ij.plugin

Class HyperStackConverter

java.lang.Object

ij.plugin.HyperStackConverter

All Implemented Interfaces:

PlugIn

public class HyperStackConverter
extends java.lang.Object
implements PlugIn

Implements the "Stack to HyperStack", "RGB to HyperStack" and "HyperStack to Stack" commands.

Field Summary

Fields

Modifier and Type	Field and Description
static int	CTZ
static int	CZT
static int	TCZ
static int	TZC
static int	ZCT
static int	ZTC

Constructor Summary

Constructors

Constructor and Description
HyperStackConverter()

Method Summary

Modifier and Type	Method and Description
void	run(java.lang.String arg) This method is called when the plugin is loaded.
void	shuffle(ImagePlus imp, int order) Changes the dimension order of a 4D or 5D stack from the specified order (CTZ, ZCT, ZTC, TCZ or TZC) to the XYCZT order used by ImageJ.
static ImagePlus	toHyperStack(ImagePlus imp, int c, int z, int t) Converts the specified stack into a hyperstack with 'c' channels, 'z' slices and 't' frames using the default ordering ("xyczt") and display mode ("Composite").
static ImagePlus	toHyperStack(ImagePlus imp, int c, int z, int t, java.lang.String order, java.lang.String mode) Converts the specified stack into a hyperstack with 'c' channels, 'z' slices and 't' frames.

Methods inherited from class java.lang.Object

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

Field Detail

CZT

public static final int CZT

See Also:

Constant Field Values

CTZ

public static final int CTZ

See Also:

Constant Field Values

ZCT

public static final int ZCT

See Also:

Constant Field Values

ZTC

public static final int ZTC

See Also:

Constant Field Values

TCZ

public static final int TCZ

See Also:

Constant Field Values

TZC

public static final int TZC

See Also:

Constant Field Values

Constructor Detail

HyperStackConverter

public HyperStackConverter()

Method Detail

run

public void run(java.lang.String arg)

Description copied from interface: PlugIn

This method is called when the plugin is loaded. 'arg', which may be blank, is the argument specified for this plugin in IJ_Props.txt.

Specified by:

run in interface PlugIn

toHyperStack

public static ImagePlus toHyperStack(ImagePlus imp,
                                     int c,
                                     int z,
                                     int t)

Converts the specified stack into a hyperstack with 'c' channels, 'z' slices and 't' frames using the default ordering ("xyczt") and display mode ("Composite").

toHyperStack

public static ImagePlus toHyperStack(ImagePlus imp,
                                     int c,
                                     int z,
                                     int t,
                                     java.lang.String order,
                                     java.lang.String mode)

Converts the specified stack into a hyperstack with 'c' channels, 'z' slices and 't' frames. The default "xyczt" order is used if 'order' is null. The default "composite" display mode is used if 'mode' is null.

Parameters:

imp - the stack to be converted

c - channels

z - slices

t - frames

order - hyperstack order ("default", "xyctz", "xyzct", "xyztc", "xytcz" or "xytzc")

mode - display mode ("composite", "color" or "grayscale")

Returns:

the resulting hyperstack

shuffle

public void shuffle(ImagePlus imp,
                    int order)

Changes the dimension order of a 4D or 5D stack from the specified order (CTZ, ZCT, ZTC, TCZ or TZC) to the XYCZT order used by ImageJ.