Module ij

Package ij.process

Class StackProcessor

java.lang.Object

ij.process.StackProcessor

public class StackProcessor
extends java.lang.Object

This class processes stacks.

Field Summary

Fields

Modifier and Type	Field	Description
static int	FILTER_MAX
static int	FILTER_MAXLOCAL
static int	FILTER_MEAN
static int	FILTER_MEDIAN
static int	FILTER_MIN
static int	FILTER_VAR

Constructor Summary

Constructors

Constructor	Description
StackProcessor(ImageStack stack)	Constructs a StackProcessor from a stack.
StackProcessor(ImageStack stack, ImageProcessor ip)	Constructs a StackProcessor from a stack.

Method Summary

Modifier and Type	Method	Description
void	applyTable(int[] table)
void	copyBits(ImageStack src, int xloc, int yloc, int mode)
void	copyBits(ImageProcessor src, int xloc, int yloc, int mode)
ImageStack	crop(int x, int y, int width, int height)	Crops the stack to the specified rectangle.
void	filter3D(ImageStack out, float radx, float rady, float radz, int zmin, int zmax, int filter)	3D filter using threads
void	filter3D(ImageStack out, int nChs, int nZSlices, float radx, float rady, float radz, int cmin, int cmax, int zmin, int zmax, int tmin, int tmax, int filter)	filter3d with added channel, frame, chs, and slices info for hyperstack
void	flipHorizontal()
void	flipVertical()
void	invert()
ImageStack	resize(int newWidth, int newHeight)	Creates a new stack with dimensions 'newWidth' x 'newHeight'.
ImageStack	resize(int newWidth, int newHeight, boolean averageWhenDownsizing)
ImageStack	rotateLeft()
ImageStack	rotateRight()
void	scale(double xScale, double yScale)
void	scale(double xScale, double yScale, double fillValue)

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

FILTER_MEAN

public static final int FILTER_MEAN

See Also:

Constant Field Values

FILTER_MEDIAN

public static final int FILTER_MEDIAN

See Also:

Constant Field Values

FILTER_MIN

public static final int FILTER_MIN

See Also:

Constant Field Values

FILTER_MAX

public static final int FILTER_MAX

See Also:

Constant Field Values

FILTER_VAR

public static final int FILTER_VAR

See Also:

Constant Field Values

FILTER_MAXLOCAL

public static final int FILTER_MAXLOCAL

See Also:

Constant Field Values

Constructor Detail

StackProcessor

public StackProcessor(ImageStack stack)

Constructs a StackProcessor from a stack.

StackProcessor

public StackProcessor(ImageStack stack,
                      ImageProcessor ip)

Constructs a StackProcessor from a stack. 'ip' is the processor that will be used to process the slices. 'ip' can be null when using crop().

Method Detail

invert

public void invert()

flipHorizontal

public void flipHorizontal()

flipVertical

public void flipVertical()

applyTable

public void applyTable(int[] table)

scale

public void scale(double xScale,
                  double yScale)

scale

public void scale(double xScale,
                  double yScale,
                  double fillValue)

resize

public ImageStack resize(int newWidth,
                         int newHeight)

Creates a new stack with dimensions 'newWidth' x 'newHeight'. To reduce memory requirements, the orginal stack is deleted as the new stack is created.

resize

public ImageStack resize(int newWidth,
                         int newHeight,
                         boolean averageWhenDownsizing)

crop

public ImageStack crop(int x,
                       int y,
                       int width,
                       int height)

Crops the stack to the specified rectangle.

rotateRight

public ImageStack rotateRight()

rotateLeft

public ImageStack rotateLeft()

copyBits

public void copyBits(ImageProcessor src,
                     int xloc,
                     int yloc,
                     int mode)

copyBits

public void copyBits(ImageStack src,
                     int xloc,
                     int yloc,
                     int mode)

filter3D

public void filter3D(ImageStack out,
                     float radx,
                     float rady,
                     float radz,
                     int zmin,
                     int zmax,
                     int filter)

3D filter using threads

Parameters:

out -

radx - Radius of mean filter in x

rady - Radius of mean filter in y

radz - Radius of mean filter in z

zmin -

zmax -

filter -

filter3D

public void filter3D(ImageStack out,
                     int nChs,
                     int nZSlices,
                     float radx,
                     float rady,
                     float radz,
                     int cmin,
                     int cmax,
                     int zmin,
                     int zmax,
                     int tmin,
                     int tmax,
                     int filter)

filter3d with added channel, frame, chs, and slices info for hyperstack

Parameters:

out - ImageStack output

chs - Number of channels in the hyperstack

nZSlices - Number of slices in the hyperstack

radx - Radius of filter in x

rady - Radius of filter in y

radz - Radis of filter in z

cmin - start channel (0-based)

cmax - end channel (0-based)

zmin - start slice (0-based)

zmax - end slice (0-based)

tmin - start frame (0-based)

tmax - end frame (0-based)

filter -