loci.plugins.util

Class VirtualImagePlus

java.lang.Object

ij.ImagePlus

loci.plugins.util.VirtualImagePlus

All Implemented Interfaces:

ij.measure.Measurements, java.awt.image.ImageObserver, java.lang.Cloneable

public class VirtualImagePlus
extends ij.ImagePlus

Extension of ImagePlus that supports Bio-Formats-driven virtual stacks.

Author:

Melissa Linkert melissa at glencoesoftware.com

Field Summary

Fields

Modifier and Type	Field and Description
private ij.process.LUT[]	luts
private IFormatReader	r

Fields inherited from class ij.ImagePlus

changes, CLOSED, COLOR_256, COLOR_RGB, compositeImage, currentSlice, dimensionsSet, flattenTitle, GRAY16, GRAY32, GRAY8, height, img, ip, locked, nChannels, nFrames, nSlices, OPENED, roi, SAVED, setIJMenuBar, UPDATED, width, win

Fields inherited from interface java.awt.image.ImageObserver

ABORT, ALLBITS, ERROR, FRAMEBITS, HEIGHT, PROPERTIES, SOMEBITS, WIDTH

Fields inherited from interface ij.measure.Measurements

ADD_TO_OVERLAY, ALL_STATS, AREA, AREA_FRACTION, CENTER_OF_MASS, CENTROID, CIRCULARITY, ELLIPSE, FERET, INTEGRATED_DENSITY, INVERT_Y, KURTOSIS, LABELS, LIMIT, MAX_STANDARDS, MEAN, MEDIAN, MIN_MAX, MODE, NaN_EMPTY_CELLS, PERIMETER, RECT, SCIENTIFIC_NOTATION, SHAPE_DESCRIPTORS, SKEWNESS, SLICE, STACK_POSITION, STD_DEV

Constructor Summary

Constructors

Constructor and Description
VirtualImagePlus(java.lang.String title, ij.ImageStack stack)

Method Summary

Modifier and Type	Method and Description
void	close()
ij.process.ImageStatistics	getStatistics(int mOptions, int nBins, double histMin, double histMax)
void	setLUTs(ij.process.LUT[] luts)
void	setReader(IFormatReader r)
void	setSlice(int index)

Methods inherited from class ij.ImagePlus

addImageListener, clone, convertIndexToPosition, convertToImageProcessor, copy, copy, copyAttributes, copyScale, copyToSystem, createEmptyStack, createHyperStack, createImagePlus, createLut, createNewRoi, createRoiMask, createThresholdMask, crop, crop, crop, crop, cropAndSave, cut, deleteRoi, draw, draw, duplicate, flatten, flattenStack, flush, getAllStatistics, getBitDepth, getBufferedImage, getBytesPerPixel, getC, getCalibration, getCanvas, getChannel, getChannelProcessor, getClipboard, getCompositeMode, getCurrentSlice, getDefault16bitRange, getDimensions, getDimensions, getDisplayMode, getDisplayRangeMax, getDisplayRangeMin, getFileInfo, getFrame, getGlobalCalibration, getHeight, getHideOverlay, getID, getImage, getImageProperties, getImageStack, getImageStackSize, getInfoProperty, getListeners, getLocalCalibration, getLocationAsString, getLuts, getMask, getNChannels, getNDimensions, getNFrames, getNSlices, getNumericProp, getNumericProperty, getOpenAsHyperStack, getOriginalFileInfo, getOverlay, getPixel, getPlot, getProcessor, getProp, getProperties, getPropertiesAsArray, getProperty, getPropsInfo, getRawStatistics, getRoi, getShortTitle, getSizeInBytes, getSlice, getStack, getStackIndex, getStackSize, getStartTime, getStaticGlobalCalibration, getStatistics, getStatistics, getStatistics, getStringProperty, getT, getTitle, getType, getWidth, getWindow, getZ, hasImageStack, hide, imageUpdate, isComposite, isDisplayedHyperStack, isHyperStack, isInvertedLut, isLocked, isLockedByAnotherThread, isProcessor, isRGB, isStack, isThreshold, isVisible, killRoi, killStack, lock, lockSilently, logImageListeners, mouseMoved, notifyListeners, okToDeleteRoi, paste, paste, paste, plotHistogram, plotHistogram, removeImageListener, removeScale, repaintWindow, resetClipboard, resetDisplayRange, resetRoi, resetStack, resize, resize, restoreRoi, revert, saveRoi, setActivated, setActiveChannels, setAntialiasRendering, setBorderColor, setC, setCalibration, setColor, setDeactivated, setDefault16bitRange, setDefaultDisplayRange, setDimensions, setDisplayMode, setDisplayRange, setDisplayRange, setFileInfo, setGlobalCalibration, setHideOverlay, setIgnoreFlush, setIgnoreGlobalCalibration, setIJMenuBar, setIJMenuBar, setImage, setImage, setLut, setOpenAsHyperStack, setOverlay, setOverlay, setOverlay, setPlot, setPosition, setPosition, setPositionWithoutUpdate, setProcessor, setProcessor, setProp, setProp, setProperties, setProperty, setRoi, setRoi, setRoi, setRoi, setSliceWithoutUpdate, setStack, setStack, setStack, setT, setTemporary, setTitle, setType, setTypeToColor256, setWindow, setZ, show, show, startTiming, tempOverlay, toString, trimProcessor, unlock, updateAndDraw, updateAndRepaintWindow, updateChannelAndDraw, updateImage, updatePosition, updateStatusbarValue, updateVirtualSlice, waitTillActivated, windowActivated

Methods inherited from class java.lang.Object

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

Field Detail

r

private IFormatReader r

luts

private ij.process.LUT[] luts

Constructor Detail

VirtualImagePlus

public VirtualImagePlus(java.lang.String title,
                        ij.ImageStack stack)

Method Detail

setReader

public void setReader(IFormatReader r)

setLUTs

public void setLUTs(ij.process.LUT[] luts)

setSlice

public void setSlice(int index)

Overrides:

setSlice in class ij.ImagePlus

close

public void close()

Overrides:

close in class ij.ImagePlus

getStatistics

public ij.process.ImageStatistics getStatistics(int mOptions,
                                                int nBins,
                                                double histMin,
                                                double histMax)

Overrides:

getStatistics in class ij.ImagePlus