org.dcm4che3.imageio.plugins.dcm

Class DicomImageReader

java.lang.Object

javax.imageio.ImageReader

org.dcm4che3.imageio.plugins.dcm.DicomImageReader

public class DicomImageReader
extends ImageReader

Since:

Feb 2013

Author:

Gunter Zeilinger

Field Summary

Fields

Modifier and Type	Field and Description
private boolean	banded
private int	bitsAllocated
private int	bitsStored
private int	dataType
private ImageReader	decompressor
private Attributes	ds
private int	frameLength
private int	frames
private int	height
private ImageInputStream	iis
private static Logger	LOG
private DicomMetaData	metadata
private PatchJPEGLS	patchJpegLS
private BulkData	pixelBulkData
private byte[]	pixeldataBytes
private File	pixeldataFile
private Fragments	pixeldataFragments
private VR.Holder	pixeldataVR
private PhotometricInterpretation	pmi
private boolean	rle
private int	samples
private int	width

Fields inherited from class javax.imageio.ImageReader

availableLocales, ignoreMetadata, input, locale, minIndex, originatingProvider, progressListeners, seekForwardOnly, updateListeners, warningListeners, warningLocales

Constructor Summary

Constructors

Constructor and Description
DicomImageReader(ImageReaderSpi originatingProvider)

Method Summary

Modifier and Type	Method and Description
private WritableRaster	applyLUTs(WritableRaster raster, int frameIndex, ImageReadParam param, SampleModel sm, int outBits)
private void	applyOverlay(int gg0000, WritableRaster raster, int frameIndex, ImageReadParam param, int outBits, byte[] ovlyData)
boolean	canReadRaster()
private void	checkIndex(int frameIndex)
private void	closeiis()
private ColorModel	createColorModel(int bits, int dataType)
private ImageTypeSpecifier	createImageType(int bits, int dataType, boolean banded)
private SampleModel	createSampleModel(int dataType, boolean banded)
private ImageReadParam	decompressParam(ImageReadParam param)
void	dispose()
private byte[]	extractOverlay(int gg0000, WritableRaster raster)
private int[]	getActiveOverlayGroupOffsets(ImageReadParam param)
ImageReadParam	getDefaultReadParam()
int	getHeight(int frameIndex)
IIOMetadata	getImageMetadata(int frameIndex)
Iterator<ImageTypeSpecifier>	getImageTypes(int frameIndex)
int	getNumImages(boolean allowSearch)
ImageTypeSpecifier	getRawImageType(int frameIndex)
IIOMetadata	getStreamMetadata()
int	getWidth(int frameIndex)
private ImageInputStreamImpl	iisOfFrame(int frameIndex)
private void	openiis()
BufferedImage	read(int frameIndex, ImageReadParam param)
private void	readMetadata()
Raster	readRaster(int frameIndex, ImageReadParam param)
private void	resetInternalState()
private Attributes	selectFctGroup(Attributes imgAttrs, Attributes sharedFctGroups, Attributes frameFctGroups, int tag)
private Attributes	selectVOILUT(Attributes psAttrs, String iuid, int frame)
void	setInput(Object input, boolean seekForwardOnly, boolean ignoreMetadata)
private void	setMetadata(DicomMetaData metadata)

Methods inherited from class javax.imageio.ImageReader

abort, abortRequested, addIIOReadProgressListener, addIIOReadUpdateListener, addIIOReadWarningListener, checkReadParamBandSettings, clearAbortRequest, computeRegions, getAspectRatio, getAvailableLocales, getDestination, getFormatName, getImageMetadata, getInput, getLocale, getMinIndex, getNumThumbnails, getOriginatingProvider, getSourceRegion, getStreamMetadata, getThumbnailHeight, getThumbnailWidth, getTileGridXOffset, getTileGridYOffset, getTileHeight, getTileWidth, hasThumbnails, isIgnoringMetadata, isImageTiled, isRandomAccessEasy, isSeekForwardOnly, processImageComplete, processImageProgress, processImageStarted, processImageUpdate, processPassComplete, processPassStarted, processReadAborted, processSequenceComplete, processSequenceStarted, processThumbnailComplete, processThumbnailPassComplete, processThumbnailPassStarted, processThumbnailProgress, processThumbnailStarted, processThumbnailUpdate, processWarningOccurred, processWarningOccurred, read, readAll, readAll, readAsRenderedImage, readerSupportsThumbnails, readThumbnail, readTile, readTileRaster, removeAllIIOReadProgressListeners, removeAllIIOReadUpdateListeners, removeAllIIOReadWarningListeners, removeIIOReadProgressListener, removeIIOReadUpdateListener, removeIIOReadWarningListener, reset, setInput, setInput, setLocale

Methods inherited from class java.lang.Object

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

Field Detail

LOG

private static final Logger LOG

iis

private ImageInputStream iis

ds

private Attributes ds

metadata

private DicomMetaData metadata

frames

private int frames

width

private int width

height

private int height

pixelBulkData

private BulkData pixelBulkData

pixeldataVR

private final VR.Holder pixeldataVR

pixeldataFragments

private Fragments pixeldataFragments

pixeldataFile

private File pixeldataFile

pixeldataBytes

private byte[] pixeldataBytes

decompressor

private ImageReader decompressor

rle

private boolean rle

patchJpegLS

private PatchJPEGLS patchJpegLS

samples

private int samples

banded

private boolean banded

bitsStored

private int bitsStored

bitsAllocated

private int bitsAllocated

dataType

private int dataType

frameLength

private int frameLength

pmi

private PhotometricInterpretation pmi

Constructor Detail

DicomImageReader

public DicomImageReader(ImageReaderSpi originatingProvider)

Method Detail

setInput

public void setInput(Object input,
                     boolean seekForwardOnly,
                     boolean ignoreMetadata)

Overrides:

setInput in class ImageReader

getNumImages

public int getNumImages(boolean allowSearch)
                 throws IOException

Specified by:

getNumImages in class ImageReader

Throws:

IOException

getWidth

public int getWidth(int frameIndex)
             throws IOException

Specified by:

getWidth in class ImageReader

Throws:

IOException

getHeight

public int getHeight(int frameIndex)
              throws IOException

Specified by:

getHeight in class ImageReader

Throws:

IOException

getRawImageType

public ImageTypeSpecifier getRawImageType(int frameIndex)
                                   throws IOException

Overrides:

getRawImageType in class ImageReader

Throws:

IOException

getImageTypes

public Iterator<ImageTypeSpecifier> getImageTypes(int frameIndex)
                                           throws IOException

Specified by:

getImageTypes in class ImageReader

Throws:

IOException

openiis

private void openiis()
              throws FileNotFoundException,
                     IOException

Throws:

FileNotFoundException

IOException

closeiis

private void closeiis()
               throws IOException

Throws:

IOException

getDefaultReadParam

public ImageReadParam getDefaultReadParam()

Overrides:

getDefaultReadParam in class ImageReader

getStreamMetadata

public IIOMetadata getStreamMetadata()
                              throws IOException

Specified by:

getStreamMetadata in class ImageReader

Throws:

IOException

getImageMetadata

public IIOMetadata getImageMetadata(int frameIndex)
                             throws IOException

Specified by:

getImageMetadata in class ImageReader

Throws:

IOException

canReadRaster

public boolean canReadRaster()

Overrides:

canReadRaster in class ImageReader

readRaster

public Raster readRaster(int frameIndex,
                         ImageReadParam param)
                  throws IOException

Overrides:

readRaster in class ImageReader

Throws:

IOException

decompressParam

private ImageReadParam decompressParam(ImageReadParam param)

read

public BufferedImage read(int frameIndex,
                          ImageReadParam param)
                   throws IOException

Specified by:

read in class ImageReader

Throws:

IOException

extractOverlay

private byte[] extractOverlay(int gg0000,
                              WritableRaster raster)

iisOfFrame

private ImageInputStreamImpl iisOfFrame(int frameIndex)
                                 throws IOException

Throws:

IOException

applyOverlay

private void applyOverlay(int gg0000,
                          WritableRaster raster,
                          int frameIndex,
                          ImageReadParam param,
                          int outBits,
                          byte[] ovlyData)

getActiveOverlayGroupOffsets

private int[] getActiveOverlayGroupOffsets(ImageReadParam param)

applyLUTs

private WritableRaster applyLUTs(WritableRaster raster,
                                 int frameIndex,
                                 ImageReadParam param,
                                 SampleModel sm,
                                 int outBits)

selectFctGroup

private Attributes selectFctGroup(Attributes imgAttrs,
                                  Attributes sharedFctGroups,
                                  Attributes frameFctGroups,
                                  int tag)

selectVOILUT

private Attributes selectVOILUT(Attributes psAttrs,
                                String iuid,
                                int frame)

readMetadata

private void readMetadata()
                   throws IOException

Throws:

IOException

setMetadata

private void setMetadata(DicomMetaData metadata)

createSampleModel

private SampleModel createSampleModel(int dataType,
                                      boolean banded)

createImageType

private ImageTypeSpecifier createImageType(int bits,
                                           int dataType,
                                           boolean banded)

createColorModel

private ColorModel createColorModel(int bits,
                                    int dataType)

resetInternalState

private void resetInternalState()

checkIndex

private void checkIndex(int frameIndex)

dispose

public void dispose()

Overrides:

dispose in class ImageReader