- a - Variable in class jj2000.j2k.entropy.decoder.MQDecoder
-
The current interval
- a - Variable in class jj2000.j2k.entropy.encoder.MQCoder
-
The current interval
- abort() - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageWriter
-
- About - Class in loci.plugins
-
Displays a small information dialog about the Bio-Formats Plugins package.
- About() - Constructor for class loci.plugins.About
-
- about() - Static method in class loci.plugins.About
-
- abs() - Method in class loci.plugins.util.RecordedImageProcessor
-
- absoluteTime - Variable in class loci.formats.in.PrairieMetadata.Frame
-
absoluteTime
attribute of this <Frame>
.
- AbstractOMEXMLMetadata - Class in loci.formats.ome
-
- AbstractOMEXMLMetadata() - Constructor for class loci.formats.ome.AbstractOMEXMLMetadata
-
- ac - Variable in class loci.formats.in.FakeReader
-
Channel of last opened image plane.
- accept(File) - Method in class loci.formats.gui.ComboFileFilter
-
Accepts files with the proper filename prefix.
- accept(File) - Method in class loci.formats.gui.ExtensionFileFilter
-
Accepts files with the proper extensions.
- accept(File) - Method in class loci.formats.gui.FormatFileFilter
-
Accepts files in accordance with the file format reader.
- accept(File) - Method in class loci.formats.gui.NoExtensionFileFilter
-
Accepts files with no extension.
- accept(String) - Method in class loci.formats.NumberFilter
-
Tests if a specified file should be included in a file list.
- accept(File) - Method in class loci.formats.NumberFilter
-
Tests if a specified file should be included in a file list.
- accumulate - Variable in class loci.formats.in.SDTInfo
-
- ACCUMULATION - Static variable in class loci.formats.in.CellSensReader
-
- ACCUMULATION_MODE - Static variable in class loci.formats.in.CellSensReader
-
- acquire - Variable in class loci.formats.in.ZeissLSMReader.SubBlock
-
- acquiredDate - Variable in class loci.formats.in.LIFReader
-
- acquiredDate - Variable in class loci.formats.in.ZeissCZIReader
-
- acquiredDate - Variable in class loci.formats.in.ZeissLSMReader
-
- ACQUISITION_CYCLE_TIME - Static variable in class loci.formats.in.FluoviewReader
-
- ACQUISITION_FILE - Static variable in class loci.formats.in.ScanrReader
-
- ACQUISITION_PROPERTIES - Static variable in class loci.formats.in.CellSensReader
-
- ACQUISITION_TIME_TAG - Static variable in class loci.formats.in.FlowSightReader
-
- acquisitionDate - Variable in class loci.formats.in.BaseZeissReader
-
- acquisitionDate - Variable in class loci.formats.in.BioRadSCNReader
-
- acquisitionDate - Variable in class loci.formats.in.ColumbusReader
-
- acquisitionDate - Variable in class loci.formats.in.OIRReader
-
- acquisitionDate - Variable in class loci.formats.in.SISReader
-
- acquisitionDates - Variable in class loci.formats.in.FlexReader
-
- acquisitionMode - Variable in class loci.formats.in.ZeissCZIReader.Channel
-
- acquisitions - Variable in class loci.formats.in.ZeissCZIReader
-
- acquisitionTime - Variable in class loci.formats.in.CellSensReader.Pyramid
-
- act - Variable in class loci.formats.in.GIFReader
-
Active color table.
- actionPerformed(ActionEvent) - Method in class loci.formats.gui.CacheComponent
-
Handles combo box changes.
- actionPerformed(ActionEvent) - Method in class loci.formats.gui.DataConverter
-
- actionPerformed(ActionEvent) - Method in class loci.formats.gui.ImageViewer
-
Handles menu commands.
- actionPerformed(ActionEvent) - Method in class loci.formats.tools.EditTiffG
-
- actionPerformed(ActionEvent) - Method in class loci.plugins.config.ConfigWindow
-
- actionPerformed(ActionEvent) - Method in class loci.plugins.in.SeriesDialog
-
- actionPerformed(ActionEvent) - Method in class loci.plugins.shortcut.ShortcutPanel
-
Handles button presses.
- actionPerformed(ActionEvent) - Method in class loci.plugins.util.DataBrowser
-
- actionPerformed(ActionEvent) - Method in class loci.plugins.util.SearchableWindow
-
- actionPerformed(ActionEvent) - Method in class loci.plugins.util.SearchableWindow.SearchBox
-
- active - Variable in class loci.formats.in.FV1000Reader.ChannelData
-
- active - Variable in class loci.formats.in.LeicaHandler.Detector
-
- active - Variable in class loci.formats.in.LeicaReader.Detector
-
- ACTIVE_CHANNEL - Static variable in class loci.formats.in.CellSensReader
-
- ACTIVE_LAYER_INDEX_VECTOR - Static variable in class loci.formats.in.CellSensReader
-
- ACTIVE_LAYER_VECTOR - Static variable in class loci.formats.in.CellSensReader
-
- ACTIVE_STACK_DIMENSION - Static variable in class loci.formats.in.CellSensReader
-
- activeChannelIndices - Variable in class loci.formats.in.LeicaReader
-
- activeChannels - Variable in class loci.formats.in.PrairieMetadata
-
Set of active channel indices.
- activeDetector - Variable in class loci.formats.in.LIFReader
-
- activePlane - Variable in class loci.formats.in.OperettaReader.OperettaHandler
-
- activeSrcHeight - Variable in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
The height of the source region that will actually be copied
into the destination image, taking into account all
susbampling, offsetting, and clipping.
- activeSrcMinX - Variable in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
The X coordinate of the upper-left source pixel that will
actually be copied into the destination image, taking into
account all subsampling, offsetting, and clipping.
- activeSrcMinY - Variable in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
The Y coordinate of the upper-left source pixel that will
actually be copied into the destination image, taking into account
all subsampling, offsetting, and clipping.
- activeSrcWidth - Variable in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
The width of the source region that will actually be copied
into the destination image, taking into account all
susbampling, offsetting, and clipping.
- ACTUAL_TEMPERATURE - Static variable in class loci.formats.in.FluoviewReader
-
- actualBytes - Variable in class jj2000.j2k.entropy.encoder.EBCOTLayer
-
The actual number of bytes which are consumed by the the current and
any previous layers.
- adcDE - Variable in class loci.formats.in.SDTInfo
-
ADC sample delay (SPC-930).
- adcRE - Variable in class loci.formats.in.SDTInfo
-
- adcResShift - Variable in class loci.formats.in.SPCReader
-
- adcZoom - Variable in class loci.formats.in.SDTInfo
-
- add(byte) - Method in class loci.formats.codec.ByteVector
-
- add(byte[]) - Method in class loci.formats.codec.ByteVector
-
- add(byte[], int, int) - Method in class loci.formats.codec.ByteVector
-
- add(byte[], int, int, int, int) - Method in class loci.formats.codec.JPEGTileDecoder.TileCache
-
- add(int[], int, int, int, int) - Method in class loci.formats.codec.JPEGTileDecoder.TileCache
-
- add(double) - Method in class loci.plugins.util.RecordedImageProcessor
-
- add(int) - Method in class loci.plugins.util.RecordedImageProcessor
-
- add1DBits(byte[], int, int, int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxCompressor
-
Get code for run and add to compressed bitstream.
- add2DBits(byte[], int, int[][], int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxCompressor
-
Place entry from mode table into compressed bitstream.
- addAllowedTagSet(TIFFTagSet) - Method in class com.sun.media.imageio.plugins.tiff.TIFFImageReadParam
-
Adds a TIFFTagSet
object to the list of allowed
tag sets.
- addByteArray(byte[], int, int) - Method in class jj2000.j2k.entropy.decoder.ByteInputBuffer
-
Adds the specified data to the end of the byte array stream.
- addCacheListener(CacheListener) - Method in class loci.formats.cache.Cache
-
- addCacheListener(CacheListener) - Method in interface loci.formats.cache.CacheReporter
-
Adds a listener for status update events.
- addCacheListener(CacheListener) - Method in class loci.formats.cache.CacheStrategy
-
- AddCharString(short, byte) - Method in class com.sun.media.imageioimpl.common.LZWStringTable
-
- addCheckbox(GenericDialog, String) - Method in class loci.plugins.prefs.OptionsDialog
-
Adds a checkbox to the given dialog object corresponding
to the boolean option identified by the specified key.
- addChildNode(IIOMetadataNode, String, Object) - Method in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
-
- addChildNode(IIOMetadataNode, String, Object) - Method in class com.sun.media.imageioimpl.plugins.wbmp.WBMPMetadata
-
- addChoice(GenericDialog, String) - Method in class loci.plugins.prefs.OptionsDialog
-
Adds a choice to the given dialog object corresponding
to the string option identified by the specified key.
- addClass(int, Class<? extends T>) - Method in class loci.formats.ClassList
-
Adds the given class, which must be assignable
to the base class, to the list.
- addClass(Class<? extends T>) - Method in class loci.formats.ClassList
-
Adds the given class, which must be assignable
to the base class, to the list.
- addComment(String) - Method in class com.sun.media.imageioimpl.plugins.pnm.PNMMetadata
-
- addDirectory(String, int) - Method in class loci.formats.in.L2DReader
-
Recursively add all of the files in the given directory to the
used file list.
- addElements() - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KMetadataFormat
-
Adds the elements into this format object based on the XML
schema and DTD.
- addElements() - Method in class com.sun.media.imageioimpl.plugins.pnm.PNMMetadataFormat
-
Adds the elements into this format object based on the XML
schema and DTD.
- addEntry(Comparable<Object>, DefaultListModel) - Static method in class loci.plugins.config.ConfigWindow
-
- addEOFB(byte[], int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxCompressor
-
Add an End-of-Facsimile-Block (EOFB == 0x001001) to the compressed
bitstream.
- addEOL(boolean, boolean, boolean, byte[], int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxCompressor
-
Add an End-of-Line (EOL == 0x001) to the compressed bitstream
with optional byte alignment.
- addFileToList(String, boolean) - Method in class loci.formats.in.DicomReader
-
Determine if the given file belongs in the same dataset as this file.
- addGlobalMeta(String, Object) - Method in class loci.formats.FormatReader
-
Adds an entry to the global metadata table.
- addGlobalMeta(String, boolean) - Method in class loci.formats.FormatReader
-
Adds an entry to the global metadata table.
- addGlobalMeta(String, byte) - Method in class loci.formats.FormatReader
-
Adds an entry to the global metadata table.
- addGlobalMeta(String, short) - Method in class loci.formats.FormatReader
-
Adds an entry to the global metadata table.
- addGlobalMeta(String, int) - Method in class loci.formats.FormatReader
-
Adds an entry to the global metadata table.
- addGlobalMeta(String, long) - Method in class loci.formats.FormatReader
-
Adds an entry to the global metadata table.
- addGlobalMeta(String, float) - Method in class loci.formats.FormatReader
-
Adds an entry to the global metadata table.
- addGlobalMeta(String, double) - Method in class loci.formats.FormatReader
-
Adds an entry to the global metadata table.
- addGlobalMeta(String, char) - Method in class loci.formats.FormatReader
-
Adds an entry to the global metadata table.
- addGlobalMetaList(String, Object) - Method in class loci.formats.FormatReader
-
Add the given key/value pair to the global metadata hashtable.
- addInfo(int, String) - Method in class loci.formats.in.DicomReader
-
- addInfo(int, int) - Method in class loci.formats.in.DicomReader
-
- additionalMakeup - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxDecompressor
-
- addMeta(String, Object, Hashtable<String, Object>) - Method in class loci.formats.FormatReader
-
Adds an entry to the specified Hashtable.
- addMetadataOnly(OMEXMLMetadata, int) - Method in interface loci.formats.services.OMEXMLService
-
Insert a MetadataOnly element under the Image specified by 'index' in the
given OME-XML metadata object.
- addMetadataOnly(OMEXMLMetadata, int, boolean) - Method in interface loci.formats.services.OMEXMLService
-
Insert a MetadataOnly element under the Image specified by 'index' in the
given OME-XML metadata object.
- addMetadataOnly(OMEXMLMetadata, int) - Method in class loci.formats.services.OMEXMLServiceImpl
-
- addMetadataOnly(OMEXMLMetadata, int, boolean) - Method in class loci.formats.services.OMEXMLServiceImpl
-
- addMetaList(String, Object, Hashtable<String, Object>) - Method in class loci.formats.FormatReader
-
Add the given key/value pair to the given hashtable.
- addModuloAlong(OMEXMLMetadata, CoreMetadata, int) - Method in interface loci.formats.services.OMEXMLService
-
Adds ModuloAlong* annotations to the given OME-XML metadata object,
using the given CoreMetadata object to determine modulo dimensions.
- addModuloAlong(OMEXMLMetadata, CoreMetadata, int) - Method in class loci.formats.services.OMEXMLServiceImpl
-
- addNode(Box) - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KMetadata
-
- addNTP(int, int) - Method in class jj2000.j2k.codestream.reader.CBlkInfo
-
Adds the number of new truncation for specified layer.
- addOption(String, String) - Method in class loci.formats.ClassList
-
Add a key/value pair to the list of options.
- addOptPoint(float, int) - Method in class jj2000.j2k.entropy.encoder.LayersInfo
-
Adds a new optimization point, with target bitrate 'brate' and with
'elyrs' (unoptimized) extra layers after it.
- addPossible(String) - Method in class loci.plugins.prefs.StringOption
-
Adds a possible value to the list.
- addProp(HashMap<String, String>, String, String, HashMap<String, String>) - Method in class loci.plugins.config.ConfigWindow
-
- addPtyFiles() - Method in class loci.formats.in.FV1000Reader
-
- addScrollBars(Container) - Static method in class loci.plugins.util.WindowTools
-
Adds AWT scroll bars to the given container.
- addSeriesMeta(String, Object) - Method in class loci.formats.FormatReader
-
Adds an entry to the metadata table for the current series.
- addSeriesMeta(String, boolean) - Method in class loci.formats.FormatReader
-
Adds an entry to the metadata table for the current series.
- addSeriesMeta(String, byte) - Method in class loci.formats.FormatReader
-
Adds an entry to the metadata table for the current series.
- addSeriesMeta(String, short) - Method in class loci.formats.FormatReader
-
Adds an entry to the metadata table for the current series.
- addSeriesMeta(String, int) - Method in class loci.formats.FormatReader
-
Adds an entry to the metadata table for the current series.
- addSeriesMeta(String, long) - Method in class loci.formats.FormatReader
-
Adds an entry to the metadata table for the current series.
- addSeriesMeta(String, float) - Method in class loci.formats.FormatReader
-
Adds an entry to the metadata table for the current series.
- addSeriesMeta(String, double) - Method in class loci.formats.FormatReader
-
Adds an entry to the metadata table for the current series.
- addSeriesMeta(String, char) - Method in class loci.formats.FormatReader
-
Adds an entry to the metadata table for the current series.
- addSeriesMetaList(String, Object) - Method in class loci.formats.FormatReader
-
Add the given key/value pair to the current series metadata hashtable.
- addShortOrLongField(int, int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageMetadata
-
- addStatusListener(StatusListener) - Method in class loci.plugins.in.ImagePlusReader
-
- addStatusListener(StatusListener) - Method in class loci.plugins.in.ImportProcess
-
- addStringToTable(byte[], byte) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFLZWDecompressor
-
Add a new string to the string table.
- addStringToTable(byte[]) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFLZWDecompressor
-
Add a new string to the string table.
- addStringToTable(byte[], byte) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFLZWUtil
-
Add a new string to the string table.
- addStringToTable(byte[]) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFLZWUtil
-
Add a new string to the string table.
- addTagSet(TIFFTagSet) - Method in class com.sun.media.imageio.plugins.tiff.TIFFDirectory
-
Adds an element to the group of
TIFFTagSet
s of which this
directory is aware.
- addTIFFField(TIFFField) - Method in class com.sun.media.imageio.plugins.tiff.TIFFDirectory
-
Adds a TIFF field to the directory.
- addToHashtable() - Method in class loci.formats.in.ZeissLSMReader.SubBlock
-
- addUsedFile(String, String) - Method in class loci.formats.in.PerkinElmerReader
-
Add the given file to the used files list.
- addUserCommentMeta(Element, int) - Method in class loci.formats.in.LIFReader
-
- addValueName(int, String) - Method in class com.sun.media.imageio.plugins.tiff.TIFFTag
-
Adds a mnemonic name for a particular value that this tag's
data may take on.
- addXYZPoints(IIOMetadataNode, String, double, double, double) - Method in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
-
- adjust - Variable in class loci.formats.in.SlidebookReader
-
- adjustBitDepths - Variable in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
- adjustEndianness - Variable in class loci.formats.in.GatanReader
-
- adjustForWhiteBalance(short, int) - Method in class loci.formats.in.DNGReader
-
- adjustForWhiteBalance(short, int) - Method in class loci.formats.in.NikonReader
-
- adjustmentValueChanged(AdjustmentEvent) - Method in class loci.plugins.util.DataBrowser
-
- adjustWellDimensions() - Method in class loci.formats.in.ScanrReader
-
- advanceBlock() - Method in class loci.formats.in.APNGReader.PNGInputStream
-
- AE - Static variable in class loci.formats.in.DicomReader
-
- AFIHandler() - Constructor for class loci.formats.in.AFIReader.AFIHandler
-
- AFIReader - Class in loci.formats.in
-
AFIReader is the file format reader for Aperio AFI files.
- AFIReader() - Constructor for class loci.formats.in.AFIReader
-
Constructs a new AFI reader.
- AFIReader.AFIHandler - Class in loci.formats.in
-
- ag - Variable in class loci.formats.FileStitcher.ExternalSeries
-
- AIMReader - Class in loci.formats.in
-
AIMReader is the file format reader for .aim files.
- AIMReader() - Constructor for class loci.formats.in.AIMReader
-
Constructs a new AIM reader.
- airPressure - Variable in class loci.formats.in.ZeissCZIReader
-
- AISF - Static variable in class loci.formats.in.VolocityClippingReader
-
- AL3D_MAGIC_STRING - Static variable in class loci.formats.in.AliconaReader
-
- AliconaReader - Class in loci.formats.in
-
AliconaReader is the file format reader for Alicona AL3D files.
- AliconaReader() - Constructor for class loci.formats.in.AliconaReader
-
Constructs a new Alicona reader.
- ALIGNMENT - Static variable in class loci.formats.in.ZeissCZIReader
-
- alignROI - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageWriteParamJava
-
By specifying this parameter, the ROI mask will be limited to
covering only entire code-blocks.
- aLine - Variable in class com.sun.media.imageioimpl.plugins.pnm.PNMImageReader
-
- ALL_DOMAINS - Static variable in class loci.formats.FormatTools
-
List of all supported domains.
- ALL_TYPES - Static variable in class loci.formats.gui.GUITools
-
String to use for "all types" combination filter.
- allBlockLengths - Variable in class loci.formats.in.SDTInfo
-
- allBlockOffsets - Variable in class loci.formats.in.SDTInfo
-
- allFiles - Variable in class loci.formats.in.BrukerReader
-
- allFiles - Variable in class loci.formats.in.PerkinElmerReader
-
List of all files to open
- allFiles - Variable in class loci.formats.in.SPCReader
-
List of all files to open
- allocatedSize - Variable in class loci.formats.in.ZeissCZIReader.Segment
-
- allocateRate() - Method in class jj2000.j2k.codestream.reader.FileBitstreamReaderAgent
-
Allocates output bit-rate for each tile in parsing mode: The allocator
simulates the truncation of a virtual layer-resolution progressive
codestream.
- ALLOW_AUTOSTITCHING_DEFAULT - Static variable in class loci.formats.in.ZeissCZIReader
-
- ALLOW_AUTOSTITCHING_KEY - Static variable in class loci.formats.in.ZeissCZIReader
-
- allowAutostitching() - Method in class loci.formats.in.ZeissCZIReader
-
- allowCZIAutostitch() - Static method in class loci.plugins.util.LociPrefs
-
- allowedTagsByName - Variable in class com.sun.media.imageio.plugins.tiff.TIFFTagSet
-
- allowedTagsByNumber - Variable in class com.sun.media.imageio.plugins.tiff.TIFFTagSet
-
- allowedTagSets - Variable in class com.sun.media.imageio.plugins.tiff.TIFFImageReadParam
-
- allowOpen - Variable in class loci.formats.gui.FormatFileFilter
-
Whether it is ok to open a file to determine its type.
- allowOpen - Variable in class loci.formats.ImageReader
-
- allowShow - Variable in class loci.plugins.util.DataBrowser
-
- ALPHA - Static variable in class jj2000.j2k.wavelet.analysis.AnWTFilterFloatLift9x7
-
The value of the first lifting step coefficient
- ALPHA - Static variable in class jj2000.j2k.wavelet.synthesis.SynWTFilterFloatLift9x7
-
The value of the first lifting step coefficient
- ALPHABET_LENGTH - Static variable in class loci.formats.ResourceNamer
-
- alphabeticIndexCount(String) - Static method in class loci.formats.ResourceNamer
-
- alphaMask - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPImageReader
-
- alphaMask - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
-
- alphaShort - Variable in class loci.formats.gui.Index16ColorModel
-
Lookup tables.
- alreadyChecked() - Method in class loci.formats.UpgradeChecker
-
Return true if an upgrade check has already been performed in this
JVM session.
- altCodec - Variable in class loci.formats.in.NativeQTReader
-
Some movies use two video codecs -- this is the second codec.
- alternateCenter - Variable in class loci.formats.in.LeicaHandler
-
- alternateCenter - Variable in class loci.formats.in.LIFReader
-
- ALTITUDE_REF_SEA_LEVEL - Static variable in class com.sun.media.imageio.plugins.tiff.EXIFGPSTagSet
-
A value to be used with the "GPSAltitudeRef" tag.
- ALTITUDE_REF_SEA_LEVEL_REFERENCE - Static variable in class com.sun.media.imageio.plugins.tiff.EXIFGPSTagSet
-
A value to be used with the "GPSAltitudeRef" tag.
- altPlanes - Variable in class loci.formats.in.NativeQTReader
-
Number of frames that use the alternate codec.
- AmiraParameters - Class in loci.formats.tools
-
AmiraParameters handles parsing and writing of AmiraMesh headers.
- AmiraParameters(String) - Constructor for class loci.formats.tools.AmiraParameters
-
- AmiraParameters(RandomAccessInputStream) - Constructor for class loci.formats.tools.AmiraParameters
-
- AmiraReader - Class in loci.formats.in
-
This is a file format reader for AmiraMesh data.
- AmiraReader() - Constructor for class loci.formats.in.AmiraReader
-
- AmiraReader.ASCII - Class in loci.formats.in
-
This class provides a not-quite-efficient, but simple reader for
planes stored in ASCII-encoded numbers.
- AmiraReader.HxRLE - Class in loci.formats.in
-
This is the reader for RLE-compressed AmiraMeshes.
- AmiraReader.HxZip - Class in loci.formats.in
-
This is the reader for GZip-compressed AmiraMeshes.
- AmiraReader.PlaneReader - Interface in loci.formats.in
-
This is the common interface for all formats, compressed or not.
- amplificationGain - Variable in class loci.formats.in.ZeissLSMReader.DetectionChannel
-
- AnalysisFile() - Constructor for class loci.formats.in.MIASReader.AnalysisFile
-
- analysisFiles - Variable in class loci.formats.in.MIASReader
-
- analyze_hpf(Object, int, int, int, Object, int, int, Object, int, int) - Method in class jj2000.j2k.wavelet.analysis.AnWTFilter
-
Filters the input signal by this analysis filter, decomposing
it in a low-pass and a high-pass signal.
- analyze_hpf(float[], int, int, int, float[], int, int, float[], int, int) - Method in class jj2000.j2k.wavelet.analysis.AnWTFilterFloat
-
A specific version of the analyze_hpf() method that works on int
data.
- analyze_hpf(Object, int, int, int, Object, int, int, Object, int, int) - Method in class jj2000.j2k.wavelet.analysis.AnWTFilterFloat
-
The general version of the analyze_hpf() method, it just calls the
specialized version.
- analyze_hpf(float[], int, int, int, float[], int, int, float[], int, int) - Method in class jj2000.j2k.wavelet.analysis.AnWTFilterFloatLift9x7
-
An implementation of the analyze_hpf() method that works on int
data, for the forward 9x7 wavelet transform using the
lifting scheme.
- analyze_hpf(int[], int, int, int, int[], int, int, int[], int, int) - Method in class jj2000.j2k.wavelet.analysis.AnWTFilterInt
-
A specific version of the analyze_hpf() method that works on int
data.
- analyze_hpf(Object, int, int, int, Object, int, int, Object, int, int) - Method in class jj2000.j2k.wavelet.analysis.AnWTFilterInt
-
The general version of the analyze_hpf() method, it just calls the
specialized version.
- analyze_hpf(int[], int, int, int, int[], int, int, int[], int, int) - Method in class jj2000.j2k.wavelet.analysis.AnWTFilterIntLift5x3
-
An implementation of the analyze_hpf() method that works on int data,
for the forward 5x3 wavelet transform using the lifting scheme.
- analyze_lpf(Object, int, int, int, Object, int, int, Object, int, int) - Method in class jj2000.j2k.wavelet.analysis.AnWTFilter
-
Filters the input signal by this analysis filter, decomposing
it in a low-pass and a high-pass signal.
- analyze_lpf(float[], int, int, int, float[], int, int, float[], int, int) - Method in class jj2000.j2k.wavelet.analysis.AnWTFilterFloat
-
A specific version of the analyze_lpf() method that works on int
data.
- analyze_lpf(Object, int, int, int, Object, int, int, Object, int, int) - Method in class jj2000.j2k.wavelet.analysis.AnWTFilterFloat
-
The general version of the analyze_lpf() method, it just calls the
specialized version.
- analyze_lpf(float[], int, int, int, float[], int, int, float[], int, int) - Method in class jj2000.j2k.wavelet.analysis.AnWTFilterFloatLift9x7
-
An implementation of the analyze_lpf() method that works on int
data, for the forward 9x7 wavelet transform using the
lifting scheme.
- analyze_lpf(int[], int, int, int, int[], int, int, int[], int, int) - Method in class jj2000.j2k.wavelet.analysis.AnWTFilterInt
-
A specific version of the analyze_lpf() method that works on int
data.
- analyze_lpf(Object, int, int, int, Object, int, int, Object, int, int) - Method in class jj2000.j2k.wavelet.analysis.AnWTFilterInt
-
The general version of the analyze_lpf() method, it just calls the
specialized version.
- analyze_lpf(int[], int, int, int, int[], int, int, int[], int, int) - Method in class jj2000.j2k.wavelet.analysis.AnWTFilterIntLift5x3
-
An implementation of the analyze_lpf() method that works on int data,
for the forward 5x3 wavelet transform using the lifting scheme.
- AnalyzeReader - Class in loci.formats.in
-
AnalyzeReader is the file format reader for Analyze 7.5 files.
- AnalyzeReader() - Constructor for class loci.formats.in.AnalyzeReader
-
Constructs a new Analyze reader.
- anbytes - Variable in class jj2000.j2k.codestream.reader.BitstreamReaderAgent
-
Actual number of read bytes
- and(int) - Method in class loci.plugins.util.RecordedImageProcessor
-
- ANDOR_MAGIC_STRING - Static variable in class loci.formats.in.FluoviewReader
-
- ANDOR_SHIFT_SPEED - Static variable in class loci.formats.in.CellSensReader
-
- andTable - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFLZWDecompressor
-
- andTable - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFLZWUtil
-
- anGainExp - Variable in class jj2000.j2k.wavelet.Subband
-
The base 2 exponent of the analysis gain of the subband.
- ANGLE - Static variable in class loci.formats.in.ZeissLSMReader
-
- angle - Variable in class loci.formats.in.ZeissTIFFHandler.Scaling.Dimension
-
- angles - Variable in class loci.formats.in.ZeissCZIReader
-
- anim - Variable in class loci.formats.gui.ImageViewer
-
- anim - Variable in class loci.plugins.util.DataBrowser
-
- animate - Variable in class loci.plugins.util.DataBrowser
-
- ANIMATION_KEY - Static variable in class loci.formats.gui.ImageViewer
-
- ANN_BOOLEAN_VALUE - Static variable in class loci.formats.in.FakeReader
-
- ANN_COMMENT_VALUE - Static variable in class loci.formats.in.FakeReader
-
- ANN_DOUBLE_VALUE - Static variable in class loci.formats.in.FakeReader
-
- ANN_LONG_VALUE - Static variable in class loci.formats.in.FakeReader
-
- ANN_TAG_VALUE - Static variable in class loci.formats.in.FakeReader
-
- ANN_TERM_VALUE - Static variable in class loci.formats.in.FakeReader
-
- ANN_TIME_VALUE - Static variable in class loci.formats.in.FakeReader
-
- ANN_XML_VALUE_END - Static variable in class loci.formats.in.FakeReader
-
- ANN_XML_VALUE_START - Static variable in class loci.formats.in.FakeReader
-
- annBool - Variable in class loci.formats.in.FakeReader
-
- annComment - Variable in class loci.formats.in.FakeReader
-
- annDouble - Variable in class loci.formats.in.FakeReader
-
- annLong - Variable in class loci.formats.in.FakeReader
-
- annMap - Variable in class loci.formats.in.FakeReader
-
- ANNOTATION_NAMESPACE - Static variable in class loci.formats.in.FakeReader
-
- ANNOTATION_PREFIX - Static variable in class loci.formats.in.FakeReader
-
- annotationBoolCount - Variable in class loci.formats.in.FakeReader
-
- annotationCommentCount - Variable in class loci.formats.in.FakeReader
-
- annotationCount - Variable in class loci.formats.in.FakeReader
-
- annotationDoubleCount - Variable in class loci.formats.in.FakeReader
-
- annotationLongCount - Variable in class loci.formats.in.FakeReader
-
- annotationMapCount - Variable in class loci.formats.in.FakeReader
-
- annotationTagCount - Variable in class loci.formats.in.FakeReader
-
- annotationTermCount - Variable in class loci.formats.in.FakeReader
-
- annotationTimeCount - Variable in class loci.formats.in.FakeReader
-
- annotationXmlCount - Variable in class loci.formats.in.FakeReader
-
- annTag - Variable in class loci.formats.in.FakeReader
-
- annTerm - Variable in class loci.formats.in.FakeReader
-
- annTime - Variable in class loci.formats.in.FakeReader
-
- annXml - Variable in class loci.formats.in.FakeReader
-
- ANO_SUFFIX - Static variable in class loci.formats.in.PerkinElmerReader
-
- AnWTFilter - Class in jj2000.j2k.wavelet.analysis
-
This abstract class defines the methods of all analysis wavelet
filters.
- AnWTFilter() - Constructor for class jj2000.j2k.wavelet.analysis.AnWTFilter
-
- AnWTFilterFloat - Class in jj2000.j2k.wavelet.analysis
-
This extends the analysis wavelet filter general definitions of
AnWTFilter by adding methods that work for float data
specifically.
- AnWTFilterFloat() - Constructor for class jj2000.j2k.wavelet.analysis.AnWTFilterFloat
-
- AnWTFilterFloatLift9x7 - Class in jj2000.j2k.wavelet.analysis
-
This class inherits from the analysis wavelet filter definition
for int data.
- AnWTFilterFloatLift9x7() - Constructor for class jj2000.j2k.wavelet.analysis.AnWTFilterFloatLift9x7
-
- AnWTFilterInt - Class in jj2000.j2k.wavelet.analysis
-
This extends the analysis wavelet filter general definitions of
AnWTFilter by adding methods that work for int data
specifically.
- AnWTFilterInt() - Constructor for class jj2000.j2k.wavelet.analysis.AnWTFilterInt
-
- AnWTFilterIntLift5x3 - Class in jj2000.j2k.wavelet.analysis
-
This class inherits from the analysis wavelet filter definition for int
data.
- AnWTFilterIntLift5x3() - Constructor for class jj2000.j2k.wavelet.analysis.AnWTFilterIntLift5x3
-
- AnWTFilterSpec - Class in jj2000.j2k.wavelet.analysis
-
This class extends ModuleSpec class for analysis filters specification
holding purpose.
- AnWTFilterSpec(int, int, byte, QuantTypeSpec, J2KImageWriteParamJava, String) - Constructor for class jj2000.j2k.wavelet.analysis.AnWTFilterSpec
-
Constructs a new 'AnWTFilterSpec' for the specified number of
components and tiles.
- APERIO_IMAGE_DESCRIPTION_PREFIX - Static variable in class loci.formats.in.SVSReader
-
TIFF image description prefix for Aperio SVS files.
- APERTURE_VALUE - Static variable in class loci.formats.tiff.IFD
-
- ApertureValue() - Constructor for class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet.ApertureValue
-
- APLReader - Class in loci.formats.in
-
APLReader is the file format reader for Olympus APL files.
- APLReader() - Constructor for class loci.formats.in.APLReader
-
Constructs a new APL reader.
- APNGReader - Class in loci.formats.in
-
APNGReader is the file format reader for
Animated Portable Network Graphics (APNG) images.
- APNGReader() - Constructor for class loci.formats.in.APNGReader
-
Constructs a new APNGReader.
- APNGReader.PNGBlock - Class in loci.formats.in
-
- APNGReader.PNGInputStream - Class in loci.formats.in
-
InputStream implementation that stitches together IDAT blocks into
a seamless zlib stream.
- APNGWriter - Class in loci.formats.out
-
APNGWriter is the file format writer for PNG and APNG files.
- APNGWriter() - Constructor for class loci.formats.out.APNGWriter
-
- append(ClassList<T>) - Method in class loci.formats.ClassList
-
Appends a class list which must be assignable to the base class
- append(List<Class<? extends T>>) - Method in class loci.formats.ClassList
-
Appends a list of classes which must be assignable to the base class
- append(ILoggingEvent) - Method in class loci.plugins.util.IJStatusEchoer
-
- appendChild(Node) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFFieldNode
-
- appendedCompressionType - Variable in class com.sun.media.imageio.plugins.tiff.TIFFImageWriteParam
-
- appendServerMap(String, String) - Static method in class loci.formats.in.FlexReader
-
Add the path 'realName' to the mapping for the server named 'alias'.
- applicationData - Variable in class com.sun.media.imageioimpl.plugins.gif.GIFImageMetadata
-
- applicationIDs - Variable in class com.sun.media.imageioimpl.plugins.gif.GIFImageMetadata
-
- applyCalibration(ImagePlus) - Method in class loci.plugins.in.Calibrator
-
Applies spatial calibrations to an image stack.
- applyColors(List<ImagePlus>) - Method in class loci.plugins.in.Colorizer
-
- applyColors(List<ImagePlus>) - Method in class loci.plugins.in.ImagePlusReader
-
- applyDisplayRanges(ImagePlus, int) - Method in class loci.plugins.in.Colorizer
-
- applyMethodStack(List<RecordedImageProcessor.MethodEntry>) - Method in class loci.plugins.util.RecordedImageProcessor
-
- applyTable(int[]) - Method in class loci.plugins.util.RecordedImageProcessor
-
- approximation - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.ColorSpecificationBox
-
- arate - Variable in class jj2000.j2k.codestream.reader.BitstreamReaderAgent
-
Actual decoding rate in bpp
- ArbROIMaskGenerator - Class in jj2000.j2k.roi.encoder
-
This class generates the ROI bit-mask when, at least, one ROI is not
rectangular.
- ArbROIMaskGenerator(ROI[], int, Quantizer) - Constructor for class jj2000.j2k.roi.encoder.ArbROIMaskGenerator
-
The constructor of the arbitrary mask generator
- arbShape - Variable in class jj2000.j2k.roi.encoder.ROI
-
Where or not the ROI shape is arbitrary
- ARCHIVE - Static variable in class loci.formats.in.FlexReader
-
- AreaInfo() - Constructor for class loci.formats.in.CellVoyagerReader.AreaInfo
-
- areas - Variable in class loci.formats.in.CellVoyagerReader.WellInfo
-
- areIntArraysEqual(int[], int[]) - Static method in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
- areSampleSizesEqual(SampleModel) - Static method in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
Returns whether all samples have the same number of bits.
- ARFReader - Class in loci.formats.in
-
ARFReader is the file format reader for Axon Raw Format (ARF) files,
produced by INDEC BioSystems's
Imaging Workbench
software.
- ARFReader() - Constructor for class loci.formats.in.ARFReader
-
Constructs a new ARF reader.
- arg - Variable in class loci.plugins.LociExporter
-
Argument passed to setup method.
- arg - Variable in class loci.plugins.Slicer
-
Plugin options.
- args - Static variable in class loci.plugins.shortcut.ShortcutPanel
-
Details for installed plugins.
- args - Variable in class loci.plugins.util.RecordedImageProcessor.MethodEntry
-
- ARRAY - Static variable in class loci.formats.in.GatanReader
-
Data types.
- arrayToString(Array) - Method in class loci.formats.services.NetCDFServiceImpl
-
- ArrayUtil - Class in jj2000.j2k.util
-
This class contains a colleaction of utility static methods for arrays.
- ArrayUtil() - Constructor for class jj2000.j2k.util.ArrayUtil
-
- ARROW - Static variable in class loci.formats.in.FV1000Reader
-
- ARROW - Static variable in class loci.formats.in.LeicaHandler.ROI
-
- ARROW - Static variable in class loci.formats.in.LIFReader.ROI
-
- Artist() - Constructor for class com.sun.media.imageio.plugins.tiff.BaselineTIFFTagSet.Artist
-
- ARTIST - Static variable in class loci.formats.tiff.IFD
-
- AS - Static variable in class loci.formats.in.DicomReader
-
- ascii - Variable in class loci.formats.in.AmiraReader
-
- ASCII(int, int) - Constructor for class loci.formats.in.AmiraReader.ASCII
-
- ascii - Variable in class loci.formats.tools.AmiraParameters
-
- AsciiImage - Class in loci.formats.tools
-
A utility class for outputting a BufferedImage as ASCII text.
- AsciiImage(BufferedImage) - Constructor for class loci.formats.tools.AsciiImage
-
- asMap() - Method in class loci.formats.in.DeltavisionReader.DVExtHdrFields
-
- asRetrieve(MetadataStore) - Method in interface loci.formats.services.OMEXMLService
-
- asRetrieve(MetadataStore) - Method in class loci.formats.services.OMEXMLServiceImpl
-
- assertId(String, boolean, int) - Static method in class loci.formats.FormatTools
-
Asserts that the current file is either null, or not, according to the
given flag.
- assertStep(ImportStep) - Method in class loci.plugins.in.ImportProcess
-
- assignL2Norm(float) - Method in class jj2000.j2k.wavelet.analysis.SubbandAn
-
Assigns the given L2-norm to the first leaf that does not have
an L2-norm value yet (i.e.
- assignPlaneIndices() - Method in class loci.formats.in.ZeissCZIReader
-
- assignValues(double[]) - Method in class loci.formats.in.TextReader
-
Assigns values from the given row into the data array.
- associations - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.ChannelDefinitionBox
-
- associations - Variable in class jj2000.j2k.fileformat.reader.FileFormatReader
-
- asStore(MetadataRetrieve) - Method in interface loci.formats.services.OMEXMLService
-
- asStore(MetadataRetrieve) - Method in class loci.formats.services.OMEXMLServiceImpl
-
- ASTRONOMY_DOMAIN - Static variable in class loci.formats.FormatTools
-
Identifies the astronomy domain.
- AT - Static variable in class loci.formats.in.DicomReader
-
- aTile - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.RenderedImageSrc
-
The raster for a destination tile
- attachCompanionFiles() - Method in class loci.formats.in.DicomReader
-
DICOM datasets produced by:
http://www.ct-imaging.de/index.php/en/ct-systeme-e/mikro-ct-e.html
contain a bunch of extra metadata and log files.
- attachListeners(List<TextField>, List<Panel>) - Method in class loci.plugins.in.ColorDialog
-
- Attachment(String, long) - Constructor for class loci.formats.in.ZeissCZIReader.Attachment
-
- attachment - Variable in class loci.formats.in.ZeissCZIReader.Attachment
-
- attachment - Variable in class loci.formats.in.ZeissCZIReader.Metadata
-
- attachmentData - Variable in class loci.formats.in.ZeissCZIReader.Attachment
-
- AttachmentDirectory() - Constructor for class loci.formats.in.ZeissCZIReader.AttachmentDirectory
-
- attachmentDirectoryPosition - Variable in class loci.formats.in.ZeissCZIReader.FileHeader
-
- AttachmentEntry(RandomAccessInputStream) - Constructor for class loci.formats.in.ZeissCZIReader.AttachmentEntry
-
- attachmentSize - Variable in class loci.formats.in.ZeissCZIReader.SubBlock
-
- attenuation - Variable in class loci.formats.in.ZeissLSMReader.IlluminationChannel
-
- attr(Element, String) - Method in class loci.formats.in.PrairieMetadata
-
Gets the attribute value with the given name, or null if not defined.
- ATTR_NAME_STYLE_END - Static variable in class loci.formats.gui.XMLCellRenderer
-
- ATTR_NAME_STYLE_START - Static variable in class loci.formats.gui.XMLCellRenderer
-
- ATTR_VALUE_STYLE_END - Static variable in class loci.formats.gui.XMLCellRenderer
-
- ATTR_VALUE_STYLE_START - Static variable in class loci.formats.gui.XMLCellRenderer
-
- attributeList - Variable in class loci.formats.services.NetCDFServiceImpl
-
- attributeNames - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFElementInfo
-
- attrInfoMap - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFMetadataFormat
-
- authenticationCodes - Variable in class com.sun.media.imageioimpl.plugins.gif.GIFImageMetadata
-
- AUTOEXPOSURE - Static variable in class loci.formats.in.CellSensReader
-
- autoscale(BufferedImage) - Static method in class loci.formats.gui.AWTImageTools
-
Perform autoscaling on the given BufferedImage.
- autoscale(BufferedImage, int, int) - Static method in class loci.formats.gui.AWTImageTools
-
Perform autoscaling on the given BufferedImage;
map min to 0 and max to 255.
- autoscale(byte[], int, int, int, boolean) - Static method in class loci.formats.ImageTools
-
Perform autoscaling on the given byte array;
map min to 0 and max to 255.
- autoscaleBox - Variable in class loci.plugins.in.MainDialog
-
- autoThreshold() - Method in class loci.plugins.util.RecordedImageProcessor
-
- autoUpdate - Variable in class loci.formats.cache.Cache
-
Whether the cache should automatically update when a parameter changes.
- available() - Method in class loci.formats.in.APNGReader.PNGInputStream
-
- availMem - Variable in class loci.plugins.in.MemoryDialog
-
Remaining memory for the JVM.
- avbits - Variable in class jj2000.j2k.codestream.writer.BitOutputBuffer
-
The number of available bits in the current byte
- AVERAGE - Static variable in class loci.formats.in.APNGReader
-
- AVERAGING - Static variable in class loci.formats.in.CellSensReader
-
- AVI_MAGIC_STRING - Static variable in class loci.formats.in.AVIReader
-
- AVIReader - Class in loci.formats.in
-
AVIReader is the file format reader for AVI files.
- AVIReader() - Constructor for class loci.formats.in.AVIReader
-
Constructs a new AVI reader.
- AVIWriter - Class in loci.formats.out
-
AVIWriter is the file format writer for AVI files.
- AVIWriter() - Constructor for class loci.formats.out.AVIWriter
-
- AWTImageTools - Class in loci.formats.gui
-
A utility class with convenience methods for manipulating images
in
BufferedImage
form.
- AWTImageTools() - Constructor for class loci.formats.gui.AWTImageTools
-
- ax - Variable in class jj2000.j2k.codestream.reader.BitstreamReaderAgent
-
The horizontal coordinate of the image origin in the canvas system, on
the reference grid.
- axis - Variable in class loci.formats.gui.CacheIndicator
-
- AxisGuesser - Class in loci.formats
-
AxisGuesser guesses which blocks in a file pattern correspond to which
dimensional axes (Z, T, C or S), potentially recommending an adjustment in
dimension order within the files, depending on the confidence of each guess.
- AxisGuesser(FilePattern, String, int, int, int, boolean) - Constructor for class loci.formats.AxisGuesser
-
Guesses dimensional axis assignments corresponding to the given
file pattern, using the specified dimensional information from
within each file as a guide.
- axisTypes - Variable in class loci.formats.AxisGuesser
-
Guessed axis types.
- ay - Variable in class jj2000.j2k.codestream.reader.BitstreamReaderAgent
-
The vertical coordinate of the image origin in the canvas system, on
the reference grid.
- b - Variable in class jj2000.j2k.entropy.decoder.MQDecoder
-
The last byte read
- b - Variable in class jj2000.j2k.entropy.encoder.MQCoder
-
The last encoded byte of data
- b(String) - Method in class loci.formats.in.PrairieMetadata
-
Converts the given string to a boolean
.
- BACK_MASK - Static variable in class loci.formats.codec.BitBuffer
-
Deprecated.
Various bitmasks for the 0000xxxx side of a byte.
- BACKGROUND_TABLE - Static variable in class loci.formats.in.LiFlimReader
-
- backgroundC - Variable in class loci.formats.in.LiFlimReader
-
- backgroundColor - Variable in class loci.formats.in.CellSensReader
-
- backgroundColorIndex - Variable in class com.sun.media.imageioimpl.plugins.gif.GIFStreamMetadata
-
- backgroundDatatype - Variable in class loci.formats.in.LiFlimReader
-
- backgroundF - Variable in class loci.formats.in.LiFlimReader
-
- backgroundP - Variable in class loci.formats.in.LiFlimReader
-
- backgroundT - Variable in class loci.formats.in.LiFlimReader
-
- backgroundX - Variable in class loci.formats.in.LiFlimReader
-
- backgroundY - Variable in class loci.formats.in.LiFlimReader
-
- backgroundZ - Variable in class loci.formats.in.LiFlimReader
-
- backupHandler - Variable in class loci.formats.in.NativeND2Reader
-
- BACKWARD_ORDER - Static variable in interface loci.formats.cache.ICacheStrategy
-
- backwardsStage - Variable in class loci.formats.in.DeltavisionReader
-
Whether or not the stage moved backwards.
- BadFaxLines() - Constructor for class com.sun.media.imageio.plugins.tiff.FaxTIFFTagSet.BadFaxLines
-
- bais - Variable in class jj2000.j2k.codestream.reader.PktHeaderBitReader
-
The byte array that is the source of data if the PktHeaderBitReader
is instantiated with a buffer instead of a RandomAccessIO
- bak_lblock - Variable in class jj2000.j2k.codestream.writer.PktEncoder
-
The saved base number of bits for sending code-block length
information.
- bak_prevtIdxs - Variable in class jj2000.j2k.codestream.writer.PktEncoder
-
The saved last encoded truncation point for each code-block.
- baknBytes - Variable in class jj2000.j2k.codestream.reader.FileBitstreamReaderAgent
-
Backup of the number of bytes allocated to each tile.
- bandOffsets - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KReadState
-
- bandStride - Variable in class com.sun.media.imageioimpl.plugins.raw.RawImageWriter
-
The strides for pixel, band, and scanline.
- bandUsed - Variable in class loci.formats.in.NDPISReader
-
- bankData - Variable in class loci.formats.gui.SignedByteBuffer
-
- bankData - Variable in class loci.formats.gui.UnsignedIntBuffer
-
- baos - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFBaseJPEGCompressor
-
- baos - Variable in class jj2000.j2k.codestream.writer.HeaderEncoder
-
The ByteArrayOutputStream to store header data.
- barcode - Variable in class loci.formats.in.LeicaSCNReader.ImageCollection
-
- barr - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.RenderedImageSrc
-
Buffer for the 3 components of each pixel(in the current block)
- barrierFilter - Variable in class loci.formats.in.FV1000Reader.ChannelData
-
- base - Variable in class loci.formats.ClassList
-
Base class to which all classes are assignable.
- base64Alphabet - Static variable in class loci.formats.codec.Base64Codec
-
- Base64Codec - Class in loci.formats.codec
-
Implements encoding (compress) and decoding (decompress) methods
for Base64.
- Base64Codec() - Constructor for class loci.formats.codec.Base64Codec
-
- BASE_OFFSET - Static variable in class loci.formats.in.BioRadGelReader
-
- BaseCodec - Class in loci.formats.codec
-
BaseCodec contains default implementation and testing for classes
implementing the Codec interface, and acts as a base class for any
of the compression classes.
- BaseCodec() - Constructor for class loci.formats.codec.BaseCodec
-
- basedir - Variable in class loci.formats.in.ZeissTIFFReader.TIFFInfo
-
- BASELINE_CLAMP - Static variable in class loci.formats.in.FluoviewReader
-
- BASELINE_OFFSET - Static variable in class loci.formats.in.FluoviewReader
-
- BASELINE_OFFSET_CLAMP - Static variable in class loci.formats.in.CellSensReader
-
- BaselineTIFFTagSet - Class in com.sun.media.imageio.plugins.tiff
-
A class representing the set of tags found in the baseline TIFF
specification as well as some common additional tags.
- BaselineTIFFTagSet() - Constructor for class com.sun.media.imageio.plugins.tiff.BaselineTIFFTagSet
-
- BaselineTIFFTagSet.Artist - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.BitsPerSample - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.CellLength - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.CellWidth - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.ColorMap - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.Compression - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.Copyright - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.DateTime - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.DocumentName - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.DotRange - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.ExtraSamples - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.FillOrder - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.FreeByteCounts - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.FreeOffsets - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.GrayResponseCurve - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.GrayResponseUnit - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.HalftoneHints - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.HostComputer - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.ICCProfile - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.ImageDescription - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.ImageLength - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.ImageWidth - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.InkNames - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.InkSet - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.JPEGACTables - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.JPEGDCTables - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.JPEGInterchangeFormat - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.JPEGInterchangeFormatLength - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.JPEGLosslessPredictors - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.JPEGPointTransforms - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.JPEGProc - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.JPEGQTables - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.JPEGRestartInterval - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.JPEGTables - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.Make - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.MaxSampleValue - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.MinSampleValue - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.Model - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.NewSubfileType - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.NumberOfInks - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.Orientation - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.PageName - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.PageNumber - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.PhotometricInterpretation - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.PlanarConfiguration - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.Predictor - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.PrimaryChromaticities - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.ReferenceBlackWhite - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.ResolutionUnit - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.RowsPerStrip - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.SampleFormat - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.SamplesPerPixel - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.SMaxSampleValue - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.SMinSampleValue - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.Software - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.StripByteCounts - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.StripOffsets - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.SubfileType - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.T4Options - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.T6Options - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.TargetPrinter - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.Threshholding - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.TileByteCounts - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.TileLength - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.TileOffsets - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.TileWidth - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.TransferFunction - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.TransferRange - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.WhitePoint - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.XPosition - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.XResolution - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.YCbCrCoefficients - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.YCbCrPositioning - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.YCbCrSubSampling - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.YPosition - Class in com.sun.media.imageio.plugins.tiff
-
- BaselineTIFFTagSet.YResolution - Class in com.sun.media.imageio.plugins.tiff
-
- BaseMetadata - Interface in loci.formats.meta
-
- baseName - Variable in class loci.formats.in.OIRReader
-
- basename - Variable in class loci.formats.in.ZeissTIFFHandler.Plane
-
- baseReader - Variable in class loci.plugins.in.ImportProcess
-
- baseTiff - Variable in class loci.formats.in.MicromanagerReader.Position
-
- BaseTiffReader - Class in loci.formats.in
-
BaseTiffReader is the superclass for file format readers compatible with
or derived from the TIFF 6.0 file format.
- BaseTiffReader(String, String) - Constructor for class loci.formats.in.BaseTiffReader
-
Constructs a new BaseTiffReader.
- BaseTiffReader(String, String[]) - Constructor for class loci.formats.in.BaseTiffReader
-
Constructs a new BaseTiffReader.
- BaseZeissReader - Class in loci.formats.in
-
BaseZeissReader contains common functionality required by
readers for Zeiss AxioVision formats.
- BaseZeissReader(String, String) - Constructor for class loci.formats.in.BaseZeissReader
-
Constructs a new ZeissZVI reader.
- BaseZeissReader(String, String[]) - Constructor for class loci.formats.in.BaseZeissReader
-
Constructs a new ZeissZVI reader.
- BaseZeissReader.Charset - Enum in loci.formats.in
-
- BaseZeissReader.Context - Enum in loci.formats.in
-
- BaseZeissReader.DrawStyle - Enum in loci.formats.in
-
Line drawing styles.
- BaseZeissReader.FeatureType - Enum in loci.formats.in
-
Feature types.
- BaseZeissReader.FillStyle - Enum in loci.formats.in
-
Fill styles.
- BaseZeissReader.Layer - Class in loci.formats.in
-
Layer class representing an AxioVision layer; used to contain a
collection of shapes.
- BaseZeissReader.LineEndPositions - Enum in loci.formats.in
-
- BaseZeissReader.LineEndStyle - Enum in loci.formats.in
-
Line ending styles.
- BaseZeissReader.PointStyle - Enum in loci.formats.in
-
Point styles.
- BaseZeissReader.Shape - Class in loci.formats.in
-
Shape class representing the metadata within an AxioVision Shape ROI
- BaseZeissReader.Tag - Class in loci.formats.in
-
Content of a single tag from a Tags block.
- BaseZeissReader.TextAlignment - Enum in loci.formats.in
-
- bayerPattern - Variable in class loci.formats.in.MRWReader
-
- bbox - Variable in class loci.formats.in.CellH5Reader
-
- BBOX - Static variable in class loci.formats.in.CellH5Reader.CellH5Constants
-
- bBox - Variable in class loci.formats.services.WlzServiceImpl
-
- bbuf - Variable in class jj2000.j2k.codestream.reader.PktHeaderBitReader
-
The current bit buffer
- bbuf - Variable in class jj2000.j2k.entropy.decoder.ByteToBitInput
-
The bit buffer
- bbuf - Variable in class jj2000.j2k.entropy.encoder.BitToByteOutput
-
The bit buffer
- BDReader - Class in loci.formats.in
-
BDReader is the file format reader for BD Pathway datasets.
- BDReader() - Constructor for class loci.formats.in.BDReader
-
Constructs a new ScanR reader.
- BEAM_SPLITTER_FILTER - Static variable in class loci.formats.in.ZeissLSMReader
-
- BEAM_SPLITTER_FILTER_SET - Static variable in class loci.formats.in.ZeissLSMReader
-
- BeamSplitter() - Constructor for class loci.formats.in.ZeissLSMReader.BeamSplitter
-
- BEBufferedRandomAccessFile - Class in jj2000.j2k.io
-
This class defines a Buffered Random Access File, where all I/O is
considered to be big-endian, and extends the
BufferedRandomAccessFile class.
- BEBufferedRandomAccessFile(File, String, int) - Constructor for class jj2000.j2k.io.BEBufferedRandomAccessFile
-
Constructor.
- BEBufferedRandomAccessFile(File, String) - Constructor for class jj2000.j2k.io.BEBufferedRandomAccessFile
-
Constructor.
- BEBufferedRandomAccessFile(String, String, int) - Constructor for class jj2000.j2k.io.BEBufferedRandomAccessFile
-
Constructor.
- BEBufferedRandomAccessFile(String, String) - Constructor for class jj2000.j2k.io.BEBufferedRandomAccessFile
-
Constructor.
- begin - Variable in class loci.formats.FilePatternBlock
-
- beginDecoding() - Method in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
This routine is called prior to a sequence of calls to the
decode
method, in order to allow any necessary
tables or other structures to be initialized based on metadata
values.
- beginDecoding() - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxDecompressor
-
Invokes the superclass method and then sets instance variables on
the basis of the metadata set on this decompressor.
- beginDecoding() - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFJPEGDecompressor
-
- beginDecoding() - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFNullDecompressor
-
- beginDecoding() - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFYCbCrDecompressor
-
- BETA - Static variable in class jj2000.j2k.wavelet.analysis.AnWTFilterFloatLift9x7
-
The value of the second lifting step coefficient
- BETA - Static variable in class jj2000.j2k.wavelet.synthesis.SynWTFilterFloatLift9x7
-
The value of the second lifting step coefficient
- BEZIER_WITH_ARROW - Static variable in class loci.formats.in.ZeissLSMReader
-
- BF - Class in loci.plugins
-
Miscellaneous plugins utility methods.
- BF() - Constructor for class loci.plugins.BF
-
- bf_ - Variable in class com.sun.media.imageioimpl.common.LZWCompressor
-
output destination for bit codes
- BFVirtualStack - Class in loci.plugins.util
-
Subclass of VirtualStack that uses Bio-Formats to read planes on demand.
- BFVirtualStack(String, IFormatReader, boolean, boolean, boolean) - Constructor for class loci.plugins.util.BFVirtualStack
-
- BGR - Static variable in class loci.formats.in.CellSensReader
-
- BGR_24 - Static variable in class loci.formats.in.ZeissCZIReader
-
- BGR_48 - Static variable in class loci.formats.in.ZeissCZIReader
-
- BGR_FLOAT - Static variable in class loci.formats.in.ZeissCZIReader
-
- BGRA_8 - Static variable in class loci.formats.in.ZeissCZIReader
-
- bgrToRgb(byte[], boolean, int, int) - Static method in class loci.formats.ImageTools
-
- BH_HEADER_CHKSUM - Static variable in class loci.formats.in.SDTInfo
-
- BH_HEADER_NOT_VALID - Static variable in class loci.formats.in.SDTInfo
-
- BH_HEADER_VALID - Static variable in class loci.formats.in.SDTInfo
-
- bi - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPImageReader
-
The destination image.
- bi - Variable in class com.sun.media.imageioimpl.plugins.pcx.PCXImageReader
-
The destination image.
- BI_BITFIELDS - Static variable in interface com.sun.media.imageioimpl.plugins.bmp.BMPConstants
-
- BI_JPEG - Static variable in interface com.sun.media.imageioimpl.plugins.bmp.BMPConstants
-
- BI_PNG - Static variable in interface com.sun.media.imageioimpl.plugins.bmp.BMPConstants
-
- BI_RGB - Static variable in interface com.sun.media.imageioimpl.plugins.bmp.BMPConstants
-
- BI_RLE4 - Static variable in interface com.sun.media.imageioimpl.plugins.bmp.BMPConstants
-
- BI_RLE8 - Static variable in interface com.sun.media.imageioimpl.plugins.bmp.BMPConstants
-
- BIFormatReader - Class in loci.formats.in
-
BIFormatReader is the superclass for file format readers
that use java.awt.image.BufferedImage as the native data type.
- BIFormatReader(String, String) - Constructor for class loci.formats.in.BIFormatReader
-
Constructs a new BIFormatReader.
- BIFormatReader(String, String[]) - Constructor for class loci.formats.in.BIFormatReader
-
Constructs a new BIFormatReader.
- BIG - Static variable in class loci.formats.tiff.TiffConstants
-
- BIG_ENDIAN - Static variable in interface jj2000.j2k.io.EndianType
-
Identifier for big-endian byte ordering (i.e.
- BIG_TIFF - Static variable in class loci.formats.tiff.IFD
-
- BIG_TIFF_BYTES_PER_ENTRY - Static variable in class loci.formats.tiff.TiffConstants
-
The number of bytes in each IFD entry of a BigTIFF file.
- BIG_TIFF_CUTOFF - Static variable in class loci.formats.out.TiffWriter
-
Number of bytes at which to automatically switch to BigTIFF
This is approximately 3.9 GB instead of 4 GB,
to allow space for the IFDs.
- BIG_TIFF_MAGIC_NUMBER - Static variable in class loci.formats.tiff.TiffConstants
-
- BIG_TIFF_SUFFIXES - Static variable in class loci.formats.out.TiffWriter
-
- bigEndianString - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFStreamMetadata
-
- bigEndianTransferSyntax - Variable in class loci.formats.in.DicomReader
-
- bigTiff - Variable in class loci.formats.tiff.TiffParser
-
Whether or not the TIFF file contains BigTIFF data.
- bigTiff - Variable in class loci.formats.tiff.TiffSaver
-
Whether or not to write BigTIFF data.
- bin - Variable in class jj2000.j2k.codestream.reader.PktDecoder
-
The wrapper to read bits for the packet heads
- bin - Variable in class jj2000.j2k.entropy.decoder.StdEntropyDecoder
-
The bit based input for arithmetic coding bypass (i.e.
- bin - Variable in class loci.formats.in.InCellReader
-
- binary - Variable in class loci.formats.in.EPSReader
-
Flag indicating binary data.
- BINARY_SETUP - Static variable in class loci.formats.in.SDTInfo
-
- BinaryDataInput - Interface in jj2000.j2k.io
-
This interface defines the input of binary data from streams and/or files.
- BinaryDataOutput - Interface in jj2000.j2k.io
-
This interface defines the output of binary data to streams and/or files.
- binData - Variable in class loci.formats.in.OMEXMLReader
-
- BinData(int, int) - Constructor for class loci.formats.in.OMEXMLReader.BinData
-
- binDataOffsets - Variable in class loci.formats.in.OMEXMLReader
-
- binning - Variable in class loci.formats.in.BDReader
-
- binning - Variable in class loci.formats.in.BioRadSCNReader
-
- binning - Variable in class loci.formats.in.MetamorphHandler
-
- binning - Variable in class loci.formats.in.MetamorphReader
-
- binning - Variable in class loci.formats.in.MicromanagerReader.Position
-
- binning - Variable in class loci.formats.in.ND2Handler
-
- binning - Variable in class loci.formats.in.PCIReader
-
- binning - Variable in class loci.formats.in.SimplePCITiffReader
-
- binning - Variable in class loci.formats.in.ZeissLSMReader
-
- binning - Variable in class loci.formats.in.ZeissLSMReader.Recording
-
- binnings - Variable in class loci.formats.in.FlexReader
-
- binnings - Variable in class loci.formats.in.ZeissCZIReader
-
- binningX - Variable in class loci.formats.in.CellSensReader.Pyramid
-
- binningY - Variable in class loci.formats.in.CellSensReader.Pyramid
-
- binSize - Variable in class loci.formats.in.SPCReader
-
- binX - Variable in class loci.formats.in.FlexReader
-
Camera binning values.
- binX - Variable in class loci.formats.in.IvisionReader
-
- binY - Variable in class loci.formats.in.FlexReader
-
Camera binning values.
- binY - Variable in class loci.formats.in.IvisionReader
-
- BioFormatsExtensionPrinter - Class in loci.formats.tools
-
This class is used to generate a text file containing all of the
image file extensions supported by Bio-Formats.
- BioFormatsExtensionPrinter() - Constructor for class loci.formats.tools.BioFormatsExtensionPrinter
-
- BioRadGelReader - Class in loci.formats.in
-
BioRadGelReader is the file format reader for Bio-Rad gel files.
- BioRadGelReader() - Constructor for class loci.formats.in.BioRadGelReader
-
Constructs a new Bio-Rad gel reader.
- BioRadHandler() - Constructor for class loci.formats.in.BioRadReader.BioRadHandler
-
- BioRadReader - Class in loci.formats.in
-
BioRadReader is the file format reader for Bio-Rad PIC files.
- BioRadReader() - Constructor for class loci.formats.in.BioRadReader
-
Constructs a new BioRadReader.
- BioRadReader.BioRadHandler - Class in loci.formats.in
-
SAX handler for parsing XML.
- BioRadReader.Note - Class in loci.formats.in
-
- BioRadSCNReader - Class in loci.formats.in
-
BioRadSCNReader is the reader for Bio-Rad .scn files
- BioRadSCNReader() - Constructor for class loci.formats.in.BioRadSCNReader
-
Constructs a new Bio-Rad .scn reader.
- BioRadSCNReader.SCNHandler - Class in loci.formats.in
-
- biReader - Variable in class loci.formats.gui.DataConverter
-
- bit - Variable in class loci.formats.codec.BitWriter
-
Deprecated.
Bit index into current byte of the buffer.
- BIT - Static variable in class loci.formats.FormatTools
-
Identifies the BIT data type used to store pixel values.
- BIT_DEPTH - Static variable in class loci.formats.in.CellSensReader
-
- BitBuffer - Class in loci.formats.codec
-
- BitBuffer(byte[]) - Constructor for class loci.formats.codec.BitBuffer
-
Deprecated.
Default constructor.
- bitDepth - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.HeaderBox
-
- bitDepth - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.PaletteBox
-
- bitDepth - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriter
-
- bitDepth - Variable in class jj2000.j2k.fileformat.reader.FileFormatReader
-
- bitDepth - Variable in class loci.formats.in.CellSensReader.Pyramid
-
- bitDepths - Variable in class jj2000.j2k.fileformat.reader.FileFormatReader
-
Various bit depth
- bitDepthScale - Variable in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
- BitFile - Class in com.sun.media.imageioimpl.common
-
Came from GIFEncoder initially.
- BitFile(ImageOutputStream, boolean) - Constructor for class com.sun.media.imageioimpl.common.BitFile
-
- bitmapFileSize - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPImageReader
-
- bitmapOffset - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPImageReader
-
- BITMASK_COMPRESSION - Static variable in class loci.formats.in.FlowSightReader
-
- bitMasks - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPImageWriter
-
- BitOutputBuffer - Class in jj2000.j2k.codestream.writer
-
This class implements a buffer for writing bits, with the required bit
stuffing policy for the packet headers.
- BitOutputBuffer() - Constructor for class jj2000.j2k.codestream.writer.BitOutputBuffer
-
Creates a new BitOutputBuffer width a buffer of length
'SZ_INIT'.
- bitPointer - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxDecompressor
-
- bitPos - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPImageWriter
-
- bits - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxCompressor
-
Output bit buffer.
- bits - Variable in class loci.formats.in.TargaReader
-
- BITS_ALLOCATED - Static variable in class loci.formats.in.DicomReader
-
- BITS_PER_COMPONENT_BOX - Static variable in interface jj2000.j2k.fileformat.FileFormatBoxes
-
- BITS_PER_SAMPLE - Static variable in class loci.formats.tiff.IFD
-
- bitsLeft_ - Variable in class com.sun.media.imageioimpl.common.BitFile
-
- BitsPerComponentBox - Class in com.sun.media.imageioimpl.plugins.jpeg2000
-
This class is defined to represent a Bits Per Component Box of JPEG
JP2 file format.
- BitsPerComponentBox(byte[]) - Constructor for class com.sun.media.imageioimpl.plugins.jpeg2000.BitsPerComponentBox
-
Counstructs a BitsPerComponentBox
from the provided
byte array containing the bit depths of each color component.
- BitsPerComponentBox(Node) - Constructor for class com.sun.media.imageioimpl.plugins.jpeg2000.BitsPerComponentBox
-
Constructs a BitsPerComponentBox
based on the provide
org.w3c.dom.Node
.
- bitsPerPixel - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPImageReader
-
- bitsPerPixel - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
-
- bitsPerPixel - Variable in class com.sun.media.imageioimpl.plugins.pcx.PCXMetadata
-
- bitsPerPixel - Variable in class loci.formats.CoreMetadata
-
Number of valid bits per pixel.
- bitsPerPixel - Variable in class loci.formats.in.DicomReader
-
Bits per pixel.
- bitsPerPixel - Variable in class loci.formats.in.NativeQTReader
-
Pixel depth.
- BitsPerSample() - Constructor for class com.sun.media.imageio.plugins.tiff.BaselineTIFFTagSet.BitsPerSample
-
- bitsPerSample - Variable in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
The value of the BitsPerSample
tag.
- bitsPerSample - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageReader
-
- bitsPerSample - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriter
-
- bitsPerSample - Variable in class loci.formats.codec.CodecOptions
-
Number of bits per channel.
- bitsPerSampleCache - Variable in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
- bitsPerScanline - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxDecompressor
-
- bitsToGet - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFLZWDecompressor
-
- bitsToGet - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFLZWUtil
-
- BitstreamReaderAgent - Class in jj2000.j2k.codestream.reader
-
This is the generic interface for bit stream reader agents.
- BitstreamReaderAgent(HeaderDecoder, DecoderSpecs) - Constructor for class jj2000.j2k.codestream.reader.BitstreamReaderAgent
-
Initializes members of this class.
- BitToByteOutput - Class in jj2000.j2k.entropy.encoder
-
This class provides an adapter to perform bit based output on byte based
output objects that inherit from a 'ByteOutputBuffer' class.
- BitToByteOutput(ByteOutputBuffer) - Constructor for class jj2000.j2k.entropy.encoder.BitToByteOutput
-
Instantiates a new 'BitToByteOutput' object that uses 'out' as the
underlying byte based output.
- BitWriter - Class in loci.formats.codec
-
- BitWriter() - Constructor for class loci.formats.codec.BitWriter
-
Deprecated.
Constructs a new bit writer.
- BitWriter(int) - Constructor for class loci.formats.codec.BitWriter
-
Deprecated.
Constructs a new bit writer with the given initial buffer size.
- biWriter - Variable in class loci.formats.gui.DataConverter
-
- bizarreMultichannelAcquisition - Variable in class loci.formats.in.MetamorphReader
-
- BLACK - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxCompressor
-
The CCITT numerical definition of black.
- black - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxDecompressor
-
- blank(byte[]) - Method in class loci.formats.in.PrairieReader
-
Blanks out and returns the given buffer.
- blankImage(int, int, int, int) - Static method in class loci.formats.gui.AWTImageTools
-
Creates a blank image with the given dimensions and transfer type.
- blankThumbBytes - Variable in class loci.formats.FileStitcher.ExternalSeries
-
- BlkImgDataSrc - Interface in jj2000.j2k.image
-
This interface defines the methods to transfer image data in blocks,
without following any particular order (random access).
- block - Variable in class loci.formats.FilePatternBlock
-
String representation of this block.
- block0 - Variable in class jj2000.j2k.image.forwcomptransf.ForwCompTransf
-
Block used to request component with index 0
- block0 - Variable in class jj2000.j2k.image.invcomptransf.InvCompTransf
-
Block used to request component 0
- block1 - Variable in class jj2000.j2k.image.forwcomptransf.ForwCompTransf
-
Block used to request component with index 1
- block1 - Variable in class jj2000.j2k.image.invcomptransf.InvCompTransf
-
Block used to request component 1
- block2 - Variable in class jj2000.j2k.image.forwcomptransf.ForwCompTransf
-
Block used to request component with index 2
- block2 - Variable in class jj2000.j2k.image.invcomptransf.InvCompTransf
-
Block used to request component 2
- BLOCK_END - Static variable in class loci.formats.FilePatternBlock
-
Identifies the end of a block.
- BLOCK_START - Static variable in class loci.formats.FilePatternBlock
-
Identifies the start of a block.
- blockAligned - Variable in class jj2000.j2k.roi.encoder.ROIScaler
-
Flag indicating if block aligned ROIs are used
- blockData - Variable in class loci.formats.in.ZeissLSMReader.SubBlock
-
- blockLength - Variable in class loci.formats.in.APNGReader.PNGInputStream
-
- blockLength - Variable in class loci.formats.in.PQBinReader
-
No of timeBins pre-loaded as a block
- blockLength - Variable in class loci.formats.in.SDTInfo
-
reserved2 now contains block (set) length.
- blockLength - Variable in class loci.formats.in.SDTReader
-
No of timeBins pre-loaded as a block
- blockNo - Variable in class loci.formats.in.SDTInfo
-
Number of the block in the file.
- blockPointer - Variable in class loci.formats.in.APNGReader.PNGInputStream
-
- blocks - Variable in class loci.formats.FilePattern
-
List of pattern blocks for this file pattern.
- blocks - Variable in class loci.formats.in.APNGReader
-
- blocks_ - Variable in class com.sun.media.imageioimpl.common.BitFile
-
note this also indicates gif format BITFile.
- blockSize - Variable in class loci.formats.in.GIFReader
-
Block size.
- blockSize - Variable in class loci.formats.in.VolocityReader.Stack
-
- blocksPerPlane - Variable in class loci.formats.in.OIRReader
-
- blockType - Variable in class loci.formats.in.APNGReader.PNGInputStream
-
- blockType - Variable in class loci.formats.in.SDTInfo
-
See blockType defines below.
- blue - Variable in class com.sun.media.imageioimpl.common.PaletteBuilder.ColorNode
-
- blue - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
-
- BLUE_GAIN - Static variable in class loci.formats.in.CellSensReader
-
- BLUE_MIN - Static variable in class loci.plugins.in.Colorizer
-
- BLUE_OFFSET - Static variable in class loci.formats.in.CellSensReader
-
- BLUE_TO_GREEN_MIN - Static variable in class loci.plugins.in.Colorizer
-
- blueGain - Variable in class loci.formats.in.CellSensReader.Pyramid
-
- blueMask - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPImageReader
-
- blueMask - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
-
- blueOffset - Variable in class loci.formats.in.CellSensReader.Pyramid
-
- blueOffset - Static variable in class org.libjpegturbo.turbojpeg.TJ
-
- blueShort - Variable in class loci.formats.gui.Index16ColorModel
-
Lookup tables.
- blueX - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
-
- blueY - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
-
- blueZ - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
-
- BMP - Static variable in class loci.formats.in.CellSensReader
-
- BMP_MAGIC_STRING - Static variable in class loci.formats.in.BMPReader
-
- bmpBitsPerPixel - Variable in class loci.formats.in.AVIReader
-
- bmpColorsUsed - Variable in class loci.formats.in.AVIReader
-
- bmpCompression - Variable in class loci.formats.in.AVIReader
-
- BMPConstants - Interface in com.sun.media.imageioimpl.plugins.bmp
-
- BMPImageReader - Class in com.sun.media.imageioimpl.plugins.bmp
-
This class is the Java Image IO plugin reader for BMP images.
- BMPImageReader(ImageReaderSpi) - Constructor for class com.sun.media.imageioimpl.plugins.bmp.BMPImageReader
-
Constructs BMPImageReader
from the provided
ImageReaderSpi
.
- BMPImageReader.EmbeddedProgressAdapter - Class in com.sun.media.imageioimpl.plugins.bmp
-
- BMPImageReaderSpi - Class in com.sun.media.imageioimpl.plugins.bmp
-
- BMPImageReaderSpi() - Constructor for class com.sun.media.imageioimpl.plugins.bmp.BMPImageReaderSpi
-
- BMPImageWriteParam - Class in com.sun.media.imageio.plugins.bmp
-
A subclass of ImageWriteParam
for encoding images in
the BMP format.
- BMPImageWriteParam(Locale) - Constructor for class com.sun.media.imageio.plugins.bmp.BMPImageWriteParam
-
Constructs a BMPImageWriteParam
set to use a given
Locale
and with default values for all parameters.
- BMPImageWriteParam() - Constructor for class com.sun.media.imageio.plugins.bmp.BMPImageWriteParam
-
Constructs an BMPImageWriteParam
object with default
values for all parameters and a null
Locale
.
- BMPImageWriter - Class in com.sun.media.imageioimpl.plugins.bmp
-
The Java Image IO plugin writer for encoding a binary RenderedImage into
a BMP format.
- BMPImageWriter(ImageWriterSpi) - Constructor for class com.sun.media.imageioimpl.plugins.bmp.BMPImageWriter
-
Constructs BMPImageWriter
based on the provided
ImageWriterSpi
.
- BMPImageWriter.IIOWriteProgressAdapter - Class in com.sun.media.imageioimpl.plugins.bmp
-
- BMPImageWriterSpi - Class in com.sun.media.imageioimpl.plugins.bmp
-
- BMPImageWriterSpi() - Constructor for class com.sun.media.imageioimpl.plugins.bmp.BMPImageWriterSpi
-
- BMPMetadata - Class in com.sun.media.imageioimpl.plugins.bmp
-
- BMPMetadata() - Constructor for class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
-
- BMPMetadata(IIOMetadata) - Constructor for class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
-
- BMPMetadataFormat - Class in com.sun.media.imageioimpl.plugins.bmp
-
- BMPMetadataFormat() - Constructor for class com.sun.media.imageioimpl.plugins.bmp.BMPMetadataFormat
-
- BMPMetadataFormatResources - Class in com.sun.media.imageioimpl.plugins.bmp
-
- BMPMetadataFormatResources() - Constructor for class com.sun.media.imageioimpl.plugins.bmp.BMPMetadataFormatResources
-
- BMPReader - Class in loci.formats.in
-
BMPReader is the file format reader for Microsoft Bitmap (BMP) files.
- BMPReader() - Constructor for class loci.formats.in.BMPReader
-
Constructs a new BMP reader.
- bmpScanLineSize - Variable in class loci.formats.in.AVIReader
-
- bmpVersion - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
-
- bmpWidth - Variable in class loci.formats.in.AVIReader
-
- bms - Variable in class jj2000.j2k.entropy.encoder.StdEntropyCoder
-
By-pass mode specifications
- BogusColorSpace - Class in com.sun.media.imageioimpl.common
-
A dummy ColorSpace
to enable ColorModel
for image data which do not have an innate color representation.
- BogusColorSpace(int) - Constructor for class com.sun.media.imageioimpl.common.BogusColorSpace
-
Constructs a bogus ColorSpace
.
- bold - Variable in class loci.formats.in.BaseZeissReader.Shape
-
- BOOLEAN - Static variable in class loci.formats.in.CellSensReader
-
- BooleanIM3Record(String, int, long, int) - Constructor for class loci.formats.in.IM3Reader.BooleanIM3Record
-
- BooleanOption - Class in loci.plugins.prefs
-
A boolean option for one of the plugins.
- BooleanOption(HashMap<String, String>) - Constructor for class loci.plugins.prefs.BooleanOption
-
Constructs a boolean option with the parameters from the given map.
- BooleanOption(String, boolean, String, String, boolean) - Constructor for class loci.plugins.prefs.BooleanOption
-
Constructs a boolean option with the given parameters.
- BORDER - Static variable in class loci.plugins.shortcut.ShortcutPanel
-
Number of pixels for window border.
- bordL - Variable in class loci.formats.in.SDTInfo
-
- bordU - Variable in class loci.formats.in.SDTInfo
-
- boundValues - Variable in class loci.formats.services.MDBServiceImpl
-
- boutT - Variable in class jj2000.j2k.entropy.encoder.StdEntropyCoder
-
The raw bit output used, for each thread
- Box - Class in com.sun.media.imageioimpl.plugins.jpeg2000
-
This class is defined to create the box of JP2 file format.
- Box(int, int, byte[]) - Constructor for class com.sun.media.imageioimpl.plugins.jpeg2000.Box
-
Constructs a Box
instance using the provided
the box type and the box content in byte array format.
- Box(int, int, long, byte[]) - Constructor for class com.sun.media.imageioimpl.plugins.jpeg2000.Box
-
Constructs a Box
instance using the provided
the box type, the box extra length, and the box content in byte
array format.
- Box(ImageInputStream, int) - Constructor for class com.sun.media.imageioimpl.plugins.jpeg2000.Box
-
Constructs a Box
instance from the provided
ImageInputStream
at the specified position.
- Box(Node) - Constructor for class com.sun.media.imageioimpl.plugins.jpeg2000.Box
-
Constructs a Box from an "unknown" Node.
- BOX_SIZE - Static variable in class loci.formats.in.FakeReader
-
- boxClasses - Static variable in class com.sun.media.imageioimpl.plugins.jpeg2000.Box
-
A Hashtable contains the class names for each type of the boxes.
- boxes - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KMetadata
-
The boxes of JP2 file used as meta data, i.
- boxes - Variable in class loci.plugins.in.SeriesDialog
-
- bpc - Variable in class jj2000.j2k.fileformat.writer.FileFormatWriter
-
Bits per component
- BPC_LENGTH - Static variable in class jj2000.j2k.fileformat.writer.FileFormatWriter
-
base length of Bits Per Component box
- bpcVaries - Variable in class jj2000.j2k.fileformat.writer.FileFormatWriter
-
Flag indicating whether number of bits per component varies
- bpixels - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPImageWriter
-
- bpos - Variable in class jj2000.j2k.codestream.reader.PktHeaderBitReader
-
The position of the next bit to read in the bit buffer (0 means
empty, 8 full)
- bpos - Variable in class jj2000.j2k.entropy.decoder.ByteToBitInput
-
The position of the next bit to get from the byte buffer.
- bpos - Variable in class jj2000.j2k.entropy.encoder.BitToByteOutput
-
The position of the next bit to put in the bit buffer.
- bpp - Variable in class loci.formats.in.BaseZeissReader
-
Number of bytes per pixel.
- bpp - Variable in class loci.formats.in.BMPReader
-
Number of bits per pixel.
- bpp - Variable in class loci.formats.in.MIASReader
-
- bpp - Variable in class loci.formats.in.SPCReader
-
- bpp - Variable in class loci.formats.out.CellH5Writer
-
- branch - Variable in class loci.formats.codec.HuffmanCodec.Decoder
-
- brand - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.FileTypeBox
-
The element values.
- breader - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KReadState
-
- BRIGHT_FIELD - Static variable in class loci.formats.in.LegacyND2Reader
-
- BRIGHTNESS - Static variable in class loci.formats.in.CellSensReader
-
- BRIGHTNESS_VALUE - Static variable in class loci.formats.tiff.IFD
-
- BrightnessValue() - Constructor for class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet.BrightnessValue
-
- brokenNotes - Variable in class loci.formats.in.BioRadReader
-
- BrowserOptionsWindow - Class in loci.plugins.util
-
Extension of JFrame that allows the user to adjust caching settings.
- BrowserOptionsWindow(String, Cache, String[]) - Constructor for class loci.plugins.util.BrowserOptionsWindow
-
- BrukerReader - Class in loci.formats.in
-
BrukerReader is the file format reader for Bruker MRI files.
- BrukerReader() - Constructor for class loci.formats.in.BrukerReader
-
Constructs a new Bruker reader.
- bsWriter - Variable in class jj2000.j2k.entropy.encoder.PostCompRateAllocator
-
The bit-stream writer
- buf - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.RenderedImageSrc
-
The line buffer.
- buf - Variable in class jj2000.j2k.codestream.writer.BitOutputBuffer
-
The buffer where we store the data
- buf - Variable in class jj2000.j2k.entropy.decoder.ByteInputBuffer
-
The byte array containing the data
- buf - Variable in class jj2000.j2k.entropy.encoder.ByteOutputBuffer
-
The buffer where the data is stored
- buf - Variable in class jj2000.j2k.image.input.ImgReaderPGM
-
The line buffer.
- buf - Variable in class jj2000.j2k.util.ISRandomAccessIO
-
- buf - Variable in class loci.formats.codec.BitWriter
-
Deprecated.
Buffer storing all bits written thus far.
- BUF_DEF_LEN - Static variable in class jj2000.j2k.entropy.encoder.ByteOutputBuffer
-
The default initial buffer size
- BUF_INC - Static variable in class jj2000.j2k.entropy.encoder.ByteOutputBuffer
-
The buffer increase size
- buffer - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxDecompressor
-
- buffer_ - Variable in class com.sun.media.imageioimpl.common.BitFile
-
- BUFFER_SIZE - Static variable in class loci.formats.in.NativeND2Reader
-
- BUFFER_SIZE - Static variable in class loci.formats.in.ZeissCZIReader
-
- BufferedImageReader - Class in loci.formats.gui
-
A reader wrapper for reading image planes as BufferedImage objects.
- BufferedImageReader() - Constructor for class loci.formats.gui.BufferedImageReader
-
Constructs a BufferedImageReader around a new image reader.
- BufferedImageReader(IFormatReader) - Constructor for class loci.formats.gui.BufferedImageReader
-
Constructs a BufferedImageReader with the given reader.
- BufferedImageSource - Class in loci.formats.gui
-
Retrieves BufferedImages from a data source using Bio-Formats.
- BufferedImageSource(IFormatReader) - Constructor for class loci.formats.gui.BufferedImageSource
-
- BufferedImageWriter - Class in loci.formats.gui
-
A writer wrapper for writing image planes from BufferedImage objects.
- BufferedImageWriter() - Constructor for class loci.formats.gui.BufferedImageWriter
-
Constructs a BufferedImageWriter around a new image writer.
- BufferedImageWriter(IFormatWriter) - Constructor for class loci.formats.gui.BufferedImageWriter
-
Constructs a BufferedImageWriter with the given writer.
- BufferedRandomAccessFile - Class in jj2000.j2k.io
-
This class defines a Buffered Random Access File.
- BufferedRandomAccessFile(File, String, int) - Constructor for class jj2000.j2k.io.BufferedRandomAccessFile
-
Constructor.
- BufferedRandomAccessFile(File, String) - Constructor for class jj2000.j2k.io.BufferedRandomAccessFile
-
Constructor.
- BufferedRandomAccessFile(String, String, int) - Constructor for class jj2000.j2k.io.BufferedRandomAccessFile
-
Constructor.
- BufferedRandomAccessFile(String, String) - Constructor for class jj2000.j2k.io.BufferedRandomAccessFile
-
Constructor.
- bufLength - Variable in class loci.formats.in.SPCReader
-
- bufSize(int, int, int) - Static method in class org.libjpegturbo.turbojpeg.TJ
-
Returns the maximum size of the buffer (in bytes) required to hold a JPEG
image with the given width and height, and level of chrominance
subsampling.
- bufSizeYUV(int, int, int) - Static method in class org.libjpegturbo.turbojpeg.TJ
-
Returns the size of the buffer (in bytes) required to hold a YUV planar
image with the given width, height, and level of chrominance subsampling.
- bugaddr - Static variable in class jj2000.j2k.JJ2KInfo
-
The bug reporting e-mail address
- buildAndWriteLayers() - Method in class jj2000.j2k.entropy.encoder.EBCOTRateAllocator
-
This method builds all the bit stream layers and then writes them to
the output bit stream.
- BUILDER - Static variable in class loci.formats.meta.OriginalMetadataAnnotation
-
- buildExtensions() - Method in class loci.plugins.macro.MacroFunctions
-
Builds the list of extensions, using reflection,
from public methods of this class.
- buildFileChooser(IFormatHandler) - Static method in class loci.formats.gui.GUITools
-
Constructs a file chooser for the given file format handler.
- buildFileChooser(IFormatHandler, boolean) - Static method in class loci.formats.gui.GUITools
-
Constructs a file chooser for the given file format handler.
- buildFileChooser(FileFilter[]) - Static method in class loci.formats.gui.GUITools
-
Builds a file chooser with the given file filters,
as well as an "All supported file types" combo filter.
- buildFileChooser(FileFilter[], boolean) - Static method in class loci.formats.gui.GUITools
-
Builds a file chooser with the given file filters, as well as an "All
supported file types" combo filter, if one is not already specified.
- buildFileFilters(IFormatHandler) - Static method in class loci.formats.gui.GUITools
-
Constructs a list of file filters for the given file format handler.
- buildFiles(String, int, List<String>) - Method in class loci.formats.FilePattern
-
- buildPalette() - Method in class com.sun.media.imageioimpl.common.PaletteBuilder
-
- buildTIFFList(int) - Method in class loci.formats.in.MicromanagerReader
-
- buildTIFFList(int, String) - Method in class loci.formats.in.MicromanagerReader
-
Populate the list of TIFF files using the given file name as a pattern.
- buildTime - Variable in class jj2000.j2k.entropy.encoder.EBCOTRateAllocator
-
The wall time for the building of layers.
- buildTypes() - Static method in class loci.formats.in.DicomReader
-
Assemble the data dictionary.
- BurleighReader - Class in loci.formats.in
-
BurleighReader is the file format reader for Burleigh .img files.
- BurleighReader() - Constructor for class loci.formats.in.BurleighReader
-
Constructs a new Burleigh reader.
- bypass - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageWriteParamJava
-
Uses the lazy coding mode with the entropy coder.
- BYTE - Static variable in class loci.formats.in.GatanReader
-
- BYTE_COUNT_OFFSET - Static variable in class loci.formats.out.QTWriter
-
Seek to this offset to update the total number of pixel bytes.
- byteArraySet(byte[], byte) - Static method in class jj2000.j2k.util.ArrayUtil
-
Reinitializes a byte array to the given value in an optimized way.
- ByteArraySource - Class in loci.formats.cache
-
Retrieves byte arrays from a data source
(e.g., a file) using Bio-Formats.
- ByteArraySource(IFormatReader) - Constructor for class loci.formats.cache.ByteArraySource
-
Constructs a byte array source from the given Bio-Formats reader.
- ByteArraySource(String) - Constructor for class loci.formats.cache.ByteArraySource
-
Constructs a byte array source that draws from the given file.
- bytebuf - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KReadState
-
- byteBuffer - Variable in class com.sun.media.imageio.stream.FileChannelImageOutputStream
-
A ByteBuffer
used for writing to the channel.
- byteBuffer - Variable in class jj2000.j2k.io.BufferedRandomAccessFile
-
Buffer of bytes containing the part of the file that is currently being
accessed
- byteBuffer - Variable in class loci.formats.codec.BitBuffer
-
Deprecated.
- byteBufferChanged - Variable in class jj2000.j2k.io.BufferedRandomAccessFile
-
Boolean keeping track of whether the byte buffer has been changed since
it was read.
- byteCount - Variable in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
The number of bytes of data from the source
ImageInputStream
to be decompressed.
- byteIn() - Method in class jj2000.j2k.entropy.decoder.MQDecoder
-
This function gets one byte of compressed bits from the in-stream.
- ByteInputBuffer - Class in jj2000.j2k.entropy.decoder
-
This class provides a byte input facility from byte buffers.
- ByteInputBuffer(byte[]) - Constructor for class jj2000.j2k.entropy.decoder.ByteInputBuffer
-
Creates a new byte array input stream that reads data from the
specified byte array.
- ByteInputBuffer(byte[], int, int) - Constructor for class jj2000.j2k.entropy.decoder.ByteInputBuffer
-
Creates a new byte array input stream that reads data from the
specified byte array.
- byteOrder - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriter
-
- byteOrder - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFStreamMetadata
-
- byteOrder - Variable in class org.libjpegturbo.turbojpeg.TJCompressor
-
- byteOrder - Variable in class org.libjpegturbo.turbojpeg.TJDecompressor
-
- byteOrdering - Variable in class jj2000.j2k.io.BufferedRandomAccessFile
-
- byteOut() - Method in class jj2000.j2k.entropy.encoder.MQCoder
-
This function puts one byte of compressed bits in the out out stream.
- ByteOutputBuffer - Class in jj2000.j2k.entropy.encoder
-
This class provides a buffering output stream similar to
ByteArrayOutputStream, with some additional methods.
- ByteOutputBuffer() - Constructor for class jj2000.j2k.entropy.encoder.ByteOutputBuffer
-
Creates a new byte array output stream.
- ByteOutputBuffer(int) - Constructor for class jj2000.j2k.entropy.encoder.ByteOutputBuffer
-
Creates a new byte array output stream, with a buffer capacity
of the specified size, in bytes.
- bytePointer - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxDecompressor
-
- bytes - Variable in class loci.formats.in.OBFReader.Frame
-
- bytes - Variable in class loci.formats.tiff.TiffSaver
-
Output bytes.
- BYTES_PER_ENTRY - Static variable in class loci.formats.tiff.TiffConstants
-
The number of bytes in each IFD entry.
- bytesFromReader(IFormatReader) - Method in class loci.formats.Memoizer.RandomAccessDeser
-
- bytesPerAxis - Variable in class loci.formats.in.LeicaHandler
-
- bytesPerElement - Variable in enum loci.formats.tiff.IFDType
-
Number of bytes per element of this type.
- bytesPerLine - Variable in class com.sun.media.imageioimpl.plugins.pcx.PCXImageReader
-
- bytesPerLine - Variable in class com.sun.media.imageioimpl.plugins.pcx.PCXImageWriter
-
- bytesPerLine - Variable in class loci.formats.in.PCXReader
-
Number of bytes per scan line - may be different than image width.
- bytesPerPixel - Variable in class loci.formats.in.AmiraReader.ASCII
-
- bytesPerPixel - Variable in class loci.formats.in.OpenlabRawReader
-
Number of bytes per pixel.
- bytesPerPixel - Variable in class loci.formats.out.AVIWriter
-
- bytesPerPlane - Variable in class loci.formats.in.AVIReader
-
- byteTable - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxCompressor
-
- ByteToBitInput - Class in jj2000.j2k.entropy.decoder
-
This class provides an adapter to perform bit based input on byte based
output obejcts that inherit from a 'ByteInputBuffer' class.
- ByteToBitInput(ByteInputBuffer) - Constructor for class jj2000.j2k.entropy.decoder.ByteToBitInput
-
Instantiates a new 'ByteToBitInput' object that uses 'in' as the
underlying byte based input.
- byteValue() - Method in class loci.formats.tiff.TiffRational
-
Returns the value of the specified number as a byte.
- ByteVector - Class in loci.formats.codec
-
A growable array of bytes.
- ByteVector() - Constructor for class loci.formats.codec.ByteVector
-
- ByteVector(int) - Constructor for class loci.formats.codec.ByteVector
-
- ByteVector(byte[]) - Constructor for class loci.formats.codec.ByteVector
-
- c - Variable in class jj2000.j2k.entropy.decoder.MQDecoder
-
The current bit code
- c - Variable in class jj2000.j2k.entropy.encoder.MQCoder
-
The current bit code
- c - Variable in class jj2000.j2k.entropy.encoder.StdEntropyCoder.Compressor
-
The component on which to compress
- C - Static variable in class loci.formats.in.CellSensReader
-
- c - Variable in class loci.formats.in.LeicaSCNReader.Dimension
-
- c - Variable in class loci.formats.in.MicromanagerReader.Index
-
- c - Variable in class loci.formats.in.OperettaReader.Plane
-
- c - Variable in class loci.formats.tools.AmiraParameters
-
- C01_MAGIC_BYTES - Static variable in class loci.formats.in.CellomicsReader
-
- C_AXIS - Static variable in class loci.formats.AxisGuesser
-
Axis type for channels.
- C_KEY - Static variable in class loci.formats.in.LiFlimReader
-
- C_PREFIXES - Static variable in class loci.formats.AxisGuesser
-
Prefixes indicating channel dimension.
- C_STRING - Static variable in class loci.formats.in.SDTInfo
-
- Cache - Class in loci.formats.cache
-
Cache provides a means of managing subsets of large collections of image
planes in memory.
- Cache(ICacheStrategy, ICacheSource, boolean) - Constructor for class loci.formats.cache.Cache
-
Constructs an object cache with the given cache strategy and source.
- cache - Variable in class loci.formats.cache.Cache
-
Master array containing cached objects.
- cache - Variable in class loci.formats.cache.CacheUpdater
-
- cache - Variable in class loci.formats.gui.CacheComponent
-
The cache that this component controls.
- cache - Variable in class loci.formats.gui.CacheIndicator
-
- cache - Variable in class loci.plugins.util.BFVirtualStack
-
- CacheComponent - Class in loci.formats.gui
-
GUI component for managing a cache.
- CacheComponent(Cache, String[]) - Constructor for class loci.formats.gui.CacheComponent
-
Creates a cache GUI component.
- CacheComponent(Cache, String[], String) - Constructor for class loci.formats.gui.CacheComponent
-
Creates a cache GUI component with the ability to change between the
various source types (mainly for debugging purposes).
- CacheConsole - Class in loci.formats.tools
-
CacheConsole provides an interactive interpreter for
testing the Bio-Formats caching implementation.
- CacheConsole() - Constructor for class loci.formats.tools.CacheConsole
-
- cachedDecoders - Variable in class loci.formats.codec.HuffmanCodec
-
- cachedTileBuffer - Variable in class loci.formats.in.MIASReader
-
Cached tile buffer to avoid re-allocations when reading tiles.
- cachedTileBuffer - Variable in class loci.formats.tiff.TiffParser
-
Cached tile buffer to avoid re-allocations when reading tiles.
- CacheEvent - Class in loci.formats.cache
-
A event indicating a cache update.
- CacheEvent(Object, int) - Constructor for class loci.formats.cache.CacheEvent
-
Constructs a cache event.
- CacheEvent(Object, int, int) - Constructor for class loci.formats.cache.CacheEvent
-
Constructs a cache event.
- CacheException - Exception in loci.formats.cache
-
CacheException is the exception thrown when something
goes wrong performing a cache operation.
- CacheException() - Constructor for exception loci.formats.cache.CacheException
-
- CacheException(String) - Constructor for exception loci.formats.cache.CacheException
-
- CacheException(String, Throwable) - Constructor for exception loci.formats.cache.CacheException
-
- CacheException(Throwable) - Constructor for exception loci.formats.cache.CacheException
-
- CacheIndicator - Class in loci.formats.gui
-
Indicator GUI component showing which planes are currently in the cache
for a given dimensional axis at a particular dimensional position.
- CacheIndicator(Cache, int) - Constructor for class loci.formats.gui.CacheIndicator
-
Creates a new cache indicator for the given cache.
- CacheIndicator(Cache, int, Component, int, int) - Constructor for class loci.formats.gui.CacheIndicator
-
Creates a new cache indicator.
- CacheListener - Interface in loci.formats.cache
-
A listener for cache updates.
- CacheReporter - Interface in loci.formats.cache
-
Interface for components capable of reporting cache updates.
- CacheSource - Class in loci.formats.cache
-
Superclass of cache sources that retrieve image planes
from a data source (e.g., a file) using Bio-Formats.
- CacheSource(IFormatReader) - Constructor for class loci.formats.cache.CacheSource
-
Constructs a cache source from the given Bio-Formats reader.
- CacheSource(String) - Constructor for class loci.formats.cache.CacheSource
-
Constructs a cache source that draws from the given file.
- CacheStrategy - Class in loci.formats.cache
-
Superclass of cache strategies.
- CacheStrategy(int[]) - Constructor for class loci.formats.cache.CacheStrategy
-
Constructs a cache strategy.
- cacheUpdated(CacheEvent) - Method in interface loci.formats.cache.CacheListener
-
Called when cache is updated.
- cacheUpdated(CacheEvent) - Method in class loci.formats.gui.CacheComponent
-
Updates GUI to match latest cache state.
- cacheUpdated(CacheEvent) - Method in class loci.formats.gui.CacheIndicator
-
- CacheUpdater - Class in loci.formats.cache
-
Thread responsible for updating the cache
(loading and dropping planes) in the background.
- CacheUpdater(Cache) - Constructor for class loci.formats.cache.CacheUpdater
-
- calcBasisWaveForms(float[][]) - Method in class jj2000.j2k.wavelet.analysis.SubbandAn
-
Calculates the basis waveform of the first leaf for which the
L2-norm has not been calculated yet.
- calcL2Norms() - Method in class jj2000.j2k.wavelet.analysis.SubbandAn
-
Calculates the L2-norm of the sythesis waveforms of every leaf
in the tree.
- calcMaxMagBits(J2KImageWriteParamJava) - Method in class jj2000.j2k.roi.encoder.ROIScaler
-
Calculates the maximum amount of magnitude bits for each
tile-component, and stores it in the 'maxMagBits' array.
- calcMixedBitDepths(int[], int, int[]) - Static method in class jj2000.j2k.image.forwcomptransf.ForwCompTransf
-
Calculates the bitdepths of the transformed components, given the
bitdepth of the un-transformed components and the component
tranformation type.
- calcMixedBitDepths(int[], int, int[]) - Static method in class jj2000.j2k.image.invcomptransf.InvCompTransf
-
Calculates the bitdepths of the transformed components, given the
bitdepth of the un-transformed components and the component
tranformation type.
- calcPhotons - Variable in class loci.formats.in.SDTInfo
-
No of photons.
- calcSbParams(SubbandAn, int) - Method in class jj2000.j2k.quantization.quantizer.Quantizer
-
Calculates the parameters of the SubbandAn objects that depend on the
Quantizer.
- calcSbParams(SubbandAn, int) - Method in class jj2000.j2k.quantization.quantizer.StdQuantizer
-
Calculates the parameters of the SubbandAn objects that depend on the
Quantizer.
- calcSkipMSBP(CBlkWTData, int) - Static method in class jj2000.j2k.entropy.encoder.StdEntropyCoder
-
Calculates the number of magnitude bit-planes that are to be skipped,
because they are non-significant.
- calculateDimensions() - Method in class loci.formats.in.ZeissCZIReader
-
- calculateDimensions(int, boolean) - Method in class loci.formats.in.ZeissCZIReader
-
- CALIBRATION - Static variable in class loci.formats.in.OpenlabReader
-
- calibrationTable - Variable in class loci.plugins.util.BFVirtualStack
-
- calibrationUnit - Variable in class loci.formats.in.TiffReader
-
- Calibrator - Class in loci.plugins.in
-
Logic for calibrating images.
- Calibrator(ImportProcess) - Constructor for class loci.plugins.in.Calibrator
-
- callLegacyReader() - Method in class loci.formats.DelegateReader
-
- CAMERA_GAIN - Static variable in class loci.formats.in.CellSensReader
-
- CAMERA_GAMMA - Static variable in class loci.formats.in.CellSensReader
-
- CAMERA_OFFSET - Static variable in class loci.formats.in.CellSensReader
-
- CAMERA_SERIAL_SETTING - Static variable in class loci.formats.in.FluoviewReader
-
- cameraIDs - Variable in class loci.formats.in.FlexReader
-
- cameraMode - Variable in class loci.formats.in.MicromanagerReader.Position
-
- cameraModel - Variable in class loci.formats.in.ND2Handler
-
- cameraName - Variable in class loci.formats.in.SimplePCITiffReader
-
- cameraName - Variable in class loci.formats.in.SISReader
-
- cameraRef - Variable in class loci.formats.in.MicromanagerReader.Position
-
- cameraRefs - Variable in class loci.formats.in.FlexReader
-
- cameraType - Variable in class loci.formats.in.SimplePCITiffReader
-
- CAN_GROUP - Static variable in class loci.formats.FormatTools
-
- CAN_GROUP - Static variable in interface loci.formats.IFormatReader
-
- canAdjustDimensions - Variable in class loci.formats.in.ND2Handler
-
- cancel - Variable in class loci.plugins.in.ImportProcess
-
Whether the process has been canceled.
- cancel() - Method in class loci.plugins.in.ImportProcess
-
Cancels the import process.
- canceled - Variable in class loci.plugins.LociImporter
-
Flag indicating whether last operation was canceled.
- canceled - Variable in class loci.plugins.Slicer
-
Flag indicating whether last operation was canceled.
- canceled - Variable in class loci.plugins.Updater
-
Flag indicating whether last operation was canceled.
- canChangePattern() - Method in class loci.formats.FileStitcher
-
- canCloseReader - Variable in class loci.formats.gui.ImageViewer
-
- canCreatePalette(ImageTypeSpecifier) - Static method in class com.sun.media.imageioimpl.common.PaletteBuilder
-
Returns true
if PaletteBuilder is able to create
palette for given image type.
- canCreatePalette(RenderedImage) - Static method in class com.sun.media.imageioimpl.common.PaletteBuilder
-
Returns true
if PaletteBuilder is able to create
palette for given rendered image.
- canDecodeInput(Object) - Method in class com.sun.media.imageioimpl.plugins.bmp.BMPImageReaderSpi
-
- canDecodeInput(Object) - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageReaderSpi
-
- canDecodeInput(Object) - Method in class com.sun.media.imageioimpl.plugins.pcx.PCXImageReaderSpi
-
- canDecodeInput(Object) - Method in class com.sun.media.imageioimpl.plugins.pnm.PNMImageReaderSpi
-
- canDecodeInput(Object) - Method in class com.sun.media.imageioimpl.plugins.raw.RawImageReaderSpi
-
- canDecodeInput(Object) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageReaderSpi
-
- canDecodeInput(Object) - Method in class com.sun.media.imageioimpl.plugins.wbmp.WBMPImageReaderSpi
-
- canDoQT() - Method in class loci.formats.gui.LegacyQTTools
-
Whether QuickTime is available to this JVM.
- canDoStacks() - Method in class loci.formats.FormatWriter
-
- canDoStacks() - Method in interface loci.formats.IFormatWriter
-
Reports whether the writer can save multiple images to a single file.
- canDoStacks() - Method in class loci.formats.ImageWriter
-
- canDoStacks() - Method in class loci.formats.out.APNGWriter
-
- canDoStacks() - Method in class loci.formats.out.AVIWriter
-
- canDoStacks() - Method in class loci.formats.out.CellH5Writer
-
- canDoStacks() - Method in class loci.formats.out.ICSWriter
-
- canDoStacks() - Method in class loci.formats.out.JavaWriter
-
- canDoStacks() - Method in class loci.formats.out.JPEG2000Writer
-
Overridden to indicate that stacks are not supported.
- canDoStacks() - Method in class loci.formats.out.LegacyQTWriter
-
- canDoStacks() - Method in class loci.formats.out.OMEXMLWriter
-
- canDoStacks() - Method in class loci.formats.out.QTWriter
-
- canDoStacks() - Method in class loci.formats.out.TiffWriter
-
- canDoStacks() - Method in class loci.formats.out.V3DrawWriter
-
- canDoStacks() - Method in class loci.formats.out.WlzWriter
-
- canDoStacks() - Method in class loci.formats.WriterWrapper
-
- canDoUpgradeCheck() - Method in class loci.formats.UpgradeChecker
-
Return whether or not we are ever allowed to perform an upgrade check.
- canEncodeImage(ImageWriter, ImageTypeSpecifier) - Static method in class com.sun.media.imageioimpl.common.ImageUtil
-
Checks that the provided ImageWriter
can encode
the provided ImageTypeSpecifier
or not.
- canEncodeImage(ImageWriter, ColorModel, SampleModel) - Static method in class com.sun.media.imageioimpl.common.ImageUtil
-
Checks that the provided ImageWriter
can encode
the provided ColorModel
and SampleModel
.
- canEncodeImage(int, ColorModel, SampleModel) - Method in class com.sun.media.imageioimpl.plugins.bmp.BMPImageWriter
-
- canEncodeImage(int, ImageTypeSpecifier) - Method in class com.sun.media.imageioimpl.plugins.bmp.BMPImageWriter
-
- canEncodeImage(ImageTypeSpecifier) - Method in class com.sun.media.imageioimpl.plugins.bmp.BMPImageWriterSpi
-
- canEncodeImage(ImageTypeSpecifier) - Method in class com.sun.media.imageioimpl.plugins.gif.GIFImageWriterSpi
-
- canEncodeImage(ImageTypeSpecifier) - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageWriterSpi
-
- canEncodeImage(ImageTypeSpecifier) - Method in class com.sun.media.imageioimpl.plugins.pcx.PCXImageWriterSpi
-
- canEncodeImage(ImageTypeSpecifier) - Method in class com.sun.media.imageioimpl.plugins.pnm.PNMImageWriterSpi
-
- canEncodeImage(ImageTypeSpecifier) - Method in class com.sun.media.imageioimpl.plugins.raw.RawImageWriterSpi
-
- canEncodeImage(ImageTypeSpecifier) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriterSpi
-
- canEncodeImage(ImageTypeSpecifier) - Method in class com.sun.media.imageioimpl.plugins.wbmp.WBMPImageWriterSpi
-
- canImport(JComponent, DataFlavor[]) - Method in class loci.plugins.shortcut.ShortcutTransferHandler
-
- canInsertEmpty(int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriter
-
- canInsertImage(int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriter
-
- canLookForND - Variable in class loci.formats.in.MetamorphReader
-
- canMerge() - Method in class loci.formats.ChannelMerger
-
Determines whether the channels in the file can be merged.
- canNodeAppear(String, ImageTypeSpecifier) - Method in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadataFormat
-
- canNodeAppear(String, ImageTypeSpecifier) - Method in class com.sun.media.imageioimpl.plugins.gif.GIFImageMetadataFormat
-
- canNodeAppear(String, ImageTypeSpecifier) - Method in class com.sun.media.imageioimpl.plugins.gif.GIFStreamMetadataFormat
-
- canNodeAppear(String, ImageTypeSpecifier) - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KMetadataFormat
-
- canNodeAppear(String, ImageTypeSpecifier) - Method in class com.sun.media.imageioimpl.plugins.pnm.PNMMetadataFormat
-
- canNodeAppear(String, ImageTypeSpecifier) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageMetadataFormat
-
- canNodeAppear(String, ImageTypeSpecifier) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFStreamMetadataFormat
-
- canNodeAppear(String, ImageTypeSpecifier) - Method in class com.sun.media.imageioimpl.plugins.wbmp.WBMPMetadataFormat
-
- CANNOT_GROUP - Static variable in class loci.formats.FormatTools
-
- CANNOT_GROUP - Static variable in interface loci.formats.IFormatReader
-
- CANON_TAG - Static variable in class loci.formats.in.DNGReader
-
- CanonRawReader - Class in loci.formats.in
-
CanonRawReader is the file format reader for Canon RAW files.
- CanonRawReader() - Constructor for class loci.formats.in.CanonRawReader
-
Constructs a new Canon RAW reader.
- canParse - Variable in class loci.formats.in.LeicaHandler
-
- canReadAttachments() - Method in class loci.formats.in.ZeissCZIReader
-
- canReadRaster() - Method in class com.sun.media.imageioimpl.plugins.bmp.BMPImageReader
-
- canReadRaster() - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageReader
-
- canReadRaster() - Method in class com.sun.media.imageioimpl.plugins.pnm.PNMImageReader
-
- canReadRaster() - Method in class com.sun.media.imageioimpl.plugins.raw.RawImageReader
-
- canReadRaster() - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageReader
-
- canReadRaster() - Method in class com.sun.media.imageioimpl.plugins.wbmp.WBMPImageReader
-
- canReplacePixels(int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriter
-
- canUseBankDataDirectly(WritableRaster, int, Class<? extends DataBuffer>) - Static method in class loci.formats.gui.AWTImageTools
-
Whether we can return the data buffer's bank data
without performing any copy or conversion operations.
- canUsePrevious - Variable in class loci.formats.in.NativeQTReader
-
Flag indicating whether we can safely use prevPixels.
- CANVAS_COLOR_1 - Static variable in class loci.formats.in.CellSensReader
-
- CANVAS_COLOR_2 - Static variable in class loci.formats.in.CellSensReader
-
- canWriteEmpty() - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriter
-
- canWriteRasters() - Method in class com.sun.media.imageioimpl.plugins.bmp.BMPImageWriter
-
- canWriteRasters() - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageWriter
-
- canWriteRasters() - Method in class com.sun.media.imageioimpl.plugins.pnm.PNMImageWriter
-
- canWriteRasters() - Method in class com.sun.media.imageioimpl.plugins.raw.RawImageWriter
-
- canWriteRasters() - Method in class com.sun.media.imageioimpl.plugins.wbmp.WBMPImageWriter
-
- canWriteSequence() - Method in class com.sun.media.imageioimpl.plugins.gif.GIFImageWriter
-
- canWriteSequence() - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriter
-
- CAPTURE_EDITOR_DATA - Static variable in class loci.formats.in.NikonReader
-
- CAPTURE_RESOLUTION_BOX - Static variable in interface jj2000.j2k.fileformat.FileFormatBoxes
-
- cast(Class<?>) - Method in class loci.formats.ClassList
-
Cast the given class to something that extends the base class.
- category - Variable in class loci.formats.in.BaseZeissReader.Tag
-
- category - Variable in class loci.formats.in.ZeissTIFFHandler.Scaling
-
- category - Variable in class loci.formats.in.ZeissTIFFHandler.Tag
-
- causalCXInfo - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageWriteParamJava
-
Uses vertically stripe causal context formation.
- cb0x - Variable in class jj2000.j2k.codestream.reader.HeaderDecoder
-
The horizontal code-block partition origin
- cb0x - Variable in class jj2000.j2k.wavelet.analysis.ForwWTFull
-
The horizontal coordinate of the code-block partition origin on the
reference grid
- cb0y - Variable in class jj2000.j2k.codestream.reader.HeaderDecoder
-
The vertical code-block partition origin
- cb0y - Variable in class jj2000.j2k.wavelet.analysis.ForwWTFull
-
The vertical coordinate of the code-block partition on the reference
grid
- cBegin - Variable in class loci.plugins.in.ImporterOptions
-
- cbI - Variable in class jj2000.j2k.codestream.reader.FileBitstreamReaderAgent
-
Array containing info.
- cbLength - Variable in class jj2000.j2k.codestream.reader.PktInfo
-
The length of the code-block in this packet (in bytes)
- cblk - Variable in class jj2000.j2k.codestream.PrecInfo
-
Code-blocks belonging to this precinct in each subbands of the
resolution level
- CBlkCoordInfo - Class in jj2000.j2k.codestream
-
This class is used to store the coordinates of code-blocks.
- CBlkCoordInfo() - Constructor for class jj2000.j2k.codestream.CBlkCoordInfo
-
Constructor.
- CBlkCoordInfo(int, int) - Constructor for class jj2000.j2k.codestream.CBlkCoordInfo
-
Constructor.
- CBlkInfo - Class in jj2000.j2k.codestream.reader
-
This class contains location of code-blocks' piece of codewords
(there is one piece per layer) and some other information.
- CBlkInfo(int, int, int, int, int) - Constructor for class jj2000.j2k.codestream.reader.CBlkInfo
-
Constructs a new instance with specified number of layers and
code-block coordinates.
- CBlkQuantDataSrcDec - Interface in jj2000.j2k.quantization.dequantizer
-
This interface defines a source of quantized wavelet coefficients and
methods to transfer them in a code-block by code-block basis, fro the
decoder side.
- CBlkQuantDataSrcEnc - Interface in jj2000.j2k.quantization.quantizer
-
This interface defines a source of quantized wavelet coefficients and
methods to transfer them in a code-block by code-block basis.
- CBlkRateDistStats - Class in jj2000.j2k.entropy.encoder
-
This class stores coded (compressed) code-blocks with their associated
rate-distortion statistics.
- CBlkRateDistStats() - Constructor for class jj2000.j2k.entropy.encoder.CBlkRateDistStats
-
Creates a new CBlkRateDistStats object without allocating any space for
'truncRates', 'truncSlopes', 'truncDists' and 'truncIdxs' or 'data'.
- CBlkRateDistStats(int, int, int, byte[], int[], double[], boolean[], int, boolean) - Constructor for class jj2000.j2k.entropy.encoder.CBlkRateDistStats
-
Creates a new CBlkRateDistStats object and initializes the valid
truncation points, their rates and their slopes, from the 'rates' and
'dist' arrays.
- cblks - Variable in class jj2000.j2k.codestream.reader.PktDecoder
-
List of code-blocks found in last read packet head (one list
per subband)
- cblks - Variable in class jj2000.j2k.decoder.DecoderSpecs
-
Code-blocks sizes specification
- cblks - Variable in class jj2000.j2k.entropy.encoder.EBCOTRateAllocator
-
5D Array containing all the coded code-blocks:
1st index: tile index
2nd index: component index
3rd index: resolution level index
4th index: subband index
5th index: code-block index
- cblks - Variable in class jj2000.j2k.entropy.encoder.StdEntropyCoder
-
The code-block size specifications
- cblks - Variable in class jj2000.j2k.wavelet.analysis.ForwWTFull
-
The code-block size specifications
- CBlkSizeSpec - Class in jj2000.j2k.entropy
-
This class extends ModuleSpec class for code-blocks sizes holding purposes.
- CBlkSizeSpec(int, int, byte) - Constructor for class jj2000.j2k.entropy.CBlkSizeSpec
-
Creates a new CBlkSizeSpec object for the specified number of tiles and
components.
- CBlkSizeSpec(int, int, byte, J2KImageWriteParamJava, String) - Constructor for class jj2000.j2k.entropy.CBlkSizeSpec
-
Creates a new CBlkSizeSpec object for the specified number of tiles and
components and the parameters instance.
- cblkToDecode - Variable in class jj2000.j2k.wavelet.synthesis.InvWTFull
-
The total number of code-blocks to decode
- CBlkWTData - Class in jj2000.j2k.wavelet.analysis
-
This is a generic abstract class to store a code-block of wavelet data, be
it quantized or not.
- CBlkWTData() - Constructor for class jj2000.j2k.wavelet.analysis.CBlkWTData
-
- CBlkWTDataFloat - Class in jj2000.j2k.wavelet.analysis
-
This is an implementation of the 'CBlkWTData' abstract class for 32 bit
floating point data (float).
- CBlkWTDataFloat() - Constructor for class jj2000.j2k.wavelet.analysis.CBlkWTDataFloat
-
- CBlkWTDataInt - Class in jj2000.j2k.wavelet.analysis
-
This is an implementation of the 'CBlkWTData' abstract class for signed 32
bit integer data.
- CBlkWTDataInt() - Constructor for class jj2000.j2k.wavelet.analysis.CBlkWTDataInt
-
- CBlkWTDataSrc - Interface in jj2000.j2k.wavelet.analysis
-
This abstract class defines methods to transfer wavelet data in a
code-block by code-block basis.
- CBlkWTDataSrcDec - Interface in jj2000.j2k.wavelet.synthesis
-
This abstract class defines methods to transfer wavelet data in a
code-block by code-block basis, for the decoder side.
- cbOff - Variable in class jj2000.j2k.codestream.reader.PktInfo
-
The code-block offset in the codestream (for this packet)
- ccb - Variable in class jj2000.j2k.entropy.encoder.StdEntropyCoder.Compressor
-
The object where to store the compressed code-block
- CCD_SENSITIVITY - Static variable in class loci.formats.in.CellSensReader
-
- cChoice - Variable in class loci.formats.gui.DataConverter
-
- cChoice - Variable in class loci.plugins.in.SwapDialog
-
- ccoc - Variable in class jj2000.j2k.codestream.HeaderInfo.COC
-
- ccom - Variable in class jj2000.j2k.codestream.HeaderInfo.COM
-
- cdata - Variable in class loci.formats.in.LeicaSCNReader.LeicaSCNHandler
-
- cdata - Variable in class loci.formats.in.ZeissTIFFHandler
-
- cdstreamStart - Variable in class jj2000.j2k.codestream.reader.FileBitstreamReaderAgent
-
- ce - Variable in class jj2000.j2k.entropy.Progression
-
Component index for the end of a progression.
- CELL_LENGTH - Static variable in class loci.formats.tiff.IFD
-
- CELL_WIDTH - Static variable in class loci.formats.tiff.IFD
-
- CellH5Constants() - Constructor for class loci.formats.in.CellH5Reader.CellH5Constants
-
- CellH5Coordinate(String, String, String) - Constructor for class loci.formats.in.CellH5Reader.CellH5Coordinate
-
- CellH5PathsToImageData - Variable in class loci.formats.in.CellH5Reader
-
- CellH5PositionList - Variable in class loci.formats.in.CellH5Reader
-
- CellH5Reader - Class in loci.formats.in
-
Reader for CellH5 (HDF) files.
- CellH5Reader() - Constructor for class loci.formats.in.CellH5Reader
-
Constructs a new CellH5 HDF reader.
- CellH5Reader.CellH5Constants - Class in loci.formats.in
-
- CellH5Reader.CellH5Coordinate - Class in loci.formats.in
-
- CellH5Writer - Class in loci.formats.out
-
CellH5Writer is the file format writer for CellH5 format.
- CellH5Writer() - Constructor for class loci.formats.out.CellH5Writer
-
- CellH5Writer(String, String[]) - Constructor for class loci.formats.out.CellH5Writer
-
- CellLength() - Constructor for class com.sun.media.imageio.plugins.tiff.BaselineTIFFTagSet.CellLength
-
- cellObjectNames - Variable in class loci.formats.in.CellH5Reader
-
- cellomicsPattern - Variable in class loci.formats.in.CellomicsReader
-
- CellomicsReader - Class in loci.formats.in
-
Reader for Cellomics C01 files.
- CellomicsReader() - Constructor for class loci.formats.in.CellomicsReader
-
Constructs a new Cellomics reader.
- CellSensReader - Class in loci.formats.in
-
CellSensReader is the file format reader for cellSens .vsi files.
- CellSensReader() - Constructor for class loci.formats.in.CellSensReader
-
Constructs a new cellSens reader.
- CellSensReader.Pyramid - Class in loci.formats.in
-
- CellSensReader.TileCoordinate - Class in loci.formats.in
-
- CellVoyagerReader - Class in loci.formats.in
-
- CellVoyagerReader() - Constructor for class loci.formats.in.CellVoyagerReader
-
- CellVoyagerReader.AreaInfo - Class in loci.formats.in
-
- CellVoyagerReader.ChannelInfo - Class in loci.formats.in
-
- CellVoyagerReader.FieldInfo - Class in loci.formats.in
-
- CellVoyagerReader.WellInfo - Class in loci.formats.in
-
- CellWidth() - Constructor for class com.sun.media.imageio.plugins.tiff.BaselineTIFFTagSet.CellWidth
-
- CellWorxReader - Class in loci.formats.in
-
CellWorxReader is the file format reader for CellWorx .pnl files.
- CellWorxReader() - Constructor for class loci.formats.in.CellWorxReader
-
Constructs a new CellWorx reader.
- cEnd - Variable in class loci.plugins.in.ImporterOptions
-
- CENTERED_ORDER - Static variable in interface loci.formats.cache.ICacheStrategy
-
- centerPixelValue - Variable in class loci.formats.in.DicomReader
-
- centerX - Variable in class loci.formats.in.CellVoyagerReader.WellInfo
-
- centerY - Variable in class loci.formats.in.CellVoyagerReader.WellInfo
-
- cepoc - Variable in class jj2000.j2k.codestream.HeaderInfo.POC
-
- certain - Variable in class loci.formats.AxisGuesser
-
Whether the guesser is confident that all axis types are correct.
- certain - Variable in class loci.formats.in.OMETiffReader.OMETiffPlane
-
Certainty flag, for dealing with unspecified NumPlanes.
- cf - Variable in class org.libjpegturbo.turbojpeg.TJTransform
-
Custom filter instance
- CFA_PATTERN - Static variable in class loci.formats.tiff.IFD
-
- CFAPattern() - Constructor for class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet.CFAPattern
-
- cfaPattern - Variable in class loci.formats.in.DNGReader
-
- cfaPattern - Variable in class loci.formats.in.NikonReader
-
- cfdHF - Variable in class loci.formats.in.SDTInfo
-
- cfdLH - Variable in class loci.formats.in.SDTInfo
-
- cfdLL - Variable in class loci.formats.in.SDTInfo
-
- cfdZC - Variable in class loci.formats.in.SDTInfo
-
- CFG_SUFFIX - Static variable in class loci.formats.in.PerkinElmerReader
-
- CFG_SUFFIX - Static variable in class loci.formats.in.PrairieReader
-
- cfgFile - Variable in class loci.formats.in.PrairieReader
-
The associated XML files.
- CHAINED_LAYERS - Static variable in class loci.formats.in.CellSensReader
-
- chan - Variable in class loci.formats.in.SDTInfo
-
Routing channel number.
- CHANDESC - Static variable in class loci.formats.in.LeicaReader
-
- changedUpdate(DocumentEvent) - Method in class loci.plugins.config.FlexWidgets
-
- changeOutputFile(String) - Method in class loci.formats.FormatWriter
-
- changeOutputFile(String) - Method in interface loci.formats.IFormatWriter
-
Switch the output file for the current dataset.
- changeOutputFile(String) - Method in class loci.formats.ImageWriter
-
- changeOutputFile(String) - Method in class loci.formats.WriterWrapper
-
- changingElemSize - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxDecompressor
-
- chanMax - Variable in class loci.formats.MinMaxCalculator
-
Max values for each channel.
- chanMin - Variable in class loci.formats.MinMaxCalculator
-
Min values for each channel.
- channel - Variable in class com.sun.media.imageio.stream.FileChannelImageInputStream
-
The FileChannel
data source.
- channel - Variable in class com.sun.media.imageio.stream.FileChannelImageOutputStream
-
The FileChannel
data destination.
- CHANNEL - Static variable in class loci.formats.FormatTools
-
Identifies the Channel dimensional type,
representing a generic channel dimension.
- channel - Variable in class loci.formats.in.ColumbusReader.Plane
-
- Channel() - Constructor for class loci.formats.in.LeicaHandler.Channel
-
- channel - Variable in class loci.formats.in.LeicaHandler.Detector
-
- channel - Variable in class loci.formats.in.LeicaHandler.MultiBand
-
- Channel() - Constructor for class loci.formats.in.OIRReader.Channel
-
- channel - Variable in class loci.formats.in.PrairieMetadata.PFile
-
channel
of this <File>
.
- channel - Variable in class loci.formats.in.SPCReader
-
- Channel() - Constructor for class loci.formats.in.ZeissCZIReader.Channel
-
- Channel(int) - Constructor for class loci.formats.in.ZeissTIFFReader.Channel
-
- CHANNEL_ACQUIRE - Static variable in class loci.formats.in.ZeissLSMReader
-
- CHANNEL_AMPLIFIER_GAIN - Static variable in class loci.formats.in.ZeissLSMReader
-
- CHANNEL_CONTRAST_BRIGHTNESS - Static variable in class loci.formats.in.CellSensReader
-
- CHANNEL_COUNT_TAG - Static variable in class loci.formats.in.FlowSightReader
-
- CHANNEL_DEFINITION_BOX - Static variable in interface jj2000.j2k.fileformat.FileFormatBoxes
-
- CHANNEL_DESCS_TAG - Static variable in class loci.formats.in.FlowSightReader
-
- CHANNEL_DETECTOR_GAIN - Static variable in class loci.formats.in.ZeissLSMReader
-
- CHANNEL_DIM - Static variable in class loci.formats.in.CellSensReader
-
- CHANNEL_FILTER - Static variable in class loci.formats.in.ZeissLSMReader
-
- CHANNEL_FILTER_SET - Static variable in class loci.formats.in.ZeissLSMReader
-
- CHANNEL_GAMMA_CORRECTION - Static variable in class loci.formats.in.CellSensReader
-
- CHANNEL_INFO_PROPERTIES - Static variable in class loci.formats.in.CellSensReader
-
- CHANNEL_NAME - Static variable in class loci.formats.FormatTools
-
- CHANNEL_NAME - Static variable in class loci.formats.in.CellSensReader
-
- CHANNEL_NAME - Static variable in class loci.formats.in.ZeissLSMReader
-
- CHANNEL_NAMES_TAG - Static variable in class loci.formats.in.FlowSightReader
-
- CHANNEL_NUM - Static variable in class loci.formats.FormatTools
-
- CHANNEL_OVERFLOW - Static variable in class loci.formats.in.CellSensReader
-
- CHANNEL_PINHOLE_DIAMETER - Static variable in class loci.formats.in.ZeissLSMReader
-
- CHANNEL_PRIORITIES - Static variable in class loci.formats.in.LIFReader
-
- CHANNEL_PROPERTIES - Static variable in class loci.formats.in.CellSensReader
-
- CHANNEL_TAG - Static variable in class loci.formats.in.SlidebookTiffReader
-
- CHANNEL_TRANSPARENCY_VALUE - Static variable in class loci.formats.in.CellSensReader
-
- CHANNEL_VISIBLE - Static variable in class loci.formats.in.CellSensReader
-
- channelColor - Variable in class loci.formats.in.ColumbusReader.Plane
-
- channelColor - Variable in class loci.formats.in.LeicaReader
-
- channelColor - Variable in class loci.formats.in.ZeissLSMReader
-
- channelColors - Variable in class loci.formats.in.BaseZeissReader
-
- channelColors - Variable in class loci.formats.in.ImprovisionTiffReader
-
- channelColors - Variable in class loci.formats.in.NativeND2Reader
-
- ChannelData() - Constructor for class loci.formats.in.FV1000Reader.ChannelData
-
- ChannelDefinitionBox - Class in com.sun.media.imageioimpl.plugins.jpeg2000
-
This class is designed to represent a Channel Definition Box of
JPEG JP2 file format.
- ChannelDefinitionBox(ColorModel) - Constructor for class com.sun.media.imageioimpl.plugins.jpeg2000.ChannelDefinitionBox
-
Constructs a ChannelDefinitionBox
based on the provided
ColorModel
.
- ChannelDefinitionBox(byte[]) - Constructor for class com.sun.media.imageioimpl.plugins.jpeg2000.ChannelDefinitionBox
-
Constructs a ChannelDefinitionBox
based on the provided
content in byte array.
- ChannelDefinitionBox(short[], short[], short[]) - Constructor for class com.sun.media.imageioimpl.plugins.jpeg2000.ChannelDefinitionBox
-
Constructs a ChannelDefinitionBox
based on the provided
channel definitions.
- ChannelDefinitionBox(Node) - Constructor for class com.sun.media.imageioimpl.plugins.jpeg2000.ChannelDefinitionBox
-
Constructs a ChannelDefinitionBox
based on the provided
org.w3c.dom.Node
.
- channelDescs - Variable in class loci.formats.in.FlowSightReader
-
- ChannelFiller - Class in loci.formats
-
For indexed color data representing true color, factors out
the indices, replacing them with the color table values directly.
- ChannelFiller() - Constructor for class loci.formats.ChannelFiller
-
Constructs a ChannelFiller around a new image reader.
- ChannelFiller(IFormatReader) - Constructor for class loci.formats.ChannelFiller
-
Constructs a ChannelFiller with a given reader.
- channelFiller - Variable in class loci.plugins.in.ImportProcess
-
- channelId - Variable in class loci.formats.in.OIRReader.Detector
-
- ChannelImageInputStreamSpi - Class in com.sun.media.imageioimpl.stream
-
- ChannelImageInputStreamSpi() - Constructor for class com.sun.media.imageioimpl.stream.ChannelImageInputStreamSpi
-
- ChannelImageOutputStreamSpi - Class in com.sun.media.imageioimpl.stream
-
- ChannelImageOutputStreamSpi() - Constructor for class com.sun.media.imageioimpl.stream.ChannelImageOutputStreamSpi
-
- channelIndices - Variable in class loci.formats.in.BaseZeissReader
-
- ChannelInfo() - Constructor for class loci.formats.in.CellVoyagerReader.ChannelInfo
-
- channelInfos - Variable in class loci.formats.in.CellVoyagerReader
-
- channelLengths - Variable in class loci.formats.in.ICSReader
-
The length of each channel axis.
- channelMap - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KReadState
-
- channelMax - Variable in class loci.formats.in.ImarisHDFReader
-
- ChannelMerger - Class in loci.formats
-
Logic to automatically merge channels in a file.
- ChannelMerger() - Constructor for class loci.formats.ChannelMerger
-
Constructs a ChannelMerger around a new image reader.
- ChannelMerger(IFormatReader) - Constructor for class loci.formats.ChannelMerger
-
Constructs a ChannelMerger with the given reader.
- channelMin - Variable in class loci.formats.in.ImarisHDFReader
-
- channelName - Variable in class loci.formats.in.BaseZeissReader
-
- channelName - Variable in class loci.formats.in.ColumbusReader.Plane
-
- channelName - Variable in class loci.formats.in.ImarisHDFReader
-
- channelName - Variable in class loci.formats.in.MetamorphHandler
-
- channelName - Variable in class loci.formats.in.OpenlabReader.PlaneInfo
-
- channelName - Variable in class loci.formats.in.OperettaReader.Plane
-
- channelName - Variable in class loci.formats.in.PrairieMetadata.PFile
-
channelName
attribute of this <File>
.
- channelName - Variable in class loci.formats.in.SISReader
-
- channelName - Variable in class loci.formats.in.ZeissLSMReader.DetectionChannel
-
- channelNames - Variable in class loci.formats.in.BDReader
-
- channelNames - Variable in class loci.formats.in.CellSensReader.Pyramid
-
- channelNames - Variable in class loci.formats.in.FlexReader
-
- channelNames - Variable in class loci.formats.in.FlowSightReader
-
- channelNames - Variable in class loci.formats.in.FluoviewReader
-
- channelNames - Variable in class loci.formats.in.InCellReader
-
- channelNames - Variable in class loci.formats.in.LeicaReader
-
- channelNames - Variable in class loci.formats.in.LIFReader
-
- channelNames - Variable in class loci.formats.in.MetamorphHandler
-
- channelNames - Variable in class loci.formats.in.ND2Handler
-
- channelNames - Variable in class loci.formats.in.ScanrReader
-
- channelNames - Variable in class loci.formats.in.SlidebookTiffReader
-
- channelNames - Variable in class loci.formats.in.VolocityReader.Stack
-
- channelNames - Variable in class loci.formats.in.ZeissLSMReader
-
- channelNumber - Variable in class loci.formats.in.CellVoyagerReader.ChannelInfo
-
- channelNumber - Variable in class loci.plugins.util.RecordedImageProcessor
-
- channelOrder - Variable in class loci.formats.in.PhotoshopTiffReader
-
- channels - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.ChannelDefinitionBox
-
- channels - Variable in class jj2000.j2k.fileformat.reader.FileFormatReader
-
Channel definitions
- channels - Variable in class loci.formats.codec.CodecOptions
-
Number of channels.
- channels - Variable in class loci.formats.in.FV1000Reader
-
- channels - Variable in class loci.formats.in.LeicaHandler
-
- channels - Variable in class loci.formats.in.LiFlimReader
-
- channels - Variable in class loci.formats.in.MicromanagerReader.Position
-
- channels - Variable in class loci.formats.in.OIRReader
-
- channels - Variable in class loci.formats.in.PrairieReader
-
List of active channels.
- channels - Variable in class loci.formats.in.SDTInfo
-
- channels - Variable in class loci.formats.in.SDTReader
-
Number of spectral channels.
- channels - Variable in class loci.formats.in.TextReader
-
List of channel labels.
- channels - Variable in class loci.formats.in.ZeissCZIReader
-
- channels - Variable in class loci.formats.in.ZeissTIFFReader
-
- ChannelSeparator - Class in loci.formats
-
Logic to automatically separate the channels in a file.
- ChannelSeparator() - Constructor for class loci.formats.ChannelSeparator
-
Constructs a ChannelSeparator around a new image reader.
- ChannelSeparator(IFormatReader) - Constructor for class loci.formats.ChannelSeparator
-
Constructs a ChannelSeparator with the given reader.
- channelSeparator - Variable in class loci.plugins.in.ImportProcess
-
- channelsPerTimepoint - Variable in class loci.formats.in.InCellReader
-
- channelTypes - Variable in class loci.formats.in.ICSReader
-
The type of each channel axis.
- channelWavelengths - Variable in class loci.formats.in.CellSensReader.Pyramid
-
- CHAR - Static variable in class loci.formats.in.CellSensReader
-
- CHAR - Static variable in class loci.formats.in.GatanReader
-
- characterCellHeight - Variable in class com.sun.media.imageioimpl.plugins.gif.GIFImageMetadata
-
- characterCellWidth - Variable in class com.sun.media.imageioimpl.plugins.gif.GIFImageMetadata
-
- characters(char[], int, int) - Method in class loci.formats.in.AFIReader.AFIHandler
-
- characters(char[], int, int) - Method in class loci.formats.in.BioRadSCNReader.SCNHandler
-
- characters(char[], int, int) - Method in class loci.formats.in.ColumbusReader.MeasurementHandler
-
- characters(char[], int, int) - Method in class loci.formats.in.FEITiffReader.FEIHandler
-
- characters(char[], int, int) - Method in class loci.formats.in.FlexReader.FlexHandler
-
- characters(char[], int, int) - Method in class loci.formats.in.ImaconReader.ImaconHandler
-
- characters(char[], int, int) - Method in class loci.formats.in.InCellReader.InCellHandler
-
- characters(char[], int, int) - Method in class loci.formats.in.IvisionReader.IvisionHandler
-
- characters(char[], int, int) - Method in class loci.formats.in.LeicaSCNReader.LeicaSCNHandler
-
- characters(char[], int, int) - Method in class loci.formats.in.OMEXMLReader.OMEXMLHandler
-
- characters(char[], int, int) - Method in class loci.formats.in.OperettaReader.OperettaHandler
-
- characters(char[], int, int) - Method in class loci.formats.in.ScanrReader.ScanrHandler
-
- characters(char[], int, int) - Method in class loci.formats.in.ZeissTIFFHandler
-
- characters(char[], int, int) - Method in class loci.formats.out.OMEXMLWriter.OMEHandler
-
- charData - Variable in class loci.formats.in.FlexReader.FlexHandler
-
- CHARS - Static variable in class loci.formats.tools.AsciiImage
-
- Charset(int, String) - Constructor for enum loci.formats.in.BaseZeissReader.Charset
-
- charset - Variable in class loci.formats.in.BaseZeissReader.Shape
-
- CHECK - Static variable in class loci.formats.in.ZeissLMSReader
-
- checkBufferSize(IFormatReader, int) - Static method in class loci.formats.FormatTools
-
- checkBufferSize(IFormatReader, int, int, int) - Static method in class loci.formats.FormatTools
-
Checks that the given buffer size is large enough to hold a w * h
image as returned by the given reader.
- checkBytePadding() - Method in class jj2000.j2k.entropy.decoder.ByteToBitInput
-
Checks for past errors in the decoding process by verifying the byte
padding with an alternating sequence of 0's and 1's.
- checkClass(String) - Static method in class loci.plugins.util.LibraryChecker
-
Checks whether the given class is available.
- checkClassDependency(Class<? extends Object>) - Method in class loci.formats.services.WlzServiceImpl
-
- checkCommentImageJ(String) - Method in class loci.formats.in.TiffReader
-
- checkCommentMetamorph(String) - Method in class loci.formats.in.TiffReader
-
- checkElement(Element, String) - Method in class loci.formats.in.PrairieMetadata
-
Checks that the given element has the specified name.
- checkEndOfPassFF(byte[], int[], boolean[], int) - Static method in class jj2000.j2k.entropy.encoder.StdEntropyCoder
-
Ensures that at the end of a non-terminated coding pass there is not a
0xFF byte, modifying the stored rates if necessary.
- checkHeader() - Method in class loci.formats.tiff.TiffParser
-
Checks the TIFF header.
- checkImageJ() - Static method in class loci.plugins.util.LibraryChecker
-
Checks whether ImageJ is new enough for the Bio-Formats plugins.
- checkImageJ(String, String) - Static method in class loci.plugins.util.LibraryChecker
-
Returns true the current ImageJ version is greater than or equal to the
specified version.
- checkImageJ(String, String, String) - Static method in class loci.plugins.util.LibraryChecker
-
Returns true the current ImageJ version is greater than or equal to the
specified version.
- checkIndex(int) - Method in class com.sun.media.imageioimpl.plugins.bmp.BMPImageReader
-
- checkIndex(int) - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageReader
-
- checkIndex(int) - Method in class com.sun.media.imageioimpl.plugins.pcx.PCXImageReader
-
- checkIndex(int) - Method in class com.sun.media.imageioimpl.plugins.pnm.PNMImageReader
-
- checkIndex(int) - Method in class com.sun.media.imageioimpl.plugins.raw.RawImageReader
-
- checkIndex(int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageReader
-
- checkIndex(int) - Method in class com.sun.media.imageioimpl.plugins.wbmp.WBMPImageReader
-
- checkJava() - Static method in class loci.plugins.util.LibraryChecker
-
Checks for a new enough version of the Java Runtime Environment.
- checkKey(String, String) - Method in class loci.formats.in.MetamorphHandler
-
Check if the value needs to be saved.
- checkKey(String, String) - Method in class loci.plugins.in.ImporterOptions
-
Tests whether the given boolean key is set in the specified options.
- checkLatest(String, String) - Static method in class loci.plugins.config.InstallWizard
-
- checkLibrary() - Static method in class jj2000.j2k.util.NativeServices
-
Checks if the library SHLIB_NAME is already loaded and attempts to load
if not yet loaded.
- checkLibrary(LibraryChecker.Library, HashSet<String>) - Static method in class loci.plugins.util.LibraryChecker
-
Checks for a required library.
- checkLibrary(String, String, HashSet<String>) - Static method in class loci.plugins.util.LibraryChecker
-
Checks whether the given class is available; if not,
adds the specified JAR file name to the hash set
(presumably to report it missing to the user).
- checkMarkerLength(DataInputStream, String) - Method in class jj2000.j2k.codestream.reader.HeaderDecoder
-
Checks that the marker segment length is correct.
- checkMissing(HashSet<String>) - Static method in class loci.plugins.util.LibraryChecker
-
Reports missing libraries in the given hash set to the user.
- checkObsoleteOptions() - Method in class loci.plugins.in.ImporterOptions
-
Handles obsolete macro keys, for backward compatibility.
- checkParams(int, byte[], int, int, int, int) - Method in class loci.formats.FormatWriter
-
Ensure that the arguments that are being passed to saveBytes(...) are
valid.
- checkParams - Variable in class loci.formats.out.TiffWriter
-
Whether or not to check the parameters passed to saveBytes.
- checkParamsEmpty(ImageTypeSpecifier, int, int, List) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriter
-
- checkPerformed - Static variable in class loci.plugins.in.UpgradeDialog
-
Whether an upgrade check has already been performed this session.
- checkPlaneNumber(IFormatReader, int) - Static method in class loci.formats.FormatTools
-
Checks that the given plane number is valid for the given reader.
- checkPlaneParameters(IFormatReader, int, int, int, int, int, int) - Static method in class loci.formats.FormatTools
-
Convenience method for checking that the plane number, tile size and
buffer sizes are all valid for the given reader.
- checkPoints(int) - Method in enum loci.formats.in.BaseZeissReader.FeatureType
-
- checkPredTerm() - Method in class jj2000.j2k.entropy.decoder.MQDecoder
-
Checks for past errors in the decoding process using the predictable
error resilient termination.
- checkProgMode(String) - Method in class jj2000.j2k.entropy.ProgressionSpec
-
Check if the progression mode exists and if so, return its integer
value.
- checkQTLibrary() - Method in class loci.formats.gui.LegacyQTTools
-
Checks whether QTJava is available, throwing an exception if not.
- checkReadParamBandSettingsWrapper(ImageReadParam, int, int) - Static method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageReader
-
Wrapper for the protected method checkReadParamBandSettings
.
- checkSampleModel(SampleModel) - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageWriter
-
- checkSampleModel(SampleModel) - Method in class com.sun.media.imageioimpl.plugins.wbmp.WBMPImageWriter
-
- checkSuffix(String, String) - Static method in class loci.formats.FormatHandler
-
Performs suffix matching for the given filename.
- checkSuffix(String, String[]) - Static method in class loci.formats.FormatHandler
-
Performs suffix matching for the given filename.
- checkTargetErrors() - Method in class jj2000.j2k.util.ThreadPool
-
Checks that no error or runtime exception in any target have occurred
so far.
- checkTileSize(IFormatReader, int, int, int, int) - Static method in class loci.formats.FormatTools
-
Checks that the given tile size is valid for the given reader.
- checkTime(long, int, long, long) - Method in class loci.formats.in.TextReader
-
- checkUnit(String, String...) - Method in class loci.formats.in.ICSReader
-
Verifies that a unit matches the expected value.
- checkUUIDInfoBox(Node, String) - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KMetadata
-
Check whether the child with a name childName
exists.
- childCount - Variable in class com.sun.media.imageioimpl.common.PaletteBuilder.ColorNode
-
- childNames - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFElementInfo
-
- childPolicy - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFElementInfo
-
- children - Variable in class com.sun.media.imageioimpl.common.PaletteBuilder.ColorNode
-
- CHIP_SIZE_X - Static variable in class loci.formats.in.FluoviewReader
-
- CHIP_SIZE_Y - Static variable in class loci.formats.in.FluoviewReader
-
- chksum - Variable in class loci.formats.in.SDTInfo
-
- CHROMA_SUBSAMPLING - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFJPEGCompressor
-
- chromaSubsampleH - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFYCbCrDecompressor
-
- chromaSubsampleV - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFYCbCrDecompressor
-
- CHUNK_SIZE - Static variable in class loci.formats.UpgradeChecker
-
Number of bytes to read from the CI server at a time.
- ChunkMapEntry() - Constructor for class loci.formats.in.NativeND2Reader.ChunkMapEntry
-
- chunkSizes - Variable in class loci.formats.in.NativeQTReader
-
Number of bytes in each plane.
- CI_SERVER - Static variable in class loci.formats.UpgradeChecker
-
Location of the OME continuous integration server.
- cIndex - Variable in class loci.formats.in.BaseZeissReader
-
- cIndex - Variable in class loci.plugins.util.DataBrowser
-
- CIRCLE - Static variable in class loci.formats.in.FV1000Reader
-
- CIRCLE - Static variable in class loci.formats.in.ZeissLSMReader
-
- CIRCLE_3POINT - Static variable in class loci.formats.in.ZeissLSMReader
-
- cLabel - Variable in class loci.formats.gui.DataConverter
-
- clamp(float) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFCIELabColorConverter
-
- clamp(int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFYCbCrDecompressor
-
- clamp2(float) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFCIELabColorConverter
-
- CLASS_IMAGE_5D - Static variable in class loci.plugins.in.ImporterOptions
-
- CLASS_LABELS - Static variable in class loci.formats.in.CellH5Reader.CellH5Constants
-
- CLASS_VIEW_5D - Static variable in class loci.plugins.in.ImporterOptions
-
- classes - Variable in class loci.formats.ClassList
-
List of classes.
- classes - Variable in class loci.formats.in.CellH5Reader
-
- ClassList<T> - Class in loci.formats
-
ClassList is a list of classes for use with
ImageReader
or
ImageWriter
, parsed from a configuration file such as readers.txt
or writers.txt.
- ClassList(Class<T>) - Constructor for class loci.formats.ClassList
-
Constructs a list of classes, initially empty.
- ClassList(String, Class<T>) - Constructor for class loci.formats.ClassList
-
Constructs a list of classes from the given configuration file.
- ClassList(String, Class<T>, Class<?>) - Constructor for class loci.formats.ClassList
-
Constructs a list of classes from the given configuration file.
- classList - Variable in class loci.formats.FileStitcher
-
- CLEAN_FAX_DATA_ERRORS_CORRECTED - Static variable in class com.sun.media.imageio.plugins.tiff.FaxTIFFTagSet
-
A value to be used with the "CleanFaxData" tag.
- CLEAN_FAX_DATA_ERRORS_UNCORRECTED - Static variable in class com.sun.media.imageio.plugins.tiff.FaxTIFFTagSet
-
A value to be used with the "CleanFaxData" tag.
- CLEAN_FAX_DATA_NO_ERRORS - Static variable in class com.sun.media.imageio.plugins.tiff.FaxTIFFTagSet
-
A value to be used with the "CleanFaxData" tag.
- CleanFaxData() - Constructor for class com.sun.media.imageio.plugins.tiff.FaxTIFFTagSet.CleanFaxData
-
- cleanup() - Method in class loci.formats.Memoizer
-
- cleanuppass(DataBlk, MQDecoder, int, int[], int[], boolean) - Method in class jj2000.j2k.entropy.decoder.StdEntropyDecoder
-
Performs the cleanup pass on the specified data and bit-plane.
- cleanuppass(CBlkWTData, MQCoder, boolean, int, int[], int[], int[], int[], int[], int[], int, int, int) - Static method in class jj2000.j2k.entropy.encoder.StdEntropyCoder
-
Performs the cleanup pass on the specified data and bit-plane.
- clear() - Method in class loci.formats.codec.ByteVector
-
- CLEAR_CODE - Static variable in class loci.formats.codec.LZWCodec
-
- clearCode_ - Variable in class com.sun.media.imageioimpl.common.LZWCompressor
-
reserved clear code based on code size
- clearDestImage() - Method in class com.sun.media.imageioimpl.plugins.raw.RawRenderedImage
-
- clearSeries() - Method in class loci.plugins.in.ImporterOptions
-
- ClearTable(int) - Method in class com.sun.media.imageioimpl.common.LZWStringTable
-
- clearTargetErrors() - Method in class jj2000.j2k.util.ThreadPool
-
Clears the current target error conditions, if any.
- clearXML() - Method in class loci.formats.in.ZeissCZIReader.Metadata
-
- clength - Variable in class jj2000.j2k.fileformat.writer.FileFormatWriter
-
Length of codestream
- cLengths - Variable in class loci.plugins.util.DataBrowser
-
- clip(int, int, int) - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KReadState
-
- clip(int, int, int) - Method in class com.sun.media.imageioimpl.plugins.raw.RawRenderedImage
-
- clipDestination(Rectangle) - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KReadState
-
- CLIPPING - Static variable in class loci.formats.in.CellSensReader
-
- CLIPPING_MAGIC_STRING - Static variable in class loci.formats.in.VolocityClippingReader
-
- CLIPPING_STATE - Static variable in class loci.formats.in.CellSensReader
-
- clippingData - Variable in class loci.formats.in.VolocityReader.Stack
-
- CLOCKWISE - Static variable in class loci.formats.in.FluoviewReader
-
- clone() - Method in class com.sun.media.imageio.plugins.tiff.TIFFDirectory
-
Clones the directory and all the fields contained therein.
- clone() - Method in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
-
- clone() - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KMetadata
-
- clone() - Method in class com.sun.media.imageioimpl.plugins.pnm.PNMMetadata
-
- clone() - Method in class jj2000.j2k.ModuleSpec
-
- clone() - Method in class loci.formats.CoreMetadata
-
- clone(IFormatReader, int) - Method in class loci.formats.CoreMetadata
-
- clone() - Method in class loci.formats.SwappableMetadata
-
- clone(IFormatReader, int) - Method in class loci.formats.SwappableMetadata
-
- cloneImageReadParam(ImageReadParam, boolean) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFRenderedImage
-
Creates a copy of param
.
- cloneNode(boolean) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFFieldNode
-
- close() - Method in class com.sun.media.imageio.stream.FileChannelImageInputStream
-
Invokes the superclass method and sets the internal reference
to the source FileChannel
to null
.
- close() - Method in class com.sun.media.imageio.stream.FileChannelImageOutputStream
-
Invokes the superclass method, writes any unwritten data, and
sets the internal reference to the source FileChannel
to null
.
- close() - Method in class com.sun.media.imageio.stream.RawImageInputStream
-
- close() - Method in class com.sun.media.imageioimpl.plugins.clib.InputStreamAdapter
-
- close() - Method in class com.sun.media.imageioimpl.plugins.clib.OutputStreamAdapter
-
- close() - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.IISRandomAccessIO
-
- close() - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.ImageInputStreamWrapper
-
- close() - Method in class jj2000.j2k.codestream.writer.CodestreamWriter
-
Closes the underlying resource (file, stream, network connection,
etc.).
- close() - Method in class jj2000.j2k.codestream.writer.FileCodestreamWriter
-
Writes the EOC marker and closes the underlying stream.
- close() - Method in class jj2000.j2k.image.input.ImgReader
-
Closes the underlying file or network connection from where the
image data is being read.
- close() - Method in class jj2000.j2k.image.input.ImgReaderPGM
-
Closes the underlying RandomAccessFile from where the image data is
being read.
- close() - Method in class jj2000.j2k.io.BufferedRandomAccessFile
-
Closes the buffered random access file
- close() - Method in interface jj2000.j2k.io.RandomAccessIO
-
Closes the I/O stream.
- close() - Method in class jj2000.j2k.util.ISRandomAccessIO
-
Closes this object for reading as well as the wrapped InputStream, if
not already closed.
- close(boolean) - Method in class loci.formats.ChannelSeparator
-
- close() - Method in class loci.formats.codec.JPEGTileDecoder
-
- close(boolean) - Method in class loci.formats.DelegateReader
-
- close() - Method in class loci.formats.FileStitcher
-
- close(boolean) - Method in class loci.formats.FileStitcher
-
- close(boolean) - Method in class loci.formats.FormatReader
-
- close() - Method in class loci.formats.FormatReader
-
- close() - Method in class loci.formats.FormatWriter
-
- close() - Method in class loci.formats.gui.PreviewPane
-
Closes the underlying image reader.
- close(boolean) - Method in interface loci.formats.IFormatReader
-
Closes the currently open file.
- close(boolean) - Method in class loci.formats.ImageReader
-
- close() - Method in class loci.formats.ImageReader
-
- close() - Method in class loci.formats.ImageWriter
-
- close(boolean) - Method in class loci.formats.in.AFIReader
-
- close(boolean) - Method in class loci.formats.in.AIMReader
-
- close(boolean) - Method in class loci.formats.in.AliconaReader
-
- close(boolean) - Method in class loci.formats.in.AmiraReader
-
- close(boolean) - Method in class loci.formats.in.AnalyzeReader
-
- close(boolean) - Method in class loci.formats.in.APLReader
-
- close(boolean) - Method in class loci.formats.in.APNGReader
-
- close(boolean) - Method in class loci.formats.in.AVIReader
-
- close(boolean) - Method in class loci.formats.in.BaseZeissReader
-
- close(boolean) - Method in class loci.formats.in.BDReader
-
- close(boolean) - Method in class loci.formats.in.BioRadReader
-
- close(boolean) - Method in class loci.formats.in.BioRadSCNReader
-
- close(boolean) - Method in class loci.formats.in.BMPReader
-
- close(boolean) - Method in class loci.formats.in.BrukerReader
-
- close(boolean) - Method in class loci.formats.in.BurleighReader
-
- close(boolean) - Method in class loci.formats.in.CanonRawReader
-
- close(boolean) - Method in class loci.formats.in.CellH5Reader
-
- close(boolean) - Method in class loci.formats.in.CellomicsReader
-
- close(boolean) - Method in class loci.formats.in.CellSensReader
-
- close(boolean) - Method in class loci.formats.in.CellWorxReader
-
- close(boolean) - Method in class loci.formats.in.ColumbusReader
-
- close(boolean) - Method in class loci.formats.in.DeltavisionReader
-
- close(boolean) - Method in class loci.formats.in.DicomReader
-
- close(boolean) - Method in class loci.formats.in.DNGReader
-
- close(boolean) - Method in class loci.formats.in.EPSReader
-
- close(boolean) - Method in class loci.formats.in.FakeReader
-
- close(boolean) - Method in class loci.formats.in.FEIReader
-
- close(boolean) - Method in class loci.formats.in.FEITiffReader
-
- close(boolean) - Method in class loci.formats.in.FilePatternReader
-
- close() - Method in class loci.formats.in.FilePatternReader
-
- close(boolean) - Method in class loci.formats.in.FitsReader
-
- close(boolean) - Method in class loci.formats.in.FlexReader
-
- close(boolean) - Method in class loci.formats.in.FlowSightReader
-
- close(boolean) - Method in class loci.formats.in.FluoviewReader
-
- close(boolean) - Method in class loci.formats.in.FujiReader
-
- close(boolean) - Method in class loci.formats.in.FV1000Reader
-
- close(boolean) - Method in class loci.formats.in.GatanDM2Reader
-
- close(boolean) - Method in class loci.formats.in.GatanReader
-
- close(boolean) - Method in class loci.formats.in.GIFReader
-
- close(boolean) - Method in class loci.formats.in.HamamatsuVMSReader
-
- close(boolean) - Method in class loci.formats.in.HitachiReader
-
- close(boolean) - Method in class loci.formats.in.HRDGDFReader
-
- close(boolean) - Method in class loci.formats.in.ICSReader
-
- close(boolean) - Method in class loci.formats.in.IM3Reader
-
- close(boolean) - Method in class loci.formats.in.ImaconReader
-
- close(boolean) - Method in class loci.formats.in.ImageIOReader
-
- close(boolean) - Method in class loci.formats.in.ImagicReader
-
- close(boolean) - Method in class loci.formats.in.ImarisHDFReader
-
- close(boolean) - Method in class loci.formats.in.ImarisReader
-
- close(boolean) - Method in class loci.formats.in.IMODReader
-
- close(boolean) - Method in class loci.formats.in.ImprovisionTiffReader
-
- close(boolean) - Method in class loci.formats.in.ImspectorReader
-
- close(boolean) - Method in class loci.formats.in.InCell3000Reader
-
- close(boolean) - Method in class loci.formats.in.InCellReader
-
- close(boolean) - Method in class loci.formats.in.InveonReader
-
- close(boolean) - Method in class loci.formats.in.IPLabReader
-
- close(boolean) - Method in class loci.formats.in.IPWReader
-
- close(boolean) - Method in class loci.formats.in.IvisionReader
-
- close(boolean) - Method in class loci.formats.in.JEOLReader
-
- close(boolean) - Method in class loci.formats.in.JPEG2000Reader
-
- close(boolean) - Method in class loci.formats.in.JPEGReader
-
- close(boolean) - Method in class loci.formats.in.JPXReader
-
- close(boolean) - Method in class loci.formats.in.KhorosReader
-
- close(boolean) - Method in class loci.formats.in.KodakReader
-
- close(boolean) - Method in class loci.formats.in.L2DReader
-
- close(boolean) - Method in class loci.formats.in.LegacyQTReader
-
- close(boolean) - Method in class loci.formats.in.LeicaReader
-
- close(boolean) - Method in class loci.formats.in.LeicaSCNReader
-
- close(boolean) - Method in class loci.formats.in.LiFlimReader
-
- close(boolean) - Method in class loci.formats.in.LIFReader
-
- close(boolean) - Method in class loci.formats.in.LIMReader
-
- close(boolean) - Method in class loci.formats.in.MetamorphReader
-
- close(boolean) - Method in class loci.formats.in.MetamorphTiffReader
-
- close(boolean) - Method in class loci.formats.in.MIASReader
-
- close(boolean) - Method in class loci.formats.in.MicromanagerReader
-
- close(boolean) - Method in class loci.formats.in.MINCReader
-
- close(boolean) - Method in class loci.formats.in.MinimalTiffReader
-
- close(boolean) - Method in class loci.formats.in.MNGReader
-
- close(boolean) - Method in class loci.formats.in.MolecularImagingReader
-
- close(boolean) - Method in class loci.formats.in.MRCReader
-
- close(boolean) - Method in class loci.formats.in.MRWReader
-
- close(boolean) - Method in class loci.formats.in.NAFReader
-
- close(boolean) - Method in class loci.formats.in.NativeND2Reader
-
- close(boolean) - Method in class loci.formats.in.NativeQTReader
-
- close(boolean) - Method in class loci.formats.in.NDPIReader
-
- close(boolean) - Method in class loci.formats.in.NDPISReader
-
- close(boolean) - Method in class loci.formats.in.NiftiReader
-
- close(boolean) - Method in class loci.formats.in.NikonElementsTiffReader
-
- close(boolean) - Method in class loci.formats.in.NikonReader
-
- close(boolean) - Method in class loci.formats.in.NikonTiffReader
-
- close(boolean) - Method in class loci.formats.in.NRRDReader
-
- close(boolean) - Method in class loci.formats.in.OBFReader
-
- close(boolean) - Method in class loci.formats.in.OIRReader
-
- close(boolean) - Method in class loci.formats.in.OMETiffReader
-
- close(boolean) - Method in class loci.formats.in.OMEXMLReader
-
- close(boolean) - Method in class loci.formats.in.OpenlabRawReader
-
- close(boolean) - Method in class loci.formats.in.OpenlabReader
-
- close(boolean) - Method in class loci.formats.in.OperettaReader
-
- close(boolean) - Method in class loci.formats.in.PCIReader
-
- close(boolean) - Method in class loci.formats.in.PCORAWReader
-
- close(boolean) - Method in class loci.formats.in.PCXReader
-
- close(boolean) - Method in class loci.formats.in.PDSReader
-
- close(boolean) - Method in class loci.formats.in.PerkinElmerReader
-
- close(boolean) - Method in class loci.formats.in.PGMReader
-
- close(boolean) - Method in class loci.formats.in.PhotoshopTiffReader
-
- close(boolean) - Method in class loci.formats.in.PictReader
-
- close(boolean) - Method in class loci.formats.in.PQBinReader
-
- close(boolean) - Method in class loci.formats.in.PrairieReader
-
- close(boolean) - Method in class loci.formats.in.PSDReader
-
- close(boolean) - Method in class loci.formats.in.QuesantReader
-
- close(boolean) - Method in class loci.formats.in.RHKReader
-
- close(boolean) - Method in class loci.formats.in.SBIGReader
-
- close(boolean) - Method in class loci.formats.in.ScanrReader
-
- close(boolean) - Method in class loci.formats.in.ScreenReader
-
- close(boolean) - Method in class loci.formats.in.SDTReader
-
- close(boolean) - Method in class loci.formats.in.SIFReader
-
- close(boolean) - Method in class loci.formats.in.SimplePCITiffReader
-
- close(boolean) - Method in class loci.formats.in.SISReader
-
- close(boolean) - Method in class loci.formats.in.SlidebookReader
-
- close(boolean) - Method in class loci.formats.in.SlidebookTiffReader
-
- close(boolean) - Method in class loci.formats.in.SPCReader
-
- close(boolean) - Method in class loci.formats.in.SPEReader
-
- close(boolean) - Method in class loci.formats.in.SpiderReader
-
- close(boolean) - Method in class loci.formats.in.SVSReader
-
- close(boolean) - Method in class loci.formats.in.TargaReader
-
- close(boolean) - Method in class loci.formats.in.TCSReader
-
- close(boolean) - Method in class loci.formats.in.TextReader
-
- close(boolean) - Method in class loci.formats.in.TiffReader
-
- close(boolean) - Method in class loci.formats.in.TileJPEGReader
-
- close(boolean) - Method in class loci.formats.in.TillVisionReader
-
- close(boolean) - Method in class loci.formats.in.TopometrixReader
-
- close(boolean) - Method in class loci.formats.in.TrestleReader
-
- close(boolean) - Method in class loci.formats.in.UBMReader
-
- close(boolean) - Method in class loci.formats.in.UnisokuReader
-
- close(boolean) - Method in class loci.formats.in.VarianFDFReader
-
- close(boolean) - Method in class loci.formats.in.VeecoReader
-
- close(boolean) - Method in class loci.formats.in.VisitechReader
-
- close(boolean) - Method in class loci.formats.in.VolocityClippingReader
-
- close(boolean) - Method in class loci.formats.in.VolocityReader
-
- close(boolean) - Method in class loci.formats.in.WlzReader
-
- close(boolean) - Method in class loci.formats.in.ZeissCZIReader
-
- close() - Method in class loci.formats.in.ZeissCZIReader.Segment
-
- close(boolean) - Method in class loci.formats.in.ZeissLMSReader
-
- close(boolean) - Method in class loci.formats.in.ZeissLSMReader
-
- close(boolean) - Method in class loci.formats.in.ZeissTIFFReader
-
- close(boolean) - Method in class loci.formats.in.ZeissZVIReader
-
- close(boolean) - Method in class loci.formats.in.ZipReader
-
- close() - Method in class loci.formats.Memoizer
-
- close(boolean) - Method in class loci.formats.Memoizer
-
- close() - Method in interface loci.formats.Memoizer.Deser
-
- close() - Method in class loci.formats.Memoizer.KryoDeser
-
- close(boolean) - Method in class loci.formats.MinMaxCalculator
-
- close() - Method in class loci.formats.out.APNGWriter
-
- close() - Method in class loci.formats.out.AVIWriter
-
- close() - Method in class loci.formats.out.CellH5Writer
-
- close() - Method in class loci.formats.out.ICSWriter
-
- close() - Method in class loci.formats.out.JavaWriter
-
- close() - Method in class loci.formats.out.LegacyQTWriter
-
- close() - Method in class loci.formats.out.OMETiffWriter
-
- close() - Method in class loci.formats.out.OMEXMLWriter
-
- close() - Method in class loci.formats.out.QTWriter
-
- close() - Method in class loci.formats.out.TiffWriter
-
- close() - Method in class loci.formats.out.V3DrawWriter
-
- close() - Method in class loci.formats.out.WlzWriter
-
- close(boolean) - Method in class loci.formats.ReaderWrapper
-
- close() - Method in class loci.formats.ReaderWrapper
-
- close() - Method in interface loci.formats.services.EXIFService
-
- close() - Method in class loci.formats.services.EXIFServiceImpl
-
- close() - Method in interface loci.formats.services.JHDFService
-
Closes and resets the service.
- close() - Method in class loci.formats.services.JHDFServiceImpl
-
- close() - Method in interface loci.formats.services.JPEGTurboService
-
- close() - Method in class loci.formats.services.JPEGTurboServiceImpl
-
- close() - Method in interface loci.formats.services.MDBService
-
Close the currently initialized file.
- close() - Method in class loci.formats.services.MDBServiceImpl
-
- close() - Method in interface loci.formats.services.MetakitService
-
- close() - Method in class loci.formats.services.MetakitServiceImpl
-
- close() - Method in interface loci.formats.services.NetCDFService
-
Closes and resets the service.
- close() - Method in class loci.formats.services.NetCDFServiceImpl
-
- close() - Method in interface loci.formats.services.POIService
-
Close the current POI file system.
- close() - Method in class loci.formats.services.POIServiceImpl
-
- close() - Method in interface loci.formats.services.WlzService
-
Closes the file.
- close() - Method in class loci.formats.services.WlzServiceImpl
-
- close() - Method in class loci.formats.tiff.OnDemandLongArray
-
- close() - Method in class loci.formats.tiff.TiffSaver
-
Closes the output stream if not null.
- close() - Method in class loci.formats.WriterWrapper
-
- close() - Method in class loci.plugins.config.TextAreaWriter
-
Closing a TextAreaWriter does nothing.
- close() - Method in class loci.plugins.macro.LociFunctions
-
- close() - Method in class loci.plugins.util.VirtualImagePlus
-
- close() - Method in class loci.plugins.util.VirtualReader
-
- close() - Method in class org.libjpegturbo.turbojpeg.TJCompressor
-
Free the native structures associated with this compressor instance.
- close() - Method in class org.libjpegturbo.turbojpeg.TJDecompressor
-
Free the native structures associated with this decompressor instance.
- CLOSED_ARROW - Static variable in class loci.formats.in.ZeissLSMReader
-
- CLOSED_BEZIER - Static variable in class loci.formats.in.ZeissLSMReader
-
- CLOSED_POLYLINE - Static variable in class loci.formats.in.ZeissLSMReader
-
- closeFileOnly() - Method in class loci.plugins.macro.LociFunctions
-
- cm - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.RenderedImageSrc
-
- cm - Variable in class loci.formats.FormatWriter
-
Default color model.
- cNames - Variable in class loci.formats.in.ImprovisionTiffReader
-
- co - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.RenderedImageSrc
-
- co2Percent - Variable in class loci.formats.in.ZeissCZIReader
-
- COARSE_FRAME_IFD - Static variable in class loci.formats.in.CellSensReader
-
- COARSE_PYRAMID_LEVEL - Static variable in class loci.formats.in.CellSensReader
-
- coc - Variable in class jj2000.j2k.codestream.HeaderInfo
-
Reference to the COC marker segments found in main and first tile-part
header.
- COC() - Constructor for class jj2000.j2k.codestream.HeaderInfo.COC
-
- COC - Static variable in interface jj2000.j2k.codestream.Markers
-
Coding style component (COC): 0xFF53
- COC_FOUND - Static variable in class jj2000.j2k.codestream.reader.HeaderDecoder
-
Flag bit for COC marker segment found
- cod - Variable in class jj2000.j2k.codestream.HeaderInfo
-
Reference to the COD marker segments found in main and first tile-part
header.
- COD() - Constructor for class jj2000.j2k.codestream.HeaderInfo.COD
-
- COD - Static variable in interface jj2000.j2k.codestream.Markers
-
Coding style default (COD): 0xFF52
- COD_FOUND - Static variable in class jj2000.j2k.codestream.reader.HeaderDecoder
-
Flag bit for COD marker segment found
- code - Variable in enum loci.formats.codec.CompressionType
-
Code for the compression.
- code - Variable in enum loci.formats.codec.JPEG2000BoxType
-
Code for the box type.
- code - Variable in enum loci.formats.codec.JPEG2000SegmentMarker
-
Code for the segment marker.
- code - Variable in class loci.formats.in.FV1000Reader
-
- code - Variable in enum loci.formats.tiff.IFDType
-
Code for the IFD type in the actual TIFF file.
- code - Variable in enum loci.formats.tiff.PhotoInterp
-
Code for the IFD type in the actual TIFF file.
- code - Variable in enum loci.formats.tiff.TiffCompression
-
Code for the TIFF compression in the actual TIFF file.
- codeBlockSize - Variable in class com.sun.media.imageio.plugins.jpeg2000.J2KImageWriteParam
-
Specifies the maximum code-block size to use for tile-component.
- codeBlockSize - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageWriteParamJava
-
Specifies the maximum code-block size to use for tile-component.
- codeBlockSize - Variable in class loci.formats.codec.JPEG2000CodecOptions
-
- Codec - Interface in loci.formats.codec
-
This class is an interface for any kind of compression or decompression.
- codec - Variable in class loci.formats.codec.JPEGTileDecoder.TileCache
-
- codec - Variable in class loci.formats.gui.DataConverter
-
- codec - Variable in class loci.formats.in.NativeND2Reader
-
Codec to use when decompressing pixel data.
- codec - Variable in class loci.formats.in.NativeQTReader
-
Video codec used by this movie.
- codec - Variable in class loci.formats.out.LegacyQTWriter
-
The codec to use.
- codec - Variable in class loci.formats.out.QTWriter
-
The codec to use.
- codec - Variable in enum loci.formats.tiff.TiffCompression
-
TIFF compression codec.
- CODEC_ANIMATION - Static variable in class loci.formats.out.QTWriter
-
Value indicating Animation codec.
- CODEC_CINEPAK - Static variable in class loci.formats.out.QTWriter
-
Value indicating Cinepak codec.
- CODEC_H_263 - Static variable in class loci.formats.out.QTWriter
-
Value indicating H.263 codec.
- CODEC_MOTION_JPEG_B - Static variable in class loci.formats.out.QTWriter
-
Value indicating Motion JPEG-B codec.
- CODEC_MPEG_4 - Static variable in class loci.formats.out.QTWriter
-
Value indicating MPEG-4 codec.
- CODEC_RAW - Static variable in class loci.formats.out.QTWriter
-
Value indicating Raw codec.
- CODEC_SORENSON - Static variable in class loci.formats.out.QTWriter
-
Value indicating Sorenson codec.
- CODEC_SORENSON_3 - Static variable in class loci.formats.out.QTWriter
-
Value indicating Sorenson 3 codec.
- codecName - Variable in enum loci.formats.tiff.TiffCompression
-
Name of the TIFF compression codec.
- CodecOptions - Class in loci.formats.codec
-
Options for compressing and decompressing data.
- CodecOptions() - Constructor for class loci.formats.codec.CodecOptions
-
Construct a new CodecOptions.
- CodecOptions(CodecOptions) - Constructor for class loci.formats.codec.CodecOptions
-
Construct a new CodecOptions using the given CodecOptions.
- codecOptions - Variable in class loci.formats.tiff.TiffParser
-
Codec options to be used when decoding compressed pixel data.
- CodedCBlk - Class in jj2000.j2k.entropy
-
This is the generic class to store coded (compressed) code-block.
- CodedCBlk() - Constructor for class jj2000.j2k.entropy.CodedCBlk
-
Creates a new CodedCBlk object wit the default values and without
allocating any space for its members.
- CodedCBlk(int, int, int, byte[]) - Constructor for class jj2000.j2k.entropy.CodedCBlk
-
Creates a new CodedCBlk object with the specified values.
- CodedCBlkDataSrcDec - Interface in jj2000.j2k.entropy.decoder
-
This interface defines a source of entropy coded data and methods to
transfer it in a code-block by code-block basis.
- CodedCBlkDataSrcEnc - Interface in jj2000.j2k.entropy.encoder
-
This interface defines a source of entropy coded data and methods to
transfer it in a code-block by code-block basis.
- codeSegSymbol - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageWriteParamJava
-
Inserts an error resilience segmentation symbol in the MQ codeword
at the end of each bit-plane (cleanup pass).
- codeSize_ - Variable in class com.sun.media.imageioimpl.common.LZWCompressor
-
base underlying code size of data being compressed 8 for TIFF, 1 to 8 for GIF
- codeStreamLength - Variable in class jj2000.j2k.fileformat.reader.FileFormatReader
-
The lengths of the codestreams in the fileformat
- CodestreamManipulator - Class in jj2000.j2k.util
-
This class takes a legal JPEG 2000 codestream and performs some
manipulation on it.
- CodestreamManipulator(File, int, int, boolean, boolean, boolean, boolean) - Constructor for class jj2000.j2k.util.CodestreamManipulator
-
Instantiates a codestream manipulator..
- codestreamOffset - Variable in class loci.formats.in.JPEG2000MetadataParser
-
Offset to first contiguous codestream.
- codestreamPixelType - Variable in class loci.formats.in.JPEG2000MetadataParser
-
Pixel type as specified in the JPEG 2000 codestream..
- codeStreamPos - Variable in class jj2000.j2k.fileformat.reader.FileFormatReader
-
The positions of the codestreams in the fileformat
- codestreamSizeC - Variable in class loci.formats.in.JPEG2000MetadataParser
-
Number of channels the image as specified in the JPEG 2000 codestream.
- codestreamSizeX - Variable in class loci.formats.in.JPEG2000MetadataParser
-
Width of the image as specified in the JPEG 2000 codestream.
- codestreamSizeY - Variable in class loci.formats.in.JPEG2000MetadataParser
-
Height of the image as specified in the JPEG 2000 codestream.
- CodestreamWriter - Class in jj2000.j2k.codestream.writer
-
This is the abstract class for writing to a bit stream.
- CodestreamWriter(int) - Constructor for class jj2000.j2k.codestream.writer.CodestreamWriter
-
Allocates this object and initializes the maximum numner of
bytes.
- codeSymbol(int, int) - Method in class jj2000.j2k.entropy.encoder.MQCoder
-
This function performs the arithmetic encoding of one symbol.
- codeSymbols(int[], int[], int) - Method in class jj2000.j2k.entropy.encoder.MQCoder
-
This function performs the arithmetic encoding of several symbols
together.
- codingRangeCbCr - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFYCbCrColorConverter
-
- codingRangeY - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFYCbCrColorConverter
-
- codingRangeY - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFYCbCrDecompressor
-
- col - Variable in class loci.formats.in.CellVoyagerReader.WellInfo
-
- col - Variable in class loci.formats.in.ColumbusReader.Plane
-
- col - Variable in class loci.formats.in.OperettaReader.Plane
-
- col - Variable in class loci.formats.in.ZeissCZIReader.SubBlock
-
- colCount - Variable in class loci.formats.in.BaseZeissReader
-
- collection - Variable in class loci.formats.in.LeicaHandler
-
- collection - Variable in class loci.formats.in.LeicaSCNReader.LeicaSCNHandler
-
- COLLECTION_VOLUME - Static variable in class loci.formats.in.CellSensReader
-
- colName - Variable in class loci.formats.in.InCellReader
-
- color - Variable in class loci.formats.in.CellVoyagerReader.ChannelInfo
-
- color - Variable in class loci.formats.in.LeicaHandler.ROI
-
- color - Variable in class loci.formats.in.LIFReader.ROI
-
- color - Variable in class loci.formats.in.OIRReader.Channel
-
- color - Variable in class loci.formats.in.ZeissCZIReader.Channel
-
- color16 - Variable in class loci.formats.in.IvisionReader
-
- COLOR_BAR - Static variable in class loci.formats.in.FV1000Reader
-
- COLOR_MAP - Static variable in class loci.formats.in.CanonRawReader
-
- COLOR_MAP - Static variable in class loci.formats.in.DNGReader
-
- COLOR_MAP - Static variable in class loci.formats.in.NikonReader
-
- COLOR_MAP - Static variable in class loci.formats.tiff.IFD
-
- COLOR_MAP_1 - Static variable in class loci.formats.in.MRWReader
-
- COLOR_MAP_2 - Static variable in class loci.formats.in.MRWReader
-
- COLOR_MODE - Static variable in class loci.formats.in.NikonReader
-
- COLOR_MODE_COLORIZED - Static variable in class loci.plugins.in.ImporterOptions
-
- COLOR_MODE_COMPOSITE - Static variable in class loci.plugins.in.ImporterOptions
-
- COLOR_MODE_CUSTOM - Static variable in class loci.plugins.in.ImporterOptions
-
- COLOR_MODE_DEFAULT - Static variable in class loci.plugins.in.ImporterOptions
-
- COLOR_MODE_GRAYSCALE - Static variable in class loci.plugins.in.ImporterOptions
-
- COLOR_SPACE - Static variable in class loci.formats.in.CellSensReader
-
- COLOR_SPACE - Static variable in class loci.formats.tiff.IFD
-
- COLOR_SPACE_SRGB - Static variable in class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet
-
A value to be used with the "ColorSpace" tag.
- COLOR_SPACE_UNCALIBRATED - Static variable in class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet
-
A value to be used with the "ColorSpace" tag.
- colorConvert - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFYCbCrDecompressor
-
- colorConverter - Variable in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
A TIFFColorConverter
object describing the color space of
the encoded pixel data, or null
.
- colorConverter - Variable in class com.sun.media.imageio.plugins.tiff.TIFFImageReadParam
-
- colorConverter - Variable in class com.sun.media.imageio.plugins.tiff.TIFFImageWriteParam
-
- colorConverter - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriter
-
- colorCount - Variable in class com.sun.media.imageioimpl.common.PaletteBuilder.ColorNode
-
- ColorDialog - Class in loci.plugins.in
-
Bio-Formats Importer custom color chooser dialog box.
- ColorDialog(ImportProcess) - Constructor for class loci.plugins.in.ColorDialog
-
- colorize - Variable in class loci.plugins.util.BFVirtualStack
-
- Colorizer - Class in loci.plugins.in
-
Logic for colorizing images.
- Colorizer(ImportProcess) - Constructor for class loci.plugins.in.Colorizer
-
- ColorMap() - Constructor for class com.sun.media.imageio.plugins.tiff.BaselineTIFFTagSet.ColorMap
-
- colorMap - Variable in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
The value of the ColorMap
tag.
- colorMap - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageReader
-
- colorMap - Variable in class loci.formats.in.TargaReader
-
- colorModeChoice - Variable in class loci.plugins.in.MainDialog
-
- colorModel - Variable in class com.sun.media.imageioimpl.common.SimpleRenderedImage
-
The image's ColorModel.
- colorModel - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPImageReader
-
- colorModel - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KReadState
-
- colorModel - Variable in class com.sun.media.imageioimpl.plugins.pcx.PCXImageReader
-
- colorModel - Variable in class jj2000.j2k.fileformat.reader.FileFormatReader
-
Create a IndexColorModel from the palette box if there is one
- colorModel - Variable in class jj2000.j2k.fileformat.writer.FileFormatWriter
-
The color model of the image to be compressed.
- colorModel - Variable in class loci.formats.codec.CodecOptions
-
Color model to use when constructing an image (WRITE).
- ColorNode() - Constructor for class com.sun.media.imageioimpl.common.PaletteBuilder.ColorNode
-
- colorPlanes - Variable in class com.sun.media.imageioimpl.plugins.pcx.PCXImageReader
-
- colorPlanes - Variable in class com.sun.media.imageioimpl.plugins.pcx.PCXImageWriter
-
- colorResolution - Variable in class com.sun.media.imageioimpl.plugins.gif.GIFStreamMetadata
-
- COLORS - Variable in class loci.formats.in.CellH5Reader
-
- colors - Variable in class loci.formats.in.ImarisHDFReader
-
- colors - Variable in class loci.formats.in.IMODReader
-
- colors - Variable in class loci.formats.in.NativeND2Reader
-
- colors - Variable in class loci.formats.in.ND2Handler
-
- colorsImportant - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
-
- ColorSpace() - Constructor for class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet.ColorSpace
-
- colorSpace - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
-
- COLORSPACE - Static variable in class loci.formats.in.CellSensReader
-
- colorSpaceNames - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageMetadata
-
- colorSpaceType - Variable in class jj2000.j2k.fileformat.reader.FileFormatReader
-
Color specification
- ColorSpecificationBox - Class in com.sun.media.imageioimpl.plugins.jpeg2000
-
This class is defined to represent a Color Specification Box of JPEG JP2
file format.
- ColorSpecificationBox(byte, byte, byte, int, ICC_Profile) - Constructor for class com.sun.media.imageioimpl.plugins.jpeg2000.ColorSpecificationBox
-
Creates a ColorSpecificationBox
from the provided data
elements.
- ColorSpecificationBox(byte[]) - Constructor for class com.sun.media.imageioimpl.plugins.jpeg2000.ColorSpecificationBox
-
Creates a ColorSpecificationBox
from the provided byte
array.
- ColorSpecificationBox(Node) - Constructor for class com.sun.media.imageioimpl.plugins.jpeg2000.ColorSpecificationBox
-
Constructs a ColorSpecificationBox
based on the provided
org.w3c.dom.Node
.
- colorsUsed - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
-
- colorTables - Variable in class loci.formats.in.GIFReader
-
- colorTableSizes - Static variable in class com.sun.media.imageioimpl.plugins.gif.GIFStreamMetadata
-
- COLOUR_SPECIFICATION_BOX - Static variable in interface jj2000.j2k.fileformat.FileFormatBoxes
-
- cols - Variable in class loci.formats.in.CellSensReader
-
- colT - Variable in class loci.formats.in.SDTInfo
-
- ColumbusReader - Class in loci.formats.in
-
ColumbusReader is the file format reader for screens exported from PerkinElmer Columbus.
- ColumbusReader() - Constructor for class loci.formats.in.ColumbusReader
-
Constructs a new Columbus reader.
- ColumbusReader.MeasurementHandler - Class in loci.formats.in
-
- ColumbusReader.Plane - Class in loci.formats.in
-
- column - Variable in class loci.formats.in.FlexReader.FlexFile
-
- column - Variable in class loci.formats.in.OMEXMLReader.BinData
-
- column - Variable in class loci.formats.tools.AmiraParameters
-
- COLUMNS - Static variable in class loci.formats.gui.DataConverter
-
- COLUMNS - Static variable in class loci.formats.in.DicomReader
-
- com - Variable in class jj2000.j2k.codestream.HeaderInfo
-
Reference to the COM marker segments found in main and tile-part
headers.
- COM() - Constructor for class jj2000.j2k.codestream.HeaderInfo.COM
-
- COM - Static variable in interface jj2000.j2k.codestream.Markers
-
Comment (COM): 0xFF64
- COM - Static variable in class loci.formats.codec.LosslessJPEGCodec
-
- com.sun.media.imageio.plugins.bmp - package com.sun.media.imageio.plugins.bmp
-
Package containing the public classes used by the Sun BMP plug-in for
the Image I/O Framework.
- com.sun.media.imageio.plugins.jpeg2000 - package com.sun.media.imageio.plugins.jpeg2000
-
Package containing the public classes used by the Sun JPEG 2000 plug-in for
the Image I/O Framework.
- com.sun.media.imageio.plugins.pnm - package com.sun.media.imageio.plugins.pnm
-
Package containing the public classes used by the Sun PNM plug-in for
the Image I/O Framework.
- com.sun.media.imageio.plugins.tiff - package com.sun.media.imageio.plugins.tiff
-
Package containing the public classes used by the TIFF plug-in for
the Image I/O Framework.
- com.sun.media.imageio.stream - package com.sun.media.imageio.stream
-
Provides ImageInputStream
and ImageOutputStream
classes for use with the Java Image I/O Framework.
- com.sun.media.imageioimpl.common - package com.sun.media.imageioimpl.common
-
- com.sun.media.imageioimpl.plugins.bmp - package com.sun.media.imageioimpl.plugins.bmp
-
- com.sun.media.imageioimpl.plugins.clib - package com.sun.media.imageioimpl.plugins.clib
-
- com.sun.media.imageioimpl.plugins.gif - package com.sun.media.imageioimpl.plugins.gif
-
- com.sun.media.imageioimpl.plugins.jpeg - package com.sun.media.imageioimpl.plugins.jpeg
-
- com.sun.media.imageioimpl.plugins.jpeg2000 - package com.sun.media.imageioimpl.plugins.jpeg2000
-
- com.sun.media.imageioimpl.plugins.pcx - package com.sun.media.imageioimpl.plugins.pcx
-
- com.sun.media.imageioimpl.plugins.png - package com.sun.media.imageioimpl.plugins.png
-
- com.sun.media.imageioimpl.plugins.pnm - package com.sun.media.imageioimpl.plugins.pnm
-
- com.sun.media.imageioimpl.plugins.raw - package com.sun.media.imageioimpl.plugins.raw
-
- com.sun.media.imageioimpl.plugins.tiff - package com.sun.media.imageioimpl.plugins.tiff
-
- com.sun.media.imageioimpl.plugins.wbmp - package com.sun.media.imageioimpl.plugins.wbmp
-
- com.sun.media.imageioimpl.stream - package com.sun.media.imageioimpl.stream
-
- com.sun.media.jai.imageioimpl - package com.sun.media.jai.imageioimpl
-
- com.sun.media.jai.operator - package com.sun.media.jai.operator
-
Provides JAI operations which read and write images using the Java Image
I/O Framework.
- COM_FOUND - Static variable in class jj2000.j2k.codestream.reader.HeaderDecoder
-
Flag bit for COM marker segment found
- ComboFileFilter - Class in loci.formats.gui
-
A file filter that recognizes files from a union of other filters.
- ComboFileFilter(FileFilter[], String) - Constructor for class loci.formats.gui.ComboFileFilter
-
Constructs a new filter from a list of other filters.
- COMMENT - Static variable in class com.sun.media.imageioimpl.plugins.pnm.PNMImageWriter
-
- comment - Variable in class loci.formats.in.FluoviewReader
-
- comment - Variable in class loci.formats.in.MicromanagerReader.Position
-
- comment - Variable in class loci.formats.in.QuesantReader
-
- COMMENT_STYLE_END - Static variable in class loci.formats.gui.XMLCellRenderer
-
- COMMENT_STYLE_START - Static variable in class loci.formats.gui.XMLCellRenderer
-
- comments - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
-
- comments - Variable in class com.sun.media.imageioimpl.plugins.gif.GIFImageMetadata
-
- comments - Variable in class com.sun.media.imageioimpl.plugins.pnm.PNMMetadata
-
The comments.
- comments - Variable in class loci.formats.in.JPEG2000MetadataParser
-
List of comments stored in the file.
- comments - Variable in class loci.formats.in.SVSReader
-
- commitBitstreamHeader(HeaderEncoder) - Method in class jj2000.j2k.codestream.writer.CodestreamWriter
-
Writes the header data to the bit stream, if it has not been already
done.
- commitBitstreamHeader(HeaderEncoder) - Method in class jj2000.j2k.codestream.writer.FileCodestreamWriter
-
Writes the header data in the codestream and actualize ndata with the
header length.
- comp - Variable in class jj2000.j2k.roi.encoder.ROI
-
The components for which the ROI is relevant
- comp - Variable in class loci.formats.gui.CacheIndicator
-
- COMP_POS_RES_LY_PROG - Static variable in interface jj2000.j2k.codestream.ProgressionType
-
The bit stream is Component/Position/Resolution/Layer progressive : 4
- COMPANION_KEY - Static variable in class loci.formats.out.OMETiffWriter
-
- COMPANION_SUFFIXES - Static variable in class loci.formats.in.TiffReader
-
- companionFile - Variable in class loci.formats.in.TiffReader
-
- companionFiles - Variable in class loci.formats.in.DicomReader
-
- compare(Object, Object) - Method in class loci.formats.cache.CacheStrategy
-
Default comparator orders dimensional positions based on distance from the
current position, taking into account axis priorities and planar ordering.
- compare(String, String) - Method in class loci.formats.in.MetamorphTiffReader.NumericComparator
-
- compareTo(Object) - Method in class com.sun.media.imageio.plugins.tiff.TIFFField
-
Compares this TIFFField
with another
TIFFField
by comparing the tags.
- compareTo(Object) - Method in class loci.formats.gui.ComboFileFilter
-
Compares two FileFilter objects alphanumerically.
- compareTo(Object) - Method in class loci.formats.gui.ExtensionFileFilter
-
Compares two FileFilter objects alphanumerically.
- compareTo(Object) - Method in class loci.formats.gui.FormatFileFilter
-
Compares two FileFilter objects alphanumerically.
- compareTo(Object) - Method in class loci.formats.gui.NoExtensionFileFilter
-
Compares two FileFilter objects alphanumerically.
- compareTo(Object) - Method in class loci.formats.tiff.TiffIFDEntry
-
- compareTo(TiffRational) - Method in class loci.formats.tiff.TiffRational
-
Compares this object with the specified object for order.
- compareTo(Object) - Method in class loci.plugins.config.FormatEntry
-
- compareTo(Object) - Method in class loci.plugins.config.LibraryEntry
-
- compareTo(ThumbLoader.SeriesInfo) - Method in class loci.plugins.in.ThumbLoader.SeriesInfo
-
- compareTokens(String[], int, String[], int) - Method in class loci.formats.in.ICSReader
-
- compatibility - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.FileTypeBox
-
- compDef - Variable in class jj2000.j2k.ModuleSpec
-
The default value for each component.
- compH - Variable in class jj2000.j2k.image.Tiler
-
The component height in the current active tile, for each component
- compHeight - Variable in class jj2000.j2k.codestream.HeaderInfo.SIZ
-
Component heights
- compIdx - Variable in class jj2000.j2k.image.ImgDataJoiner
-
The component index associated with each ImgData
- compImageSize - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPImageWriter
-
- complete - Variable in class jj2000.j2k.util.ISRandomAccessIO
-
- completedComps - Variable in class jj2000.j2k.entropy.encoder.StdEntropyCoder
-
The queue of completed compressors, for each component.
- COMPLEX - Static variable in class loci.formats.in.CellSensReader
-
- COMPLEX - Static variable in class loci.formats.in.ZeissCZIReader
-
- COMPLEX_FLOAT - Static variable in class loci.formats.in.ZeissCZIReader
-
- compMainDefDecompType - Variable in class jj2000.j2k.wavelet.WTDecompSpec
-
The component main default decomposition, for each component.
- compMainDefLevels - Variable in class jj2000.j2k.wavelet.WTDecompSpec
-
The component main default decomposition levels, for each component
- COMPONENT_HEIGHT - Static variable in class loci.formats.gui.CacheIndicator
-
- COMPONENT_MAPPING_BOX - Static variable in interface jj2000.j2k.fileformat.FileFormatBoxes
-
- COMPONENT_WIDTH - Static variable in class loci.formats.gui.CacheIndicator
-
- ComponentMappingBox - Class in com.sun.media.imageioimpl.plugins.jpeg2000
-
This class is defined to represent a Color Specification Box of JPEG JP2
file format.
- ComponentMappingBox(byte[]) - Constructor for class com.sun.media.imageioimpl.plugins.jpeg2000.ComponentMappingBox
-
Constructs a ComponentMappingBox
from the provided
content byte array.
- ComponentMappingBox(short[], byte[], byte[]) - Constructor for class com.sun.media.imageioimpl.plugins.jpeg2000.ComponentMappingBox
-
Constructs a ComponentMappingBox
from the provided
component mapping.
- ComponentMappingBox(Node) - Constructor for class com.sun.media.imageioimpl.plugins.jpeg2000.ComponentMappingBox
-
Constructs a ComponentMappingBox
based on the provided
org.w3c.dom.Node
.
- components - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.ComponentMappingBox
-
The data elements.
- COMPONENTS_CONFIGURATION - Static variable in class loci.formats.tiff.IFD
-
- COMPONENTS_CONFIGURATION_B - Static variable in class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet
-
A value to be used with the "ComponentsConfiguration" tag.
- COMPONENTS_CONFIGURATION_CB - Static variable in class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet
-
A value to be used with the "ComponentsConfiguration" tag.
- COMPONENTS_CONFIGURATION_CR - Static variable in class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet
-
A value to be used with the "ComponentsConfiguration" tag.
- COMPONENTS_CONFIGURATION_DOES_NOT_EXIST - Static variable in class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet
-
A value to be used with the "ComponentsConfiguration" tag.
- COMPONENTS_CONFIGURATION_G - Static variable in class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet
-
A value to be used with the "ComponentsConfiguration" tag.
- COMPONENTS_CONFIGURATION_R - Static variable in class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet
-
A value to be used with the "ComponentsConfiguration" tag.
- COMPONENTS_CONFIGURATION_Y - Static variable in class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet
-
A value to be used with the "ComponentsConfiguration" tag.
- ComponentsConfiguration() - Constructor for class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet.ComponentsConfiguration
-
- componentTransformation - Variable in class com.sun.media.imageio.plugins.jpeg2000.J2KImageWriteParam
-
Specifies to utilize the component transformation with some tiles.
- componentTransformation - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageWriteParamJava
-
Specifies to utilize the component transformation with some tiles.
- compose() - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.Box
-
Composes the content byte array from the data elements.
- compose() - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.ChannelDefinitionBox
-
- compose() - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.ColorSpecificationBox
-
- compose() - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.ComponentMappingBox
-
- compose() - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.DataEntryURLBox
-
- compose() - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.FileTypeBox
-
- compose() - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.HeaderBox
-
- compose() - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.PaletteBox
-
- compose() - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.ResolutionBox
-
- compose() - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.SignatureBox
-
- compose() - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.UUIDBox
-
- compose() - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.UUIDListBox
-
- composeString(byte[], byte) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFLZWDecompressor
-
Append newString
to the end of oldString
.
- composeString(byte[], byte) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFLZWUtil
-
Append newString
to the end of oldString
.
- COMPR_MASKS - Static variable in class loci.formats.codec.LZWCodec
-
Masks for writing bits in compressor.
- compress(byte[], int, int) - Method in class com.sun.media.imageioimpl.common.LZWCompressor
-
- compress(byte[], CodecOptions) - Method in class loci.formats.codec.Base64Codec
-
- compress(byte[][], CodecOptions) - Method in class loci.formats.codec.BaseCodec
-
2D data block encoding default implementation.
- compress(byte[], CodecOptions) - Method in interface loci.formats.codec.Codec
-
Compresses a block of data.
- compress(byte[][], CodecOptions) - Method in interface loci.formats.codec.Codec
-
Compresses a block of data.
- compress(byte[], CodecOptions) - Method in class loci.formats.codec.HuffmanCodec
-
- compress(byte[], CodecOptions) - Method in class loci.formats.codec.JPEG2000Codec
-
- compress(byte[], CodecOptions) - Method in class loci.formats.codec.JPEGCodec
-
- compress(byte[], CodecOptions) - Method in class loci.formats.codec.JPEGXRCodec
-
- compress(byte[], CodecOptions) - Method in class loci.formats.codec.LosslessJPEGCodec
-
- compress(byte[], CodecOptions) - Method in class loci.formats.codec.LuraWaveCodec
-
- compress(byte[], CodecOptions) - Method in class loci.formats.codec.LZOCodec
-
- compress(byte[], CodecOptions) - Method in class loci.formats.codec.LZWCodec
-
- compress(byte[], CodecOptions) - Method in class loci.formats.codec.MJPBCodec
-
- compress(byte[], CodecOptions) - Method in class loci.formats.codec.MSRLECodec
-
- compress(byte[], CodecOptions) - Method in class loci.formats.codec.MSVideoCodec
-
- compress(byte[], CodecOptions) - Method in class loci.formats.codec.NikonCodec
-
- compress(byte[], CodecOptions) - Method in class loci.formats.codec.PackbitsCodec
-
- compress(byte[], CodecOptions) - Method in class loci.formats.codec.PassthroughCodec
-
- compress(byte[], CodecOptions) - Method in class loci.formats.codec.QTRLECodec
-
- compress(byte[], CodecOptions) - Method in class loci.formats.codec.RPZACodec
-
- compress(byte[], CodecOptions) - Method in class loci.formats.codec.TargaRLECodec
-
- compress(byte[], CodecOptions) - Method in class loci.formats.codec.ZlibCodec
-
- compress(byte[]) - Method in class loci.formats.out.OMEXMLWriter
-
Compress the given byte array using the current codec.
- compress(byte[], CodecOptions) - Method in enum loci.formats.tiff.TiffCompression
-
Encodes a strip of data.
- compress(byte[], int) - Method in class org.libjpegturbo.turbojpeg.TJCompressor
-
Compress the uncompressed source image associated with this compressor
instance and output a JPEG image to the given destination buffer.
- compress(int) - Method in class org.libjpegturbo.turbojpeg.TJCompressor
-
Compress the uncompressed source image associated with this compressor
instance and return a buffer containing a JPEG image.
- compress(BufferedImage, byte[], int) - Method in class org.libjpegturbo.turbojpeg.TJCompressor
-
Compress the uncompressed source image stored in srcImage
and output a JPEG image to the given destination buffer.
- compress(BufferedImage, int) - Method in class org.libjpegturbo.turbojpeg.TJCompressor
-
Compress the uncompressed source image stored in srcImage
and return a buffer containing a JPEG image.
- compress(byte[], int, int, int, int, byte[], int, int, int) - Method in class org.libjpegturbo.turbojpeg.TJCompressor
-
- compress(int[], int, int, int, int, byte[], int, int, int) - Method in class org.libjpegturbo.turbojpeg.TJCompressor
-
- compressBuffer(int, byte[], int, int, int, int) - Method in class loci.formats.out.JPEG2000Writer
-
Compresses the buffer.
- compressCodeBlock(int, CBlkRateDistStats, CBlkWTData, MQCoder, BitToByteOutput, ByteOutputBuffer, int[], double[], int[], boolean[], int[], int[], int, boolean, int, int) - Static method in class jj2000.j2k.entropy.encoder.StdEntropyCoder
-
Compresses the code-block in 'srcblk' and puts the results in 'ccb',
using the specified options and temporary storage.
- compressed - Variable in class loci.formats.in.NAFReader
-
- compressed - Variable in class loci.formats.in.OpenlabReader.PlaneInfo
-
- compressed - Variable in class loci.formats.in.PSDReader
-
- compressed - Variable in class loci.formats.in.SBIGReader
-
- compressed - Variable in class loci.formats.in.TargaReader
-
- COMPRESSED_BITS_PER_PIXEL - Static variable in class loci.formats.tiff.IFD
-
- CompressedBitsPerPixel() - Constructor for class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet.CompressedBitsPerPixel
-
- compressedSize - Variable in class loci.formats.in.AmiraReader.HxRLE
-
- compressedSize - Variable in class loci.formats.in.AmiraReader.HxZip
-
- compressedSize - Variable in class org.libjpegturbo.turbojpeg.TJCompressor
-
- compressedTiles - Variable in class loci.formats.codec.JPEGTileDecoder.TileCache
-
- Compression() - Constructor for class com.sun.media.imageio.plugins.tiff.BaselineTIFFTagSet.Compression
-
- compression - Variable in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
The value of the Compression
tag.
- compression - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPImageReader
-
- compression - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
-
- compression - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxDecompressor
-
- compression - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageReader
-
- compression - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriter
-
- compression - Variable in enum loci.formats.codec.CompressionType
-
The compression used.
- compression - Variable in class loci.formats.FormatWriter
-
Current compression type.
- compression - Variable in class loci.formats.in.AmiraReader
-
- compression - Variable in class loci.formats.in.APNGReader
-
- compression - Variable in class loci.formats.in.BMPReader
-
Compression type
- compression - Variable in class loci.formats.in.LiFlimReader
-
- compression - Variable in class loci.formats.in.OBFReader.Stack
-
- compression - Variable in class loci.formats.in.OMEXMLReader
-
- compression - Variable in class loci.formats.in.PhotoshopTiffReader
-
- compression - Variable in class loci.formats.in.ZeissCZIReader.DirectoryEntry
-
- COMPRESSION - Static variable in class loci.formats.tiff.IFD
-
- COMPRESSION_CCITT_RLE - Static variable in class com.sun.media.imageio.plugins.tiff.BaselineTIFFTagSet
-
A value to be used with the "Compression" tag.
- COMPRESSION_CCITT_T_4 - Static variable in class com.sun.media.imageio.plugins.tiff.BaselineTIFFTagSet
-
A value to be used with the "Compression" tag.
- COMPRESSION_CCITT_T_6 - Static variable in class com.sun.media.imageio.plugins.tiff.BaselineTIFFTagSet
-
A value to be used with the "Compression" tag.
- COMPRESSION_DEFLATE - Static variable in class com.sun.media.imageio.plugins.tiff.BaselineTIFFTagSet
-
A value to be used with the "Compression" tag.
- COMPRESSION_GZIP - Static variable in class loci.formats.in.LiFlimReader
-
- COMPRESSION_J2K - Static variable in class loci.formats.out.TiffWriter
-
- COMPRESSION_J2K_LOSSY - Static variable in class loci.formats.out.TiffWriter
-
- COMPRESSION_JPEG - Static variable in class com.sun.media.imageio.plugins.tiff.BaselineTIFFTagSet
-
A value to be used with the "Compression" tag.
- COMPRESSION_JPEG - Static variable in class loci.formats.out.TiffWriter
-
- COMPRESSION_KEY - Static variable in class loci.formats.in.LiFlimReader
-
- COMPRESSION_LZW - Static variable in class com.sun.media.imageio.plugins.tiff.BaselineTIFFTagSet
-
A value to be used with the "Compression" tag.
- COMPRESSION_LZW - Static variable in class loci.formats.out.TiffWriter
-
- COMPRESSION_NONE - Static variable in class com.sun.media.imageio.plugins.tiff.BaselineTIFFTagSet
-
A value to be used with the "Compression" tag.
- COMPRESSION_NONE - Static variable in class loci.formats.in.LiFlimReader
-
- COMPRESSION_OLD_JPEG - Static variable in class com.sun.media.imageio.plugins.tiff.BaselineTIFFTagSet
-
A value to be used with the "Compression" tag.
- COMPRESSION_PACKBITS - Static variable in class com.sun.media.imageio.plugins.tiff.BaselineTIFFTagSet
-
A value to be used with the "Compression" tag.
- COMPRESSION_SUFFIXES - Static variable in class loci.formats.FormatHandler
-
Suffixes for supported compression types.
- COMPRESSION_UNCOMPRESSED - Static variable in class loci.formats.out.TiffWriter
-
- COMPRESSION_ZLIB - Static variable in class com.sun.media.imageio.plugins.tiff.BaselineTIFFTagSet
-
A value to be used with the "Compression" tag.
- compressionNumbers - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriter
-
Compression tag values for known compression types.
- compressionTagValue - Variable in class com.sun.media.imageio.plugins.tiff.TIFFCompressor
-
The value to be assigned to the TIFF Compression tag in the
TIFF image metadata.
- compressionType - Variable in class com.sun.media.imageio.plugins.tiff.TIFFCompressor
-
The name of the compression type supported by this compressor.
- compressionType - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPImageWriter
-
- compressionType - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.HeaderBox
-
- compressionType - Variable in class jj2000.j2k.fileformat.reader.FileFormatReader
-
- CompressionType - Enum in loci.formats.codec
-
An enumeration of compression types.
- CompressionType(int, String) - Constructor for enum loci.formats.codec.CompressionType
-
Default constructor.
- compressionType - Variable in class loci.formats.in.CellSensReader
-
- compressionTypeNames - Static variable in interface com.sun.media.imageioimpl.plugins.bmp.BMPConstants
-
- compressionTypes - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriter
-
Known TIFF compression types.
- compressionTypes - Variable in class loci.formats.FormatWriter
-
Available compression types.
- compressionTypes - Variable in class loci.formats.ImageWriter
-
Compression types for all file format writers.
- compressor - Variable in class com.sun.media.imageio.plugins.tiff.TIFFImageWriteParam
-
- compressor - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriter
-
- Compressor(int) - Constructor for class jj2000.j2k.entropy.encoder.StdEntropyCoder.Compressor
-
Creates a new compressor object with the given index.
- comps - Variable in class jj2000.j2k.fileformat.reader.FileFormatReader
-
Component mapping
- compSize - Variable in class jj2000.j2k.fileformat.reader.FileFormatReader
-
- CompTransfSpec - Class in jj2000.j2k.image
-
This class extends ModuleSpec class in order to hold tile
specifications for component transformation
- CompTransfSpec(int, int, byte) - Constructor for class jj2000.j2k.image.CompTransfSpec
-
Constructs an empty 'CompTransfSpec' with specified number of
tile and components.
- computeAxisLengths() - Method in class loci.formats.FileStitcher
-
Computes axis length arrays, and total axis lengths.
- computeIndices(int) - Method in class loci.formats.FileStitcher
-
Gets the file index, and image index into that file,
corresponding to the given global image index.
- computeLength(ColorModel) - Static method in class com.sun.media.imageioimpl.plugins.jpeg2000.ChannelDefinitionBox
-
Computes the length of this box from the provided
ColorModel
.
- computeLength(byte, ICC_Profile) - Static method in class com.sun.media.imageioimpl.plugins.jpeg2000.ColorSpecificationBox
-
Computes the length of this box when profile is present.
- computeLength(IndexColorModel) - Static method in class com.sun.media.imageioimpl.plugins.jpeg2000.PaletteBox
-
Compute the length of this box.
- computeLength(IIOMetadataNode) - Method in class jj2000.j2k.fileformat.writer.FileFormatWriter
-
- computeNameAndLocation() - Method in class loci.plugins.in.ImportProcess
-
Initializes the idName and idLoc derived values.
- computePhysicalSize(int, String, String) - Method in class loci.formats.in.VarianFDFReader
-
Return the physical size of a pixel, in microns, along an arbitrary axis
based on the supplied physical and pixel lengths of the axis.
- computeRegions(Rectangle, Dimension, ImageWriteParam) - Static method in class com.sun.media.imageioimpl.plugins.gif.GIFImageWriter
-
Compute the source region and destination dimensions taking any
parameter settings into account.
- computeRegionsWrapper(ImageReadParam, boolean, int, int, BufferedImage, Rectangle, Rectangle) - Static method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageReader
-
Wrapper for the protected method computeRegions
.
- computeRegionsWrapper(ImageReadParam, int, int, BufferedImage, Rectangle, Rectangle) - Static method in class com.sun.media.imageioimpl.plugins.raw.RawImageReader
-
Wrapper for the protected method computeRegions
.
- computeSeriesLabels(IFormatReader) - Method in class loci.plugins.in.ImportProcess
-
- computeSizeT(int) - Method in class loci.formats.in.PrairieReader
-
Scans the parsed metadata to determine the number of actual time points
versus the number of actual stage positions.
- computeVariableTimeInterval(IMetadata, int) - Method in class loci.plugins.in.Calibrator
-
- compW - Variable in class jj2000.j2k.image.Tiler
-
The component width in the current active tile, for each component
- compWidth - Variable in class jj2000.j2k.codestream.HeaderInfo.SIZ
-
Component widths
- concatenate(List<ImagePlus>) - Method in class loci.plugins.in.Concatenator
-
Concatenates the list of images as appropriate.
- concatenate(List<ImagePlus>) - Method in class loci.plugins.in.ImagePlusReader
-
- concatenateBox - Variable in class loci.plugins.in.MainDialog
-
- concatenateTokens(String[], int, int) - Method in class loci.formats.in.ICSReader
-
- Concatenator - Class in loci.plugins.in
-
Logic for concatenating multiple images together.
- Concatenator() - Constructor for class loci.plugins.in.Concatenator
-
- conceal(DataBlk, int) - Method in class jj2000.j2k.entropy.decoder.StdEntropyDecoder
-
Conceals decoding errors detected in the last bit-plane.
- CONCURRENCY_PROP_NAME - Static variable in class jj2000.j2k.util.ThreadPool
-
The name of the property that sets the concurrency level:
jj2000.j2k.util.ThreadPool.concurrency
- config - Variable in class loci.formats.in.PrairieMetadata
-
Key/value pairs from CFG and/or ENV files.
- ConfigWindow - Class in loci.plugins.config
-
A window for managing configuration of the Bio-Formats plugins.
- ConfigWindow() - Constructor for class loci.plugins.config.ConfigWindow
-
- confirmFileType() - Method in class jj2000.j2k.image.input.ImgReaderPGM
-
Checks that the RandomAccessIO begins with 'P5'
- ConsecutiveBadFaxLines() - Constructor for class com.sun.media.imageio.plugins.tiff.FaxTIFFTagSet.ConsecutiveBadFaxLines
-
- constructDialog() - Method in class loci.plugins.in.ColorDialog
-
- constructDialog() - Method in class loci.plugins.in.CropDialog
-
- constructDialog() - Method in class loci.plugins.in.FilePatternDialog
-
- constructDialog() - Method in class loci.plugins.in.IdDialog
-
- constructDialog() - Method in class loci.plugins.in.ImporterDialog
-
- constructDialog() - Method in class loci.plugins.in.LocationDialog
-
- constructDialog() - Method in class loci.plugins.in.MainDialog
-
- constructDialog() - Method in class loci.plugins.in.MemoryDialog
-
- constructDialog() - Method in class loci.plugins.in.RangeDialog
-
- constructDialog() - Method in class loci.plugins.in.SeriesDialog
-
- constructDialog() - Method in class loci.plugins.in.SwapDialog
-
- constructDialog() - Method in class loci.plugins.in.UpgradeDialog
-
- constructImage(int, int, int, int, boolean, boolean, DataBuffer) - Static method in class loci.formats.gui.AWTImageTools
-
Creates an image with the given DataBuffer.
- constructImage(int, int, int, int, boolean, boolean, DataBuffer, ColorModel) - Static method in class loci.formats.gui.AWTImageTools
-
Creates an image with the given DataBuffer.
- constructImageTitle(IFormatReader, String, String, boolean) - Method in class loci.plugins.in.ImagePlusReader
-
- constructLoader() - Static method in class loci.formats.gui.LegacyQTTools
-
- constructSliceLabel(int, IFormatReader, IMetadata, int, int, int, int) - Method in class loci.plugins.in.ImagePlusReader
-
- consumer - Variable in class loci.formats.codec.JPEGTileDecoder
-
- CONTAINER_TYPES - Static variable in class loci.formats.in.NativeQTReader
-
List of identifiers for each container atom.
- ContainerRecord(String, int, long, int) - Constructor for class loci.formats.in.IM3Reader.ContainerRecord
-
- containsTIFFField(int) - Method in class com.sun.media.imageio.plugins.tiff.TIFFDirectory
-
Determines whether a TIFF field with the given tag number is
contained in this directory.
- contentFileType - Variable in class loci.formats.in.ZeissCZIReader.AttachmentEntry
-
- contentGUID - Variable in class loci.formats.in.ZeissCZIReader.AttachmentEntry
-
- contents - Static variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageReaderResources
-
- contents - Static variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageWriterResources
-
- contents - Static variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KMetadataFormatResources
-
- contents - Static variable in class com.sun.media.imageioimpl.plugins.pnm.PNMMetadataFormatResources
-
- contents - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageMetadataFormatResources
-
- contents - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFStreamMetadataFormatResources
-
- Context() - Constructor for enum loci.formats.in.BaseZeissReader.Context
-
- context - Variable in class loci.formats.in.BaseZeissReader.Tag
-
- CONTIGUOUS_CODESTREAM_BOX - Static variable in interface jj2000.j2k.fileformat.FileFormatBoxes
-
- Contrast() - Constructor for class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet.Contrast
-
- CONTRAST - Static variable in class loci.formats.in.CellSensReader
-
- CONTRAST - Static variable in class loci.formats.tiff.IFD
-
- CONTRAST_BRIGHTNESS - Static variable in class loci.formats.in.CellSensReader
-
- CONTRAST_HARD - Static variable in class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet
-
A value to be used with the "Contrast" tag.
- CONTRAST_NORMAL - Static variable in class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet
-
A value to be used with the "Contrast" tag.
- CONTRAST_SOFT - Static variable in class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet
-
A value to be used with the "Contrast" tag.
- CONTRAST_TARGET - Static variable in class loci.formats.in.CellSensReader
-
- convert(String, String) - Static method in class loci.formats.FormatTools
-
Convenience method for converting the specified input file to the
specified output file.
- convert(IFormatReader, IFormatWriter, String) - Static method in class loci.formats.FormatTools
-
Convenience method for writing all of the images and metadata obtained
from the specified IFormatReader into the specified IFormatWriter.
- convert - Variable in class loci.formats.gui.DataConverter
-
- converter - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KReadState
-
- converter2 - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KReadState
-
- convertFactor - Variable in class jj2000.j2k.wavelet.analysis.CBlkWTData
-
The value by which the absolute value of the data has to be divided in
order to get the real absolute value.
- convertFromExpMantissa(int) - Static method in class jj2000.j2k.quantization.quantizer.StdQuantizer
-
Converts the exponent-mantissa representation to its floating-point
value.
- convertImageMetadata(IIOMetadata, ImageTypeSpecifier, ImageWriteParam) - Method in class com.sun.media.imageioimpl.plugins.bmp.BMPImageWriter
-
- convertImageMetadata(IIOMetadata, ImageTypeSpecifier, ImageWriteParam) - Method in class com.sun.media.imageioimpl.plugins.gif.GIFImageWriter
-
Creates a default image metadata object and merges in the
supplied metadata.
- convertImageMetadata(IIOMetadata, ImageTypeSpecifier, ImageWriteParam) - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageWriter
-
- convertImageMetadata(IIOMetadata, ImageTypeSpecifier, ImageWriteParam) - Method in class com.sun.media.imageioimpl.plugins.pcx.PCXImageWriter
-
- convertImageMetadata(IIOMetadata, ImageTypeSpecifier, ImageWriteParam) - Method in class com.sun.media.imageioimpl.plugins.pnm.PNMImageWriter
-
- convertImageMetadata(IIOMetadata, ImageTypeSpecifier, ImageWriteParam) - Method in class com.sun.media.imageioimpl.plugins.raw.RawImageWriter
-
- convertImageMetadata(IIOMetadata, ImageTypeSpecifier, ImageWriteParam) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriter
-
- convertImageMetadata(IIOMetadata, ImageTypeSpecifier, ImageWriteParam) - Method in class com.sun.media.imageioimpl.plugins.wbmp.WBMPImageWriter
-
- convertMetadata(String, IIOMetadata, IIOMetadata) - Method in class com.sun.media.imageioimpl.plugins.gif.GIFImageWriter
-
Merges inData
into outData
.
- convertMetadata(MetadataRetrieve, MetadataStore) - Static method in class loci.formats.meta.MetadataConverter
-
Deprecated.
Copies information from a metadata retrieval object
(source) into a metadata store (destination).
- convertMetadata(String, MetadataStore) - Method in interface loci.formats.services.OMEXMLService
-
Converts information from an OME-XML string (source)
into a metadata store (destination).
- convertMetadata(MetadataRetrieve, MetadataStore) - Method in interface loci.formats.services.OMEXMLService
-
Copies information from a metadata retrieval object
(source) into a metadata store (destination).
- convertMetadata(String, MetadataStore) - Method in class loci.formats.services.OMEXMLServiceImpl
-
- convertMetadata(MetadataRetrieve, MetadataStore) - Method in class loci.formats.services.OMEXMLServiceImpl
-
- convertNativeImageMetadata(IIOMetadata) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriter
-
Converts a native
com_sun_media_imageio_plugins_tiff_image_1.0
tree to a
TIFFImageMetadata
object.
- convertObjectToString(Object) - Static method in class com.sun.media.imageioimpl.common.ImageUtil
-
Converts the provided object to String
- convertPixelType(int) - Method in class loci.formats.in.CellSensReader
-
- convertPixelType(int) - Method in class loci.formats.in.JPEG2000MetadataParser
-
- convertPixelType(int) - Method in class loci.formats.in.TillVisionReader
-
- convertPixelType(int) - Method in class loci.formats.in.ZeissCZIReader
-
- convertPixelType(CoreMetadata, int) - Method in class loci.formats.in.ZeissCZIReader
-
- convertRenderedImage(RenderedImage) - Static method in class loci.formats.gui.AWTImageTools
-
Converts a java.awt.image.RenderedImage into a
java.awt.image.BufferedImage.
- convertStandardImageMetadata(IIOMetadata) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriter
-
Converts a standard javax_imageio_1.0
tree to a
TIFFImageMetadata
object.
- convertStreamMetadata(IIOMetadata, ImageWriteParam) - Method in class com.sun.media.imageioimpl.plugins.bmp.BMPImageWriter
-
- convertStreamMetadata(IIOMetadata, ImageWriteParam) - Method in class com.sun.media.imageioimpl.plugins.gif.GIFImageWriter
-
Creates a default stream metadata object and merges in the
supplied metadata.
- convertStreamMetadata(IIOMetadata, ImageWriteParam) - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageWriter
-
- convertStreamMetadata(IIOMetadata, ImageWriteParam) - Method in class com.sun.media.imageioimpl.plugins.pcx.PCXImageWriter
-
- convertStreamMetadata(IIOMetadata, ImageWriteParam) - Method in class com.sun.media.imageioimpl.plugins.pnm.PNMImageWriter
-
- convertStreamMetadata(IIOMetadata, ImageWriteParam) - Method in class com.sun.media.imageioimpl.plugins.raw.RawImageWriter
-
- convertStreamMetadata(IIOMetadata, ImageWriteParam) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriter
-
- convertStreamMetadata(IIOMetadata, ImageWriteParam) - Method in class com.sun.media.imageioimpl.plugins.wbmp.WBMPImageWriter
-
- convertTo8Bit(short[][]) - Method in class loci.plugins.util.ImageProcessorReader
-
- convertToByte(boolean) - Method in class loci.plugins.util.RecordedImageProcessor
-
- convertToExpMantissa(float) - Static method in class jj2000.j2k.quantization.quantizer.StdQuantizer
-
Converts the floating point value to its exponent-mantissa
representation.
- convertToFloat() - Method in class loci.plugins.util.RecordedImageProcessor
-
- convertToRGB() - Method in class loci.plugins.util.RecordedImageProcessor
-
- convertToShort(boolean) - Method in class loci.plugins.util.RecordedImageProcessor
-
- convertUnits(String) - Method in class loci.formats.in.GatanReader
-
- convertUnits(int) - Method in class loci.formats.in.IMODReader
-
- convolve(float[], int, int) - Method in class loci.plugins.util.RecordedImageProcessor
-
- convolve3x3(int[]) - Method in class loci.plugins.util.RecordedImageProcessor
-
- COOKIE - Static variable in class loci.formats.in.IM3Reader
-
First 4 bytes of file is "1985"
- COOLING_ON - Static variable in class loci.formats.in.CellSensReader
-
- coordinate - Variable in class loci.formats.in.CellSensReader.TileCoordinate
-
- Coordinate(int, int, int) - Constructor for class loci.formats.in.ZeissCZIReader.Coordinate
-
- coordinates - Variable in class loci.formats.in.BaseZeissReader
-
- CoordInfo - Class in jj2000.j2k.codestream
-
This class is used to store the coordinates of objects such as code-blocks
or precincts.
- CoordInfo(int, int, int, int) - Constructor for class jj2000.j2k.codestream.CoordInfo
-
Constructor.
- CoordInfo() - Constructor for class jj2000.j2k.codestream.CoordInfo
-
Empty contructor
- copyBits(ImageProcessor, int, int, int) - Method in class loci.plugins.util.RecordedImageProcessor
-
- copyData(WritableRaster) - Method in class com.sun.media.imageioimpl.common.SimpleRenderedImage
-
Copies an arbitrary rectangular region of the RenderedImage
into a caller-supplied WritableRaster.
- copyData(WritableRaster) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFRenderedImage
-
- copyInt(byte[], int, int) - Static method in class com.sun.media.imageioimpl.plugins.jpeg2000.Box
-
Copies that four bytes of an integer into the byte array.
- copyPixels(int, int, int, int, int, int, byte[], byte[], boolean) - Method in class loci.formats.in.NativeND2Reader
-
- Copyright() - Constructor for class com.sun.media.imageio.plugins.tiff.BaselineTIFFTagSet.Copyright
-
- copyright - Static variable in class jj2000.j2k.JJ2KInfo
-
The copyright message string.
- COPYRIGHT - Static variable in class loci.formats.tiff.IFD
-
- copyScaled(BufferedImage, BufferedImage, Object) - Static method in class loci.formats.gui.AWTImageTools
-
Copies the source image into the target, applying scaling.
- core - Variable in class loci.formats.DimensionSwapper
-
Core metadata associated with this dimension swapper.
- core - Variable in class loci.formats.FileStitcher
-
Core metadata.
- core - Variable in class loci.formats.FormatReader
-
Core metadata values.
- core - Variable in class loci.formats.in.LeicaHandler
-
- core - Variable in class loci.formats.in.ND2Handler
-
- core - Variable in class loci.formats.in.VolocityReader.Stack
-
- coreIndex - Variable in class loci.formats.FileStitcher
-
The number of the current series.
- coreIndex - Variable in class loci.formats.FormatReader
-
The number of the current series.
- coreIndex - Variable in class loci.formats.in.ZeissCZIReader.SubBlock
-
- coreIndexToSeries(int) - Method in class loci.formats.FileStitcher
-
- coreIndexToSeries(int) - Method in class loci.formats.FormatReader
-
- coreIndexToSeries(int) - Method in interface loci.formats.IFormatReader
-
Returns the series corresponding to the specified core index.
- coreIndexToSeries(int) - Method in class loci.formats.ImageReader
-
- coreIndexToSeries(int) - Method in class loci.formats.in.FilePatternReader
-
- coreIndexToSeries(int) - Method in class loci.formats.ReaderWrapper
-
- CoreMetadata - Class in loci.formats
-
Encompasses core metadata values.
- CoreMetadata() - Constructor for class loci.formats.CoreMetadata
-
- CoreMetadata(IFormatReader, int) - Constructor for class loci.formats.CoreMetadata
-
- CoreMetadata(CoreMetadata) - Constructor for class loci.formats.CoreMetadata
-
- coreMetaData - Static variable in class loci.formats.in.SPEReader
-
- correction - Variable in class loci.formats.in.ND2Handler
-
- correction - Variable in class loci.formats.in.NikonTiffReader
-
- correction - Variable in class loci.formats.in.ZeissLSMReader.Recording
-
- correctionCollar - Variable in class loci.formats.in.ZeissCZIReader
-
- corrections - Variable in class loci.formats.in.LIFReader
-
- correctUnits(Double, String) - Method in class loci.formats.in.ColumbusReader
-
- CorruptedCodestreamException - Exception in jj2000.j2k.codestream
-
Thsi exception is thrown whenever an illegal value is read from a
bit stream.
- CorruptedCodestreamException() - Constructor for exception jj2000.j2k.codestream.CorruptedCodestreamException
-
Constructs a new CorruptedCodestreamException exception
with no detail message.
- CorruptedCodestreamException(String) - Constructor for exception jj2000.j2k.codestream.CorruptedCodestreamException
-
Constructs a new CorruptedCodestreamException exception
with the specified detail message.
- cortime - Variable in class loci.formats.in.SDTInfo
-
Correlation time [ms].
- count - Variable in class com.sun.media.imageio.plugins.tiff.TIFFField
-
The number of data items present in the field.
- count - Variable in class jj2000.j2k.entropy.decoder.ByteInputBuffer
-
The index one greater than the last valid character in the input
stream buffer
- count - Variable in class jj2000.j2k.entropy.encoder.ByteOutputBuffer
-
The number of valid bytes in the buffer
- count - Variable in class loci.formats.in.LeicaHandler
-
- count() - Method in class loci.formats.in.LeicaSCNReader.LeicaSCNHandler
-
- count - Variable in class loci.formats.in.ZeissTIFFHandler.TagSet
-
- countBits(int) - Method in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
-
- countedByteRead() - Method in class jj2000.j2k.image.input.ImgReaderPGM
-
Returns a byte read from the RandomAccessIO.
- COUNTER_CLOCKWISE - Static variable in class loci.formats.in.FluoviewReader
-
- countImages() - Method in class loci.formats.in.BaseZeissReader
-
- countImages() - Method in class loci.formats.in.ZeissTIFFReader
-
- countImages() - Method in class loci.formats.in.ZeissZVIReader
-
- cqcc - Variable in class jj2000.j2k.codestream.HeaderInfo.QCC
-
- cQuit - Variable in class jj2000.j2k.codestream.reader.PktDecoder
-
The component in which the ncb quit condition was reached
- crc(byte[]) - Method in class loci.formats.out.APNGWriter
-
- crc(byte[], int, int) - Method in class loci.formats.out.APNGWriter
-
- createAngle(Double, Unit<Angle>) - Static method in class loci.formats.FormatTools
-
- createAngle(Integer, Unit<Angle>) - Static method in class loci.formats.FormatTools
-
- createAngle(T, Unit<Angle>) - Static method in class loci.formats.FormatTools
-
- createArrayForType(int, int) - Static method in class com.sun.media.imageio.plugins.tiff.TIFFField
-
Creates an array appropriate for the indicated data type.
- createBaseReader() - Method in class loci.plugins.in.ImportProcess
-
Initializes an
IFormatReader
according to the current configuration.
- createBitsPerComponentBoxFromStandardNode(Node) - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KMetadata
-
- createBox(int, Node) - Static method in class com.sun.media.imageioimpl.plugins.jpeg2000.Box
-
Creates a Box
object with the provided type
based on the provided Node object based on reflection.
- createChannelDefinitionFromStandardNode(Node) - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KMetadata
-
- createChannelPriorities() - Static method in class loci.formats.in.LIFReader
-
- createCodec(boolean) - Method in class loci.formats.in.NativeND2Reader
-
- createColorModel(SampleModel) - Static method in class com.sun.media.imageioimpl.common.ImageUtil
-
Creates a ColorModel
that may be used with the
specified SampleModel
.
- createColorModel(ColorSpace, SampleModel) - Static method in class com.sun.media.imageioimpl.common.ImageUtil
-
- createColorModel() - Method in class loci.plugins.util.ImageProcessorReader
-
- createColorSpecificationBoxFromStandardNode(Node) - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KMetadata
-
- createColorTable(ColorModel, SampleModel) - Static method in class com.sun.media.imageioimpl.plugins.gif.GIFImageWriter
-
Create a color table from the image ColorModel and SampleModel.
- createCompatibleWritableRaster(int, int) - Method in class loci.formats.gui.Index16ColorModel
-
- createCompatibleWritableRaster(int, int) - Method in class loci.formats.gui.SignedColorModel
-
- createCompatibleWritableRaster(int, int) - Method in class loci.formats.gui.UnsignedIntColorModel
-
- createComponentCM(ColorSpace, int, int, boolean, boolean) - Static method in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
Create a ComponentColorModel
for use in creating
an ImageTypeSpecifier
.
- created - Variable in class loci.formats.out.QTWriter
-
Time the file was created.
- createDecoder(short[], int, int) - Method in class loci.formats.codec.HuffmanCodec.Decoder
-
- createDecoder(HuffmanCodec.Decoder, short[], int, int) - Method in class loci.formats.codec.HuffmanCodec.Decoder
-
- createDequantizer(CBlkQuantDataSrcDec, int[], DecoderSpecs) - Method in class jj2000.j2k.codestream.reader.HeaderDecoder
-
Returns the dequantizer parameters.
- createElectricPotential(Double, Unit<ElectricPotential>) - Static method in class loci.formats.FormatTools
-
- createElectricPotential(Integer, Unit<ElectricPotential>) - Static method in class loci.formats.FormatTools
-
- createElectricPotential(T, Unit<ElectricPotential>) - Static method in class loci.formats.FormatTools
-
- createEntropyDecoder(CodedCBlkDataSrcDec, J2KImageReadParamJava) - Method in class jj2000.j2k.codestream.reader.HeaderDecoder
-
Creates and returns the entropy decoder corresponding to the
information read from the codestream header and with the special
additional parameters from the parameter list.
- createFileInfo() - Method in class loci.plugins.in.ImagePlusReader
-
- createFrequency(Double, Unit<Frequency>) - Static method in class loci.formats.FormatTools
-
- createFrequency(Integer, Unit<Frequency>) - Static method in class loci.formats.FormatTools
-
- createFrequency(T, Unit<Frequency>) - Static method in class loci.formats.FormatTools
-
- createFromMetadata(IIOMetadata) - Static method in class com.sun.media.imageio.plugins.tiff.TIFFDirectory
-
Creates a TIFFDirectory
instance from the contents of
an image metadata object.
- createFromMetadataNode(TIFFTagSet, Node) - Static method in class com.sun.media.imageio.plugins.tiff.TIFFField
-
Creates a TIFFField
from a TIFF native image
metadata node.
- createGroup(String) - Method in interface loci.formats.services.JHDFService
-
Writes an array as sub-slice into an existing HDF5 dataset
- createGroup(String) - Method in class loci.formats.services.JHDFServiceImpl
-
- createHeaderBoxFromStandardNode(Node, int) - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KMetadata
-
- createImage(String, List<ImageProcessor>) - Static method in class loci.plugins.in.ImagePlusReader
-
Creates an ImagePlus
from the given image processors.
- createImage(String, ImageStack, List<LUT>) - Static method in class loci.plugins.in.ImagePlusReader
-
Creates an ImagePlus
from the given image stack.
- createImage() - Method in class loci.plugins.util.RecordedImageProcessor
-
- createIndexColorModel(RenderedImage) - Static method in class com.sun.media.imageioimpl.common.PaletteBuilder
-
Creates an palette representing colors from given image
img
.
- createIndexedImage(RenderedImage) - Static method in class com.sun.media.imageioimpl.common.PaletteBuilder
-
Creates an image representing given image
src
using IndexColorModel.
- createIndexMap(int) - Method in class loci.formats.in.FakeReader
-
Creates a mapping between indices and color values.
- createInputStream() - Method in class loci.formats.out.TiffWriter
-
- createInputStreamInstance(Object, boolean, File) - Method in class com.sun.media.imageioimpl.stream.ChannelImageInputStreamSpi
-
- createInstance(RandomAccessIO, HeaderDecoder, J2KImageReadParamJava, DecoderSpecs, boolean, HeaderInfo) - Static method in class jj2000.j2k.codestream.reader.BitstreamReaderAgent
-
Creates a bit stream reader of the correct type that works on the
provided RandomAccessIO, with the special parameters from the parameter
list.
- createInstance(CBlkQuantDataSrcEnc, J2KImageWriteParamJava, CBlkSizeSpec, PrecinctSizeSpec, StringSpec, StringSpec, StringSpec, StringSpec, StringSpec, StringSpec, StringSpec) - Static method in class jj2000.j2k.entropy.encoder.EntropyCoder
-
Creates a EntropyCoder object for the appropriate entropy coding
parameters in the parameter list 'pl', and having 'src' as the source
of quantized data.
- createInstance(CodedCBlkDataSrcEnc, float, CodestreamWriter, J2KImageWriteParamJava) - Static method in class jj2000.j2k.entropy.encoder.PostCompRateAllocator
-
Creates a PostCompRateAllocator object for the appropriate rate
allocation parameters in the parameter list 'pl', having 'src' as the
source of entropy coded data, 'rate' as the target bitrate and 'bw' as
the bit stream writer object.
- createInstance(CBlkWTDataSrc, J2KImageWriteParamJava) - Static method in class jj2000.j2k.quantization.quantizer.Quantizer
-
Creates a Quantizer object for the appropriate type of quantization
specified in the options in the parameter list 'pl', and having 'src'
as the source of data to be quantized.
- createInstance(Quantizer, J2KImageWriteParamJava) - Static method in class jj2000.j2k.roi.encoder.ROIScaler
-
Creates a ROIScaler object.
- createInstance(CBlkQuantDataSrcDec, J2KImageReadParamJava, DecoderSpecs) - Static method in class jj2000.j2k.roi.ROIDeScaler
-
Creates a ROIDeScaler object.
- createInstance(BlkImgDataSrc, J2KImageWriteParamJava) - Static method in class jj2000.j2k.wavelet.analysis.ForwardWT
-
Creates a ForwardWT object with the specified filters, and with other
options specified in the parameter list 'pl'.
- createInstance(CBlkWTDataSrcDec, DecoderSpecs) - Static method in class jj2000.j2k.wavelet.synthesis.InverseWT
-
Creates an InverseWT object that works on the data type of the source,
with the special additional parameters from the parameter
list.
- createInterleavedSM(int, int) - Static method in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
Create a PixelInterleavedSampleModel
for use in creating
an ImageTypeSpecifier
.
- createKeys() - Static method in class loci.formats.in.ZeissLSMReader
-
- createLargePalette(ColorModel) - Method in class com.sun.media.imageioimpl.plugins.pcx.PCXImageWriter
-
- createLength(Double, Unit<Length>) - Static method in class loci.formats.FormatTools
-
- createLength(Integer, Unit<Length>) - Static method in class loci.formats.FormatTools
-
- createLength(T, Unit<Length>) - Static method in class loci.formats.FormatTools
-
- createLSID(String, int...) - Static method in class loci.formats.MetadataTools
-
Constructs an LSID, given the object type and indices.
- createMask(int[], int) - Static method in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
- createMetadata(String, CoreMetadata) - Method in class loci.formats.tools.MakeTestOmeTiff
-
- createModulo(OMEXMLMetadata, Modulo, StructuredAnnotations, Image, int, int, int) - Method in class loci.formats.services.OMEXMLServiceImpl
-
Create a ModuloAlong* annotation corresponding to the given
Modulo
.
- createNodeIntoTree(IIOMetadataNode, String) - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KMetadata
-
- createOMEXMLMetadata() - Static method in class loci.formats.MetadataTools
-
Creates an OME-XML metadata object using reflection, to avoid
direct dependencies on the optional
loci.formats.ome
package.
- createOMEXMLMetadata() - Method in interface loci.formats.services.OMEXMLService
-
Creates an OME-XML metadata object using reflection, to avoid
direct dependencies on the optional
loci.formats.ome
package.
- createOMEXMLMetadata(String) - Method in interface loci.formats.services.OMEXMLService
-
Creates an OME-XML metadata object using reflection, to avoid
direct dependencies on the optional
loci.formats.ome
package,
wrapping a DOM representation of the given OME-XML string.
- createOMEXMLMetadata(String, String) - Method in interface loci.formats.services.OMEXMLService
-
Creates an OME-XML metadata object using reflection, to avoid
direct dependencies on the optional
loci.formats.ome
package,
wrapping a DOM representation of the given OME-XML string.
- createOMEXMLMetadata() - Method in class loci.formats.services.OMEXMLServiceImpl
-
- createOMEXMLMetadata(String) - Method in class loci.formats.services.OMEXMLServiceImpl
-
- createOMEXMLMetadata(String, String) - Method in class loci.formats.services.OMEXMLServiceImpl
-
- createOMEXMLRoot(String) - Method in interface loci.formats.services.OMEXMLService
-
Constructs an OME root node.
- createOMEXMLRoot(String) - Method in class loci.formats.services.OMEXMLServiceImpl
-
- createOutputStream() - Method in class loci.formats.FormatWriter
-
- createOutputStreamInstance(Object, boolean, File) - Method in class com.sun.media.imageioimpl.stream.ChannelImageOutputStreamSpi
-
- createPaletteBoxFromStandardNode(Node) - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KMetadata
-
- createPlane(String, CoreMetadata, int) - Method in class loci.formats.tools.MakeTestOmeTiff
-
- createPower(Double, Unit<Power>) - Static method in class loci.formats.FormatTools
-
- createPower(Integer, Unit<Power>) - Static method in class loci.formats.FormatTools
-
- createPower(T, Unit<Power>) - Static method in class loci.formats.FormatTools
-
- createPressure(Double, Unit<Pressure>) - Static method in class loci.formats.FormatTools
-
- createPressure(Integer, Unit<Pressure>) - Static method in class loci.formats.FormatTools
-
- createPressure(T, Unit<Pressure>) - Static method in class loci.formats.FormatTools
-
- createProcessor(int, int) - Method in class loci.plugins.util.RecordedImageProcessor
-
- createRawImage() - Method in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
Creates a BufferedImage
whose underlying data
array will be suitable for holding the raw decoded output of
the decodeRaw
method.
- createReaderInstance(Object) - Method in class com.sun.media.imageioimpl.plugins.bmp.BMPImageReaderSpi
-
- createReaderInstance(Object) - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageReaderSpi
-
- createReaderInstance(Object) - Method in class com.sun.media.imageioimpl.plugins.pcx.PCXImageReaderSpi
-
- createReaderInstance(Object) - Method in class com.sun.media.imageioimpl.plugins.pnm.PNMImageReaderSpi
-
- createReaderInstance(Object) - Method in class com.sun.media.imageioimpl.plugins.raw.RawImageReaderSpi
-
- createReaderInstance(Object) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageReaderSpi
-
- createReaderInstance(Object) - Method in class com.sun.media.imageioimpl.plugins.wbmp.WBMPImageReaderSpi
-
- createResolutionBoxFromStandardNode(Node) - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KMetadata
-
- createROIDeScaler(CBlkQuantDataSrcDec, J2KImageReadParamJava, DecoderSpecs) - Method in class jj2000.j2k.codestream.reader.HeaderDecoder
-
Creates and returns the ROIDeScaler corresponding to the information
read from the codestream header and with the special additional
parameters from the parameter list.
- createRoot(String) - Method in class loci.formats.services.OMEXMLServiceImpl
-
Constructs an OME root node.
- createSmallPalette(ColorModel) - Method in class com.sun.media.imageioimpl.plugins.pcx.PCXImageWriter
-
- createStack(List<ImageProcessor>, List<String>, List<LUT>) - Static method in class loci.plugins.in.ImagePlusReader
-
Creates an image stack from the given image processors.
- createSwatch(Color) - Method in class loci.plugins.in.ColorDialog
-
- createTemperature(Double, Unit<Temperature>) - Static method in class loci.formats.FormatTools
-
- createTemperature(Integer, Unit<Temperature>) - Static method in class loci.formats.FormatTools
-
- createTemperature(T, Unit<Temperature>) - Static method in class loci.formats.FormatTools
-
- createTiffSaver() - Method in class loci.formats.out.TiffWriter
-
- createTileParts() - Method in class jj2000.j2k.util.CodestreamManipulator
-
This method creates the tileparts from the buffered tile headers,
packet headers and packet data
- createTime(Double, Unit<Time>) - Static method in class loci.formats.FormatTools
-
- createTime(Integer, Unit<Time>) - Static method in class loci.formats.FormatTools
-
- createTime(T, Unit<Time>) - Static method in class loci.formats.FormatTools
-
- createVirtualStack(ImportProcess, int, List<LUT>) - Method in class loci.plugins.in.ImagePlusReader
-
- createWriter(String, CoreMetadata, String) - Method in class loci.formats.tools.MakeTestOmeTiff
-
- createWriterInstance(Object) - Method in class com.sun.media.imageioimpl.plugins.bmp.BMPImageWriterSpi
-
- createWriterInstance(Object) - Method in class com.sun.media.imageioimpl.plugins.gif.GIFImageWriterSpi
-
- createWriterInstance(Object) - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageWriterSpi
-
- createWriterInstance(Object) - Method in class com.sun.media.imageioimpl.plugins.pcx.PCXImageWriterSpi
-
- createWriterInstance(Object) - Method in class com.sun.media.imageioimpl.plugins.pnm.PNMImageWriterSpi
-
- createWriterInstance(Object) - Method in class com.sun.media.imageioimpl.plugins.raw.RawImageWriterSpi
-
- createWriterInstance(Object) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriterSpi
-
- createWriterInstance(Object) - Method in class com.sun.media.imageioimpl.plugins.wbmp.WBMPImageWriterSpi
-
- createXMLBoxFromStandardNode(Node) - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KMetadata
-
- CREATION_TIME - Static variable in class loci.formats.in.CellSensReader
-
- creationDate - Variable in class loci.formats.in.FV1000Reader
-
- creationDate - Variable in class loci.formats.in.ImaconReader
-
- creationDate - Variable in class loci.formats.in.InCellReader
-
- creationDate - Variable in class loci.formats.in.IvisionReader
-
- creationDate - Variable in class loci.formats.in.LeicaSCNReader.Image
-
- creationDate - Variable in class loci.formats.in.PCIReader
-
- CREATOR - Static variable in class loci.formats.FormatTools
-
Value to use when setting creator/software fields in exported files.
- CREATOR_TAG - Static variable in class loci.formats.in.ImaconReader
-
- crg - Variable in class jj2000.j2k.codestream.HeaderInfo
-
Reference to the CRG marker segment found in main header
- CRG() - Constructor for class jj2000.j2k.codestream.HeaderInfo.CRG
-
- CRG - Static variable in interface jj2000.j2k.codestream.Markers
-
Component registration (CRG): 0xFF63
- CRG_FOUND - Static variable in class jj2000.j2k.codestream.reader.HeaderDecoder
-
Flag bit for CRG marker segment found
- crgn - Variable in class jj2000.j2k.codestream.HeaderInfo.RGN
-
- crop() - Method in class loci.plugins.util.RecordedImageProcessor
-
- cropBox - Variable in class loci.plugins.in.MainDialog
-
- CropDialog - Class in loci.plugins.in
-
Bio-Formats Importer crop options dialog box.
- CropDialog(ImportProcess) - Constructor for class loci.plugins.in.CropDialog
-
Creates a crop options dialog for the Bio-Formats Importer.
- cropRegion - Variable in class loci.plugins.in.ImporterOptions
-
- crossChan - Variable in class loci.formats.in.SDTInfo
-
Cross FCS routing channel number
when chan = crossChan and mod == crossMod - Auto FCS
otherwise - Cross FCS.
- CrosshairStrategy - Class in loci.formats.cache
-
A crosshair strategy caches planes extending from the the current
dimensional position along each individual axis, but not combinations of
axes.
- CrosshairStrategy(int[]) - Constructor for class loci.formats.cache.CrosshairStrategy
-
Constructs a crosshair strategy.
- crossMod - Variable in class loci.formats.in.SDTInfo
-
Cross FCS module number.
- crossMtResol - Variable in class loci.formats.in.SDTInfo
-
Macro time clock of cross FCS module in 0.1 ns units.
- cs - Variable in class jj2000.j2k.entropy.Progression
-
Component index for the start of a progression
- CS - Static variable in class loci.formats.in.DicomReader
-
- CS_2C - Static variable in class loci.formats.gui.TwoChannelColorSpace
-
- CSB_APPROX - Static variable in interface jj2000.j2k.fileformat.FileFormatBoxes
-
- CSB_ENUM_GREY - Static variable in interface jj2000.j2k.fileformat.FileFormatBoxes
-
- CSB_ENUM_SRGB - Static variable in interface jj2000.j2k.fileformat.FileFormatBoxes
-
- CSB_ENUM_YCC - Static variable in interface jj2000.j2k.fileformat.FileFormatBoxes
-
- CSB_LENGTH - Static variable in class jj2000.j2k.fileformat.writer.FileFormatWriter
-
Length of Colour Specification Box
- CSB_METH - Static variable in interface jj2000.j2k.fileformat.FileFormatBoxes
-
Colour Specification Box Fields
- CSB_PREC - Static variable in interface jj2000.j2k.fileformat.FileFormatBoxes
-
- cScroll - Variable in class loci.plugins.util.DataBrowser
-
- csiz - Variable in class jj2000.j2k.codestream.HeaderInfo.SIZ
-
- cSlider - Variable in class loci.formats.gui.ImageViewer
-
- cSliders - Variable in class loci.plugins.util.DataBrowser
-
- cspoc - Variable in class jj2000.j2k.codestream.HeaderInfo.POC
-
- csRGB - Variable in class com.sun.media.imageioimpl.common.InvertedCMYKColorSpace
-
- csRGB - Variable in class com.sun.media.imageioimpl.common.SimpleCMYKColorSpace
-
- css - Variable in class jj2000.j2k.entropy.encoder.StdEntropyCoder
-
Causal stripes specifications
- cStep - Variable in class loci.plugins.in.ImporterOptions
-
- CSV_SUFFIX - Static variable in class loci.formats.in.PerkinElmerReader
-
- cT - Variable in class jj2000.j2k.entropy.decoder.MQDecoder
-
The bit code counter
- cT - Variable in class jj2000.j2k.entropy.encoder.MQCoder
-
The bit code counter
- ctp - Variable in class jj2000.j2k.codestream.reader.CBlkInfo
-
The cumulative number of truncation points
- cts - Variable in class jj2000.j2k.decoder.DecoderSpecs
-
The component transformation specifications
- cts - Variable in class jj2000.j2k.image.forwcomptransf.ForwCompTransf
-
The component transformations specifications
- cts - Variable in class jj2000.j2k.image.invcomptransf.InvCompTransf
-
The component transformations specifications
- cts - Variable in class jj2000.j2k.quantization.dequantizer.Dequantizer
-
The inverse component transformation specifications
- ctX - Variable in class jj2000.j2k.codestream.reader.BitstreamReaderAgent
-
The current tile horizontal index
- ctxtbufT - Variable in class jj2000.j2k.entropy.encoder.StdEntropyCoder
-
Buffer for the contexts to use when sending buffered symbols to the
MQ-coder, for each thread.
- ctY - Variable in class jj2000.j2k.codestream.reader.BitstreamReaderAgent
-
The current tile vertical index
- cType - Variable in class jj2000.j2k.fileformat.reader.FileFormatReader
-
- culx - Variable in class jj2000.j2k.codestream.reader.BitstreamReaderAgent
-
The horizontal coordinates of the upper-left corner of the active
tile, with respect to the canvas origin, in the component hi-res grid,
for each component.
- culy - Variable in class jj2000.j2k.codestream.reader.BitstreamReaderAgent
-
The vertical coordinates of the upper-left corner of the active tile,
with respect to the canvas origin, in the component hi-res grid, for
each component.
- curbyte - Variable in class jj2000.j2k.codestream.writer.BitOutputBuffer
-
The position of the current byte to write
- curCycle - Variable in class loci.formats.in.SDTInfo
-
Current cycle (accumulation cycle in FLOW mode) -
(if multi-cycle measurement).
- curPage - Variable in class loci.formats.in.SDTInfo
-
Current measured page.
- currChangingElems - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxDecompressor
-
- current - Variable in class loci.formats.ImageReader
-
Current form index.
- current - Variable in class loci.formats.ImageWriter
-
Current form index.
- current_layer - Variable in class loci.formats.in.ZeissTIFFHandler
-
- current_scaling - Variable in class loci.formats.in.ZeissTIFFHandler
-
- current_shape - Variable in class loci.formats.in.ZeissTIFFHandler
-
- current_tag - Variable in class loci.formats.in.ZeissTIFFHandler
-
- current_tagset - Variable in class loci.formats.in.ZeissTIFFHandler
-
- currentBit - Variable in class loci.formats.codec.BitBuffer
-
Deprecated.
- currentBlock - Variable in class loci.formats.in.APNGReader.PNGInputStream
-
- currentBlock - Variable in class loci.formats.in.PQBinReader
-
Block of time bins currently stored for faster loading.
- currentBlock - Variable in class loci.formats.in.SDTReader
-
Block of time bins currently stored for faster loading.
- currentByte - Variable in class loci.formats.codec.BitBuffer
-
Deprecated.
- currentCol - Variable in class loci.formats.in.InCellReader.InCellHandler
-
- currentElement - Variable in class loci.formats.in.AFIReader.AFIHandler
-
- currentElement - Variable in class loci.formats.in.IvisionReader.IvisionHandler
-
- currentField - Variable in class loci.formats.in.InCellReader.InCellHandler
-
- currentFile - Variable in class loci.formats.services.JHDFServiceImpl
-
- currentFile - Variable in class loci.formats.services.NetCDFServiceImpl
-
- currentFragment - Variable in class loci.formats.out.OMEXMLWriter
-
- currentFrame - Variable in class loci.formats.in.SPCReader
-
- currentIcsId - Variable in class loci.formats.in.ICSReader
-
Current filename.
- currentId - Variable in class loci.formats.FormatHandler
-
Name of current file.
- currentId - Variable in class loci.formats.ImageReader
-
Name of current file.
- currentId - Variable in class loci.formats.ImageWriter
-
Name of current file.
- currentIdsId - Variable in class loci.formats.in.ICSReader
-
- currentImage - Variable in class loci.formats.in.InCellReader.InCellHandler
-
- currentImage - Variable in class loci.formats.in.LeicaSCNReader.LeicaSCNHandler
-
- currentImageFile - Variable in class loci.formats.in.InCellReader.MinimalInCellHandler
-
- currentInflatedFrame - Variable in class loci.formats.in.OBFReader
-
- currentLine - Variable in class loci.formats.in.SPCReader
-
- currentName - Variable in class loci.formats.in.ColumbusReader.MeasurementHandler
-
- currentName - Variable in class loci.formats.in.OperettaReader.OperettaHandler
-
- currentNo - Variable in class loci.formats.in.AmiraReader.HxRLE
-
- currentNo - Variable in class loci.formats.in.AmiraReader.HxZip
-
- currentPixel - Variable in class loci.formats.in.SPCReader
-
- currentPlane - Variable in class loci.formats.in.InCellReader.InCellHandler
-
- currentPos - Variable in class loci.formats.cache.Cache
-
Current dimensional position.
- currentProcessor - Variable in class loci.plugins.util.BFVirtualStack
-
- currentQName - Variable in class loci.formats.in.InCellReader.InCellHandler
-
- currentQName - Variable in class loci.formats.in.OMEXMLReader.OMEXMLHandler
-
- currentRow - Variable in class loci.formats.in.InCellReader.InCellHandler
-
- currentSlice - Variable in class loci.plugins.util.BFVirtualStack
-
- currentSubband - Variable in class jj2000.j2k.wavelet.analysis.ForwWTFull
-
The subband being dealt with in each component
- currentThumbnail - Variable in class loci.formats.in.InCellReader.MinimalInCellHandler
-
- currentTile - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KRenderedImage
-
- currentTile - Variable in class com.sun.media.imageioimpl.plugins.raw.RawRenderedImage
-
- currentTileGrid - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KRenderedImage
-
- currentTileGrid - Variable in class com.sun.media.imageioimpl.plugins.raw.RawRenderedImage
-
- currentValue - Variable in class loci.formats.in.ColumbusReader.MeasurementHandler
-
- currentValue - Variable in class loci.formats.in.OperettaReader.OperettaHandler
-
- currentValue - Variable in class loci.formats.in.ScanrReader.ScanrHandler
-
- currIndex - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageReader
-
- currLevel - Variable in class com.sun.media.imageioimpl.common.PaletteBuilder
-
- currSize - Variable in class com.sun.media.imageioimpl.common.PaletteBuilder
-
- curStep - Variable in class loci.formats.in.SDTInfo
-
Current step (if multi-step measurement).
- curTilePart - Variable in class jj2000.j2k.codestream.reader.FileBitstreamReaderAgent
-
The current tile part being used
- curve - Variable in class loci.formats.codec.NikonCodecOptions
-
- CURVE - Static variable in class loci.formats.in.NikonReader
-
- curve - Variable in class loci.formats.in.NikonReader
-
- CUSTOM - Static variable in interface jj2000.j2k.wavelet.FilterTypes
-
User-defined filter: -1
- CUSTOM_BITS - Static variable in class loci.formats.in.SimplePCITiffReader
-
- CUSTOM_GRAYSCALE - Static variable in class loci.formats.in.CellSensReader
-
- CUSTOM_RENDERED - Static variable in class loci.formats.tiff.IFD
-
- CUSTOM_RENDERED_CUSTOM - Static variable in class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet
-
A value to be used with the "CustomRendered" tag.
- CUSTOM_RENDERED_NORMAL - Static variable in class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet
-
A value to be used with the "CustomRendered" tag.
- customColors - Variable in class loci.plugins.in.ImporterOptions
-
- customFilter(ShortBuffer, Rectangle, Rectangle, int, int, TJTransform) - Method in interface org.libjpegturbo.turbojpeg.TJCustomFilter
-
A callback function that can be used to modify the DCT coefficients after
they are losslessly transformed but before they are transcoded to a new
JPEG file.
- CustomRendered() - Constructor for class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet.CustomRendered
-
- cutIn - Variable in class loci.formats.in.LeicaHandler.MultiBand
-
- cutInPopulated - Variable in class loci.formats.in.LeicaReader
-
- cutIns - Variable in class loci.formats.in.LIFReader
-
- cutOut - Variable in class loci.formats.in.LeicaHandler.MultiBand
-
- cutOutPopulated - Variable in class loci.formats.in.LeicaReader
-
- cutOuts - Variable in class loci.formats.in.LIFReader
-
- cycle - Variable in class loci.formats.in.PrairieMetadata.Sequence
-
cycle
of this <Sequence>
.
- cycleMax - Variable in class loci.formats.in.PrairieMetadata
-
Maximum cycle value.
- cycleMin - Variable in class loci.formats.in.PrairieMetadata
-
Minimum cycle value.
- cycles - Variable in class loci.formats.in.SDTInfo
-
Cycles (accumulation cycles in FLOW mode).
- CYTELL_MAGIC_STRING - Static variable in class loci.formats.in.InCellReader
-
- CZI_MAGIC_STRING - Static variable in class loci.formats.in.ZeissCZIReader
-
- d(String) - Method in class loci.formats.in.PrairieMetadata
-
Converts the given string to a
Double
, or
null
if
incompatible.
- DA - Static variable in class loci.formats.in.DicomReader
-
- DAC - Static variable in class loci.formats.codec.LosslessJPEGCodec
-
- DAILY - Static variable in class loci.plugins.Updater
-
- DAILY_BUILD - Static variable in class loci.formats.UpgradeChecker
-
Location of the JAR artifacts for Bio-Formats' daily build.
- data - Variable in class com.sun.media.imageio.plugins.tiff.TIFFField
-
The field data.
- data - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.Box
-
- data - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxDecompressor
-
- data - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFJPEGDecompressor
-
- data - Variable in class jj2000.j2k.entropy.CodedCBlk
-
The compressed data
- data - Variable in class jj2000.j2k.image.DataBlkFloat
-
The array where the data is stored
- data - Variable in class jj2000.j2k.image.DataBlkInt
-
The array where the data is stored
- data - Variable in class jj2000.j2k.wavelet.analysis.CBlkWTDataFloat
-
The array where the data is stored
- data - Variable in class jj2000.j2k.wavelet.analysis.CBlkWTDataInt
-
The array where the data is stored
- data - Variable in class loci.formats.codec.ByteVector
-
- data - Variable in class loci.formats.in.ICSReader
-
Image data.
- data - Variable in class loci.formats.in.IM3Reader
-
- data - Variable in class loci.formats.in.TextReader
-
Because we have no way of indexing into the text file efficiently
in general, we cheat and store the entire file's data in a giant array.
- DATA_CHANNEL_ACQUIRE - Static variable in class loci.formats.in.ZeissLSMReader
-
- DATA_CHANNEL_NAME - Static variable in class loci.formats.in.ZeissLSMReader
-
- DATA_DIR - Static variable in class loci.formats.in.VolocityReader
-
- DATA_IDENTIFIER - Static variable in class loci.formats.in.SDTInfo
-
For normal .sdt files (setup + data).
- DATA_SIGNATURE - Static variable in class loci.formats.out.AVIWriter
-
- DataBlk - Class in jj2000.j2k.image
-
This is a generic abstract class to store data from a block of an
image.
- DataBlk() - Constructor for class jj2000.j2k.image.DataBlk
-
- DataBlkFloat - Class in jj2000.j2k.image
-
This is an implementation of the DataBlk interface for
32 bit floating point data (float).
- DataBlkFloat() - Constructor for class jj2000.j2k.image.DataBlkFloat
-
Creates a DataBlkFloat with 0 dimensions and no data array
(i.e.
- DataBlkFloat(int, int, int, int) - Constructor for class jj2000.j2k.image.DataBlkFloat
-
Creates a DataBlkFloat with the specified dimensions and
position.
- DataBlkFloat(DataBlkFloat) - Constructor for class jj2000.j2k.image.DataBlkFloat
-
Copy constructor.
- DataBlkInt - Class in jj2000.j2k.image
-
This is an implementation of the DataBlk interface for
signed 32 bit integral data.
- DataBlkInt() - Constructor for class jj2000.j2k.image.DataBlkInt
-
Creates a DataBlkInt with 0 dimensions and no data array
(i.e.
- DataBlkInt(int, int, int, int) - Constructor for class jj2000.j2k.image.DataBlkInt
-
Creates a DataBlkInt with the specified dimensions and
position.
- DataBlkInt(DataBlkInt) - Constructor for class jj2000.j2k.image.DataBlkInt
-
Copy constructor.
- dataBlockLength - Variable in class loci.formats.in.SDTInfo
-
- dataBlockOffs - Variable in class loci.formats.in.SDTInfo
-
Offset of the first data block.
- dataBlocks - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KReadState
-
- DataBrowser - Class in loci.plugins.util
-
Extension of StackWindow with additional UI trimmings for animation,
virtual stack caching options, metadata, and general beautification.
- DataBrowser(ImagePlus) - Constructor for class loci.plugins.util.DataBrowser
-
- DataBrowser(ImagePlus, ImageCanvas, String[], int[]) - Constructor for class loci.plugins.util.DataBrowser
-
- DataBrowser(ImagePlus, ImageCanvas, String[], int[], XMLWindow) - Constructor for class loci.plugins.util.DataBrowser
-
- DataChannel() - Constructor for class loci.formats.in.ZeissLSMReader.DataChannel
-
- DataConverter - Class in loci.formats.gui
-
A utility for reorganizing and converting QuickTime movies,
TIFF series and other 4D datasets.
- DataConverter() - Constructor for class loci.formats.gui.DataConverter
-
- DataConverter.RowPanel - Class in loci.formats.gui
-
- DataEntryURLBox - Class in com.sun.media.imageioimpl.plugins.jpeg2000
-
This class is defined to represent a Data Entry URL Box of JPEG JP2
file format.
- DataEntryURLBox(byte[]) - Constructor for class com.sun.media.imageioimpl.plugins.jpeg2000.DataEntryURLBox
-
Constructs a DataEntryURLBox
from its content data.
- DataEntryURLBox(byte, byte[], String) - Constructor for class com.sun.media.imageioimpl.plugins.jpeg2000.DataEntryURLBox
-
Constructs a DataEntryURLBox
from its data elements.
- DataEntryURLBox(Node) - Constructor for class com.sun.media.imageioimpl.plugins.jpeg2000.DataEntryURLBox
-
Constructs a DataEntryURLBox
from a Node.
- dataFile - Variable in class loci.formats.in.NRRDReader
-
Name of data file, if the current extension is 'nhdr'.
- dataId - Variable in class loci.formats.in.OIRReader.Laser
-
- dataOffs - Variable in class loci.formats.in.SDTInfo
-
Offset of the data block from the beginning of the file.
- dataOffset - Variable in class loci.formats.in.LiFlimReader
-
Offset to start of pixel data.
- dataOffset - Variable in class loci.formats.in.ZeissCZIReader.Attachment
-
- dataOffset - Variable in class loci.formats.in.ZeissCZIReader.SubBlock
-
- dataPointers - Variable in class loci.formats.in.InveonReader
-
- datasetDescription - Variable in class loci.formats.FormatReader
-
Short description of the structure of the dataset.
- dataSets - Variable in class loci.formats.in.IM3Reader
-
- dataSize - Variable in class loci.formats.in.MRWReader
-
- dataSize - Variable in class loci.formats.in.ZeissCZIReader.Attachment
-
- dataSize - Variable in class loci.formats.in.ZeissCZIReader.SubBlock
-
- dataStore - Variable in class loci.formats.in.PQBinReader
-
- dataStore - Variable in class loci.formats.in.SDTReader
-
- dataType - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFAttrInfo
-
- datatype - Variable in class loci.formats.in.LiFlimReader
-
- DATATYPE_INT16 - Static variable in class loci.formats.in.LiFlimReader
-
- DATATYPE_INT32 - Static variable in class loci.formats.in.LiFlimReader
-
- DATATYPE_INT8 - Static variable in class loci.formats.in.LiFlimReader
-
- DATATYPE_KEY - Static variable in class loci.formats.in.LiFlimReader
-
- DATATYPE_REAL32 - Static variable in class loci.formats.in.LiFlimReader
-
- DATATYPE_REAL64 - Static variable in class loci.formats.in.LiFlimReader
-
- DATATYPE_UINT16 - Static variable in class loci.formats.in.LiFlimReader
-
- DATATYPE_UINT32 - Static variable in class loci.formats.in.LiFlimReader
-
- DATATYPE_UINT8 - Static variable in class loci.formats.in.LiFlimReader
-
- dataTypes - Variable in class com.sun.media.imageio.plugins.tiff.TIFFTag
-
- DATE - Static variable in class loci.formats.FormatTools
-
Date on which this release was built.
- DATE - Static variable in class loci.formats.in.CellSensReader
-
- date - Variable in class loci.formats.in.DicomReader
-
- date - Variable in class loci.formats.in.FEITiffReader
-
- date - Variable in class loci.formats.in.FluoviewReader
-
- date - Variable in class loci.formats.in.LEOReader
-
- date - Variable in class loci.formats.in.MetamorphHandler
-
- date - Variable in class loci.formats.in.ND2Handler
-
- date - Variable in class loci.formats.in.PrairieMetadata
-
The date of the acquisition.
- date - Variable in class loci.formats.in.QuesantReader
-
- date - Variable in class loci.formats.in.SDTInfo
-
Date of creation.
- date - Variable in class loci.formats.in.SimplePCITiffReader
-
- date - Variable in class loci.formats.in.SVSReader
-
- DATE_FORMAT - Static variable in class loci.formats.in.BrukerReader
-
- DATE_FORMAT - Static variable in class loci.formats.in.CellWorxReader
-
- DATE_FORMAT - Static variable in class loci.formats.in.DeltavisionReader
-
- DATE_FORMAT - Static variable in class loci.formats.in.FEITiffReader
-
- DATE_FORMAT - Static variable in class loci.formats.in.FluoviewReader
-
Date format
- DATE_FORMAT - Static variable in class loci.formats.in.FujiReader
-
- DATE_FORMAT - Static variable in class loci.formats.in.FV1000Reader
-
- DATE_FORMAT - Static variable in class loci.formats.in.GelReader
-
- DATE_FORMAT - Static variable in class loci.formats.in.HitachiReader
-
- DATE_FORMAT - Static variable in class loci.formats.in.IvisionReader
-
- DATE_FORMAT - Static variable in class loci.formats.in.KodakReader
-
- DATE_FORMAT - Static variable in class loci.formats.in.L2DReader
-
- DATE_FORMAT - Static variable in class loci.formats.in.LeicaReader
-
Format for dates.
- DATE_FORMAT - Static variable in class loci.formats.in.MetamorphTiffReader
-
- DATE_FORMAT - Static variable in class loci.formats.in.MicromanagerReader
-
- DATE_FORMAT - Static variable in class loci.formats.in.MolecularImagingReader
-
- DATE_FORMAT - Static variable in class loci.formats.in.ND2Handler
-
- DATE_FORMAT - Static variable in class loci.formats.in.PDSReader
-
- DATE_FORMAT - Static variable in class loci.formats.in.PerkinElmerReader
-
- DATE_FORMAT - Static variable in class loci.formats.in.PrairieReader
-
- DATE_FORMAT - Static variable in class loci.formats.in.SBIGReader
-
- DATE_FORMAT - Static variable in class loci.formats.in.SimplePCITiffReader
-
- DATE_FORMAT - Static variable in class loci.formats.in.SpiderReader
-
- DATE_FORMAT - Static variable in class loci.formats.in.SVSReader
-
- DATE_FORMAT - Static variable in class loci.formats.in.TCSReader
-
- DATE_FORMATS - Static variable in class loci.formats.in.BaseTiffReader
-
- DATE_FORMATS - Static variable in class loci.formats.in.DeltavisionReader
-
- DATE_FORMATS - Static variable in class loci.formats.in.ICSReader
-
- DATE_FORMATS - Static variable in class loci.formats.in.TillVisionReader
-
- DATE_TIME - Static variable in class loci.formats.tiff.IFD
-
- DATE_TIME_DIGITIZED - Static variable in class loci.formats.tiff.IFD
-
- DATE_TIME_FORMAT - Static variable in class loci.formats.in.GelReader
-
- DATE_TIME_ORIGINAL - Static variable in class loci.formats.tiff.IFD
-
- dates - Variable in class loci.formats.in.TillVisionReader
-
- datestamp - Variable in class loci.formats.in.TCSReader
-
- DateTime() - Constructor for class com.sun.media.imageio.plugins.tiff.BaselineTIFFTagSet.DateTime
-
- DateTimeDigitized() - Constructor for class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet.DateTimeDigitized
-
- DateTimeOriginal() - Constructor for class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet.DateTimeOriginal
-
- datFile - Variable in class loci.formats.in.InveonReader
-
- datFile - Variable in class loci.formats.in.UnisokuReader
-
- dbi - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.RenderedImageSrc
-
Data block used only to store coordinates of the buffered blocks
- dbi - Variable in class jj2000.j2k.image.invcomptransf.InvCompTransf
-
Data block used only to store coordinates and progressiveness
of the buffered blocks
- dBlock - Variable in class loci.formats.in.GIFReader
-
Current data block.
- DC_OFFSET - Static variable in class jj2000.j2k.image.input.ImgReaderPGM
-
DC offset value used when reading image
- dcOffset - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.RenderedImageSrc
-
- deadTimeComp - Variable in class loci.formats.in.SDTInfo
-
- DEBUG - Static variable in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
- DEBUG - Static variable in class com.sun.media.imageioimpl.plugins.gif.GIFImageWriter
-
- DEBUG - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFBaseJPEGCompressor
-
- DEBUG - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFDeflateDecompressor
-
- DEBUG - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageReader
-
- DEBUG - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriter
-
- DEBUG - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFJPEGCompressor
-
- DEBUG - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFJPEGDecompressor
-
- DEBUG - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFLZWDecompressor
-
- debug - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFLZWUtil
-
- DEBUG - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFNullDecompressor
-
- DEBUG - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFOldJPEGDecompressor
-
- DEBUG - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFPackBitsDecompressor
-
- debug - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFPackBitsUtil
-
- debug - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFYCbCrDecompressor
-
- debug(String) - Static method in class loci.plugins.BF
-
- DEC_SPEC_COMP_DEF - Static variable in class jj2000.j2k.wavelet.WTDecompSpec
-
The identifier for "component default" specified decomposition
- DEC_SPEC_MAIN_DEF - Static variable in class jj2000.j2k.wavelet.WTDecompSpec
-
The identifier for "main default" specified decomposition
- DEC_SPEC_TILE_COMP - Static variable in class jj2000.j2k.wavelet.WTDecompSpec
-
The identifier for "tile and component specific" specified
decomposition
- DEC_SPEC_TILE_DEF - Static variable in class jj2000.j2k.wavelet.WTDecompSpec
-
The identifier for "tile specific default" specified decomposition
- DecLyrdCBlk - Class in jj2000.j2k.entropy.decoder
-
This class stores coded (compressed) code-blocks that are organized
in layers.
- DecLyrdCBlk() - Constructor for class jj2000.j2k.entropy.decoder.DecLyrdCBlk
-
- decode() - Method in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
Decodes the input bit stream (located in the
ImageInputStream
stream
, at offset
offset
, and continuing for byteCount
bytes) into the output BufferedImage
image
.
- decode(byte[], int, byte[], int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFLZWDecompressor
-
- decode(byte[], int, int, int, int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFLZWUtil
-
- decode() - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFNullDecompressor
-
- decode(byte[], int, byte[], int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFPackBitsDecompressor
-
- decode(byte[]) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFPackBitsUtil
-
- decode(RandomAccessInputStream) - Method in class loci.formats.codec.HuffmanCodec.Decoder
-
- decode(APNGReader.PNGInputStream) - Method in class loci.formats.in.APNGReader
-
- decode(APNGReader.PNGInputStream, int, int) - Method in class loci.formats.in.APNGReader
-
- decode12BitCamera(byte[], int) - Method in class loci.formats.in.ZeissCZIReader
-
- decodeBlackCodeWord() - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxDecompressor
-
- decodeDate(int) - Static method in class loci.formats.in.MetamorphReader
-
Converts a Julian date value into a human-readable string.
- decodeImageData() - Method in class loci.formats.in.GIFReader
-
Decodes LZW image data into a pixel array.
- decodeNextScanline(int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxDecompressor
-
- Decoder() - Constructor for class loci.formats.codec.HuffmanCodec.Decoder
-
- Decoder(short[]) - Constructor for class loci.formats.codec.HuffmanCodec.Decoder
-
- decoder - Variable in class loci.formats.in.TileJPEGReader
-
- decodeRaw(byte[], int, int, int) - Method in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
Decodes the source data into the provided byte
array b
, starting at the offset given by
dstOffset
.
- decodeRaw(short[], int, int, int) - Method in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
Decodes the source data into the provided short
array s
, starting at the offset given by
dstOffset
.
- decodeRaw(int[], int, int, int) - Method in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
Decodes the source data into the provided int
array i
, starting at the offset given by
dstOffset
.
- decodeRaw(float[], int, int, int) - Method in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
Decodes the source data into the provided float
array f
, starting at the offset given by
dstOffset
.
- decodeRaw(byte[], int, int, int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFDeflateDecompressor
-
- decodeRaw(byte[], int, int, int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxDecompressor
-
- decodeRaw(byte[], int, int, int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFJPEGDecompressor
-
- decodeRaw(byte[], int, int, int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFLSBDecompressor
-
- decodeRaw(byte[], int, int, int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFLZWDecompressor
-
- decodeRaw(byte[], int, int, int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFNullDecompressor
-
- decodeRaw(byte[], int, int, int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFOldJPEGDecompressor
-
- decodeRaw(byte[], int, int, int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFPackBitsDecompressor
-
- decodeRaw(byte[], int, int, int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFYCbCrDecompressor
-
- decodeRLE() - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxDecompressor
-
- decodeRLE4(int, int, byte[], byte[]) - Method in class com.sun.media.imageioimpl.plugins.bmp.BMPImageReader
-
- decodeRLE8(int, int, byte[], byte[]) - Method in class com.sun.media.imageioimpl.plugins.bmp.BMPImageReader
-
- DecoderSpecs - Class in jj2000.j2k.decoder
-
This class holds references to each module specifications used in the
decoding chain.
- DecoderSpecs(int, int) - Constructor for class jj2000.j2k.decoder.DecoderSpecs
-
Initialize all members with the given number of tiles and components.
- decodeSymbol(int) - Method in class jj2000.j2k.entropy.decoder.MQDecoder
-
Arithmetically decodes one symbol from the bit stream with the given
context and returns its decoded value.
- decodeSymbols(int[], int[], int) - Method in class jj2000.j2k.entropy.decoder.MQDecoder
-
This function performs the arithmetic decoding.
- decodeT4() - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxDecompressor
-
- decodeT6() - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxDecompressor
-
- decodeTile(int, int, int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageReader
-
- decodeTile(int, int, int) - Method in class loci.formats.in.CellSensReader
-
- decodeTime(int) - Static method in class loci.formats.in.MetamorphReader
-
Converts a time value in milliseconds into a human-readable string.
- decodeToMemoryGray16(short[], int, int, int, int, int, int, int, int, int, int) - Method in interface loci.formats.services.LuraWaveService
-
Wraps lwfDecoder.decodeToMemoryGray16(short[], int, int, int, int, int, int, int, int, int, int)
.
- decodeToMemoryGray16(short[], int, int, int, int, int, int, int, int, int, int) - Method in class loci.formats.services.LuraWaveServiceImpl
-
- decodeToMemoryGray8(byte[], int, int, int) - Method in interface loci.formats.services.LuraWaveService
-
Wraps lwfDecoder.decodeToMemoryGray8(byte[], int, int, int)
.
- decodeToMemoryGray8(byte[], int, int, int) - Method in class loci.formats.services.LuraWaveServiceImpl
-
- decodeWhiteCodeWord() - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxDecompressor
-
- decodingRate - Variable in class com.sun.media.imageio.plugins.jpeg2000.J2KImageReadParam
-
Specifies the decoding rate in bits per pixel (bpp) where the
number of pixels is related to the image's original size
(Note: this number is not affected by resolution
).
- decomp(Subband, int, int, int) - Method in class jj2000.j2k.roi.encoder.ArbROIMaskGenerator
-
This function decomposes the mask for a node in the subband tree.
- decomposedComps - Variable in class jj2000.j2k.wavelet.analysis.ForwWTFull
-
Block storing the full band decomposition for each component.
- decompositionLevel - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageWriteParamJava
-
Specifies the number of wavelet decomposition levels to apply to
the image.
- DECOMPR_MASKS - Static variable in class loci.formats.codec.LZWCodec
-
Masks for reading bits in decompressor.
- decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.Base64Codec
-
- decompress(byte[]) - Method in class loci.formats.codec.BaseCodec
-
- decompress(byte[][]) - Method in class loci.formats.codec.BaseCodec
-
- decompress(byte[], CodecOptions) - Method in class loci.formats.codec.BaseCodec
-
- decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.BaseCodec
-
- decompress(byte[][], CodecOptions) - Method in class loci.formats.codec.BaseCodec
-
2D data block decoding default implementation.
- decompress(byte[], CodecOptions) - Method in interface loci.formats.codec.Codec
-
Decompresses a block of data.
- decompress(byte[][], CodecOptions) - Method in interface loci.formats.codec.Codec
-
Decompresses a block of data.
- decompress(byte[]) - Method in interface loci.formats.codec.Codec
-
Decompresses a block of data.
- decompress(byte[][]) - Method in interface loci.formats.codec.Codec
-
Decompresses a block of data.
- decompress(RandomAccessInputStream, CodecOptions) - Method in interface loci.formats.codec.Codec
-
Decompresses data from the given RandomAccessInputStream.
- decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.HuffmanCodec
-
- decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.JPEG2000Codec
-
- decompress(byte[], CodecOptions) - Method in class loci.formats.codec.JPEG2000Codec
-
- decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.JPEGCodec
-
- decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.JPEGXRCodec
-
- decompress(byte[], CodecOptions) - Method in class loci.formats.codec.JPEGXRCodec
-
The CodecOptions parameter should have the following fields set:
maxBytes
- decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.LosslessJPEGCodec
-
- decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.LuraWaveCodec
-
- decompress(byte[], CodecOptions) - Method in class loci.formats.codec.LuraWaveCodec
-
The CodecOptions parameter should have the following fields set:
maxBytes
- decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.LZOCodec
-
- decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.LZWCodec
-
The CodecOptions parameter should have the following fields set:
maxBytes
- decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.MJPBCodec
-
- decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.MSRLECodec
-
- decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.MSVideoCodec
-
- decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.NikonCodec
-
- decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.PackbitsCodec
-
The CodecOptions parameter should have the following fields set:
maxBytes
- decompress(byte[], CodecOptions) - Method in class loci.formats.codec.PassthroughCodec
-
- decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.PassthroughCodec
-
- decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.QTRLECodec
-
- decompress(byte[], CodecOptions) - Method in class loci.formats.codec.QTRLECodec
-
- decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.RPZACodec
-
The CodecOptions parameter should have the following fields set:
width
height
- decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.TargaRLECodec
-
- decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.ZlibCodec
-
- decompress(byte[]) - Method in interface loci.formats.services.JPEGXRService
-
Decompress the given JPEG-XR compressed byte array and return as a byte array.
- decompress(byte[]) - Method in class loci.formats.services.JPEGXRServiceImpl
-
- decompress(byte[], CodecOptions) - Method in enum loci.formats.tiff.TiffCompression
-
Decodes a strip of data.
- decompress(byte[], int, int, int, int, int) - Method in class org.libjpegturbo.turbojpeg.TJDecompressor
-
Decompress the JPEG source image associated with this decompressor
instance and output a decompressed image to the given destination buffer.
- decompress(int, int, int, int, int) - Method in class org.libjpegturbo.turbojpeg.TJDecompressor
-
Decompress the JPEG source image associated with this decompressor
instance and return a buffer containing the decompressed image.
- decompress(BufferedImage, int) - Method in class org.libjpegturbo.turbojpeg.TJDecompressor
-
Decompress the JPEG source image associated with this decompressor
instance and output a decompressed image to the given
BufferedImage
instance.
- decompress(int, int, int, int) - Method in class org.libjpegturbo.turbojpeg.TJDecompressor
-
Decompress the JPEG source image associated with this decompressor
instance and return a BufferedImage
instance containing the
decompressed image.
- decompress(byte[], int, byte[], int, int, int, int, int) - Method in class org.libjpegturbo.turbojpeg.TJDecompressor
-
- decompress(byte[], int, int[], int, int, int, int, int) - Method in class org.libjpegturbo.turbojpeg.TJDecompressor
-
- decompressHeader(byte[], int) - Method in class org.libjpegturbo.turbojpeg.TJDecompressor
-
- decompressor - Variable in class com.sun.media.imageio.plugins.tiff.TIFFImageReadParam
-
- decompressor - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageReader
-
- decompressor - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFYCbCrDecompressor
-
- decompressor - Variable in class loci.formats.in.AmiraReader.HxZip
-
- decompressToYUV(byte[], int) - Method in class org.libjpegturbo.turbojpeg.TJDecompressor
-
Decompress the JPEG source image associated with this decompressor
instance and output a YUV planar image to the given destination buffer.
- decompressToYUV(int) - Method in class org.libjpegturbo.turbojpeg.TJDecompressor
-
Decompress the JPEG source image associated with this decompressor
instance and return a buffer containing a YUV planar image.
- decompressToYUV(byte[], int, byte[], int) - Method in class org.libjpegturbo.turbojpeg.TJDecompressor
-
- deconvolutionLogFile - Variable in class loci.formats.in.DeltavisionReader
-
- decSpec - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KReadState
-
- decSpec - Variable in class jj2000.j2k.codestream.reader.BitstreamReaderAgent
-
The decoder specifications
- decSpec - Variable in class jj2000.j2k.codestream.reader.HeaderDecoder
-
The decoder specifications
- decSpec - Variable in class jj2000.j2k.codestream.reader.PktDecoder
-
Reference to decoder specifications
- decSpec - Variable in class jj2000.j2k.entropy.decoder.StdEntropyDecoder
-
The decoder spec
- decSpec - Variable in class jj2000.j2k.wavelet.synthesis.InvWTAdapter
-
The decoder specifications
- DEEP_GREY_10 - Static variable in class loci.formats.in.OpenlabReader
-
- DEEP_GREY_11 - Static variable in class loci.formats.in.OpenlabReader
-
- DEEP_GREY_12 - Static variable in class loci.formats.in.OpenlabReader
-
- DEEP_GREY_13 - Static variable in class loci.formats.in.OpenlabReader
-
- DEEP_GREY_14 - Static variable in class loci.formats.in.OpenlabReader
-
- DEEP_GREY_15 - Static variable in class loci.formats.in.OpenlabReader
-
- DEEP_GREY_16 - Static variable in class loci.formats.in.OpenlabReader
-
- DEEP_GREY_9 - Static variable in class loci.formats.in.OpenlabReader
-
- def - Variable in class jj2000.j2k.ModuleSpec
-
Default value for each tile-component
- DEF_BUF_LEN - Static variable in class jj2000.j2k.codestream.writer.FileCodestreamWriter
-
The default buffer length, 1024 bytes
- DEF_THREADS_NUM - Static variable in class jj2000.j2k.entropy.encoder.StdEntropyCoder
-
The default value for the property in THREADS_PROP_NAME: 0
- DEFAULT_BACKGROUND_COLOR - Static variable in class loci.formats.in.CellSensReader
-
- DEFAULT_BYTES_PER_STRIP - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriter
-
- DEFAULT_CALLER - Static variable in class loci.formats.UpgradeChecker
-
Value of "bioformats.caller" for Bio-Formats utilities.
- DEFAULT_COLORS - Static variable in class loci.plugins.in.ImporterOptions
-
Default custom colors for each channel.
- DEFAULT_DIMENSION_ORDER - Static variable in class loci.formats.in.FakeReader
-
- DEFAULT_DISPLAY_RESOLUTION_BOX - Static variable in interface jj2000.j2k.fileformat.FileFormatBoxes
-
- DEFAULT_IMAGE - Static variable in class loci.formats.in.CellSensReader
-
- DEFAULT_LINEARIZATION_TABLE - Static variable in class loci.formats.codec.NikonCodec
-
- DEFAULT_MINIMUM_ELAPSED - Static variable in class loci.formats.Memoizer
-
- DEFAULT_PIXEL_TYPE - Static variable in class loci.formats.in.FakeReader
-
- DEFAULT_RANGE - Static variable in class loci.formats.cache.CacheStrategy
-
Default cache range.
- DEFAULT_RGB_CHANNEL_COUNT - Static variable in class loci.formats.in.FakeReader
-
- DEFAULT_SAMPLE_IFD - Static variable in class loci.formats.in.CellSensReader
-
- DEFAULT_SIZE_C - Static variable in class loci.formats.in.FakeReader
-
- DEFAULT_SIZE_T - Static variable in class loci.formats.in.FakeReader
-
- DEFAULT_SIZE_X - Static variable in class loci.formats.in.FakeReader
-
- DEFAULT_SIZE_Y - Static variable in class loci.formats.in.FakeReader
-
- DEFAULT_SIZE_Z - Static variable in class loci.formats.in.FakeReader
-
- DEFAULT_WRITE_BUFFER_SIZE - Static variable in class com.sun.media.imageio.stream.FileChannelImageOutputStream
-
The size of the write buffer.
- defaultClasses - Static variable in class loci.formats.ImageReader
-
Default list of reader classes, for use with noargs constructor.
- defaultClasses - Static variable in class loci.formats.ImageWriter
-
Default list of writer classes, for use with noargs constructor.
- defaultDateEnabled - Static variable in class loci.formats.MetadataTools
-
- defaultExposureTime - Variable in class loci.formats.in.CellSensReader.Pyramid
-
- DefaultJPEGReader() - Constructor for class loci.formats.in.JPEGReader.DefaultJPEGReader
-
- DefaultMetadataOptions - Class in loci.formats.in
-
- DefaultMetadataOptions() - Constructor for class loci.formats.in.DefaultMetadataOptions
-
Construct a new DefaultMetadataOptions
.
- DefaultMetadataOptions(MetadataLevel) - Constructor for class loci.formats.in.DefaultMetadataOptions
-
Construct a new DefaultMetadataOptions
.
- defaultMinMax(int) - Static method in class loci.formats.FormatTools
-
Get the default range for the specified pixel type.
- defaultValue - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFAttrInfo
-
- defaultValue - Variable in class jj2000.j2k.entropy.CBlkSizeSpec
-
- defaultValue - Variable in class jj2000.j2k.image.forwcomptransf.ForwCompTransfSpec
-
- defaultValue - Variable in class jj2000.j2k.quantization.GuardBitsSpec
-
- defaultValue - Variable in class jj2000.j2k.quantization.QuantStepSizeSpec
-
- defaultValue - Variable in class loci.plugins.prefs.BooleanOption
-
The option's default value.
- defaultValue - Variable in class loci.plugins.prefs.DoubleOption
-
The option's default value.
- defaultValue - Variable in class loci.plugins.prefs.StringOption
-
The option's default value.
- defaultXMLSkip - Variable in class loci.formats.in.OIRReader
-
- defimgn - Variable in class jj2000.j2k.codestream.writer.HeaderEncoder
-
Nominal range bit of the component defining default values in QCD for
main header
- DEFINITION - Static variable in class loci.formats.in.CellH5Reader.CellH5Constants
-
- deflater - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFDeflater
-
- defMsgLogger - Static variable in class jj2000.j2k.util.FacilityManager
-
The default logger, for threads that have none associated with them
- deftilenr - Variable in class jj2000.j2k.codestream.writer.HeaderEncoder
-
Nominal range bit of the component defining default values in QCD for
tile headers
- defWatchProg - Static variable in class jj2000.j2k.util.FacilityManager
-
The default ProgressWatch for threads that have none
associated with them.
- delayTime - Variable in class com.sun.media.imageioimpl.plugins.gif.GIFImageMetadata
-
- delegate - Variable in class loci.formats.in.SimplePCITiffReader
-
- delegate - Variable in class loci.formats.services.LuraWaveServiceImpl
-
LuraWave decoder delegate.
- DelegateReader - Class in loci.formats
-
DelegateReader is a file format reader that selects which reader to use
for a format if there are two readers which handle the same format.
- DelegateReader(String, String) - Constructor for class loci.formats.DelegateReader
-
Constructs a new delegate reader.
- DelegateReader(String, String[]) - Constructor for class loci.formats.DelegateReader
-
Constructs a new delegate reader.
- deleteQuietly(File) - Method in class loci.formats.Memoizer
-
Attempts to delete an existing file, logging at
warn if the deletion returns false or at error
if an exception is thrown.
- delFF - Variable in class jj2000.j2k.entropy.encoder.BitToByteOutput
-
Flag that indicates if an FF has been delayed
- delFF - Variable in class jj2000.j2k.entropy.encoder.MQCoder
-
If a 0xFF byte has been delayed and not yet been written to the output
(in the MQ we can never have more than 1 0xFF byte in a row).
- DELIMITERS - Static variable in class loci.formats.in.ImarisHDFReader
-
- DELTA - Static variable in class jj2000.j2k.wavelet.analysis.AnWTFilterFloatLift9x7
-
The value of the fourth lifting step coefficient
- DELTA - Static variable in class jj2000.j2k.wavelet.synthesis.SynWTFilterFloatLift9x7
-
The value of the fourth lifting step coefficient
- deltaT - Variable in class loci.formats.in.ColumbusReader.Plane
-
- deltaT - Variable in class loci.formats.in.FV1000Reader.PlaneData
-
- deltaT - Variable in class loci.formats.in.InCellReader.Image
-
- deltaT - Variable in class loci.formats.in.IvisionReader
-
- deltaT - Variable in class loci.formats.in.NiftiReader
-
- deltaT - Variable in class loci.formats.in.ScanrReader
-
- DeltavisionReader - Class in loci.formats.in
-
DeltavisionReader is the file format reader for Deltavision files.
- DeltavisionReader() - Constructor for class loci.formats.in.DeltavisionReader
-
Constructs a new Deltavision reader.
- DeltavisionReader.DVExtHdrFields - Class in loci.formats.in
-
This private class structure holds the details for the extended header.
- denom - Variable in class loci.formats.tiff.TiffRational
-
Components of the rational's fractional representation.
- denom - Variable in class org.libjpegturbo.turbojpeg.TJScalingFactor
-
Denominator
- denomH - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.ResolutionBox
-
- denomV - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.ResolutionBox
-
- depth - Variable in class loci.formats.tools.AmiraParameters
-
- deq - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KReadState
-
- Dequantizer - Class in jj2000.j2k.quantization.dequantizer
-
This is the abstract class from which all dequantizers must inherit.
- Dequantizer(CBlkQuantDataSrcDec, int[], DecoderSpecs) - Constructor for class jj2000.j2k.quantization.dequantizer.Dequantizer
-
Initializes the source of compressed data.
- DequantizerParams - Class in jj2000.j2k.quantization.dequantizer
-
This is the generic ineterface for dequantization parameters.
- DequantizerParams() - Constructor for class jj2000.j2k.quantization.dequantizer.DequantizerParams
-
- derived - Variable in class jj2000.j2k.codestream.reader.BitstreamReaderAgent
-
Whether or not the components in the current tile uses a derived
quantization step size (only relevant in non reversible quantization
mode).
- desc - Variable in class loci.formats.gui.ComboFileFilter
-
Description.
- desc - Variable in class loci.formats.gui.ExtensionFileFilter
-
Description.
- desc - Variable in class loci.formats.gui.FormatFileFilter
-
Description.
- description - Variable in class loci.formats.in.NiftiReader
-
- description() - Method in interface loci.formats.in.PrairieMetadata.Value
-
- description - Variable in class loci.formats.in.PrairieMetadata.ValueItem
-
- description() - Method in class loci.formats.in.PrairieMetadata.ValueItem
-
- description() - Method in class loci.formats.in.PrairieMetadata.ValueTable
-
- description - Variable in class loci.formats.in.TiffReader
-
- description - Variable in class loci.formats.in.VolocityReader.Stack
-
- description - Variable in class loci.formats.in.ZeissCZIReader
-
- description - Variable in class loci.formats.in.ZeissLSMReader.Recording
-
- descriptions - Variable in class loci.formats.in.LIFReader
-
- DEST_DISTANCE_REF_KILOMETERS - Static variable in class com.sun.media.imageio.plugins.tiff.EXIFGPSTagSet
-
A value to be used with the "GPSDestDistanceRef" tag.
- DEST_DISTANCE_REF_KNOTS - Static variable in class com.sun.media.imageio.plugins.tiff.EXIFGPSTagSet
-
A value to be used with the "GPSDestDistanceRef" tag.
- DEST_DISTANCE_REF_MILES - Static variable in class com.sun.media.imageio.plugins.tiff.EXIFGPSTagSet
-
A value to be used with the "GPSDestDistanceRef" tag.
- destBands - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPImageReader
-
source and destination bands.
- destBands - Variable in class com.sun.media.imageioimpl.plugins.pcx.PCXImageReader
-
source and destination bands.
- destBitsPerSampleCache - Variable in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
- destImage - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KReadState
-
- destImage - Variable in class com.sun.media.imageioimpl.plugins.raw.RawRenderedImage
-
- destinationBands - Variable in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
The sequence of destination bands to receive the source data.
- destinationBands - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KReadState
-
- destinationBands - Variable in class com.sun.media.imageioimpl.plugins.raw.RawRenderedImage
-
- destinationBands - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageReader
-
- destinationBandsCache - Variable in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor
-
- destinationRegion - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPImageReader
-
The destination region.
- destinationRegion - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KReadState
-
- destinationRegion - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.RenderedImageSrc
-
- destinationRegion - Variable in class com.sun.media.imageioimpl.plugins.pcx.PCXImageReader
-
The destination region.
- destinationRegion - Variable in class com.sun.media.imageioimpl.plugins.pcx.PCXImageWriter
-
- destinationRegion - Variable in class com.sun.media.imageioimpl.plugins.raw.RawImageWriter
-
- destinationRegion - Variable in class com.sun.media.imageioimpl.plugins.raw.RawRenderedImage
-
The destination bounds.
- destroy() - Method in class org.libjpegturbo.turbojpeg.TJCompressor
-
- destroy() - Method in class org.libjpegturbo.turbojpeg.TJDecompressor
-
- details - Variable in class loci.formats.in.PerkinElmerReader
-
- DetectionChannel() - Constructor for class loci.formats.in.ZeissLSMReader.DetectionChannel
-
- detector - Variable in class loci.formats.in.LeicaHandler.Channel
-
- Detector() - Constructor for class loci.formats.in.LeicaHandler.Detector
-
- Detector() - Constructor for class loci.formats.in.LeicaReader.Detector
-
- Detector() - Constructor for class loci.formats.in.OIRReader.Detector
-
- detector - Variable in class loci.formats.in.VolocityReader.Stack
-
- detectorChannel - Variable in class loci.formats.in.LeicaHandler
-
- detectorGain - Variable in class loci.formats.in.BaseZeissReader
-
- detectorID - Variable in class loci.formats.in.MicromanagerReader.Position
-
- detectorIndexes - Variable in class loci.formats.in.LIFReader
-
- detectorIndices - Variable in class loci.formats.in.LeicaHandler
-
- detectorManufacturer - Variable in class loci.formats.in.FluoviewReader
-
- detectorManufacturer - Variable in class loci.formats.in.MicromanagerReader.Position
-
- detectorModel - Variable in class loci.formats.in.MicromanagerReader.Position
-
- detectorModels - Variable in class loci.formats.in.LIFReader
-
- detectorOffset - Variable in class loci.formats.in.BaseZeissReader
-
- detectorOffset - Variable in class loci.formats.in.OpenlabReader
-
- detectorOffsets - Variable in class loci.formats.in.LIFReader
-
- detectorRefs - Variable in class loci.formats.in.ZeissCZIReader
-
- detectors - Variable in class loci.formats.in.FEITiffReader
-
- detectors - Variable in class loci.formats.in.LeicaHandler
-
- detectors - Variable in class loci.formats.in.LeicaReader
-
- detectors - Variable in class loci.formats.in.OIRReader
-
- detType - Variable in class loci.formats.in.SDTInfo
-
Detector type (SPC-930 in camera mode).
- DEVICE_ID - Static variable in class loci.formats.in.CellSensReader
-
- DEVICE_MANUFACTURER - Static variable in class loci.formats.in.CellSensReader
-
- DEVICE_NAME - Static variable in class loci.formats.in.CellSensReader
-
- DEVICE_SUBTYPE - Static variable in class loci.formats.in.CellSensReader
-
- deviceIDs - Variable in class loci.formats.in.CellSensReader.Pyramid
-
- deviceManufacturers - Variable in class loci.formats.in.CellSensReader.Pyramid
-
- deviceNames - Variable in class loci.formats.in.CellSensReader.Pyramid
-
- DeviceSettingDescription() - Constructor for class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet.DeviceSettingDescription
-
- deviceTypes - Variable in class loci.formats.in.CellSensReader.Pyramid
-
- devModel - Variable in class loci.formats.in.LeicaSCNReader.Image
-
- devVersion - Variable in class loci.formats.in.LeicaSCNReader.Image
-
- DHP - Static variable in class loci.formats.codec.LosslessJPEGCodec
-
- DHT - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFOldJPEGDecompressor
-
- DHT - Static variable in class loci.formats.codec.LosslessJPEGCodec
-
- dialog - Variable in class loci.plugins.in.ThumbLoader
-
- dichroic - Variable in class loci.formats.in.FlexReader.FilterGroup
-
- dichroicMap - Variable in class loci.formats.in.FlexReader
-
- dichroicModels - Variable in class loci.formats.in.NikonTiffReader
-
- DICOM_MAGIC_STRING - Static variable in class loci.formats.in.DicomReader
-
- DICOM_SUFFIXES - Static variable in class loci.formats.in.DicomReader
-
- DicomReader - Class in loci.formats.in
-
DicomReader is the file format reader for DICOM files.
- DicomReader() - Constructor for class loci.formats.in.DicomReader
-
Constructs a new DICOM reader.
- diff - Variable in class loci.formats.in.BioRadGelReader
-
- difference(byte[], IFD) - Static method in enum loci.formats.tiff.TiffCompression
-
Performs in-place differencing according to the given predictor value.
- DIFFERENTIAL_CORRECTION_APPLIED - Static variable in class com.sun.media.imageio.plugins.tiff.EXIFGPSTagSet
-
A value to be used with the "GPSDifferential" tag.
- DIFFERENTIAL_CORRECTION_NONE - Static variable in class com.sun.media.imageio.plugins.tiff.EXIFGPSTagSet
-
A value to be used with the "GPSDifferential" tag.
- DIGITAL_ZOOM_RATIO - Static variable in class loci.formats.tiff.IFD
-
- DigitalZoomRatio() - Constructor for class com.sun.media.imageio.plugins.tiff.EXIFTIFFTagSet.DigitalZoomRatio
-
- digits(int) - Static method in class loci.plugins.in.ImporterMetadata
-
Computes the given value's number of digits.
- dilate() - Method in class loci.plugins.util.RecordedImageProcessor
-
- DIM_INDEX_1 - Static variable in class loci.formats.in.CellSensReader
-
- DIM_INDEX_2 - Static variable in class loci.formats.in.CellSensReader
-
- DIMDESCR - Static variable in class loci.formats.in.LeicaReader
-
- Dimension(Attributes) - Constructor for class loci.formats.in.LeicaSCNReader.Dimension
-
- dimension - Variable in class loci.formats.in.ZeissCZIReader.DimensionEntry
-
- Dimension(Integer) - Constructor for class loci.formats.in.ZeissTIFFHandler.Scaling.Dimension
-
Constructor.
- dimension - Variable in class loci.formats.in.ZeissTIFFHandler.Scaling.Dimension
-
- DIMENSION_DESCRIPTION_VOLUME - Static variable in class loci.formats.in.CellSensReader
-
- DIMENSION_INCREMENT_ID - Static variable in class loci.formats.in.CellSensReader
-
- DIMENSION_MEANING - Static variable in class loci.formats.in.CellSensReader
-
- DIMENSION_NAME - Static variable in class loci.formats.in.CellSensReader
-
- DIMENSION_NAMES - Static variable in class loci.formats.in.LeicaReader
-
- DIMENSION_SIZE - Static variable in class loci.formats.in.CellSensReader
-
- DIMENSION_START_ID - Static variable in class loci.formats.in.CellSensReader
-
- DIMENSION_VALUE_ID - Static variable in class loci.formats.in.CellSensReader
-
- dimensionCount - Variable in class loci.formats.in.ZeissCZIReader.DirectoryEntry
-
- dimensionEntries - Variable in class loci.formats.in.ZeissCZIReader.DirectoryEntry
-
- DimensionEntry(RandomAccessInputStream) - Constructor for class loci.formats.in.ZeissCZIReader.DimensionEntry
-
- dimensionLength - Variable in class loci.formats.out.ICSWriter
-
- dimensionM - Variable in class loci.formats.in.ZeissLSMReader
-
- dimensionOffset - Variable in class loci.formats.out.ICSWriter
-
- dimensionOrder - Variable in class loci.formats.CoreMetadata
-
Order in which dimensions are stored.
- dimensionOrder - Variable in class loci.formats.in.FluoviewReader
-
- dimensionOrdering - Variable in class loci.formats.in.CellSensReader.Pyramid
-
- dimensionP - Variable in class loci.formats.in.ZeissLSMReader
-
- DIMENSIONS_STRING - Static variable in class loci.formats.in.KodakReader
-
- DimensionSwapper - Class in loci.formats
-
Handles swapping the dimension order of an image series.
- DimensionSwapper() - Constructor for class loci.formats.DimensionSwapper
-
Constructs a DimensionSwapper around a new image reader.
- DimensionSwapper(IFormatReader) - Constructor for class loci.formats.DimensionSwapper
-
Constructs a DimensionSwapper with the given reader.
- dimensionSwapper - Variable in class loci.plugins.in.ImportProcess
-
- dimensionTag - Variable in class loci.formats.in.CellSensReader
-
- dimOrder - Variable in class loci.formats.AxisGuesser
-
Original ordering of internal dimensional axes.
- dims - Variable in class loci.formats.in.LeicaSCNReader.Pixels
-
- dims - Variable in class loci.formats.in.ZeissTIFFHandler.Scaling
-
- dir - Variable in class loci.formats.in.VolocityReader
-
- DIRECTION_REF_MAGNETIC - Static variable in class com.sun.media.imageio.plugins.tiff.EXIFGPSTagSet
-
A value to be used with the "GPSTrackRef", "GPSImgDirectionRef",
and "GPSDestBearingRef" tags.
- DIRECTION_REF_TRUE - Static variable in class com.sun.media.imageio.plugins.tiff.EXIFGPSTagSet
-
A value to be used with the "GPSTrackRef", "GPSImgDirectionRef",
and "GPSDestBearingRef" tags.
- Directory() - Constructor for class loci.formats.in.ZeissCZIReader.Directory
-
- directory - Variable in class loci.formats.Memoizer
-
Directory where all memo files should be created.
- directory - Variable in class loci.formats.services.EXIFServiceImpl
-
- DirectoryEntry(RandomAccessInputStream) - Constructor for class loci.formats.in.ZeissCZIReader.DirectoryEntry
-
- directoryEntry - Variable in class loci.formats.in.ZeissCZIReader.SubBlock
-
- directoryList - Variable in class loci.formats.in.CellWorxReader
-
- directoryPosition - Variable in class loci.formats.in.ZeissCZIReader.FileHeader
-
- directoryRoot - Variable in class loci.formats.tools.FakeImage
-
- dirty - Variable in class loci.formats.cache.CacheStrategy
-
Whether load order array needs to be recomputed
before building the next load list.
- DISPLAY_COLOR - Static variable in class loci.formats.in.CellSensReader
-
- DISPLAY_CONTRAST_BRIGHTNESS - Static variable in class loci.formats.in.CellSensReader
-
- DISPLAY_GAMMA_CORRECTION - Static variable in class loci.formats.in.CellSensReader
-
- DISPLAY_LIMITS - Static variable in class loci.formats.in.CellSensReader
-
- DISPLAY_LUT - Static variable in class loci.formats.in.CellSensReader
-
- DISPLAY_MAPPING_VOLUME - Static variable in class loci.formats.in.CellSensReader
-
- DISPLAY_PROCESSOR_TYPE - Static variable in class loci.formats.in.CellSensReader
-
- DISPLAY_STACK_ID - Static variable in class loci.formats.in.CellSensReader
-
- DISPLAY_STACK_INDEX - Static variable in class loci.formats.in.CellSensReader
-
- DISPLAY_VISIBLE - Static variable in class loci.formats.in.CellSensReader
-
- displayDataBrowser(ImagePlus) - Method in class loci.plugins.in.DisplayHandler
-
- displayDialog(GenericDialog) - Method in class loci.plugins.in.IdDialog
-
Asks user whether Bio-Formats should automatically check for upgrades,
and if so, checks for an upgrade and prompts user to install it.
- displayDialog(GenericDialog) - Method in class loci.plugins.in.ImporterDialog
-
Displays the dialog, or grabs values from macro options.
- displayDialog(GenericDialog) - Method in class loci.plugins.in.SeriesDialog
-
- displayDialog(GenericDialog) - Method in class loci.plugins.in.UpgradeDialog
-
Asks user whether Bio-Formats should automatically check for upgrades,
and if so, checks for an upgrade and prompts user to install it.
- DISPLAYED_LUT_ID - Static variable in class loci.formats.in.CellSensReader
-
- DisplayHandler - Class in loci.plugins.in
-
Logic for displaying images and metadata onscreen using ImageJ.
- DisplayHandler(ImportProcess) - Constructor for class loci.plugins.in.DisplayHandler
-
- displayImage(ImagePlus) - Method in class loci.plugins.in.DisplayHandler
-
Displays the given image according to the configured options.
- displayImage5D(ImagePlus) - Method in class loci.plugins.in.DisplayHandler
-
- displayImages(ImagePlus[]) - Method in class loci.plugins.in.DisplayHandler
-
Displays the given images according to the configured options.
- displayName - Variable in class loci.formats.in.OperettaReader.OperettaHandler
-
- displayNormal(ImagePlus) - Method in class loci.plugins.in.DisplayHandler
-
Displays in a normal ImageJ window.
- displayOMEXML() - Method in class loci.plugins.in.DisplayHandler
-
Displays OME-XML metadata in a tree in its own window.
- displayOriginalMetadata() - Method in class loci.plugins.in.DisplayHandler
-
Displays standard metadata in a table in its own window.
- displayROIs(ImagePlus[]) - Method in class loci.plugins.in.DisplayHandler
-
- displayTag - Variable in class loci.formats.in.BaseZeissReader.Shape
-
- displayUsage() - Method in class loci.formats.tools.MakeTestOmeTiff
-
- displayView5D(ImagePlus) - Method in class loci.plugins.in.DisplayHandler
-
- disposalMethod - Variable in class com.sun.media.imageioimpl.plugins.gif.GIFImageMetadata
-
- disposalMethodNames - Static variable in class com.sun.media.imageioimpl.plugins.gif.GIFImageMetadata
-
- dispose() - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageReader
-
- dispose() - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriter
-
- dispose() - Method in class loci.formats.gui.CacheComponent
-
- dispose - Variable in class loci.formats.in.GIFReader
-
- distance(int, int) - Method in class loci.formats.cache.CacheStrategy
-
Computes the distance from the given axis value to the
axis center, taking into account the axis ordering scheme.
- distbufT - Variable in class jj2000.j2k.entropy.encoder.StdEntropyCoder
-
The buffer for distortion values (avoids reallocation for each
code-block), for each thread.
- dither - Variable in class loci.formats.in.SDTInfo
-
- dl - Variable in class jj2000.j2k.entropy.decoder.DecLyrdCBlk
-
The coded (compressed) data length.
- DLL_DATA_IDENTIFIER - Static variable in class loci.formats.in.SDTInfo
-
For .sdt files created using DLL function SPC_save_data_to_sdtfile
(no setup, only data).
- dls - Variable in class jj2000.j2k.decoder.DecoderSpecs
-
Number of decomposition levels specifications
- dls - Variable in class jj2000.j2k.entropy.PrecinctSizeSpec
-
Reference to wavelet number of decomposition levels for each
tile-component.
- dls - Variable in class jj2000.j2k.wavelet.analysis.ForwWTFull
-
The number of decomposition levels specification
- DM2_MAGIC_BYTES - Static variable in class loci.formats.in.GatanDM2Reader
-
- DM3_MAGIC_BYTES - Static variable in class loci.formats.in.GatanReader
-
- DM4_MAGIC_BYTES - Static variable in class loci.formats.in.GatanReader
-
- DNGReader - Class in loci.formats.in
-
DNGReader is the file format reader for Canon DNG (TIFF) files.
- DNGReader() - Constructor for class loci.formats.in.DNGReader
-
Constructs a new DNG reader.
- DNL - Static variable in class loci.formats.codec.LosslessJPEGCodec
-
- DO_TIMING - Static variable in class jj2000.j2k.entropy.decoder.StdEntropyDecoder
-
Whether to collect timing information or not: false.
- DO_TIMING - Static variable in class jj2000.j2k.entropy.encoder.EBCOTRateAllocator
-
Whether to collect timing information or not: false.
- DO_TIMING - Static variable in class jj2000.j2k.entropy.encoder.StdEntropyCoder
-
Whether to collect timing information or not: false.
- doc - Variable in class loci.formats.gui.XMLWindow
-
- doCaching - Variable in class loci.formats.tiff.TiffParser
-
- doChannels - Variable in class loci.formats.in.CellWorxReader
-
- doCodestreamManipulation() - Method in class jj2000.j2k.util.CodestreamManipulator
-
This method performs the actual manipulation of the codestream which is
the reparsing for tile parts and packed packet headers
- doCrop() - Method in class loci.plugins.in.ImporterOptions
-
- DOCUMENT_AUTHOR - Static variable in class loci.formats.in.CellSensReader
-
- DOCUMENT_COMPANY - Static variable in class loci.formats.in.CellSensReader
-
- DOCUMENT_CREATOR_BUILD_NUMBER - Static variable in class loci.formats.in.CellSensReader
-
- DOCUMENT_CREATOR_MAJOR_VERSION - Static variable in class loci.formats.in.CellSensReader
-
- DOCUMENT_CREATOR_MINOR_VERSION - Static variable in class loci.formats.in.CellSensReader
-
- DOCUMENT_CREATOR_NAME - Static variable in class loci.formats.in.CellSensReader
-
- DOCUMENT_CREATOR_PACKAGE - Static variable in class loci.formats.in.CellSensReader
-
- DOCUMENT_CREATOR_SUB_VERSION - Static variable in class loci.formats.in.CellSensReader
-
- DOCUMENT_KEYS - Static variable in class loci.formats.in.ICSReader
-
- DOCUMENT_NAME - Static variable in class loci.formats.in.CellSensReader
-
- DOCUMENT_NAME - Static variable in class loci.formats.tiff.IFD
-
- DOCUMENT_NOTE - Static variable in class loci.formats.in.CellSensReader
-
- DOCUMENT_PRODUCT - Static variable in class loci.formats.in.CellSensReader
-
- DOCUMENT_PRODUCT_NAME - Static variable in class loci.formats.in.CellSensReader
-
- DOCUMENT_PRODUCT_VERSION - Static variable in class loci.formats.in.CellSensReader
-
- DOCUMENT_PROPERTIES - Static variable in class loci.formats.in.CellSensReader
-
- DOCUMENT_THUMB - Static variable in class loci.formats.in.CellSensReader
-
- DOCUMENT_TIME - Static variable in class loci.formats.in.CellSensReader
-
- DOCUMENT_TYPE_HINT - Static variable in class loci.formats.in.CellSensReader
-
- DocumentName() - Constructor for class com.sun.media.imageio.plugins.tiff.BaselineTIFFTagSet.DocumentName
-
- documentUpdate() - Method in class loci.plugins.config.FlexWidgets
-
- doer - Variable in class jj2000.j2k.entropy.decoder.StdEntropyDecoder
-
Flag to indicate if we should try to detect errors or just ignore any
error resilient information
- doFormatLayout(FormatEntry) - Method in class loci.plugins.config.ConfigWindow
-
- doInPlaceCaching - Variable in class loci.formats.