edu.jhu.ece.iacl.jist.structures.image
Class ImageDataMipav

java.lang.Object
  edu.jhu.ece.iacl.jist.structures.image.ImageData
      edu.jhu.ece.iacl.jist.structures.image.ImageDataMipav

All Implemented Interfaces:

java.io.Serializable, java.lang.Cloneable

Direct Known Subclasses:

ImageDataMipavPointer, ImageDataMipavWrapper

public class ImageDataMipav
extends ImageData

Cubic volume adapter to MIPAV ModelImage type. Model Images can be wrapped in this class without copying data values and preserving header information.

Author:

Blake Lucas

See Also:

Serialized Form

Field Summary

protected ModelImage

img The img.

Fields inherited from class edu.jhu.ece.iacl.jist.structures.image.ImageData

cols, components, imageHeader, name, rows, slices, type

Constructor Summary

protected	ImageDataMipav()
	ImageDataMipav(ImageData vol) Instantiates a new image data mipav.
	ImageDataMipav(ModelImage img)
	ImageDataMipav(java.lang.String name, int rows, int cols) Instantiates a new image data mipav.
	ImageDataMipav(java.lang.String name, int rows, int cols, int slices) Instantiates a new image data mipav.
	ImageDataMipav(java.lang.String name, int rows, int cols, int slices, int components) Instantiates a new image data mipav.
	ImageDataMipav(java.lang.String name, VoxelType type, int rows, int cols, int slices) Instantiates a new image data mipav.
	ImageDataMipav(java.lang.String name, VoxelType type, int rows, int cols, int slices, int components) Instantiates a new image data mipav.

Method Summary

ImageData	clone()
static void	copyDataToModelImage(ImageData vol, ModelImage img) Copy data to model image.
static ModelImage	createModelImage(ImageData vol) Creates the model image.
static ModelImage	createModelImage(ImageData vol, ModelImage img) Creates the model image.
void	dispose() Free any resources associated with an ImageData object.
ModelImage	extractModelImage()
protected void	finalize()
java.lang.Number	get(int i, int j, int k, int l) Get vector component for volume.
boolean	getBoolean(int i, int j, int k, int l) Gets the boolean.
byte	getByte(int i, int j, int k, int l) Gets the u byte.
java.awt.Color	getColor(int i, int j, int k, int l) Gets the color.
double	getDouble(int i, int j, int k, int l) Gets the double.
float	getFloat(int i, int j, int k, int l) Gets the float.
int	getInt(int i, int j, int k, int l) Gets the int.
static int	getMipavType(VoxelType type) Get MIPAV voxel type for specified voxel type MIPAV types are ambiguous because they use integers instead of enums This function is not reflexive for Vector types since MIPAV doesn't have a Vector type.
ModelImage	getModelImageCopy() Gets the model image.
ModelImage	getModelImageDirect()
short	getShort(int i, int j, int k, int l) Gets the short.
short	getUByte(int i, int j, int k, int l) Gets the u byte.
static VoxelType	getVoxelType(int mipavType) Get voxel type for specified MIPAV voxel type MIPAV types are ambiguous because they use integers instead of enums.
void	ImageDataMipavPrivate(ModelImage img) Instantiates a new image data mipav.
boolean	isNotAvailable()
ImageDataMipav	mimic() Create new cubic volume of the same subclass type with the same dimensions Does not copy the values in the volume.
ImageDataMipav	mimic(int rows, int cols, int slices, int components) Mimic.
void	set(int i, int j, java.awt.Color c) Sets the.
void	set(int i, int j, int k, int l, boolean a) Sets the.
void	set(int i, int j, int k, int l, byte a) Sets the.
void	set(int i, int j, int k, int l, java.awt.Color c) Sets the.
void	set(int i, int j, int k, int l, double a) Sets the.
void	set(int i, int j, int k, int l, float a) Sets the.
void	set(int i, int j, int k, int l, int a) Sets the.
void	set(int i, int j, int k, int l, java.lang.Number a) Sets the.
void	set(int i, int j, int k, int l, short a) Set vector Component.
void	set(Voxel a) Sets the.
void	setHeader(ImageHeader info) Sets the header.
void	setName(java.lang.String name) Volume name used my MIPAV images when saving.

Methods inherited from class edu.jhu.ece.iacl.jist.structures.image.ImageData

clone, clone, clone, get, get, getBoolean, getBoolean, getByte, getByte, getColor, getColor, getCols, getComponents, getDouble, getDouble, getFloat, getFloat, getHeader, getInt, getInt, getName, getRows, getShort, getShort, getSlices, getType, getUByte, getUByte, getUShort, getUShort, getUShort, set, set, set, set, set, set, set, set, set, set, set, set, set, set, set, toString

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, wait, wait, wait

Field Detail

img

protected ModelImage img

The img.

Constructor Detail

ImageDataMipav

public ImageDataMipav(ImageData vol)

Instantiates a new image data mipav.

Parameters:

vol - the vol

ImageDataMipav

public ImageDataMipav(ModelImage img)

ImageDataMipav

public ImageDataMipav(java.lang.String name,
                      int rows,
                      int cols)

Instantiates a new image data mipav.

Parameters:

name - the name

rows - the rows

cols - the cols

slices - the slices

ImageDataMipav

public ImageDataMipav(java.lang.String name,
                      int rows,
                      int cols,
                      int slices)

Instantiates a new image data mipav.

Parameters:

name - the name

rows - the rows

cols - the cols

slices - the slices

ImageDataMipav

public ImageDataMipav(java.lang.String name,
                      int rows,
                      int cols,
                      int slices,
                      int components)

Instantiates a new image data mipav.

Parameters:

name - the name

rows - the rows

cols - the cols

slices - the slices

components - the components

ImageDataMipav

public ImageDataMipav(java.lang.String name,
                      VoxelType type,
                      int rows,
                      int cols,
                      int slices)

Instantiates a new image data mipav.

Parameters:

name - the name

type - the type

rows - the rows

cols - the cols

slices - the slices

ImageDataMipav

public ImageDataMipav(java.lang.String name,
                      VoxelType type,
                      int rows,
                      int cols,
                      int slices,
                      int components)

Instantiates a new image data mipav.

Parameters:

name - the name

type - the type

rows - the rows

cols - the cols

slices - the slices

components - the components

ImageDataMipav

protected ImageDataMipav()

Method Detail

copyDataToModelImage

public static void copyDataToModelImage(ImageData vol,
                                        ModelImage img)

Copy data to model image.

Parameters:

vol - the vol

img - the img

createModelImage

public static ModelImage createModelImage(ImageData vol)

Creates the model image.

Parameters:

vol - the vol

Returns:

the model image

setHeader

public void setHeader(ImageHeader info)

Description copied from class: ImageData

Sets the header.

Overrides:

setHeader in class ImageData

Parameters:

info - the new header

createModelImage

public static ModelImage createModelImage(ImageData vol,
                                          ModelImage img)

Creates the model image.

Parameters:

vol - the vol

img - the img

Returns:

the model image

getMipavType

public static int getMipavType(VoxelType type)

Get MIPAV voxel type for specified voxel type MIPAV types are ambiguous because they use integers instead of enums This function is not reflexive for Vector types since MIPAV doesn't have a Vector type.

Parameters:

type - the type

Returns:

the mipav type

getVoxelType

public static VoxelType getVoxelType(int mipavType)

Get voxel type for specified MIPAV voxel type MIPAV types are ambiguous because they use integers instead of enums.

Parameters:

mipavType - the mipav type

Returns:

the voxel type

ImageDataMipavPrivate

public void ImageDataMipavPrivate(ModelImage img)

Instantiates a new image data mipav.

Parameters:

img - the img

clone

public ImageData clone()

Specified by:

clone in class ImageData

get

public java.lang.Number get(int i,
                            int j,
                            int k,
                            int l)

Description copied from class: ImageData

Get vector component for volume.

Specified by:

get in class ImageData

Parameters:

i - row

j - column

k - slice

l - component

Returns:

the number

getBoolean

public boolean getBoolean(int i,
                          int j,
                          int k,
                          int l)

Description copied from class: ImageData

Gets the boolean.

Specified by:

getBoolean in class ImageData

Parameters:

i - the i

j - the j

k - the k

l - the l

Returns:

the boolean

getColor

public java.awt.Color getColor(int i,
                               int j,
                               int k,
                               int l)

Description copied from class: ImageData

Gets the color.

Specified by:

getColor in class ImageData

Parameters:

i - the i

j - the j

k - the k

l - the l

Returns:

the color

getDouble

public double getDouble(int i,
                        int j,
                        int k,
                        int l)

Description copied from class: ImageData

Gets the double.

Specified by:

getDouble in class ImageData

Parameters:

i - the i

j - the j

k - the k

l - the l

Returns:

the double

getFloat

public float getFloat(int i,
                      int j,
                      int k,
                      int l)

Description copied from class: ImageData

Gets the float.

Specified by:

getFloat in class ImageData

Parameters:

i - the i

j - the j

k - the k

l - the l

Returns:

the float

getInt

public int getInt(int i,
                  int j,
                  int k,
                  int l)

Description copied from class: ImageData

Gets the int.

Specified by:

getInt in class ImageData

Parameters:

i - the i

j - the j

k - the k

l - the l

Returns:

the int

getModelImageCopy

public ModelImage getModelImageCopy()

Description copied from class: ImageData

Gets the model image.

Overrides:

getModelImageCopy in class ImageData

Returns:

the model image

getShort

public short getShort(int i,
                      int j,
                      int k,
                      int l)

Description copied from class: ImageData

Gets the short.

Specified by:

getShort in class ImageData

Parameters:

i - the i

j - the j

k - the k

l - the l

Returns:

the short

getUByte

public short getUByte(int i,
                      int j,
                      int k,
                      int l)

Description copied from class: ImageData

Gets the u byte.

Specified by:

getUByte in class ImageData

Parameters:

i - the i

j - the j

k - the k

l - the l

Returns:

the u byte

mimic

public ImageDataMipav mimic()

Description copied from class: ImageData

Create new cubic volume of the same subclass type with the same dimensions Does not copy the values in the volume.

Specified by:

mimic in class ImageData

Returns:

the image data

mimic

public ImageDataMipav mimic(int rows,
                            int cols,
                            int slices,
                            int components)

Description copied from class: ImageData

Mimic.

Specified by:

mimic in class ImageData

Parameters:

rows - the rows

cols - the cols

slices - the slices

components - the components

Returns:

the image data

set

public void set(int i,
                int j,
                int k,
                int l,
                boolean a)

Description copied from class: ImageData

Sets the.

Specified by:

set in class ImageData

Parameters:

i - the i

j - the j

k - the k

l - the l

a - the a

set

public void set(int i,
                int j,
                int k,
                int l,
                byte a)

Sets the.

Parameters:

i - the i

j - the j

k - the k

l - the l

a - the a

set

public void set(int i,
                int j,
                java.awt.Color c)

Description copied from class: ImageData

Sets the.

Overrides:

set in class ImageData

Parameters:

i - the i

j - the j

c - the a

set

public void set(int i,
                int j,
                int k,
                int l,
                double a)

Description copied from class: ImageData

Sets the.

Specified by:

set in class ImageData

Parameters:

i - the i

j - the j

k - the k

l - the l

a - the a

set

public void set(int i,
                int j,
                int k,
                int l,
                float a)

Description copied from class: ImageData

Sets the.

Specified by:

set in class ImageData

Parameters:

i - the i

j - the j

k - the k

l - the l

a - the a

set

public void set(int i,
                int j,
                int k,
                int l,
                int a)

Description copied from class: ImageData

Sets the.

Specified by:

set in class ImageData

Parameters:

i - the i

j - the j

k - the k

l - the l

a - the a

set

public void set(int i,
                int j,
                int k,
                int l,
                java.awt.Color c)

Description copied from class: ImageData

Sets the.

Specified by:

set in class ImageData

Parameters:

i - the i

j - the j

k - the k

l - the l

c - the a

set

public void set(int i,
                int j,
                int k,
                int l,
                short a)

Set vector Component.

Specified by:

set in class ImageData

Parameters:

i - the i

j - the j

k - the k

l - the l

a - the a

set

public void set(Voxel a)

Description copied from class: ImageData

Sets the.

Specified by:

set in class ImageData

Parameters:

a - the a

setName

public void setName(java.lang.String name)

Description copied from class: ImageData

Volume name used my MIPAV images when saving.

Overrides:

setName in class ImageData

Parameters:

name - the name

dispose

public void dispose()

Description copied from class: ImageData

Free any resources associated with an ImageData object. This is NOT necessary. It might encourage the garbage collector to collect resources more efficiently.

Specified by:

dispose in class ImageData

finalize

protected void finalize()
                 throws java.lang.Throwable

Overrides:

finalize in class java.lang.Object

Throws:

java.lang.Throwable

getModelImageDirect

public ModelImage getModelImageDirect()

extractModelImage

public ModelImage extractModelImage()

isNotAvailable

public boolean isNotAvailable()

Overrides:

isNotAvailable in class ImageData

set

public void set(int i,
                int j,
                int k,
                int l,
                java.lang.Number a)

Description copied from class: ImageData

Sets the.

Specified by:

set in class ImageData

Parameters:

i - the i

j - the j

k - the k

l - the l

a - the a

getByte

public byte getByte(int i,
                    int j,
                    int k,
                    int l)

Description copied from class: ImageData

Gets the u byte.

Specified by:

getByte in class ImageData

Parameters:

i - the i

j - the j

k - the k

l - the l

Returns:

the u byte