Package loci.plugins.util

Class VirtualImagePlus

java.lang.Object
ij.ImagePlus
loci.plugins.util.VirtualImagePlus
All Implemented Interfaces:
ij.measure.Measurements, ImageObserver, 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
    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
    Description
    VirtualImagePlus(String title, ij.ImageStack stack)
     

  • Method Summary

    Modifier and Type
    Method
    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 Details

    • r

      private IFormatReader r

    • luts

      private ij.process.LUT[] luts

  • Constructor Details

    • VirtualImagePlus

      public VirtualImagePlus(String title, ij.ImageStack stack)

  • Method Details

    • 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