leica

Class LeicaSPReader

java.lang.Object

ij.ImagePlus

leica.LeicaSPReader

All Implemented Interfaces:

Measurements, ImageObserver, Cloneable

public class LeicaSPReader
extends ImagePlus

Opens multi-image 8-bits tiff files created by Leica confocal microscope systems using each channels own LUT. Modified by Nico Stuurman June 2000 Modified to set the real dimensions by J. Schindelin 2006 Modified to read the new Leica tiff format by B. Schmid 2007

Field Summary

Fields

Modifier and Type	Field and Description
protected String	imageInfo
protected ImagePlus[]	images
protected int	nr_channels
protected int	nr_frames

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, setIJMenuBar, typeSet, 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
LeicaSPReader()

Method Summary

Modifier and Type	Method and Description
FileInfo[]	getFileInfo(String directory, String name)
ImagePlus	getImage(int i)
int	getNumberOfChannels()

Methods inherited from class ij.ImagePlus

addImageListener, clone, close, convertIndexToPosition, copy, copy, copyAttributes, copyScale, createEmptyStack, createHyperStack, createImagePlus, createLut, createNewRoi, crop, 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, getImageStack, getImageStackSize, getInfoProperty, getLocalCalibration, getLocationAsString, getLuts, getMask, getNChannels, getNDimensions, getNFrames, getNSlices, getNumericProperty, getOpenAsHyperStack, getOriginalFileInfo, getOverlay, getPixel, getProcessor, getProp, getProperties, getProperty, getRawStatistics, getRoi, getShortTitle, getSlice, getStack, getStackIndex, getStackSize, getStartTime, getStaticGlobalCalibration, getStatistics, getStatistics, getStatistics, getStatistics, getStringProperty, getT, getTitle, getType, getWidth, getWindow, getZ, hide, imageUpdate, isComposite, isDisplayedHyperStack, isHyperStack, isInvertedLut, isLocked, isProcessor, isThreshold, isVisible, killRoi, killStack, lock, lockSilently, mouseMoved, notifyListeners, paste, removeImageListener, repaintWindow, resetClipboard, resetDisplayRange, resetStack, restoreRoi, revert, saveRoi, setActivated, setActiveChannels, setAntialiasRendering, setC, setCalibration, setColor, setDefault16bitRange, setDimensions, setDisplayMode, setDisplayRange, setDisplayRange, setFileInfo, setGlobalCalibration, setHideOverlay, setIgnoreFlush, setIgnoreGlobalCalibration, setIJMenuBar, setIJMenuBar, setImage, setImage, setLut, setOpenAsHyperStack, setOverlay, setOverlay, setOverlay, setPosition, setPosition, setPositionWithoutUpdate, setProcessor, setProcessor, setProperty, setRoi, setRoi, setRoi, setRoi, setSlice, setSliceWithoutUpdate, setStack, setStack, setStack, setT, setTitle, setType, setWindow, setZ, show, show, startTiming, toString, trimProcessor, unlock, updateAndDraw, updateAndRepaintWindow, updateChannelAndDraw, updateImage, updatePosition, updateStatusbarValue

Methods inherited from class java.lang.Object

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

Field Detail

images

protected ImagePlus[] images

nr_frames

protected int nr_frames

nr_channels

protected int nr_channels

imageInfo

protected String imageInfo

Constructor Detail

LeicaSPReader

public LeicaSPReader()

Method Detail

getNumberOfChannels

public int getNumberOfChannels()

getImage

public ImagePlus getImage(int i)

getFileInfo

public FileInfo[] getFileInfo(String directory,
                              String name)
                       throws IOException

Throws:

IOException