal.ColourScale

Constract reverse flag.

S

scale(double) - Method in class jfftw.Complex

Form a scaled Complex from the current Complex with specified modulus, while retaining phase.

scaledPixelValue(float) - Method in class uk.ac.ed.ph.signal.ColourScale

Method to for the scaled pixel value in the range 0 - > 1.0 wrt to the current lower and upper limits.

set(double, double) - Method in class jfftw.Complex

Method reset Complex value

set(Complex) - Method in class jfftw.Complex

Method to reset the Complex value

setBounds(double, double, double, double) - Method in class uk.ac.ed.ph.signal.Diagram2D

Method to set the Bound to specifed value

setCentre(double, double) - Method in class uk.ac.ed.ph.signal.Grid2d

Method to set the centre

setCentre(Point2d) - Method in class uk.ac.ed.ph.signal.Grid2d

Method to set the centre

setColourScale(ColourScale) - Method in class uk.ac.ed.ph.signal.RealImage

Method to set the image colourscale

setComplex(double[], int, Complex) - Static method in class jfftw.ArrayUtil

Static to set the ith component of a interleaved complex array with a Complex.

setComplex(double[], int, double, double) - Static method in class jfftw.ArrayUtil

Static to set the ith component of a interleaved complex array with a two doubles

setComplex(double[], double[], int, Complex) - Static method in class jfftw.ArrayUtil

Static to set the ith component of split array array with a Complex.

setComplex(double[], double[], int, double, double) - Static method in class jfftw.ArrayUtil

Static to set the ith component of split array array with two doubles

setComplex(double[][], int, Complex) - Static method in class jfftw.ArrayUtil

Static to set the ith component of split array array with a Complex.

setComplex(double[][], int, double, double) - Static method in class jfftw.ArrayUtil

Static to set the ith component of split array array with a Complex.

setComplex(int, double, double) - Method in class jfftw.ComplexDataArray

Method to set a Complex point in one-dimension with two doubles.

setComplex(int, double, double) - Method in class jfftw.DataArray

Method to set an element with a complex specified as two doubles in one-dimension.

setComplex(int, Complex) - Method in class jfftw.DataArray

Method to set an element with a Complex in one dimensions.

setComplex(int, int, double, double) - Method in class jfftw.DataArray

Method to set an element with a complex in two-dimensions

setComplex(int, int, Complex) - Method in class jfftw.DataArray

Method to set an element with a Complex in two-dimensions.

setComplex(int, int, int, double, double) - Method in class jfftw.DataArray

Method to set an element with a Complex point in three-dimension.

setComplex(int, int, int, Complex) - Method in class jfftw.DataArray

Method to set an element with a Complex in three-dimensions.

setComplex(int, double, double) - Method in class jfftw.RealDataArray

Method to set a Complex point in one-dimension with two doubles.

setComplex(int, int, double, double) - Method in class uk.ac.ed.ph.signal.Image

Method to set a pixel value with a complex given at two doubles

setComplex(int, int, Complex) - Method in class uk.ac.ed.ph.signal.Image

Method to set a pixel value with a complex.

setComplex(Point2i, double, double) - Method in class uk.ac.ed.ph.signal.Image

Method to set a pixel value with a complex given at two doubles

setComplex(Point2i, Complex) - Method in class uk.ac.ed.ph.signal.Image

Method to set a pixel value with a complex

setComplex(int, Complex) - Method in class uk.ac.ed.ph.signal.Signal

Method to set element with a Complex

setComplex(int, double, double) - Method in class uk.ac.ed.ph.signal.Signal

Method to set element with a Complex

setConversion(int) - Method in class jfftw.DataArray

Method to set default conversion from Complex to double.

setConversion(int) - Method in class uk.ac.ed.ph.signal.Image

Method to set the default conversion flag

setConversion(int) - Method in class uk.ac.ed.ph.signal.Signal

Method to set the Complex to real conversion flag.

setDataBuffer(double[]) - Method in class jfftw.DataArray

Method to set the internal dataBuffer to specified double[] array.

setDefaultSize() - Method in class uk.ac.ed.ph.signal.ImageFrame

Method to set the default widow size to display the current image at real size

setDimensions(int, int, int) - Method in class jfftw.DataArray

Method to set the sizes, not normally called directly since there is no interval sanity checking.

setDisplayRange(double, double) - Method in class uk.ac.ed.ph.signal.ColourScale

Method to set the display range

setDouble(int, double) - Method in class jfftw.ComplexDataArray

Method to set the Real part of an element with a double, the imaginary part is not modified.

setDouble(int, double) - Method in class jfftw.DataArray

Method to set element with a double in one-dimension.

setDouble(int, int, double) - Method in class jfftw.DataArray

Method to set element with a double in two-dimensions.

setDouble(int, int, int, double) - Method in class jfftw.DataArray

Method to set element with a double in three-dimensions.

setDouble(int, double) - Method in class jfftw.RealDataArray

Method to set a double point in one-dimensions.

setDouble(int, int, double) - Method in class uk.ac.ed.ph.signal.Image

Method to set a pixel value with a double

setDouble(Point2i, double) - Method in class uk.ac.ed.ph.signal.Image

Method to set a pixel value with a double

setDouble(int, double) - Method in class uk.ac.ed.ph.signal.Signal

Method to set and element with a double

setElement(int, int, double) - Method in class uk.ac.ed.ph.signal.ImageFilterKernel

Set the value of the kernel element in the range start -> end

setErrorStream(PrintStream) - Method in class jfftw.FFTW

Method to reset the default errorStream for package.

setExpi(double) - Method in class jfftw.Complex

Method to set Complex value to expi(theta)

setFontSize(double) - Method in class uk.ac.ed.ph.signal.Diagram2DPanel

Method to set the fontsize (defaults to 18pt)

setFormatString(String) - Method in class jfftw.Complex

Change the default format, by default set to "%g"

setGamma(double) - Method in class uk.ac.ed.ph.signal.ColourScale

Method to set gamma

setGaussian(double) - Method in class uk.ac.ed.ph.signal.ImageFilterKernel

Make a Gaussian filter of the current length and specified width, where width is the distance between the e^(-1) points

setHeight(int) - Method in class uk.ac.ed.ph.signal.Grid2d

Method to set the height

setImag(double) - Method in class jfftw.Complex

Set the imaginary part, real part unchanged

setInvalid() - Method in class jfftw.Complex

Method to set the current Complex to be invalid, with both real and imaginary set to NaN

setLength(int) - Method in class uk.ac.ed.ph.signal.Window

Method to set the window length

setLimits(double, double) - Method in class uk.ac.ed.ph.signal.ColourScale

Method to set the ranges.

setLowerLimit(double) - Method in class uk.ac.ed.ph.signal.ColourScale

Method to set the lower limit (upper will remain unchanged)

setNormalisation(boolean) - Method in class jfftw.DataArray

Method to control auto normalisation on inverse flag, which is by default set to true.

setPenWidth(double) - Method in class uk.ac.ed.ph.signal.Diagram2DPanel

Method to set the default penwidth (defaults to 1.0)

setPlanFlag(int) - Method in class jfftw.FFTW

Method to set the plan flag, default is ESTIMATE

setPlotPoints(int) - Method in class uk.ac.ed.ph.signal.Function

Method to set the number of point in a plot.

setPlotRange(double, double) - Method in class uk.ac.ed.ph.signal.Function

Method to set the range of a plot.

setPolar(double, double) - Method in class jfftw.Complex

Method to set the Complex value with polar parameters

setRandomPhase(double) - Method in class jfftw.Complex

Method to set a Complex to a specified modulus, but the phase set randomly between 0 to 2pi

setRange(double, double) - Method in class uk.ac.ed.ph.signal.Grid2d

Method to set the sample interval by specifing the the range of the grid

setRange(double) - Method in class uk.ac.ed.ph.signal.Grid2d

Method to set the sample interval by specifing the the range of the grid

setReal(double) - Method in class jfftw.Complex

Set the real part, imaginary part unchanged

setReverseContarst(boolean) - Method in class uk.ac.ed.ph.signal.ColourScale

Meth ot set/unset reverse contarst, (defaults to false)

setSampleFrequency(double) - Method in class uk.ac.ed.ph.signal.Signal

Method to set the sample interval by frequency.

setSampleGrid(double, double) - Method in class uk.ac.ed.ph.signal.Grid2d

Method to set the sample grid

setSampleGrid(double) - Method in class uk.ac.ed.ph.signal.Grid2d

Method to set the sample grid with one parameter

setSampleInterval(double) - Method in class uk.ac.ed.ph.signal.Signal

Method to set the sample interval

setSpace(int) - Method in class jfftw.DataArray

Method to set the space.

setStart(Point2i) - Method in class uk.ac.ed.ph.signal.ImageFilterKernel

Method to set the start

setStart(double) - Method in class uk.ac.ed.ph.signal.Signal

Method to set the signal start time

setStatisticsInvalid() - Method in class uk.ac.ed.ph.signal.Image

Method to set the statiscics invalid to force re-caalculation

setStatusBar(String) - Method in class uk.ac.ed.ph.signal.Diagram2DFrame

Metho stub to set a status bar, if one exists.

setStatusBar(String) - Method in class uk.ac.ed.ph.signal.ImageFrame

Method to set the status bar text (normally called from inside ImagePanel)

setSystemWisdom(String) - Method in class jfftw.FFTW

Method to reset the system wisdom file location.

setTitle(String) - Method in class uk.ac.ed.ph.signal.FilterKernel

Method to set the title

setTitle(String) - Method in class uk.ac.ed.ph.signal.Image

Method to set the title

setTitle(String) - Method in class uk.ac.ed.ph.signal.Signal

Method to set the title

setUpperLimit(double) - Method in class uk.ac.ed.ph.signal.ColourScale

Metho to set the upper limit, (lower will remain unhanged)

setValid(boolean) - Method in class uk.ac.ed.ph.signal.Statistics

Method to set valid flag

setWidth(int) - Method in class uk.ac.ed.ph.signal.Grid2d

Method to set the width

Signal - Class in uk.ac.ed.ph.signal

Abstract class to represent a Signal where the signal in held as a one-dimensional DataArray from the jfftw package.

Signal() - Constructor for class uk.ac.ed.ph.signal.Signal

sizeMatch(DataArray) - Method in class jfftw.DataArray

Method to test if specified DataArray is of the same size at the current DataArray

Sodium() - Static method in class uk.ac.ed.ph.signal.Colour

Static method to get Sodium Yellow colour

space - Variable in class jfftw.DataArray

Space flag initially defaults to FFTW.REAL

split(double[]) - Static method in class jfftw.ArrayUtil

Static method to split an interleaved array into two split array, returned as a double[2][] array with [0][i] and [1][i] holding the real / imaginary parts.

split(double[], double[]) - Static method in class jfftw.ArrayUtil

Static method to form a split array from a real and imaginary array.

SpotColour - Static variable in class uk.ac.ed.ph.signal.Colour

Default Spot diagram colour

startDrag - Variable in class uk.ac.ed.ph.signal.Diagram2DPanel

statistics - Variable in class uk.ac.ed.ph.signal.Image

The Image statistics

Statistics - Class in uk.ac.ed.ph.signal

Class to form the statistics of a Signal

Statistics() - Constructor for class uk.ac.ed.ph.signal.Statistics

Surface - Class in uk.ac.ed.ph.signal

Abstarct class to specify a surface

Surface() - Constructor for class uk.ac.ed.ph.signal.Surface

T

TextFieldColour - Static variable in class uk.ac.ed.ph.signal.Colour

Colour for textfields

threeDimensional(int, int, int, double[], int, boolean) - Method in class jfftw.FFTWComplex

Method to take three-dimensional Complex FFT with the data supplied in a one-dimensional double array with real parts in even elements, and imaginary in the odd.

threeDimensional(int, int, int, double[][], int, boolean) - Method in class jfftw.FFTWComplex

Method to take a Complex the-dimensional FFT with the real and imaging data split format in a two-dimensional array of size [2][length] with the the i th component with real in the [0][i] element and the imaginary element in the [1][i] element.

threeDimensionalBackward(int, int, int, double[]) - Method in class jfftw.FFTWReal

Method to take the three dimensional backward DFT of a hermition complex DFT held in a double array with real/imag parts in even/odd elements, with the i,j Complex components in : *

threeDimensionalForward(int, int, int, double[]) - Method in class jfftw.FFTWReal

Method to take the three dimensional Forward DFT of a real cube held in one dimensional double array.

toCIEXYZ(float[]) - Method in class uk.ac.ed.ph.signal.ColourScale

Implement fromMIEXYZ conversion (not used)

toGraph(int, boolean) - Method in class uk.ac.ed.ph.signal.Signal

Display the signal as a default PtPlot graph

toPlot(int) - Method in class uk.ac.ed.ph.signal.Function

Method to plot the function to an internal Plot class.

toPlot(Plot, int) - Method in class uk.ac.ed.ph.signal.Function

Void method to add a line to a ptplot Plot dataset using the default range.

toPlot(Plot, int, double, double) - Method in class uk.ac.ed.ph.signal.Function

Void method to add a line to a ptplot Plot dataset

toPlot(Plot, int, boolean) - Method in class uk.ac.ed.ph.signal.Signal

Method to plot signal to a specifed plot.

toPlot(int, boolean) - Method in class uk.ac.ed.ph.signal.Signal

Plot the signal to an interal plot.

toPrintWriter(PrintWriter) - Method in class uk.ac.ed.ph.signal.Signal

Output the signal to a PrintWriter in a format acceptable to gnuplot

toRGB(float[]) - Method in class uk.ac.ed.ph.signal.ColourScale

Implement method from ColorSpace to give RGB values as floats.

toRGB(float) - Method in class uk.ac.ed.ph.signal.ColourScale

Return the rgb value for a single input pixel value.

toRGB(float) - Method in class uk.ac.ed.ph.signal.GammaGreyScale

Method to do the linear scale gamma

toRGB(float) - Method in class uk.ac.ed.ph.signal.LinearGreyScale

Method to do the linear scale with thresold

toString() - Method in class jfftw.Complex

Format the current Complex as a String

toString() - Method in class jfftw.DataArray

Default toString method to report information about DataArray.

toString() - Method in class uk.ac.ed.ph.signal.Image

Method to format the image information as a String

toString() - Method in class uk.ac.ed.ph.signal.ImageFilterKernel

Method to return the ImageFilterKernel as a String

toString() - Method in class uk.ac.ed.ph.signal.RealStatistics

Format as a String

toString() - Method in class uk.ac.ed.ph.signal.Statistics

Method to format as String

toTextFile(File) - Method in class uk.ac.ed.ph.signal.Signal

Output signal to a text file

toTextFile(String) - Method in class uk.ac.ed.ph.signal.Signal

Output signal to a text file.

transform - Variable in class uk.ac.ed.ph.signal.Diagram2DPanel

twoDimensional(int, int, double[], int, boolean) - Method in class jfftw.FFTWComplex

Method to take two-dimensional Complex FFT with the data supplied in a one-dimensional double array with real parts in even elements, and imaginary in the odd.

twoDimensional(int, int, double[][], int, boolean) - Method in class jfftw.FFTWComplex

Method to take a Complex two-dimensional FFT with the real and imaging data split format in a two-dimensional array of size [2][length] with the the i th component with real in the [0][i] element and the imaginary element in the [1][i] element.

twoDimensionalBackward(int, int, double[]) - Method in class jfftw.FFTWReal

Method to take the two dimensional backward DFT of a hermition complex DFT held in a double array with real/imag parts in even/odd elements, with the k,l Complex components in

twoDimensionalForward(int, int, double[]) - Method in class jfftw.FFTWReal

Method to take the two-dimensional Forward FFT of a real data held in one dimensional double array.

U

uk.ac.ed.ph.signal - package uk.ac.ed.ph.signal

under(double) - Method in class jfftw.Complex

Divide the specified scalar BY the current Complex returning a new Complex

under(Complex) - Method in class jfftw.Complex

Divide the specified Complex BY the current Complex

unity() - Method in class jfftw.Complex

Form a unit modulus version current Complex retaining the phase

unity() - Method in class uk.ac.ed.ph.signal.FilterKernel

Method to normalised a kernel so the sum of it elements is 1.0.

upperLimit - Variable in class uk.ac.ed.ph.signal.ColourScale

Highest pixel limit

V

validStatistics() - Method in class uk.ac.ed.ph.signal.Image

Method to report if the statistic are valis

version - Static variable in class jfftw.FFTW

Version flag

W

WavelengthColour(double) - Static method in class uk.ac.ed.ph.signal.Colour

Static method to give approximate colour for a given wavelength using simple linear colour combinations Based on fortran code by Dan Bruton, Stephen F Austin State University.

weight(Window) - Method in class uk.ac.ed.ph.signal.Signal

Method to apply a Window function to the Signal,.

width - Variable in class jfftw.DataArray

Width or primary size of the data array.

width - Variable in class uk.ac.ed.ph.signal.Grid2d

Window - Class in uk.ac.ed.ph.signal

Abstarct class to perform Window function for one-dimensional signal processing.

Window() - Constructor for class uk.ac.ed.ph.signal.Window

writeFailure(Container, String) - Static method in class uk.ac.ed.ph.signal.PopUpOptions

Popup to warn about failure write failure

writeImage(int, int, File) - Method in class uk.ac.ed.ph.signal.Diagram2DPanel

Method to write the the Diagram to a filea as a image with type specified by filename suffix

writeWisdom(String, File) - Static method in class jfftw.FFTW

Static method to write wisdom String to a file

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