Index (Bio-Formats API)

A B C D E F G H I J K L M N O P Q R S T U V W X Y Z _

A

A4_PAPERSIZE - Static variable in class loci.poi.hssf.usermodel.HSSFPrintSetup
A5_PAPERSIZE - Static variable in class loci.poi.hssf.usermodel.HSSFPrintSetup
abort() - Method in class com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageWriter
AbortableHSSFListener - Class in loci.poi.hssf.eventusermodel: Interface for use with the HSSFRequest and HSSFEventFactory.
AbortableHSSFListener() - Constructor for class loci.poi.hssf.eventusermodel.AbortableHSSFListener
abortableProcessEvents(HSSFRequest, InputStream) - Method in class loci.poi.hssf.eventusermodel.HSSFEventFactory: Processes a DocumentInputStream into essentially Record events.
abortableProcessRecord(Record) - Method in class loci.poi.hssf.eventusermodel.AbortableHSSFListener: Process an HSSF Record.
abortableProcessWorkbookEvents(HSSFRequest, POIFSFileSystem) - Method in class loci.poi.hssf.eventusermodel.HSSFEventFactory: Processes a file into essentially record events.
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
AbstractEscherHolderRecord - Class in loci.poi.hssf.record: The escher container record is used to hold escher records.
AbstractEscherHolderRecord() - Constructor for class loci.poi.hssf.record.AbstractEscherHolderRecord
AbstractEscherHolderRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.AbstractEscherHolderRecord: Constructs a Bar record and sets its fields appropriately.
AbstractFunctionPtg - Class in loci.poi.hssf.record.formula: This class provides the base functionality for Excel sheet functions There are two kinds of function Ptgs - tFunc and tFuncVar Therefore, this class will have ONLY two subclasses
AbstractFunctionPtg() - Constructor for class loci.poi.hssf.record.formula.AbstractFunctionPtg
AbstractNIOHandle - Class in loci.common: A wrapper for buffered NIO logic that implements the IRandomAccess interface.
AbstractNIOHandle() - Constructor for class loci.common.AbstractNIOHandle
AbstractOMEModelObject - Class in ome.xml.model
AbstractOMEModelObject() - Constructor for class ome.xml.model.AbstractOMEModelObject
AbstractOMEXMLMetadata - Class in loci.formats.ome: Source code: Trac, Gitweb
AbstractOMEXMLMetadata() - Constructor for class loci.formats.ome.AbstractOMEXMLMetadata
AbstractOMEXMLMetadata - Class in ome.xml.meta: A utility class for constructing and manipulating OME-XML DOMs.
AbstractOMEXMLMetadata() - Constructor for class ome.xml.meta.AbstractOMEXMLMetadata: Creates a new OME-XML metadata object.
AbstractService - Class in loci.common.services: Source code: Trac, Gitweb
AbstractService() - Constructor for class loci.common.services.AbstractService
AbstractShape - Class in loci.poi.hssf.model: An abstract shape is the lowlevel model for a shape.
AbstractShape() - Constructor for class loci.poi.hssf.model.AbstractShape
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
AcquisitionMode - Enum in ome.xml.model.enums
AcquisitionModeEnumHandler - Class in ome.xml.model.enums.handlers: Enumeration handler for AcquisitionMode.
AcquisitionModeEnumHandler() - Constructor for class ome.xml.model.enums.handlers.AcquisitionModeEnumHandler
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
ACTIVE_PANE_LOWER_LEFT - Static variable in class loci.poi.hssf.record.PaneRecord
ACTIVE_PANE_LOWER_RIGHT - Static variable in class loci.poi.hssf.record.PaneRecord
ACTIVE_PANE_UPER_LEFT - Static variable in class loci.poi.hssf.record.PaneRecord
ACTIVE_PANE_UPPER_RIGHT - Static variable in class loci.poi.hssf.record.PaneRecord
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.
adcDE - Variable in class loci.formats.in.SDTInfo: ADC sample delay (SPC-930).
adcRE - Variable in class loci.formats.in.SDTInfo
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(double) - Method in class loci.plugins.util.RecordedImageProcessor
add(int) - Method in class loci.plugins.util.RecordedImageProcessor
add(int, Record) - Method in class loci.poi.hssf.model.WorkbookRecordList
add(int, double) - Method in class loci.poi.util.DoubleList: add the specfied value at the specified index
add(double) - Method in class loci.poi.util.DoubleList: Appends the specified element to the end of this list
add(int, int) - Method in class loci.poi.util.IntList: add the specfied value at the specified index
add(int) - Method in class loci.poi.util.IntList: Appends the specified element to the end of this list
add(Object) - Method in class loci.poi.util.IntMapper: Appends the specified element to the end of this list
add(int, short) - Method in class loci.poi.util.ShortList: add the specfied value at the specified index
add(short) - Method in class loci.poi.util.ShortList: Appends the specified element to the end of this list
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.
addAll(DoubleList) - Method in class loci.poi.util.DoubleList: Appends all of the elements in the specified collection to the end of this list, in the order that they are returned by the specified collection's iterator.
addAll(int, DoubleList) - Method in class loci.poi.util.DoubleList: Inserts all of the elements in the specified collection into this list at the specified position.
addAll(IntList) - Method in class loci.poi.util.IntList: Appends all of the elements in the specified collection to the end of this list, in the order that they are returned by the specified collection's iterator.
addAll(int, IntList) - Method in class loci.poi.util.IntList: Inserts all of the elements in the specified collection into this list at the specified position.
addAll(ShortList) - Method in class loci.poi.util.ShortList: Appends all of the elements in the specified collection to the end of this list, in the order that they are returned by the specified collection's iterator.
addAll(int, ShortList) - Method in class loci.poi.util.ShortList: Inserts all of the elements in the specified collection into this list at the specified position.
addAllowedTagSet(TIFFTagSet) - Method in class com.sun.media.imageio.plugins.tiff.TIFFImageReadParam: Adds a TIFFTagSet object to the list of allowed tag sets.
addArea(int, short, int, short) - Method in class loci.poi.hssf.record.MergeCellsRecord: Add an area to consider a merged cell.
addBinData(BinData) - Method in class ome.xml.model.Mask
addBinData(BinData) - Method in class ome.xml.model.Pixels
addBooleanAnnotation(BooleanAnnotation) - Method in class ome.xml.model.StructuredAnnotations
addBreak(short, short, short) - Method in class loci.poi.hssf.record.PageBreakRecord: Adds the page break at the specified parameters
addBSERecord(EscherBSERecord) - Method in class loci.poi.hssf.model.Workbook
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
addCellOffset(short) - Method in class loci.poi.hssf.record.DBCellRecord
addChannel(Channel) - Method in class ome.xml.model.Pixels
addChar(char, int) - Method in class loci.poi.hssf.usermodel.FontDetails
addChars(char[], int[]) - Method in class loci.poi.hssf.usermodel.FontDetails
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.
addChild(Property) - Method in class loci.poi.poifs.property.DirectoryProperty: Add a new child to the collection of children
addChild(Property) - Method in interface loci.poi.poifs.property.Parent: Add a new child to the collection of children
addChildRecord(EscherRecord) - Method in class loci.poi.ddf.EscherContainerRecord
addChildRecord(EscherRecord) - Method in class loci.poi.ddf.UnknownEscherRecord
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(Class<? extends T>) - Method in class loci.formats.ClassList: Adds the given class, which must be assignable to the base class, to the list.
addCluster(int, int) - Method in class loci.poi.ddf.EscherDggRecord
addColor(byte, byte, byte) - Method in class loci.poi.hssf.usermodel.HSSFPalette: Adds a new color into an empty color slot.
addColumn(Object) - Method in class mdbtools.dbengine.sql.Select
addComment(String) - Method in class com.sun.media.imageioimpl.plugins.pnm.PNMMetadata
addCommentAnnotation(CommentAnnotation) - Method in class ome.xml.model.StructuredAnnotations
addDataset(Dataset) - Method in class ome.xml.model.OME
addDbcell(int) - Method in class loci.poi.hssf.record.IndexRecord
addDetector(Detector) - Method in class ome.xml.model.Instrument
addDichroic(Dichroic) - Method in class ome.xml.model.Instrument
addDoubleAnnotation(DoubleAnnotation) - Method in class ome.xml.model.StructuredAnnotations
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.
addEscherProperty(EscherProperty) - Method in class loci.poi.ddf.EscherOptRecord: Add a property to this record.
addEscherRecord(int, EscherRecord) - Method in class loci.poi.hssf.record.AbstractEscherHolderRecord
addEscherRecord(EscherRecord) - Method in class loci.poi.hssf.record.AbstractEscherHolderRecord
addExperiment(Experiment) - Method in class ome.xml.model.OME
addExperimenter(Experimenter) - Method in class ome.xml.model.OME
addExperimenterGroup(ExperimenterGroup) - Method in class ome.xml.model.OME
addFileAnnotation(FileAnnotation) - Method in class ome.xml.model.StructuredAnnotations
addFilter(Filter) - Method in class ome.xml.model.Instrument
addFilterSet(FilterSet) - Method in class ome.xml.model.Instrument
addFormatRun(UnicodeString.FormatRun) - Method in class loci.poi.hssf.record.UnicodeString: Adds a font run to the formatted string.
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
addGroupBy(FQColumn) - Method in class mdbtools.dbengine.sql.Select
addImage(Image) - Method in class ome.xml.model.OME
addInfoRecord(ExtSSTInfoSubRecord) - Method in class loci.poi.hssf.record.ExtSSTRecord
addInstrument(Instrument) - Method in class ome.xml.model.OME
addLightSource(LightSource) - Method in class ome.xml.model.Instrument
addLightSourceSettings(LightSourceSettings) - Method in class ome.xml.model.MicrobeamManipulation
addListAnnotation(ListAnnotation) - Method in class ome.xml.model.StructuredAnnotations
addListener(HSSFListener, short) - Method in class loci.poi.hssf.eventusermodel.HSSFRequest: add an event listener for a particular record type.
addListenerForAllRecords(HSSFListener) - Method in class loci.poi.hssf.eventusermodel.HSSFRequest: This is the equivilent of calling addListener(myListener, sid) for EVERY record in the loci.poi.hssf.record package.
addLongAnnotation(LongAnnotation) - Method in class ome.xml.model.StructuredAnnotations
addMergedRegion(int, short, int, short) - Method in class loci.poi.hssf.model.Sheet
addMergedRegion(Region) - Method in class loci.poi.hssf.usermodel.HSSFSheet: adds a merged region of cells (hence those cells form one)
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) - Method in class loci.formats.services.OMEXMLServiceImpl
addMicrobeamManipulation(MicrobeamManipulation) - Method in class ome.xml.model.Experiment
addModelObject(String, OMEModelObject) - Method in interface ome.xml.model.OMEModel
addModelObject(String, OMEModelObject) - Method in class ome.xml.model.OMEModelImpl
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
addName(NameRecord) - Method in class loci.poi.hssf.model.Workbook: creates new name
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.
addObjective(Objective) - Method in class ome.xml.model.Instrument
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.
addOrderBy(OrderBy) - Method in class mdbtools.dbengine.sql.Select
addPicture(byte[], int) - Method in class loci.poi.hssf.usermodel.HSSFWorkbook: Adds a picture to the workbook.
addPlane(Plane) - Method in class ome.xml.model.Pixels
addPlate(Plate) - Method in class ome.xml.model.OME
addPlateAcquisition(PlateAcquisition) - Method in class ome.xml.model.Plate
addPossible(String) - Method in class loci.plugins.prefs.StringOption: Adds a possible value to the list.
addProject(Project) - Method in class ome.xml.model.OME
addProperty(Property) - Method in class loci.poi.poifs.property.PropertyTable: Add a property to the list of properties we manage
AddPtg - Class in loci.poi.hssf.record.formula: Addition operator PTG the "+" binomial operator.
AddPtg() - Constructor for class loci.poi.hssf.record.formula.AddPtg: Creates new AddPtg
AddPtg(RecordInputStream) - Constructor for class loci.poi.hssf.record.formula.AddPtg
addReagent(Reagent) - Method in class ome.xml.model.Screen
addReference(OMEModelObject, Reference) - Method in interface ome.xml.model.OMEModel
addReference(OMEModelObject, Reference) - Method in class ome.xml.model.OMEModelImpl
addREFRecord(ExternSheetSubRecord) - Method in class loci.poi.hssf.record.ExternSheetRecord: adds REF struct (ExternSheetSubRecord)
addRenderingHints(Map) - Method in class loci.poi.hssf.usermodel.DummyGraphics2d
addRenderingHints(Map) - Method in class loci.poi.hssf.usermodel.EscherGraphics2d
addROI(ROI) - Method in class ome.xml.model.OME
addRow(RowRecord) - Method in class loci.poi.hssf.model.Sheet: Adds a row record to the sheet
addRow(Object[]) - Method in class mdbtools.dbengine.MemoryData: Add a row of data
addScreen(Screen) - Method in class ome.xml.model.OME
addScrollBars(Container) - Static method in class loci.plugins.util.WindowTools: Adds AWT scroll bars to the given container.
addSection(Section) - Method in class loci.poi.hpsf.MutablePropertySet: Adds a section to this property set.
addSection(Section) - Method in class loci.poi.hpsf.SpecialPropertySet
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
addShape(Shape) - Method in class ome.xml.model.Union
addSheetReference(String, int) - Method in class loci.poi.hssf.util.SheetReferences
addShortOrLongField(int, int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFImageMetadata
addSSTString(UnicodeString) - Method in class loci.poi.hssf.model.Workbook: Adds a string to the SST table and returns its index (if its a duplicate just returns its index and update the counts) ASSUMES compressed unicode (meaning 8bit)
addSSTString(String) - Method in class loci.poi.hssf.usermodel.HSSFWorkbook: Deprecated.
Do not call this method from your applications. Use the methods available in the HSSFRow to add string HSSFCells
addStandardOptions(HSSFShape, EscherOptRecord) - Method in class loci.poi.hssf.model.AbstractShape: Add standard properties to the opt record.
addStandardOptions(HSSFShape, EscherOptRecord) - Method in class loci.poi.hssf.model.CommentShape: Sets standard escher options for a comment.
addStatusListener(StatusListener) - Method in interface loci.common.StatusReporter
addStatusListener(StatusListener) - Method in class loci.plugins.in.ImagePlusReader
addStatusListener(StatusListener) - Method in class loci.plugins.in.ImportProcess
addString(UnicodeString) - Method in class loci.poi.hssf.record.SSTRecord: Add a string.
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.
addSubRecord(int, Object) - Method in class loci.poi.hssf.record.ObjRecord
addSubRecord(Object) - Method in class loci.poi.hssf.record.ObjRecord
addTable(Object) - Method in class mdbtools.dbengine.sql.Select
addTagAnnotation(TagAnnotation) - Method in class ome.xml.model.StructuredAnnotations
addTagSet(TIFFTagSet) - Method in class com.sun.media.imageio.plugins.tiff.TIFFDirectory: Adds an element to the group of TIFFTagSets of which this directory is aware.
addTermAnnotation(TermAnnotation) - Method in class ome.xml.model.StructuredAnnotations
addTiffData(TiffData) - Method in class ome.xml.model.Pixels
addTIFFField(TIFFField) - Method in class com.sun.media.imageio.plugins.tiff.TIFFDirectory: Adds a TIFF field to the directory.
addTimestampAnnotation(TimestampAnnotation) - Method in class ome.xml.model.StructuredAnnotations
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.
addValueRecord(int, CellValueRecordInterface) - Method in class loci.poi.hssf.model.Sheet: Adds a value record to the sheet's contained binary records (i.e.
addWell(Well) - Method in class ome.xml.model.Plate
addWellSample(WellSample) - Method in class ome.xml.model.Well
addXMLAnnotation(XMLAnnotation) - Method in class ome.xml.model.StructuredAnnotations
adjustmentValueChanged(AdjustmentEvent) - Method in class loci.plugins.util.DataBrowser
AffineTransform - Class in ome.xml.model
AffineTransform() - Constructor for class ome.xml.model.AffineTransform: Default constructor.
AffineTransform(Element, OMEModel) - Constructor for class ome.xml.model.AffineTransform: Constructs AffineTransform recursively from an XML DOM tree.
AffineTransform(AffineTransform) - Constructor for class ome.xml.model.AffineTransform: Copy constructor.
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.
afterRecordSerialize(int, short, int, EscherRecord) - Method in interface loci.poi.ddf.EscherSerializationListener: Fired after a record has been serialized.
afterRecordSerialize(int, short, int, EscherRecord) - Method in class loci.poi.ddf.NullEscherSerializationListener
Aggregate - Interface in mdbtools.dbengine.functions
aggregateDrawingRecords(DrawingManager2) - Method in class loci.poi.hssf.model.Sheet
AggregateMetadata - Class in ome.xml.meta: A metadata store which delegates the actual storage to one or more sub metadata stores.
AggregateMetadata(List<BaseMetadata>) - Constructor for class ome.xml.meta.AggregateMetadata: Creates a new instance.
AggregateQuery - Class in mdbtools.dbengine.tasks: resolve the columns, num rows not the same
AggregateQuery(Task, Select, int[]) - Constructor for class mdbtools.dbengine.tasks.AggregateQuery
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.
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.
ALIGN_CENTER - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: center horizontal alignment
ALIGN_CENTER_SELECTION - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: center-selection? horizontal alignment
ALIGN_FILL - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: fill? horizontal alignment
ALIGN_GENERAL - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: general (normal) horizontal alignment
ALIGN_JUSTIFY - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: justified horizontal alignment
ALIGN_LEFT - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: left-justified horizontal alignment
ALIGN_RIGHT - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: right-justified horizontal alignment
ALL_DOMAINS - Static variable in class loci.formats.FormatTools: List of all supported domains.
allBlockLengths - Variable in class loci.formats.in.SDTInfo
allBlockOffsets - Variable in class loci.formats.in.SDTInfo
allocate(int...) - Static method in class loci.common.DataTools: Allocates a 1-dimensional byte array matching the product of the given sizes.
allocate(long, int) - Method in class loci.common.NIOByteBufferProvider: Allocates or maps the desired file data into memory.
allocateDirect(long, int) - Method in class loci.common.NIOByteBufferProvider: Allocates memory and copies the desired file data into it.
allocateMappedByteBuffer(long, int) - Method in class loci.common.NIOByteBufferProvider: Memory maps the desired file data into memory.
allocateShapeId(short) - Method in class loci.poi.hssf.model.DrawingManager: Allocates new shape id for the new drawing group id.
allocateShapeId(short) - Method in class loci.poi.hssf.model.DrawingManager2: Allocates new shape id for the new drawing group id.
allocateSpace(int) - Method in class loci.poi.poifs.storage.BlockAllocationTableWriter: Allocate space for a block of indices
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
alphabeticIndexCount(String) - Static method in class loci.formats.ResourceNamer
alphaMask - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
alreadyChecked() - Method in class loci.formats.UpgradeChecker: Return true if an upgrade check has already been performed in this JVM session.
ALT_BARS - Static variable in class loci.poi.hssf.record.ExtendedFormatRecord
ALT_BARS - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: Wide dots
alt_pg_buf - Variable in class mdbtools.libmdb.MdbHandle
ALT_ZVI - Static variable in class loci.common.DateTools
ALT_ZVI_EPOCH - Static variable in class loci.common.DateTools
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.
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
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
ANCHOR_ID_CHART_TITLE - Static variable in class loci.poi.hssf.record.ObjectLinkRecord
ANCHOR_ID_SERIES_OR_POINT - Static variable in class loci.poi.hssf.record.ObjectLinkRecord
ANCHOR_ID_X_AXIS - Static variable in class loci.poi.hssf.record.ObjectLinkRecord
ANCHOR_ID_Y_AXIS - Static variable in class loci.poi.hssf.record.ObjectLinkRecord
ANCHOR_ID_Z_AXIS - Static variable in class loci.poi.hssf.record.ObjectLinkRecord
and(int) - Method in class loci.plugins.util.RecordedImageProcessor
AND - Static variable in class mdbtools.dbengine.sql.Condition
anGainExp - Variable in class jj2000.j2k.wavelet.Subband: The base 2 exponent of the analysis gain of the subband.
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
Annotation - Class in ome.xml.model
Annotation() - Constructor for class ome.xml.model.Annotation: Default constructor.
Annotation(Element, OMEModel) - Constructor for class ome.xml.model.Annotation: Constructs Annotation recursively from an XML DOM tree.
Annotation(Annotation) - Constructor for class ome.xml.model.Annotation: Copy constructor.
AnnotationRef - Class in ome.xml.model
AnnotationRef() - Constructor for class ome.xml.model.AnnotationRef: Default constructor.
AnnotationRef(Element, OMEModel) - Constructor for class ome.xml.model.AnnotationRef: Constructs AnnotationRef recursively from an XML DOM tree.
AnnotationRef(AnnotationRef) - Constructor for class ome.xml.model.AnnotationRef: Copy constructor.
ANO_SUFFIX - Static variable in class loci.formats.in.PerkinElmerReader
ANSI_CHARSET - Static variable in class loci.poi.hssf.usermodel.HSSFFont: ANSI character set
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
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.
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(ILoggingEvent) - Method in class loci.plugins.util.IJStatusEchoer
appendChild(Node) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFFieldNode
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
applyFont(int, int, short) - Method in class loci.poi.hssf.usermodel.HSSFRichTextString: Applies a font to the specified characters of a string.
applyFont(int, int, HSSFFont) - Method in class loci.poi.hssf.usermodel.HSSFRichTextString: Applies a font to the specified characters of a string.
applyFont(HSSFFont) - Method in class loci.poi.hssf.usermodel.HSSFRichTextString: Sets the font of the entire string.
applyFont(short) - Method in class loci.poi.hssf.usermodel.HSSFRichTextString: Applies the specified font to the entire string.
applyMethodStack(List<RecordedImageProcessor.MethodEntry>) - Method in class loci.plugins.util.RecordedImageProcessor
applyTable(int[]) - Method in class loci.plugins.util.RecordedImageProcessor
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
Arc - Class in ome.xml.model
Arc() - Constructor for class ome.xml.model.Arc: Default constructor.
Arc(Element, OMEModel) - Constructor for class ome.xml.model.Arc: Constructs Arc recursively from an XML DOM tree.
Arc(Arc) - Constructor for class ome.xml.model.Arc: Copy constructor.
ARCHIVE - Static variable in class loci.formats.in.FlexReader
ArcType - Enum in ome.xml.model.enums
ArcTypeEnumHandler - Class in ome.xml.model.enums.handlers: Enumeration handler for ArcType.
ArcTypeEnumHandler() - Constructor for class ome.xml.model.enums.handlers.ArcTypeEnumHandler
Area3DPtg - Class in loci.poi.hssf.record.formula: Title: Area 3D Ptg - 3D referecnce (Sheet + Area)
Area3DPtg() - Constructor for class loci.poi.hssf.record.formula.Area3DPtg: Creates new AreaPtg
Area3DPtg(String, short) - Constructor for class loci.poi.hssf.record.formula.Area3DPtg
Area3DPtg(RecordInputStream) - Constructor for class loci.poi.hssf.record.formula.Area3DPtg
AreaAPtg - Class in loci.poi.hssf.record.formula: Specifies a rectangular area of cells A1:A4 for instance.
AreaAPtg() - Constructor for class loci.poi.hssf.record.formula.AreaAPtg
AreaAPtg(short, short, short, short, boolean, boolean, boolean, boolean) - Constructor for class loci.poi.hssf.record.formula.AreaAPtg
AreaAPtg(RecordInputStream) - Constructor for class loci.poi.hssf.record.formula.AreaAPtg
AreaErrPtg - Class in loci.poi.hssf.record.formula: AreaErr - handles deleted cell area references.
AreaErrPtg(RecordInputStream) - Constructor for class loci.poi.hssf.record.formula.AreaErrPtg
AreaFormatRecord - Class in loci.poi.hssf.record: The area format record is used to define the colours and patterns for an area.
AreaFormatRecord() - Constructor for class loci.poi.hssf.record.AreaFormatRecord
AreaFormatRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.AreaFormatRecord: Constructs a AreaFormat record and sets its fields appropriately.
AreaNAPtg - Class in loci.poi.hssf.record.formula: Specifies a rectangular area of cells A1:A4 for instance.
AreaNAPtg() - Constructor for class loci.poi.hssf.record.formula.AreaNAPtg
AreaNAPtg(RecordInputStream) - Constructor for class loci.poi.hssf.record.formula.AreaNAPtg
AreaNPtg - Class in loci.poi.hssf.record.formula: Specifies a rectangular area of cells A1:A4 for instance.
AreaNPtg() - Constructor for class loci.poi.hssf.record.formula.AreaNPtg
AreaNPtg(RecordInputStream) - Constructor for class loci.poi.hssf.record.formula.AreaNPtg
AreaNVPtg - Class in loci.poi.hssf.record.formula: Specifies a rectangular area of cells A1:A4 for instance.
AreaNVPtg() - Constructor for class loci.poi.hssf.record.formula.AreaNVPtg
AreaNVPtg(RecordInputStream) - Constructor for class loci.poi.hssf.record.formula.AreaNVPtg
AreaPtg - Class in loci.poi.hssf.record.formula: Specifies a rectangular area of cells A1:A4 for instance.
AreaPtg() - Constructor for class loci.poi.hssf.record.formula.AreaPtg
AreaPtg(String) - Constructor for class loci.poi.hssf.record.formula.AreaPtg
AreaPtg(short, short, short, short, boolean, boolean, boolean, boolean) - Constructor for class loci.poi.hssf.record.formula.AreaPtg
AreaPtg(RecordInputStream) - Constructor for class loci.poi.hssf.record.formula.AreaPtg
AreaRecord - Class in loci.poi.hssf.record: The area record is used to define a area chart.
AreaRecord() - Constructor for class loci.poi.hssf.record.AreaRecord
AreaRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.AreaRecord: Constructs a Area record and sets its fields appropriately.
AreaReference - Class in loci.poi.hssf.util
AreaReference(String) - Constructor for class loci.poi.hssf.util.AreaReference: Create an area ref from a string representation
AreaVPtg - Class in loci.poi.hssf.record.formula: Specifies a rectangular area of cells A1:A4 for instance.
AreaVPtg() - Constructor for class loci.poi.hssf.record.formula.AreaVPtg
AreaVPtg(short, short, short, short, boolean, boolean, boolean, boolean) - Constructor for class loci.poi.hssf.record.formula.AreaVPtg
AreaVPtg(RecordInputStream) - Constructor for class loci.poi.hssf.record.formula.AreaVPtg
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.
args - Static variable in class loci.plugins.shortcut.ShortcutPanel: Details for installed plugins.
arraycopy(byte[], int, byte[], int, int) - Static method in class loci.poi.util.ArrayUtil: This is really a debugging version of System.arraycopy().
arrayMoveWithin(Object[], int, int, int) - Static method in class loci.poi.util.ArrayUtil: Moves a number of entries in an array to another point in the array, shifting those inbetween as required.
ArrayPtg - Class in loci.poi.hssf.record.formula: ArrayPtg - handles arrays The ArrayPtg is a little wierd, the size of the Ptg when parsing initially only includes the Ptg sid and the reserved bytes.
ArrayPtg() - Constructor for class loci.poi.hssf.record.formula.ArrayPtg
ArrayPtg(RecordInputStream) - Constructor for class loci.poi.hssf.record.formula.ArrayPtg
ArrayPtgA - Class in loci.poi.hssf.record.formula: ArrayPtgA - handles arrays
ArrayPtgA() - Constructor for class loci.poi.hssf.record.formula.ArrayPtgA
ArrayPtgA(RecordInputStream) - Constructor for class loci.poi.hssf.record.formula.ArrayPtgA
ArrayPtgV - Class in loci.poi.hssf.record.formula: ArrayPtg - handles arrays The ArrayPtg is a little wierd, the size of the Ptg when parsing initially only includes the Ptg sid and the reserved bytes.
ArrayPtgV() - Constructor for class loci.poi.hssf.record.formula.ArrayPtgV
ArrayPtgV(RecordInputStream) - Constructor for class loci.poi.hssf.record.formula.ArrayPtgV
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
ArrayUtil - Class in loci.poi.util: Utility classes for dealing with arrays.
ArrayUtil() - Constructor for class loci.poi.util.ArrayUtil
ARTIST - Static variable in class loci.formats.tiff.IFD
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
asDateTime(DateTimeZone) - Method in class ome.xml.model.primitives.Timestamp: Returns the timestamp as a Joda DateTime type.
asInstant() - Method in class ome.xml.model.primitives.Timestamp: Returns the timestamp as a Joda DateTime type.
asRetrieve(MetadataStore) - Method in interface loci.formats.services.OMEXMLService: Gets the given MetadataStore object as a MetadataRetrieve.
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.
assoicateShapeToObjRecord(EscherRecord, Record) - Method in class loci.poi.hssf.record.EscherAggregate: Associates an escher record to an OBJ record or a TXO record.
asStore(MetadataRetrieve) - Method in interface loci.formats.services.OMEXMLService: Gets the given MetadataRetrieve object as a MetadataStore.
asStore(MetadataRetrieve) - Method in class loci.formats.services.OMEXMLServiceImpl
ASTRONOMY_DOMAIN - Static variable in class loci.formats.FormatTools: Identifies the astronomy domain.
asXMLElement(Document) - Method in class ome.xml.model.AbstractOMEModelObject
asXMLElement(Document, Element) - Method in class ome.xml.model.AbstractOMEModelObject: Takes the entire object hierarchy and produced an XML DOM tree taking into account class hierarchy.
asXMLElement(Document) - Method in class ome.xml.model.AffineTransform
asXMLElement(Document, Element) - Method in class ome.xml.model.AffineTransform
asXMLElement(Document) - Method in class ome.xml.model.Annotation
asXMLElement(Document, Element) - Method in class ome.xml.model.Annotation
asXMLElement(Document) - Method in class ome.xml.model.AnnotationRef
asXMLElement(Document, Element) - Method in class ome.xml.model.AnnotationRef
asXMLElement(Document) - Method in class ome.xml.model.Arc
asXMLElement(Document, Element) - Method in class ome.xml.model.Arc
asXMLElement(Document) - Method in class ome.xml.model.BasicAnnotation
asXMLElement(Document, Element) - Method in class ome.xml.model.BasicAnnotation
asXMLElement(Document) - Method in class ome.xml.model.BinaryFile
asXMLElement(Document, Element) - Method in class ome.xml.model.BinaryFile
asXMLElement(Document) - Method in class ome.xml.model.BinaryOnly
asXMLElement(Document, Element) - Method in class ome.xml.model.BinaryOnly
asXMLElement(Document) - Method in class ome.xml.model.BinData
asXMLElement(Document, Element) - Method in class ome.xml.model.BinData
asXMLElement(Document) - Method in class ome.xml.model.BooleanAnnotation
asXMLElement(Document, Element) - Method in class ome.xml.model.BooleanAnnotation
asXMLElement(Document) - Method in class ome.xml.model.Channel
asXMLElement(Document, Element) - Method in class ome.xml.model.Channel
asXMLElement(Document) - Method in class ome.xml.model.ChannelRef
asXMLElement(Document, Element) - Method in class ome.xml.model.ChannelRef
asXMLElement(Document) - Method in class ome.xml.model.CommentAnnotation
asXMLElement(Document, Element) - Method in class ome.xml.model.CommentAnnotation
asXMLElement(Document) - Method in class ome.xml.model.Dataset
asXMLElement(Document, Element) - Method in class ome.xml.model.Dataset
asXMLElement(Document) - Method in class ome.xml.model.DatasetRef
asXMLElement(Document, Element) - Method in class ome.xml.model.DatasetRef
asXMLElement(Document) - Method in class ome.xml.model.Detector
asXMLElement(Document, Element) - Method in class ome.xml.model.Detector
asXMLElement(Document) - Method in class ome.xml.model.DetectorSettings
asXMLElement(Document, Element) - Method in class ome.xml.model.DetectorSettings
asXMLElement(Document) - Method in class ome.xml.model.Dichroic
asXMLElement(Document, Element) - Method in class ome.xml.model.Dichroic
asXMLElement(Document) - Method in class ome.xml.model.DichroicRef
asXMLElement(Document, Element) - Method in class ome.xml.model.DichroicRef
asXMLElement(Document) - Method in class ome.xml.model.DoubleAnnotation
asXMLElement(Document, Element) - Method in class ome.xml.model.DoubleAnnotation
asXMLElement(Document) - Method in class ome.xml.model.Ellipse
asXMLElement(Document, Element) - Method in class ome.xml.model.Ellipse
asXMLElement(Document) - Method in class ome.xml.model.EmissionFilterRef
asXMLElement(Document, Element) - Method in class ome.xml.model.EmissionFilterRef
asXMLElement(Document) - Method in class ome.xml.model.ExcitationFilterRef
asXMLElement(Document, Element) - Method in class ome.xml.model.ExcitationFilterRef
asXMLElement(Document) - Method in class ome.xml.model.Experiment
asXMLElement(Document, Element) - Method in class ome.xml.model.Experiment
asXMLElement(Document) - Method in class ome.xml.model.Experimenter
asXMLElement(Document, Element) - Method in class ome.xml.model.Experimenter
asXMLElement(Document) - Method in class ome.xml.model.ExperimenterGroup
asXMLElement(Document, Element) - Method in class ome.xml.model.ExperimenterGroup
asXMLElement(Document) - Method in class ome.xml.model.ExperimenterGroupRef
asXMLElement(Document, Element) - Method in class ome.xml.model.ExperimenterGroupRef
asXMLElement(Document) - Method in class ome.xml.model.ExperimenterRef
asXMLElement(Document, Element) - Method in class ome.xml.model.ExperimenterRef
asXMLElement(Document) - Method in class ome.xml.model.ExperimentRef
asXMLElement(Document, Element) - Method in class ome.xml.model.ExperimentRef
asXMLElement(Document) - Method in class ome.xml.model.External
asXMLElement(Document, Element) - Method in class ome.xml.model.External
asXMLElement(Document) - Method in class ome.xml.model.Filament
asXMLElement(Document, Element) - Method in class ome.xml.model.Filament
asXMLElement(Document) - Method in class ome.xml.model.FileAnnotation
asXMLElement(Document, Element) - Method in class ome.xml.model.FileAnnotation
asXMLElement(Document) - Method in class ome.xml.model.Filter
asXMLElement(Document, Element) - Method in class ome.xml.model.Filter
asXMLElement(Document) - Method in class ome.xml.model.FilterRef
asXMLElement(Document, Element) - Method in class ome.xml.model.FilterRef
asXMLElement(Document) - Method in class ome.xml.model.FilterSet
asXMLElement(Document, Element) - Method in class ome.xml.model.FilterSet
asXMLElement(Document) - Method in class ome.xml.model.FilterSetRef
asXMLElement(Document, Element) - Method in class ome.xml.model.FilterSetRef
asXMLElement(Document) - Method in class ome.xml.model.Image
asXMLElement(Document, Element) - Method in class ome.xml.model.Image
asXMLElement(Document) - Method in class ome.xml.model.ImageRef
asXMLElement(Document, Element) - Method in class ome.xml.model.ImageRef
asXMLElement(Document) - Method in class ome.xml.model.ImagingEnvironment
asXMLElement(Document, Element) - Method in class ome.xml.model.ImagingEnvironment
asXMLElement(Document) - Method in class ome.xml.model.Instrument
asXMLElement(Document, Element) - Method in class ome.xml.model.Instrument
asXMLElement(Document) - Method in class ome.xml.model.InstrumentRef
asXMLElement(Document, Element) - Method in class ome.xml.model.InstrumentRef
asXMLElement(Document) - Method in class ome.xml.model.Label
asXMLElement(Document, Element) - Method in class ome.xml.model.Label
asXMLElement(Document) - Method in class ome.xml.model.Laser
asXMLElement(Document, Element) - Method in class ome.xml.model.Laser
asXMLElement(Document) - Method in class ome.xml.model.Leader
asXMLElement(Document, Element) - Method in class ome.xml.model.Leader
asXMLElement(Document) - Method in class ome.xml.model.LightEmittingDiode
asXMLElement(Document, Element) - Method in class ome.xml.model.LightEmittingDiode
asXMLElement(Document) - Method in class ome.xml.model.LightPath
asXMLElement(Document, Element) - Method in class ome.xml.model.LightPath
asXMLElement(Document, Element) - Method in class ome.xml.model.LightSource
asXMLElement(Document) - Method in class ome.xml.model.LightSourceSettings
asXMLElement(Document, Element) - Method in class ome.xml.model.LightSourceSettings
asXMLElement(Document) - Method in class ome.xml.model.Line
asXMLElement(Document, Element) - Method in class ome.xml.model.Line
asXMLElement(Document) - Method in class ome.xml.model.ListAnnotation
asXMLElement(Document, Element) - Method in class ome.xml.model.ListAnnotation
asXMLElement(Document) - Method in class ome.xml.model.LongAnnotation
asXMLElement(Document, Element) - Method in class ome.xml.model.LongAnnotation
asXMLElement(Document) - Method in class ome.xml.model.ManufacturerSpec
asXMLElement(Document, Element) - Method in class ome.xml.model.ManufacturerSpec
asXMLElement(Document) - Method in class ome.xml.model.Mask
asXMLElement(Document, Element) - Method in class ome.xml.model.Mask
asXMLElement(Document) - Method in class ome.xml.model.MetadataOnly
asXMLElement(Document, Element) - Method in class ome.xml.model.MetadataOnly
asXMLElement(Document) - Method in class ome.xml.model.MicrobeamManipulation
asXMLElement(Document, Element) - Method in class ome.xml.model.MicrobeamManipulation
asXMLElement(Document) - Method in class ome.xml.model.MicrobeamManipulationRef
asXMLElement(Document, Element) - Method in class ome.xml.model.MicrobeamManipulationRef
asXMLElement(Document) - Method in class ome.xml.model.Microscope
asXMLElement(Document, Element) - Method in class ome.xml.model.Microscope
asXMLElement(Document) - Method in class ome.xml.model.NumericAnnotation
asXMLElement(Document, Element) - Method in class ome.xml.model.NumericAnnotation
asXMLElement(Document) - Method in class ome.xml.model.Objective
asXMLElement(Document, Element) - Method in class ome.xml.model.Objective
asXMLElement(Document) - Method in class ome.xml.model.ObjectiveSettings
asXMLElement(Document, Element) - Method in class ome.xml.model.ObjectiveSettings
asXMLElement(Document) - Method in class ome.xml.model.OME
asXMLElement(Document, Element) - Method in class ome.xml.model.OME
asXMLElement(Document) - Method in interface ome.xml.model.OMEModelObject: Takes the entire object hierarchy and produces an XML DOM tree.
asXMLElement(Document) - Method in class ome.xml.model.Pixels
asXMLElement(Document, Element) - Method in class ome.xml.model.Pixels
asXMLElement(Document) - Method in class ome.xml.model.Plane
asXMLElement(Document, Element) - Method in class ome.xml.model.Plane
asXMLElement(Document) - Method in class ome.xml.model.Plate
asXMLElement(Document, Element) - Method in class ome.xml.model.Plate
asXMLElement(Document) - Method in class ome.xml.model.PlateAcquisition
asXMLElement(Document, Element) - Method in class ome.xml.model.PlateAcquisition
asXMLElement(Document) - Method in class ome.xml.model.PlateRef
asXMLElement(Document, Element) - Method in class ome.xml.model.PlateRef
asXMLElement(Document) - Method in class ome.xml.model.Point
asXMLElement(Document, Element) - Method in class ome.xml.model.Point
asXMLElement(Document) - Method in class ome.xml.model.Polygon
asXMLElement(Document, Element) - Method in class ome.xml.model.Polygon
asXMLElement(Document) - Method in class ome.xml.model.Polyline
asXMLElement(Document, Element) - Method in class ome.xml.model.Polyline
asXMLElement(Document) - Method in class ome.xml.model.Project
asXMLElement(Document, Element) - Method in class ome.xml.model.Project
asXMLElement(Document) - Method in class ome.xml.model.ProjectRef
asXMLElement(Document, Element) - Method in class ome.xml.model.ProjectRef
asXMLElement(Document) - Method in class ome.xml.model.Pump
asXMLElement(Document, Element) - Method in class ome.xml.model.Pump
asXMLElement(Document) - Method in class ome.xml.model.Reagent
asXMLElement(Document, Element) - Method in class ome.xml.model.Reagent
asXMLElement(Document) - Method in class ome.xml.model.ReagentRef
asXMLElement(Document, Element) - Method in class ome.xml.model.ReagentRef
asXMLElement(Document) - Method in class ome.xml.model.Rectangle
asXMLElement(Document, Element) - Method in class ome.xml.model.Rectangle
asXMLElement(Document) - Method in class ome.xml.model.Reference
asXMLElement(Document, Element) - Method in class ome.xml.model.Reference
asXMLElement(Document) - Method in class ome.xml.model.Rights
asXMLElement(Document, Element) - Method in class ome.xml.model.Rights
asXMLElement(Document) - Method in class ome.xml.model.ROI
asXMLElement(Document, Element) - Method in class ome.xml.model.ROI
asXMLElement(Document) - Method in class ome.xml.model.ROIRef
asXMLElement(Document, Element) - Method in class ome.xml.model.ROIRef
asXMLElement(Document) - Method in class ome.xml.model.Screen
asXMLElement(Document, Element) - Method in class ome.xml.model.Screen
asXMLElement(Document) - Method in class ome.xml.model.Settings
asXMLElement(Document, Element) - Method in class ome.xml.model.Settings
asXMLElement(Document, Element) - Method in class ome.xml.model.Shape
asXMLElement(Document) - Method in class ome.xml.model.StageLabel
asXMLElement(Document, Element) - Method in class ome.xml.model.StageLabel
asXMLElement(Document) - Method in class ome.xml.model.StructuredAnnotations
asXMLElement(Document, Element) - Method in class ome.xml.model.StructuredAnnotations
asXMLElement(Document) - Method in class ome.xml.model.TagAnnotation
asXMLElement(Document, Element) - Method in class ome.xml.model.TagAnnotation
asXMLElement(Document) - Method in class ome.xml.model.TermAnnotation
asXMLElement(Document, Element) - Method in class ome.xml.model.TermAnnotation
asXMLElement(Document) - Method in class ome.xml.model.TextAnnotation
asXMLElement(Document, Element) - Method in class ome.xml.model.TextAnnotation
asXMLElement(Document) - Method in class ome.xml.model.TiffData
asXMLElement(Document, Element) - Method in class ome.xml.model.TiffData
asXMLElement(Document) - Method in class ome.xml.model.TimestampAnnotation
asXMLElement(Document, Element) - Method in class ome.xml.model.TimestampAnnotation
asXMLElement(Document) - Method in class ome.xml.model.TransmittanceRange
asXMLElement(Document, Element) - Method in class ome.xml.model.TransmittanceRange
asXMLElement(Document) - Method in class ome.xml.model.TypeAnnotation
asXMLElement(Document, Element) - Method in class ome.xml.model.TypeAnnotation
asXMLElement(Document) - Method in class ome.xml.model.Union
asXMLElement(Document, Element) - Method in class ome.xml.model.Union
asXMLElement(Document) - Method in class ome.xml.model.UUID
asXMLElement(Document, Element) - Method in class ome.xml.model.UUID
asXMLElement(Document) - Method in class ome.xml.model.Well
asXMLElement(Document, Element) - Method in class ome.xml.model.Well
asXMLElement(Document) - Method in class ome.xml.model.WellSample
asXMLElement(Document, Element) - Method in class ome.xml.model.WellSample
asXMLElement(Document) - Method in class ome.xml.model.WellSampleRef
asXMLElement(Document, Element) - Method in class ome.xml.model.WellSampleRef
asXMLElement(Document) - Method in class ome.xml.model.XMLAnnotation
asXMLElement(Document, Element) - Method in class ome.xml.model.XMLAnnotation
ATTR_NAME - Static variable in class loci.poi.hssf.record.formula.AbstractFunctionPtg
attrInfoMap - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFMetadataFormat
AttrPtg - Class in loci.poi.hssf.record.formula: "Special Attributes" This seems to be a Misc Stuff and Junk record.
AttrPtg() - Constructor for class loci.poi.hssf.record.formula.AttrPtg
AttrPtg(RecordInputStream) - Constructor for class loci.poi.hssf.record.formula.AttrPtg
authenticationCodes - Variable in class com.sun.media.imageioimpl.plugins.gif.GIFImageMetadata
AUTOMATIC - Static variable in class loci.poi.hssf.record.CalcModeRecord: automatically calculate formulas (1)
AUTOMATIC_EXCEPT_TABLES - Static variable in class loci.poi.hssf.record.CalcModeRecord: automatically calculate formulas except for tables (-1)
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
autoSizeColumn(short) - Method in class loci.poi.hssf.usermodel.HSSFSheet: Adjusts the column width to fit the contents.
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.common.NIOInputStream
available() - Method in class loci.common.RandomAccessInputStream
available() - Method in class loci.poi.poifs.filesystem.DocumentInputStream: Returns the number of bytes that can be read (or skipped over) from this input stream without blocking by the next caller of a method for this input stream.
available() - Method in class loci.poi.util.BlockingInputStream
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
avoidUndeclaredNamespaces(String) - Static method in class loci.common.xml.XMLTools: Replaces NS:tag with NS_tag for undeclared namespaces
AWTImageTools - Class in loci.formats.gui: A utility class with convenience methods for manipulating images in BufferedImage form.
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_TYPE_AXIS_LINE - Static variable in class loci.poi.hssf.record.AxisLineFormatRecord
AXIS_TYPE_CATEGORY_OR_X_AXIS - Static variable in class loci.poi.hssf.record.AxisRecord
AXIS_TYPE_MAIN - Static variable in class loci.poi.hssf.record.AxisParentRecord
AXIS_TYPE_MAJOR_GRID_LINE - Static variable in class loci.poi.hssf.record.AxisLineFormatRecord
AXIS_TYPE_MINOR_GRID_LINE - Static variable in class loci.poi.hssf.record.AxisLineFormatRecord
AXIS_TYPE_SECONDARY - Static variable in class loci.poi.hssf.record.AxisParentRecord
AXIS_TYPE_SERIES_AXIS - Static variable in class loci.poi.hssf.record.AxisRecord
AXIS_TYPE_VALUE_AXIS - Static variable in class loci.poi.hssf.record.AxisRecord
AXIS_TYPE_WALLS_OR_FLOOR - Static variable in class loci.poi.hssf.record.AxisLineFormatRecord
AxisGuesser - Class in loci.formats: AxisGuesser guesses which blocks in a file pattern correspond to which dimensional axes (Z, T or C), 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.
AxisLineFormatRecord - Class in loci.poi.hssf.record: The axis line format record defines the axis type details.
AxisLineFormatRecord() - Constructor for class loci.poi.hssf.record.AxisLineFormatRecord
AxisLineFormatRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.AxisLineFormatRecord: Constructs a AxisLineFormat record and sets its fields appropriately.
AxisOptionsRecord - Class in loci.poi.hssf.record: The axis options record provides unit information and other various tidbits about the axis.
AxisOptionsRecord() - Constructor for class loci.poi.hssf.record.AxisOptionsRecord
AxisOptionsRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.AxisOptionsRecord: Constructs a AxisOptions record and sets its fields appropriately.
AxisParentRecord - Class in loci.poi.hssf.record: The axis size and location NOTE: This source is automatically generated please do not modify this file.
AxisParentRecord() - Constructor for class loci.poi.hssf.record.AxisParentRecord
AxisParentRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.AxisParentRecord: Constructs a AxisParent record and sets its fields appropriately.
AxisRecord - Class in loci.poi.hssf.record: The axis record defines the type of an axis.
AxisRecord() - Constructor for class loci.poi.hssf.record.AxisRecord
AxisRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.AxisRecord: Constructs a Axis record and sets its fields appropriately.
axisTypes - Variable in class loci.formats.AxisGuesser: Guessed axis types.
AxisUsedRecord - Class in loci.poi.hssf.record: The number of axes used on a chart.
AxisUsedRecord() - Constructor for class loci.poi.hssf.record.AxisUsedRecord
AxisUsedRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.AxisUsedRecord: Constructs a AxisUsed record and sets its fields appropriately.
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

ba - Variable in class mdbtools.libmdb.Holder
backend - Class in mdbtools.libmdb
backend() - Constructor for class mdbtools.libmdb.backend
backend_name - Variable in class mdbtools.libmdb.MdbFile
backend_name - Variable in class mdbtools.libmdb.MdbHandle
BACKGROUND_TABLE - Static variable in class loci.formats.in.LiFlimReader
backgroundColorIndex - Variable in class com.sun.media.imageioimpl.plugins.gif.GIFStreamMetadata
BackupRecord - Class in loci.poi.hssf.record: Title: Backup Record
BackupRecord() - Constructor for class loci.poi.hssf.record.BackupRecord
BackupRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.BackupRecord: Constructs a BackupRecord and sets its fields appropriately
BACKWARD_ORDER - Static variable in interface loci.formats.cache.ICacheStrategy
baos - Variable in class jj2000.j2k.codestream.writer.HeaderEncoder: The ByteArrayOutputStream to store header data.
BarRecord - Class in loci.poi.hssf.record: The bar record is used to define a bar chart.
BarRecord() - Constructor for class loci.poi.hssf.record.BarRecord
BarRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.BarRecord: Constructs a Bar record and sets its fields appropriately.
Base64Codec - Class in loci.formats.codec: Implements encoding (compress) and decoding (decompress) methods for Base64.
Base64Codec() - Constructor for class loci.formats.codec.Base64Codec
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
BaseHandler - Class in loci.common.xml: Top-level SAX handler.
BaseHandler() - Constructor for class loci.common.xml.BaseHandler
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.
BaseMetadata - Interface in loci.formats.meta: Source code: Trac, Gitweb
BaseMetadata - Interface in ome.xml.meta: A proxy capable of bidirectional communication of biological image data to and from a particular storage medium.
basename - Variable in class loci.formats.in.ZeissTIFFHandler.Plane
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.Context - Enum in loci.formats.in
BaseZeissReader.Tag - Class in loci.formats.in: Content of a single tag from a Tags block.
BaseZeissReader.Tag(int, BaseZeissReader.Context) - Constructor for class loci.formats.in.BaseZeissReader.Tag: Constructor.
BaseZeissReader.Tag(int, String, BaseZeissReader.Context) - Constructor for class loci.formats.in.BaseZeissReader.Tag: Constructor.
BasicAnnotation - Class in ome.xml.model
BasicAnnotation() - Constructor for class ome.xml.model.BasicAnnotation: Default constructor.
BasicAnnotation(Element, OMEModel) - Constructor for class ome.xml.model.BasicAnnotation: Constructs BasicAnnotation recursively from an XML DOM tree.
BasicAnnotation(BasicAnnotation) - Constructor for class ome.xml.model.BasicAnnotation: Copy constructor.
BATBlock - Class in loci.poi.poifs.storage: A block of block allocation table entries.
BATManaged - Interface in loci.poi.poifs.filesystem: This interface defines behaviors for objects managed by the Block Allocation Table (BAT).
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.
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.
beforeRecordSerialize(int, short, EscherRecord) - Method in interface loci.poi.ddf.EscherSerializationListener: Fired before a given escher record is serialized.
beforeRecordSerialize(int, short, EscherRecord) - Method in class loci.poi.ddf.NullEscherSerializationListener
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
BeginRecord - Class in loci.poi.hssf.record: The begin record defines the start of a block of records for a (grpahing data object.
BeginRecord() - Constructor for class loci.poi.hssf.record.BeginRecord
BeginRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.BeginRecord: Constructs a BeginRecord record and sets its fields appropriately.
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
BF - Class in loci.plugins: Miscellaneous plugins utility methods.
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
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_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
BiffViewer - Class in loci.poi.hssf.dev: Utillity for reading in BIFF8 records and displaying data from them.
BiffViewer(String[]) - Constructor for class loci.poi.hssf.dev.BiffViewer: Creates new BiffViewer
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_SPOTS - Static variable in class loci.poi.hssf.record.ExtendedFormatRecord
BIG_SPOTS - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: Large spots
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_MAGIC_NUMBER - Static variable in class loci.formats.tiff.TiffConstants
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.
BinaryFile - Class in ome.xml.model
BinaryFile() - Constructor for class ome.xml.model.BinaryFile: Default constructor.
BinaryFile(Element, OMEModel) - Constructor for class ome.xml.model.BinaryFile: Constructs BinaryFile recursively from an XML DOM tree.
BinaryFile(BinaryFile) - Constructor for class ome.xml.model.BinaryFile: Copy constructor.
BinaryOnly - Class in ome.xml.model
BinaryOnly() - Constructor for class ome.xml.model.BinaryOnly: Default constructor.
BinaryOnly(Element, OMEModel) - Constructor for class ome.xml.model.BinaryOnly: Constructs BinaryOnly recursively from an XML DOM tree.
BinaryOnly(BinaryOnly) - Constructor for class ome.xml.model.BinaryOnly: Copy constructor.
BinaryTree - Class in loci.poi.util: Red-Black tree-based implementation of Map.
BinaryTree() - Constructor for class loci.poi.util.BinaryTree: Construct a new BinaryTree
BinaryTree(Map) - Constructor for class loci.poi.util.BinaryTree: Constructs a new BinaryTree from an existing Map, with keys and values sorted
bind_ptr - Variable in class mdbtools.libmdb.MdbColumn
BinData - Class in ome.xml.model
BinData() - Constructor for class ome.xml.model.BinData: Default constructor.
BinData(Element, OMEModel) - Constructor for class ome.xml.model.BinData: Constructs BinData recursively from an XML DOM tree.
BinData(BinData) - Constructor for class ome.xml.model.BinData: Copy constructor.
Binning - Enum in ome.xml.model.enums
BinningEnumHandler - Class in ome.xml.model.enums.handlers: Enumeration handler for Binning.
BinningEnumHandler() - Constructor for class ome.xml.model.enums.handlers.BinningEnumHandler
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.
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.
BioRadSCNReader - Class in loci.formats.in: BioRadSCNReader is the reader for Bio-Rad .scn files Source code: Trac, Gitweb
BioRadSCNReader() - Constructor for class loci.formats.in.BioRadSCNReader: Constructs a new Bio-Rad .scn reader.
BitBuffer - Class in loci.formats.codec: A class for reading arbitrary numbers of bits from a byte array.
BitBuffer(byte[]) - Constructor for class loci.formats.codec.BitBuffer: Default constructor.
BitField - Class in loci.poi.util: Manage operations dealing with bit-mapped fields.
BitField(int) - Constructor for class loci.poi.util.BitField: Create a BitField instance
BitFieldFactory - Class in loci.poi.util: Returns immutable Btfield instances.
BitFieldFactory() - Constructor for class loci.poi.util.BitFieldFactory
BitFile - Class in com.sun.media.imageioimpl.common: Came from GIFEncoder initially.
BitFile(ImageOutputStream, boolean) - Constructor for class com.sun.media.imageioimpl.common.BitFile
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'.
bits - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxCompressor: Output bit buffer.
BITS_PER_COMPONENT_BOX - Static variable in interface jj2000.j2k.fileformat.FileFormatBoxes
BITS_PER_SAMPLE - Static variable in class loci.formats.tiff.IFD
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.BMPMetadata
bitsPerPixel - Variable in class loci.formats.CoreMetadata: Number of valid bits per pixel.
bitsPerSample - Variable in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor: The value of the BitsPerSample tag.
bitsPerSample - Variable in class loci.formats.codec.CodecOptions: Number of bits per channel.
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.
BitWriter - Class in loci.formats.codec: A class for writing arbitrary numbers of bits to a byte array.
BitWriter() - Constructor for class loci.formats.codec.BitWriter: Constructs a new bit writer.
BitWriter(int) - Constructor for class loci.formats.codec.BitWriter: Constructs a new bit writer with the given initial buffer size.
BLACK - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxCompressor: The CCITT numerical definition of black.
blankImage(int, int, int, int) - Static method in class loci.formats.gui.AWTImageTools: Creates a blank image with the given dimensions and transfer type.
BlankRecord - Class in loci.poi.hssf.record: Title: Blank cell record
BlankRecord() - Constructor for class loci.poi.hssf.record.BlankRecord: Creates a new instance of BlankRecord
BlankRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.BlankRecord: Constructs a BlankRecord and sets its fields appropriately
BLIP__BLIPFILENAME - Static variable in class loci.poi.ddf.EscherProperties
BLIP__BLIPFLAGS - Static variable in class loci.poi.ddf.EscherProperties
BLIP__BLIPTODISPLAY - Static variable in class loci.poi.ddf.EscherProperties
BLIP__BRIGHTNESSSETTING - Static variable in class loci.poi.ddf.EscherProperties
BLIP__CONTRASTSETTING - Static variable in class loci.poi.ddf.EscherProperties
BLIP__CROPFROMBOTTOM - Static variable in class loci.poi.ddf.EscherProperties
BLIP__CROPFROMLEFT - Static variable in class loci.poi.ddf.EscherProperties
BLIP__CROPFROMRIGHT - Static variable in class loci.poi.ddf.EscherProperties
BLIP__CROPFROMTOP - Static variable in class loci.poi.ddf.EscherProperties
BLIP__DOUBLEMOD - Static variable in class loci.poi.ddf.EscherProperties
BLIP__GAMMA - Static variable in class loci.poi.ddf.EscherProperties
BLIP__NOHITTESTPICTURE - Static variable in class loci.poi.ddf.EscherProperties
BLIP__PICTUREACTIVE - Static variable in class loci.poi.ddf.EscherProperties
BLIP__PICTUREBILEVEL - Static variable in class loci.poi.ddf.EscherProperties
BLIP__PICTUREFILLMOD - Static variable in class loci.poi.ddf.EscherProperties
BLIP__PICTUREGRAY - Static variable in class loci.poi.ddf.EscherProperties
BLIP__PICTUREID - Static variable in class loci.poi.ddf.EscherProperties
BLIP__PICTURELINE - Static variable in class loci.poi.ddf.EscherProperties
BLIP__PRINTBLIP - Static variable in class loci.poi.ddf.EscherProperties
BLIP__PRINTBLIPFILENAME - Static variable in class loci.poi.ddf.EscherProperties
BLIP__PRINTFLAGS - Static variable in class loci.poi.ddf.EscherProperties
BLIP__TRANSPARENTCOLOR - Static variable in class loci.poi.ddf.EscherProperties
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_END - Static variable in class loci.formats.FilePatternBlock
BLOCK_SIZE - Static variable in class loci.poi.hssf.record.DBCellRecord
BLOCK_START - Static variable in class loci.formats.FilePatternBlock
BlockAllocationTableReader - Class in loci.poi.poifs.storage: This class manages and creates the Block Allocation Table, which is basically a set of linked lists of block indices.
BlockAllocationTableReader(int, int[], int, int, BlockList, int) - Constructor for class loci.poi.poifs.storage.BlockAllocationTableReader: create a BlockAllocationTableReader for an existing filesystem.
BlockAllocationTableWriter - Class in loci.poi.poifs.storage: This class manages and creates the Block Allocation Table, which is basically a set of linked lists of block indices.
BlockAllocationTableWriter() - Constructor for class loci.poi.poifs.storage.BlockAllocationTableWriter: create a BlockAllocationTableWriter
BlockingInputStream - Class in loci.poi.util: Implementation of a BlockingInputStream to provide data to RawDataBlock that expects data in 512 byte chunks.
BlockingInputStream(InputStream) - Constructor for class loci.poi.util.BlockingInputStream
blockLength - Variable in class loci.formats.in.SDTInfo: reserved2 now contains block (set) length.
BlockList - Interface in loci.poi.poifs.storage: Interface for lists of blocks that are mapped by block allocation tables
blockNo - Variable in class loci.formats.in.SDTInfo: Number of the block in the file.
blockType - Variable in class loci.formats.in.SDTInfo: See blockType defines below.
BlockWritable - Interface in loci.poi.poifs.storage: An interface for persisting block storage of POIFS components.
blue - Variable in class com.sun.media.imageioimpl.common.PaletteBuilder.ColorNode
blue - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
blueMask - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
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_MAGIC_STRING - Static variable in class loci.formats.in.BMPReader
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.
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.
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
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.
bmpVersion - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
bms - Variable in class jj2000.j2k.entropy.encoder.StdEntropyCoder: By-pass mode specifications
BOFRecord - Class in loci.poi.hssf.record: Title: Beginning Of File
BOFRecord() - Constructor for class loci.poi.hssf.record.BOFRecord: Constructs an empty BOFRecord with no fields set.
BOFRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.BOFRecord: Constructs a BOFRecord and sets its fields appropriately
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.
BOLDWEIGHT_BOLD - Static variable in class loci.poi.hssf.usermodel.HSSFFont: Bold boldness (bold)
BOLDWEIGHT_NORMAL - Static variable in class loci.poi.hssf.usermodel.HSSFFont: Normal boldness (not bold)
book - Variable in class loci.poi.hssf.usermodel.HSSFSheet
BookBoolRecord - Class in loci.poi.hssf.record: Title: Save External Links record (BookBool)
BookBoolRecord() - Constructor for class loci.poi.hssf.record.BookBoolRecord
BookBoolRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.BookBoolRecord: Constructs a BookBoolRecord and sets its fields appropriately
BooleanAnnotation - Class in ome.xml.model
BooleanAnnotation() - Constructor for class ome.xml.model.BooleanAnnotation: Default constructor.
BooleanAnnotation(Element, OMEModel) - Constructor for class ome.xml.model.BooleanAnnotation: Constructs BooleanAnnotation recursively from an XML DOM tree.
BooleanAnnotation(BooleanAnnotation) - Constructor for class ome.xml.model.BooleanAnnotation: Copy constructor.
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.
BoolErrRecord - Class in loci.poi.hssf.record: Creates new BoolErrRecord.
BoolErrRecord() - Constructor for class loci.poi.hssf.record.BoolErrRecord: Creates new BoolErrRecord
BoolErrRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.BoolErrRecord: Constructs a BoolErr record and sets its fields appropriately.
BoolPtg - Class in loci.poi.hssf.record.formula: Boolean (boolean) Stores a (java) boolean value in a formula.
BoolPtg(RecordInputStream) - Constructor for class loci.poi.hssf.record.formula.BoolPtg
BoolPtg(String) - Constructor for class loci.poi.hssf.record.formula.BoolPtg
BORDER - Static variable in class loci.plugins.shortcut.ShortcutPanel: Number of pixels for window border.
BORDER_DASH_DOT - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: dash-dot border
BORDER_DASH_DOT_DOT - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: dash-dot-dot border
BORDER_DASHED - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: dash border
BORDER_DOTTED - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: hair-line border
BORDER_DOUBLE - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: double-line border
BORDER_HAIR - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: dot border
BORDER_MEDIUM - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: Medium border
BORDER_MEDIUM_DASH_DOT - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: medium dash-dot border
BORDER_MEDIUM_DASH_DOT_DOT - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: medium dash-dot-dot border
BORDER_MEDIUM_DASHED - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: Medium dashed border
BORDER_NONE - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: No border
BORDER_SLANTED_DASH_DOT - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: slanted dash-dot border
BORDER_THICK - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: Thick border
BORDER_THIN - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: Thin border
BORDER_TYPE_REGULAR - Static variable in class loci.poi.hssf.record.FrameRecord
BORDER_TYPE_SHADOW - Static variable in class loci.poi.hssf.record.FrameRecord
bordL - Variable in class loci.formats.in.SDTInfo
bordU - Variable in class loci.formats.in.SDTInfo
BottomMargin - Static variable in class loci.poi.hssf.model.Sheet
BottomMargin - Static variable in class loci.poi.hssf.usermodel.HSSFSheet
BottomMarginRecord - Class in loci.poi.hssf.record: Record for the bottom margin.
BottomMarginRecord() - Constructor for class loci.poi.hssf.record.BottomMarginRecord
BottomMarginRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.BottomMarginRecord: Constructs a BottomMargin record and sets its fields appropriately.
BoundSheetRecord - Class in loci.poi.hssf.record: Title: Bound Sheet Record (aka BundleSheet)
BoundSheetRecord() - Constructor for class loci.poi.hssf.record.BoundSheetRecord
BoundSheetRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.BoundSheetRecord: Constructs a BoundSheetRecord and sets its fields appropriately
boundsheets - Variable in class loci.poi.hssf.model.Workbook: holds the "boundsheet" records (aka bundlesheet) so that they can have their reference to their "BOF" marker
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
bpp - Variable in class loci.formats.in.BaseZeissReader: Number of bytes per pixel.
BRICKS - Static variable in class loci.poi.hssf.record.ExtendedFormatRecord
BRICKS - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle: Brick-like layout
BRIGHTNESS_VALUE - Static variable in class loci.formats.tiff.IFD
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.
BSTORE_CONTAINER - Static variable in class loci.poi.ddf.EscherContainerRecord
BT_DIB - Static variable in class loci.poi.ddf.EscherBSERecord
BT_EMF - Static variable in class loci.poi.ddf.EscherBSERecord
BT_ERROR - Static variable in class loci.poi.ddf.EscherBSERecord
BT_JPEG - Static variable in class loci.poi.ddf.EscherBSERecord
BT_PICT - Static variable in class loci.poi.ddf.EscherBSERecord
BT_PNG - Static variable in class loci.poi.ddf.EscherBSERecord
BT_UNKNOWN - Static variable in class loci.poi.ddf.EscherBSERecord
BT_WMF - Static variable in class loci.poi.ddf.EscherBSERecord
BUBBLE_SERIES_TYPE_DATES - Static variable in class loci.poi.hssf.record.SeriesRecord
BUBBLE_SERIES_TYPE_NUMERIC - Static variable in class loci.poi.hssf.record.SeriesRecord
BUBBLE_SERIES_TYPE_SEQUENCE - Static variable in class loci.poi.hssf.record.SeriesRecord
BUBBLE_SERIES_TYPE_TEXT - Static variable in class loci.poi.hssf.record.SeriesRecord
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 loci.common.ByteArrayHandle: Backing ByteBuffer.
buffer - Variable in class loci.common.NIOFileHandle: The buffer itself.
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.
bufferSize - Variable in class loci.common.NIOFileHandle: The buffer size.
bufferStartPosition - Variable in class loci.common.NIOFileHandle: The absolute position of the start of the buffer.
bugaddr - Static variable in class jj2000.j2k.JJ2KInfo: The bug reporting e-mail address
BUILD - Static variable in class loci.poi.hssf.record.BOFRecord: suggested default 0x10d3
BUILD_YEAR - Static variable in class loci.poi.hssf.record.BOFRecord: suggested default 0x07CC (1996)
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.
buildFontCharactersProperty(String) - Static method in class loci.poi.hssf.usermodel.FontDetails
buildFontHeightProperty(String) - Static method in class loci.poi.hssf.usermodel.FontDetails
buildFontWidthsProperty(String) - Static method in class loci.poi.hssf.usermodel.FontDetails
buildFunction(Function, Object) - Method in class mdbtools.dbengine.Tests
buildFunction(Aggregate, Object) - Method in class mdbtools.dbengine.Tests
buildPalette() - Method in class com.sun.media.imageioimpl.common.PaletteBuilder
BUILTIN_AUTO_ACTIVATE - Static variable in class loci.poi.hssf.record.NameRecord: Included for completeness sake, not implemented
BUILTIN_AUTO_CLOSE - Static variable in class loci.poi.hssf.record.NameRecord: Included for completeness sake, not implemented
BUILTIN_AUTO_DEACTIVATE - Static variable in class loci.poi.hssf.record.NameRecord: Included for completeness sake, not implemented
BUILTIN_AUTO_OPEN - Static variable in class loci.poi.hssf.record.NameRecord: Included for completeness sake, not implemented
BUILTIN_CONSOLIDATE_AREA - Static variable in class loci.poi.hssf.record.NameRecord: Included for completeness sake, not implemented
BUILTIN_CRITERIA - Static variable in class loci.poi.hssf.record.NameRecord: Included for completeness sake, not implemented
BUILTIN_DATA_FORM - Static variable in class loci.poi.hssf.record.NameRecord: Included for completeness sake, not implemented
BUILTIN_DATABASE - Static variable in class loci.poi.hssf.record.NameRecord: Included for completeness sake, not implemented
BUILTIN_PRINT_AREA - Static variable in class loci.poi.hssf.record.NameRecord
BUILTIN_PRINT_TITLE - Static variable in class loci.poi.hssf.record.NameRecord
BUILTIN_RECORDER - Static variable in class loci.poi.hssf.record.NameRecord: Included for completeness sake, not implemented
BUILTIN_SHEET_TITLE - Static variable in class loci.poi.hssf.record.NameRecord: Included for completeness sake, not implemented
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.
BYTE_SIZE - Static variable in interface loci.poi.util.LittleEndianConsts
ByteArrayHandle - Class in loci.common: A wrapper for a byte array that implements the IRandomAccess interface.
ByteArrayHandle(byte[]) - Constructor for class loci.common.ByteArrayHandle: Creates a random access byte stream to read from, and write to, the bytes specified by the byte[] argument.
ByteArrayHandle(ByteBuffer) - Constructor for class loci.common.ByteArrayHandle
ByteArrayHandle(int) - Constructor for class loci.common.ByteArrayHandle: Creates a random access byte stream to read from, and write to.
ByteArrayHandle() - Constructor for class loci.common.ByteArrayHandle: Creates a random access byte stream to write to a byte array.
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.
byteBuffer - Variable in class jj2000.j2k.io.BufferedRandomAccessFile: Buffer of bytes containing the part of the file that is currently being accessed
byteBufferChanged - Variable in class jj2000.j2k.io.BufferedRandomAccessFile: Boolean keeping track of whether the byte buffer has been changed since it was read.
byteBufferProvider - Variable in class loci.common.NIOFileHandle: Provider class for NIO byte buffers, allocated or memory mapped.
byteCount - Variable in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor: The number of bytes of data from the source ImageInputStream to be decompressed.
ByteField - Class in loci.poi.util: representation of a byte (8-bit) field at a fixed location within a byte array
ByteField(int) - Constructor for class loci.poi.util.ByteField: construct the ByteField with its offset into its containing byte array and a default value of 0
ByteField(int, byte) - Constructor for class loci.poi.util.ByteField: construct the ByteField with its offset into its containing byte array and initialize its value
ByteField(int, byte[]) - Constructor for class loci.poi.util.ByteField: Construct the ByteField with its offset into its containing byte array and initialize its value from its byte array
ByteField(int, byte, byte[]) - Constructor for class loci.poi.util.ByteField: construct the ByteField with its offset into its containing byte array, initialize its value, and write its value to its byte array
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.TIFFStreamMetadata
byteOrder - Variable in class loci.poi.hpsf.PropertySet: Specifies this PropertySet's byte order.
byteOrdering - Variable in class jj2000.j2k.io.BufferedRandomAccessFile
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.
bytes - Variable in class loci.formats.tiff.TiffSaver: Output bytes.
bytes - Variable in class loci.poi.hpsf.ClassID: The bytes making out the class ID in correct order, i.e.
BYTES_PER_ENTRY - Static variable in class loci.formats.tiff.TiffConstants: The number of bytes in each IFD entry.
bytesToDouble(byte[], int, int, boolean) - Static method in class loci.common.DataTools: Translates up to the first len bytes of a byte array beyond the given offset to a double.
bytesToDouble(byte[], int, boolean) - Static method in class loci.common.DataTools: Translates up to the first 8 bytes of a byte array beyond the given offset to a double.
bytesToDouble(byte[], boolean) - Static method in class loci.common.DataTools: Translates up to the first 8 bytes of a byte array to a double.
bytesToDouble(short[], int, int, boolean) - Static method in class loci.common.DataTools: Translates up to the first len bytes of a byte array beyond the given offset to a double.
bytesToDouble(short[], int, boolean) - Static method in class loci.common.DataTools: Translates up to the first 8 bytes of a byte array beyond the given offset to a double.
bytesToDouble(short[], boolean) - Static method in class loci.common.DataTools: Translates up to the first 8 bytes of a byte array to a double.
bytesToFloat(byte[], int, int, boolean) - Static method in class loci.common.DataTools: Translates up to the first len bytes of a byte array beyond the given offset to a float.
bytesToFloat(byte[], int, boolean) - Static method in class loci.common.DataTools: Translates up to the first 4 bytes of a byte array beyond a given offset to a float.
bytesToFloat(byte[], boolean) - Static method in class loci.common.DataTools: Translates up to the first 4 bytes of a byte array to a float.
bytesToFloat(short[], int, int, boolean) - Static method in class loci.common.DataTools: Translates up to the first len bytes of a byte array beyond a given offset to a float.
bytesToFloat(short[], int, boolean) - Static method in class loci.common.DataTools: Translates up to the first 4 bytes of a byte array beyond a given offset to a float.
bytesToFloat(short[], boolean) - Static method in class loci.common.DataTools: Translates up to the first 4 bytes of a byte array to a float.
bytesToHex(byte[]) - Static method in class loci.common.DataTools: Translates the given byte array into a String of hexadecimal digits.
bytesToInt(byte[], int, int, boolean) - Static method in class loci.common.DataTools: Translates up to the first len bytes of a byte array beyond the given offset to an int.
bytesToInt(byte[], int, boolean) - Static method in class loci.common.DataTools: Translates up to the first 4 bytes of a byte array beyond the given offset to an int.
bytesToInt(byte[], boolean) - Static method in class loci.common.DataTools: Translates up to the first 4 bytes of a byte array to an int.
bytesToInt(short[], int, int, boolean) - Static method in class loci.common.DataTools: Translates up to the first len bytes of a byte array beyond the given offset to an int.
bytesToInt(short[], int, boolean) - Static method in class loci.common.DataTools: Translates up to the first 4 bytes of a byte array beyond the given offset to an int.
bytesToInt(short[], boolean) - Static method in class loci.common.DataTools: Translates up to the first 4 bytes of a byte array to an int.
bytesToLong(byte[], int, int, boolean) - Static method in class loci.common.DataTools: Translates up to the first len bytes of a byte array beyond the given offset to a long.
bytesToLong(byte[], int, boolean) - Static method in class loci.common.DataTools: Translates up to the first 8 bytes of a byte array beyond the given offset to a long.
bytesToLong(byte[], boolean) - Static method in class loci.common.DataTools: Translates up to the first 8 bytes of a byte array to a long.
bytesToLong(short[], int, int, boolean) - Static method in class loci.common.DataTools: Translates up to the first len bytes of a byte array beyond the given offset to a long.
bytesToLong(short[], int, boolean) - Static method in class loci.common.DataTools: Translates up to the first 8 bytes of a byte array beyond the given offset to a long.
bytesToLong(short[], boolean) - Static method in class loci.common.DataTools: Translates up to the first 8 bytes of a byte array to a long.
bytesToShort(byte[], int, int, boolean) - Static method in class loci.common.DataTools: Translates up to the first len bytes of a byte array beyond the given offset to a short.
bytesToShort(byte[], int, boolean) - Static method in class loci.common.DataTools: Translates up to the first 2 bytes of a byte array beyond the given offset to a short.
bytesToShort(byte[], boolean) - Static method in class loci.common.DataTools: Translates up to the first 2 bytes of a byte array to a short.
bytesToShort(short[], int, int, boolean) - Static method in class loci.common.DataTools: Translates up to the first len bytes of a byte array byond the given offset to a short.
bytesToShort(short[], int, boolean) - Static method in class loci.common.DataTools: Translates up to the first 2 bytes of a byte array byond the given offset to a short.
bytesToShort(short[], boolean) - Static method in class loci.common.DataTools: Translates up to the first 2 bytes of a byte array to a short.
byteTable - Static variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxCompressor
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
BZip2Handle - Class in loci.common: StreamHandle implementation for reading from BZip2-compressed files or byte arrays.
BZip2Handle(String) - Constructor for class loci.common.BZip2Handle: Construct a new BZip2Handle corresponding to the given file.

C

C - Static variable in class loci.formats.AxisGuesser: Prefix endings indicating channel dimension.
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_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.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.
cacheDirectoryListings(boolean) - Static method in class loci.common.Location: Turn cacheing of directory listings on or off.
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
CalcCountRecord - Class in loci.poi.hssf.record: Title: Calc Count Record Description: Specifies the maximum times the gui should perform a formula recalculation.
CalcCountRecord() - Constructor for class loci.poi.hssf.record.CalcCountRecord
CalcCountRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.CalcCountRecord: Constructs a CalcCountRecord and sets its fields appropriately
calcExtSSTRecordSize() - Method in class loci.poi.hssf.record.SSTRecord: Calculates the size in bytes of the EXTSST record as it would be if the record was serialized.
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.
CalcModeRecord - Class in loci.poi.hssf.record: Title: Calc Mode Record
CalcModeRecord() - Constructor for class loci.poi.hssf.record.CalcModeRecord
CalcModeRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.CalcModeRecord: Constructs a CalcModeRecord and sets its fields appropriately
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.
calcSize(int) - Static method in class loci.poi.poifs.storage.SmallDocumentBlock: Calculate the storage size of a set of SmallDocumentBlocks
calculateStorageRequirements(int, int) - Static method in class loci.poi.poifs.storage.BATBlock: Calculate how many BATBlocks are needed to hold a specified number of BAT entries.
calculateXBATStorageRequirements(int, int) - Static method in class loci.poi.poifs.storage.BATBlock: Calculate how many XBATBlocks are needed to hold a specified number of BAT entries.
Calibrator - Class in loci.plugins.in: Logic for calibrating images.
Calibrator(ImportProcess) - Constructor for class loci.plugins.in.Calibrator
CALLOUT__CALLOUTACCENTBAR - Static variable in class loci.poi.ddf.EscherProperties
CALLOUT__CALLOUTANGLE - Static variable in class loci.poi.ddf.EscherProperties
CALLOUT__CALLOUTDROPSPECIFIED - Static variable in class loci.poi.ddf.EscherProperties
CALLOUT__CALLOUTDROPTYPE - Static variable in class loci.poi.ddf.EscherProperties
CALLOUT__CALLOUTLENGTHSPECIFIED - Static variable in class loci.poi.ddf.EscherProperties
CALLOUT__CALLOUTMINUSX - Static variable in class loci.poi.ddf.EscherProperties
CALLOUT__CALLOUTMINUSY - Static variable in class loci.poi.ddf.EscherProperties
CALLOUT__CALLOUTTEXTBORDER - Static variable in class loci.poi.ddf.EscherProperties
CALLOUT__CALLOUTTYPE - Static variable in class loci.poi.ddf.EscherProperties
CALLOUT__DROPAUTO - Static variable in class loci.poi.ddf.EscherProperties
CALLOUT__ISCALLOUT - Static variable in class loci.poi.ddf.EscherProperties
CALLOUT__LENGTHSPECIFIED - Static variable in class loci.poi.ddf.EscherProperties
CALLOUT__XYCALLOUTGAP - Static variable in class loci.poi.ddf.EscherProperties
CAN_GROUP - Static variable in class loci.formats.FormatTools
CAN_GROUP - Static variable in interface loci.formats.IFormatReader
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.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.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
canFitInMemory(long) - Static method in class loci.tests.testng.TestTools: Returns true if a byte buffer of the given size will fit in memory.
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
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
CANNOT_GROUP - Static variable in class loci.formats.FormatTools
CANNOT_GROUP - Static variable in interface loci.formats.IFormatReader
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.
canRead() - Method in class loci.common.Location: If the underlying location is a URL, this method will return true if the URL exists.
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
canWrite() - Method in class loci.common.Location: If the underlying location is a URL, this method will always return false.
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_RESOLUTION_BOX - Static variable in interface jj2000.j2k.fileformat.FileFormatBoxes
CaseInsensitiveLocation - Class in loci.common: Case insensitive variant of Location.
CaseInsensitiveLocation(String) - Constructor for class loci.common.CaseInsensitiveLocation
CaseInsensitiveLocation(File) - Constructor for class loci.common.CaseInsensitiveLocation
CaseInsensitiveLocation(String, String) - Constructor for class loci.common.CaseInsensitiveLocation
CaseInsensitiveLocation(CaseInsensitiveLocation, String) - Constructor for class loci.common.CaseInsensitiveLocation
cat(byte[][]) - Static method in class loci.poi.hpsf.Util: Concatenates the contents of several byte arrays into a single one.
Catalog - Class in mdbtools.libmdb
Catalog() - Constructor for class mdbtools.libmdb.Catalog
catalog - Variable in class mdbtools.libmdb.MdbHandle
CATEGORY_DATA_TYPE_ALL_TEXT_CHARACTERISTIC - Static variable in class loci.poi.hssf.record.DefaultDataLabelTextPropertiesRecord
CATEGORY_DATA_TYPE_DATES - Static variable in class loci.poi.hssf.record.SeriesRecord
CATEGORY_DATA_TYPE_NUMERIC - Static variable in class loci.poi.hssf.record.SeriesRecord
CATEGORY_DATA_TYPE_SEQUENCE - Static variable in class loci.poi.hssf.record.SeriesRecord
CATEGORY_DATA_TYPE_SHOW_LABELS_CHARACTERISTIC - Static variable in class loci.poi.hssf.record.DefaultDataLabelTextPropertiesRecord
CATEGORY_DATA_TYPE_TEXT - Static variable in class loci.poi.hssf.record.SeriesRecord
CATEGORY_DATA_TYPE_VALUE_AND_PERCENTAGE_CHARACTERISTIC - Static variable in class loci.poi.hssf.record.DefaultDataLabelTextPropertiesRecord
CategorySeriesAxisRecord - Class in loci.poi.hssf.record: This record refers to a category or series axis and is used to specify label/tickmark frequency.
CategorySeriesAxisRecord() - Constructor for class loci.poi.hssf.record.CategorySeriesAxisRecord
CategorySeriesAxisRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.CategorySeriesAxisRecord: Constructs a CategorySeriesAxis record and sets its fields appropriately.
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.decoder.DecoderSpecs: Code-blocks sizes specification
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 ParameterList instance.
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)
CBZip2InputStream - Class in loci.common: An input stream that decompresses from the BZip2 format (without the file header chars) to be read as any other stream.
CBZip2InputStream(InputStream) - Constructor for class loci.common.CBZip2InputStream: Constructs a new CBZip2InputStream which decompresses bytes read from the specified stream.
ccoc - Variable in class jj2000.j2k.codestream.HeaderInfo.COC
ccom - Variable in class jj2000.j2k.codestream.HeaderInfo.COM
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_TYPE_BLANK - Static variable in class loci.poi.hssf.usermodel.HSSFCell: Blank Cell type (3)
CELL_TYPE_BOOLEAN - Static variable in class loci.poi.hssf.usermodel.HSSFCell: Boolean Cell type (4)
CELL_TYPE_ERROR - Static variable in class loci.poi.hssf.usermodel.HSSFCell: Error Cell type (5)
CELL_TYPE_FORMULA - Static variable in class loci.poi.hssf.usermodel.HSSFCell: Formula Cell type (2)
CELL_TYPE_NUMERIC - Static variable in class loci.poi.hssf.usermodel.HSSFCell: Numeric Cell type (0)
CELL_TYPE_STRING - Static variable in class loci.poi.hssf.usermodel.HSSFCell: String Cell type (1)
CELL_WIDTH - Static variable in class loci.formats.tiff.IFD
cellIterator() - Method in class loci.poi.hssf.usermodel.HSSFRow
CellomicsReader - Class in loci.formats.in: Reader for Cellomics C01 files.
CellomicsReader() - Constructor for class loci.formats.in.CellomicsReader: Constructs a new Cellomics reader.
CellReference - Class in loci.poi.hssf.util
CellReference(String) - Constructor for class loci.poi.hssf.util.CellReference
CellReference(int, int) - Constructor for class loci.poi.hssf.util.CellReference
CellReference(int, int, boolean, boolean) - Constructor for class loci.poi.hssf.util.CellReference
cells - Variable in class loci.poi.hssf.model.Sheet
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.
CellValueRecordInterface - Interface in loci.poi.hssf.record: The cell value record interface is implemented by all classes of type Record that contain cell values.
CellVoyagerReader - Class in loci.formats.in: A bioformat reader for the Yokagawa Cellvoyager CV1000 automated microscope ( http://www.yokogawa.com/scanner/products/cv1000e.htm).
CellVoyagerReader() - Constructor for class loci.formats.in.CellVoyagerReader
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.
CENTER - Static variable in class loci.poi.hssf.record.ExtendedFormatRecord
CENTER_SELECTION - Static variable in class loci.poi.hssf.record.ExtendedFormatRecord
CENTERED_ORDER - Static variable in interface loci.formats.cache.ICacheStrategy
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.
CF_BITMAP - Static variable in class loci.poi.hpsf.Thumbnail: Clipboard Format - Bitmap
CF_DIB - Static variable in class loci.poi.hpsf.Thumbnail: Clipboard Format - Device Independent Bitmap
CF_ENHMETAFILE - Static variable in class loci.poi.hpsf.Thumbnail: Clipboard Format - Enhanced Windows metafile format
CF_METAFILEPICT - Static variable in class loci.poi.hpsf.Thumbnail: Clipboard Format - Windows metafile format.
CFA_PATTERN - Static variable in class loci.formats.tiff.IFD
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
CFTAG_FMTID - Static variable in class loci.poi.hpsf.Thumbnail: Clipboard Format Tag - Format ID
CFTAG_MACINTOSH - Static variable in class loci.poi.hpsf.Thumbnail: Clipboard Format Tag - Macintosh clipboard format
CFTAG_NODATA - Static variable in class loci.poi.hpsf.Thumbnail: Clipboard Format Tag - No Data
CFTAG_WINDOWS - Static variable in class loci.poi.hpsf.Thumbnail: Clipboard Format Tag - Windows clipboard format
chan - Variable in class loci.formats.in.SDTInfo: Routing channel number.
changedUpdate(DocumentEvent) - Method in class loci.plugins.config.FlexWidgets
changeName(Property, String) - Method in class loci.poi.poifs.property.DirectoryProperty: Change a Property's name
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
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 loci.common.NIOFileHandle: The file channel backed by the random access file.
channel - Variable in class loci.common.NIOInputStream: The file channel backed by the random access file.
CHANNEL - Static variable in class loci.formats.FormatTools: Identifies the Channel dimensional type, representing a generic channel dimension.
Channel - Class in ome.xml.model
Channel() - Constructor for class ome.xml.model.Channel: Default constructor.
Channel(Element, OMEModel) - Constructor for class ome.xml.model.Channel: Constructs Channel recursively from an XML DOM tree.
Channel(Channel) - Constructor for class ome.xml.model.Channel: Copy constructor.
CHANNEL_DEFINITION_BOX - Static variable in interface jj2000.j2k.fileformat.FileFormatBoxes
CHANNEL_NAME - Static variable in class loci.formats.FormatTools
CHANNEL_NUM - Static variable in class loci.formats.FormatTools
channelColors - Variable in class loci.formats.in.BaseZeissReader
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.
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.
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
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.
channelName - Variable in class loci.formats.in.BaseZeissReader
channelName - Variable in class loci.formats.in.OpenlabReader.PlaneInfo
ChannelRef - Class in ome.xml.model
ChannelRef() - Constructor for class ome.xml.model.ChannelRef: Default constructor.
ChannelRef(Element, OMEModel) - Constructor for class ome.xml.model.ChannelRef: Constructs ChannelRef recursively from an XML DOM tree.
ChannelRef(ChannelRef) - Constructor for class ome.xml.model.ChannelRef: Copy constructor.
channels - Variable in class loci.formats.codec.CodecOptions: Number of channels.
channels - Variable in class loci.formats.in.SDTInfo
channels - Variable in class loci.formats.in.SDTReader: Number of spectral channels.
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.
chanStore - Variable in class loci.formats.in.SDTReader
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.FlexReader.FlexHandler
characters(char[], int, int) - Method in class loci.formats.in.ZeissTIFFHandler
ChartFormatRecord - Class in loci.poi.hssf.record: Class ChartFormatRecord
ChartFormatRecord() - Constructor for class loci.poi.hssf.record.ChartFormatRecord
ChartFormatRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.ChartFormatRecord: Constructs a ChartFormatRecord record and sets its fields appropriately.
ChartRecord - Class in loci.poi.hssf.record: The chart record is used to define the location and size of a chart.
ChartRecord() - Constructor for class loci.poi.hssf.record.ChartRecord
ChartRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.ChartRecord: Constructs a Chart record and sets its fields appropriately.
check(int) - Method in class loci.poi.util.CommonsLogger: Check if a logger is enabled to log at the specified level
check(int) - Method in class loci.poi.util.NullLogger: Check if a logger is enabled to log at the specified level
check(int) - Method in class loci.poi.util.POILogger: Check if a logger is enabled to log at the specified level
check(int) - Method in class loci.poi.util.SystemOutLogger: Check if a logger is enabled to log at the specified level
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.
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.common.services.AbstractService: Checks a given class dependency at runtime to ensure that a given class will be available.
checkClassDependency(Class<? extends Object>) - Method in class loci.formats.services.WlzServiceImpl
checkDimsLoc(Record, int) - Method in class loci.poi.hssf.model.Sheet: in the event the record is a dimensions record, resets both the loc index and dimsloc index
checkExternSheet(int) - Method in class loci.poi.hssf.model.Workbook: returns the extern sheet number for specific sheet number , if this sheet doesn't exist in extern sheet , add it
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.
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.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(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.
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.
checkPredTerm() - Method in class jj2000.j2k.entropy.decoder.MQDecoder: Checks for past errors in the decoding process using the predictable error resilient termination.
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.
checkRecordPosition() - Method in class loci.poi.hssf.record.RecordInputStream
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.
checkValidId(String) - Static method in class loci.common.Location: Checks that the given id points at a valid data stream.
Child - Interface in loci.poi.poifs.property: This interface defines methods for finding and setting sibling Property instances
childCount - Variable in class com.sun.media.imageioimpl.common.PaletteBuilder.ColorNode
chksum - Variable in class loci.formats.in.SDTInfo
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
CLASS_ARRAY - Static variable in class loci.poi.hssf.record.formula.Ptg
CLASS_REF - Static variable in class loci.poi.hssf.record.formula.Ptg
CLASS_VALUE - Static variable in class loci.poi.hssf.record.formula.Ptg
ClassID - Class in loci.poi.hpsf: Represents a class ID (16 bytes).
ClassID(byte[], int) - Constructor for class loci.poi.hpsf.ClassID: Creates a ClassID and reads its value from a byte array.
ClassID() - Constructor for class loci.poi.hpsf.ClassID: Creates a ClassID and initializes its value with 0x00 bytes.
classID - Variable in class loci.poi.hpsf.PropertySet: Specifies this PropertySet's "classID" field.
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.
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.
cleanStaleCacheEntries() - Static method in class loci.common.Location: Remove any cached directory listings that have expired.
cleanup() - Method in class loci.formats.Memoizer
cleanup() - Method in class loci.tests.testng.SubResolutionTest
clear() - Method in class loci.formats.codec.ByteVector
clear() - Method in class loci.poi.hpsf.MutableSection: Removes all properties from the section including 0 (dictionary) and 1 (codepage).
clear() - Method in class loci.poi.hssf.record.EscherAggregate
clear() - Method in class loci.poi.util.BinaryTree: Removes all mappings from this map
clear(int) - Method in class loci.poi.util.BitField: Clear the bits.
clear() - Method in class loci.poi.util.DoubleList: Removes all of the elements from this list.
clear() - Method in class loci.poi.util.IntList: Removes all of the elements from this list.
clear() - Method in class loci.poi.util.ShortList: Removes all of the elements from this list.
clearByte(byte) - Method in class loci.poi.util.BitField: Clear the bits.
clearDestImage() - Method in class com.sun.media.imageioimpl.plugins.raw.RawRenderedImage
clearDirectoryListingsCache() - Static method in class loci.common.Location: Clear the directory listings cache.
clearEscherRecords() - Method in class loci.poi.hssf.record.AbstractEscherHolderRecord
clearFormatting() - Method in class loci.poi.hssf.record.UnicodeString
clearFormatting() - Method in class loci.poi.hssf.usermodel.HSSFRichTextString: Removes any formatting that may have been applied to the string.
clearRect(int, int, int, int) - Method in class loci.poi.hssf.usermodel.DummyGraphics2d
clearRect(int, int, int, int) - Method in class loci.poi.hssf.usermodel.EscherGraphics
clearRect(int, int, int, int) - Method in class loci.poi.hssf.usermodel.EscherGraphics2d
clearSections() - Method in class loci.poi.hpsf.MutablePropertySet: Removes all sections from this property set.
clearSections() - Method in class loci.poi.hpsf.SpecialPropertySet
clearSeries() - Method in class loci.plugins.in.ImporterOptions
clearShort(short) - Method in class loci.poi.util.BitField: Clear the bits.
clearSubRecords() - Method in class loci.poi.hssf.record.ObjRecord
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.
cLengths - Variable in class loci.formats.CoreMetadata: Deprecated.
use CoreMetadata.moduloC instead
cLengths - Variable in class loci.plugins.util.DataBrowser
clip(Shape) - Method in class loci.poi.hssf.usermodel.DummyGraphics2d
clip(Shape) - Method in class loci.poi.hssf.usermodel.EscherGraphics2d
clipRect(int, int, int, int) - Method in class loci.poi.hssf.usermodel.DummyGraphics2d
clipRect(int, int, int, int) - Method in class loci.poi.hssf.usermodel.EscherGraphics
clipRect(int, int, int, int) - Method in class loci.poi.hssf.usermodel.EscherGraphics2d
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
clone() - Method in class loci.poi.ddf.EscherRecord: Escher records may need to be clonable in the future.
clone() - Method in class loci.poi.ddf.EscherTextboxRecord
clone() - Method in class loci.poi.ddf.UnknownEscherRecord
clone() - Method in class loci.poi.hssf.record.AbstractEscherHolderRecord
clone() - Method in class loci.poi.hssf.record.aggregates.ColumnInfoRecordsAggregate: Performs a deep clone of the record
clone() - Method in class loci.poi.hssf.record.aggregates.FormulaRecordAggregate
clone() - Method in class loci.poi.hssf.record.aggregates.RowRecordsAggregate: Performs a deep clone of the record
clone() - Method in class loci.poi.hssf.record.aggregates.ValueRecordsAggregate: Performs a deep clone of the record
clone() - Method in class loci.poi.hssf.record.AreaFormatRecord
clone() - Method in class loci.poi.hssf.record.AreaRecord
clone() - Method in class loci.poi.hssf.record.AxisLineFormatRecord
clone() - Method in class loci.poi.hssf.record.AxisOptionsRecord
clone() - Method in class loci.poi.hssf.record.AxisParentRecord
clone() - Method in class loci.poi.hssf.record.AxisRecord
clone() - Method in class loci.poi.hssf.record.AxisUsedRecord
clone() - Method in class loci.poi.hssf.record.BarRecord
clone() - Method in class loci.poi.hssf.record.BlankRecord
clone() - Method in class loci.poi.hssf.record.BOFRecord
clone() - Method in class loci.poi.hssf.record.BoolErrRecord
clone() - Method in class loci.poi.hssf.record.BottomMarginRecord
clone() - Method in class loci.poi.hssf.record.CalcCountRecord
clone() - Method in class loci.poi.hssf.record.CalcModeRecord
clone() - Method in class loci.poi.hssf.record.CategorySeriesAxisRecord
clone() - Method in interface loci.poi.hssf.record.CellValueRecordInterface
clone() - Method in class loci.poi.hssf.record.ChartRecord
clone() - Method in class loci.poi.hssf.record.ColumnInfoRecord
clone() - Method in class loci.poi.hssf.record.CommonObjectDataSubRecord
clone() - Method in class loci.poi.hssf.record.ContinueRecord: Clone this record.
clone() - Method in class loci.poi.hssf.record.DataFormatRecord
clone() - Method in class loci.poi.hssf.record.DatRecord
clone() - Method in class loci.poi.hssf.record.DefaultColWidthRecord
clone() - Method in class loci.poi.hssf.record.DefaultDataLabelTextPropertiesRecord
clone() - Method in class loci.poi.hssf.record.DefaultRowHeightRecord
clone() - Method in class loci.poi.hssf.record.DeltaRecord
clone() - Method in class loci.poi.hssf.record.DimensionsRecord
clone() - Method in class loci.poi.hssf.record.EndSubRecord
clone() - Method in class loci.poi.hssf.record.EOFRecord
clone() - Method in class loci.poi.hssf.record.FilePassRecord
clone() - Method in class loci.poi.hssf.record.FileSharingRecord: Clone this record.
clone() - Method in class loci.poi.hssf.record.FontBasisRecord
clone() - Method in class loci.poi.hssf.record.FontIndexRecord
clone() - Method in class loci.poi.hssf.record.FooterRecord
clone() - Method in class loci.poi.hssf.record.formula.AddPtg
clone() - Method in class loci.poi.hssf.record.formula.Area3DPtg
clone() - Method in class loci.poi.hssf.record.formula.AreaAPtg
clone() - Method in class loci.poi.hssf.record.formula.AreaErrPtg
clone() - Method in class loci.poi.hssf.record.formula.AreaNAPtg
clone() - Method in class loci.poi.hssf.record.formula.AreaNPtg
clone() - Method in class loci.poi.hssf.record.formula.AreaNVPtg
clone() - Method in class loci.poi.hssf.record.formula.AreaPtg
clone() - Method in class loci.poi.hssf.record.formula.AreaVPtg
clone() - Method in class loci.poi.hssf.record.formula.ArrayPtg
clone() - Method in class loci.poi.hssf.record.formula.ArrayPtgA
clone() - Method in class loci.poi.hssf.record.formula.ArrayPtgV
clone() - Method in class loci.poi.hssf.record.formula.AttrPtg
clone() - Method in class loci.poi.hssf.record.formula.BoolPtg
clone() - Method in class loci.poi.hssf.record.formula.ConcatPtg
clone() - Method in class loci.poi.hssf.record.formula.DividePtg
clone() - Method in class loci.poi.hssf.record.formula.EqualPtg
clone() - Method in class loci.poi.hssf.record.formula.ErrPtg
clone() - Method in class loci.poi.hssf.record.formula.ExpPtg
clone() - Method in class loci.poi.hssf.record.formula.FuncPtg
clone() - Method in class loci.poi.hssf.record.formula.FuncVarPtg
clone() - Method in class loci.poi.hssf.record.formula.GreaterEqualPtg
clone() - Method in class loci.poi.hssf.record.formula.GreaterThanPtg: Implementation of clone method from Object
clone() - Method in class loci.poi.hssf.record.formula.IntersectionPtg
clone() - Method in class loci.poi.hssf.record.formula.IntPtg
clone() - Method in class loci.poi.hssf.record.formula.LessEqualPtg
clone() - Method in class loci.poi.hssf.record.formula.LessThanPtg: Implementation of clone method from Object
clone() - Method in class loci.poi.hssf.record.formula.MemAreaPtg
clone() - Method in class loci.poi.hssf.record.formula.MemErrPtg
clone() - Method in class loci.poi.hssf.record.formula.MemFuncPtg
clone() - Method in class loci.poi.hssf.record.formula.MissingArgPtg
clone() - Method in class loci.poi.hssf.record.formula.MultiplyPtg
clone() - Method in class loci.poi.hssf.record.formula.NamePtg
clone() - Method in class loci.poi.hssf.record.formula.NameXPtg
clone() - Method in class loci.poi.hssf.record.formula.NotEqualPtg
clone() - Method in class loci.poi.hssf.record.formula.NumberPtg
clone() - Method in class loci.poi.hssf.record.formula.ParenthesisPtg
clone() - Method in class loci.poi.hssf.record.formula.PercentPtg
clone() - Method in class loci.poi.hssf.record.formula.PowerPtg
clone() - Method in class loci.poi.hssf.record.formula.Ptg
clone() - Method in class loci.poi.hssf.record.formula.RangePtg
clone() - Method in class loci.poi.hssf.record.formula.Ref3DPtg
clone() - Method in class loci.poi.hssf.record.formula.RefAPtg
clone() - Method in class loci.poi.hssf.record.formula.ReferencePtg
clone() - Method in class loci.poi.hssf.record.formula.RefErrorPtg
clone() - Method in class loci.poi.hssf.record.formula.RefNAPtg
clone() - Method in class loci.poi.hssf.record.formula.RefNPtg
clone() - Method in class loci.poi.hssf.record.formula.RefNVPtg
clone() - Method in class loci.poi.hssf.record.formula.RefVPtg
clone() - Method in class loci.poi.hssf.record.formula.StringPtg
clone() - Method in class loci.poi.hssf.record.formula.SubtractPtg
clone() - Method in class loci.poi.hssf.record.formula.UnaryMinusPtg
clone() - Method in class loci.poi.hssf.record.formula.UnaryPlusPtg
clone() - Method in class loci.poi.hssf.record.formula.UnionPtg
clone() - Method in class loci.poi.hssf.record.formula.UnknownPtg
clone() - Method in class loci.poi.hssf.record.FormulaRecord
clone() - Method in class loci.poi.hssf.record.FrameRecord
clone() - Method in class loci.poi.hssf.record.GridsetRecord
clone() - Method in class loci.poi.hssf.record.GroupMarkerSubRecord
clone() - Method in class loci.poi.hssf.record.GutsRecord
clone() - Method in class loci.poi.hssf.record.HCenterRecord
clone() - Method in class loci.poi.hssf.record.HeaderRecord
clone() - Method in class loci.poi.hssf.record.IndexRecord
clone() - Method in class loci.poi.hssf.record.IterationRecord
clone() - Method in class loci.poi.hssf.record.LabelRecord
clone() - Method in class loci.poi.hssf.record.LabelSSTRecord
clone() - Method in class loci.poi.hssf.record.LeftMarginRecord
clone() - Method in class loci.poi.hssf.record.LegendRecord
clone() - Method in class loci.poi.hssf.record.LineFormatRecord
clone() - Method in class loci.poi.hssf.record.LinkedDataFormulaField
clone() - Method in class loci.poi.hssf.record.LinkedDataRecord
clone() - Method in class loci.poi.hssf.record.MergeCellsRecord
clone() - Method in class loci.poi.hssf.record.NumberFormatIndexRecord
clone() - Method in class loci.poi.hssf.record.NumberRecord
clone() - Method in class loci.poi.hssf.record.ObjectLinkRecord
clone() - Method in class loci.poi.hssf.record.ObjectProtectRecord
clone() - Method in class loci.poi.hssf.record.ObjRecord
clone() - Method in class loci.poi.hssf.record.PageBreakRecord
clone() - Method in class loci.poi.hssf.record.PaneRecord
clone() - Method in class loci.poi.hssf.record.PasswordRecord: Clone this record.
clone() - Method in class loci.poi.hssf.record.PlotAreaRecord
clone() - Method in class loci.poi.hssf.record.PlotGrowthRecord
clone() - Method in class loci.poi.hssf.record.PrintGridlinesRecord
clone() - Method in class loci.poi.hssf.record.PrintHeadersRecord
clone() - Method in class loci.poi.hssf.record.PrintSetupRecord
clone() - Method in class loci.poi.hssf.record.ProtectRecord
clone() - Method in class loci.poi.hssf.record.Record
clone() - Method in class loci.poi.hssf.record.RefModeRecord
clone() - Method in class loci.poi.hssf.record.RightMarginRecord
clone() - Method in class loci.poi.hssf.record.RKRecord
clone() - Method in class loci.poi.hssf.record.RowRecord
clone() - Method in class loci.poi.hssf.record.SaveRecalcRecord
clone() - Method in class loci.poi.hssf.record.ScenarioProtectRecord
clone() - Method in class loci.poi.hssf.record.SCLRecord
clone() - Method in class loci.poi.hssf.record.SelectionRecord
clone() - Method in class loci.poi.hssf.record.SeriesChartGroupIndexRecord
clone() - Method in class loci.poi.hssf.record.SeriesIndexRecord
clone() - Method in class loci.poi.hssf.record.SeriesLabelsRecord
clone() - Method in class loci.poi.hssf.record.SeriesListRecord
clone() - Method in class loci.poi.hssf.record.SeriesRecord
clone() - Method in class loci.poi.hssf.record.SeriesTextRecord
clone() - Method in class loci.poi.hssf.record.SeriesToChartGroupRecord
clone() - Method in class loci.poi.hssf.record.SharedFormulaRecord
clone() - Method in class loci.poi.hssf.record.SheetPropertiesRecord
clone() - Method in class loci.poi.hssf.record.StringRecord
clone() - Method in class loci.poi.hssf.record.TextObjectBaseRecord
clone() - Method in class loci.poi.hssf.record.TextRecord
clone() - Method in class loci.poi.hssf.record.TickRecord
clone() - Method in class loci.poi.hssf.record.TopMarginRecord
clone() - Method in class loci.poi.hssf.record.UnicodeString
clone() - Method in class loci.poi.hssf.record.UnitsRecord
clone() - Method in class loci.poi.hssf.record.UnknownRecord: Unlike the other Record.clone methods this is a shallow clone
clone() - Method in class loci.poi.hssf.record.ValueRangeRecord
clone() - Method in class loci.poi.hssf.record.VCenterRecord
clone() - Method in class loci.poi.hssf.record.WindowTwoRecord
clone() - Method in class loci.poi.hssf.record.WSBoolRecord
clone() - Method in class mdbtools.libmdb.MdbColumn
clone() - Method in class mdbtools.libmdb.MdbSarg
cloneNode(boolean) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFFieldNode
cloneSheet() - Method in class loci.poi.hssf.model.Sheet: Clones the low level records of this sheet and returns the new sheet instance.
cloneSheet(int) - Method in class loci.poi.hssf.usermodel.HSSFWorkbook: create an HSSFSheet from an existing sheet in the HSSFWorkbook.
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() - Method in class loci.common.ByteArrayHandle
close() - Method in class loci.common.CBZip2InputStream
close() - Method in class loci.common.FileHandle
close() - Method in interface loci.common.IRandomAccess: Closes this random access stream and releases any system resources associated with the stream.
close() - Method in class loci.common.NIOFileHandle
close() - Method in class loci.common.NIOInputStream: Closes the streams.
close() - Method in class loci.common.RandomAccessInputStream: Closes the streams.
close() - Method in class loci.common.RandomAccessOutputStream
close() - Method in class loci.common.StreamHandle
close() - Method in class loci.common.ZipHandle
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.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.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.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.FitsReader
close(boolean) - Method in class loci.formats.in.FlexReader
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.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.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.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.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.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.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(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.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.WlzWriter
close(boolean) - Method in class loci.formats.ReaderWrapper
close() - Method in class loci.formats.ReaderWrapper
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.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 loci.poi.poifs.filesystem.DocumentInputStream: Closes this input stream and releases any system resources associated with the stream.
close() - Method in class loci.poi.poifs.filesystem.DocumentOutputStream: Closes this output stream and releases any system resources associated with this stream.
close() - Method in class loci.poi.util.BlockingInputStream
close() - Method in class loci.tests.testng.FormatReaderTest
close() - Method in class mdbtools.examples.MemoryRandomAccess
close() - Method in class mdbtools.jdbc2.File
close() - Method in class mdbtools.libmdb.MdbFile
close() - Method in class mdbtools.libmdb.MdbHandle
close() - Method in interface mdbtools.publicapi.RandomAccess
close() - Method in class ome.metakit.MetakitReader: Close the reader and release any resources in use.
CLOSED_CURVES - Static variable in class loci.poi.ddf.EscherShapePathProperty
CLOSED_POLYGON - Static variable in class loci.poi.ddf.EscherShapePathProperty
closeFile() - Method in class loci.formats.tools.MakeDatasetStructureTable: Close the output file.
closeFileOnly() - Method in class loci.plugins.macro.LociFunctions
cm - Variable in class loci.formats.FormatWriter: Default color model.
COBOL - Static variable in class loci.common.DateTools
COBOL_EPOCH - Static variable in class loci.common.DateTools
coc - Variable in class jj2000.j2k.codestream.HeaderInfo: Reference to the COC marker segments found in main and first tile-part header.
COC - Static variable in interface jj2000.j2k.codestream.Markers: Coding style component (COC): 0xFF53
cod - Variable in class jj2000.j2k.codestream.HeaderInfo: Reference to the COD marker segments found in main and first tile-part header.
COD - Static variable in interface jj2000.j2k.codestream.Markers: Coding style default (COD): 0xFF52
codeBlockSize - Variable in class loci.formats.codec.JPEG2000CodecOptions: The maximum code-block size to use per tile-component as it would be provided to: J2KImageWriteParam.setCodeBlockSize(int[]) (WRITE).
Codec - Interface in loci.formats.codec: This class is an interface for any kind of compression or decompression.
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_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.
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.
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.
CodedEnum - Interface in loci.common.enumeration: Enumeration which is coded.
CODEPAGE - Static variable in class loci.poi.hssf.record.CodepageRecord: the likely correct value for CODEPAGE (at least for US versions).
CODEPAGE - Static variable in class loci.poi.hssf.record.InterfaceHdrRecord: suggested (and probably correct) default
CodepageRecord - Class in loci.poi.hssf.record: Title: Codepage Record
CodepageRecord() - Constructor for class loci.poi.hssf.record.CodepageRecord
CodepageRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.CodepageRecord: Constructs a CodepageRecord and sets its fields appropriately
codepageToEncoding(int) - Static method in class loci.poi.hpsf.VariantSupport: Turns a codepage number into the equivalent character encoding's name.
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..
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.
col_fixed_offset - Variable in class mdbtools.libmdb.MdbFormatConstants
col_from - Variable in class loci.poi.hssf.record.MergeCellsRecord.MergedRegion: upper right hand corner col
col_num - Variable in class mdbtools.libmdb.MdbColumn
col_num_offset - Variable in class mdbtools.libmdb.MdbFormatConstants
col_prec - Variable in class mdbtools.libmdb.MdbColumn
col_scale - Variable in class mdbtools.libmdb.MdbColumn
col_size - Variable in class mdbtools.libmdb.MdbColumn
col_size_offset - Variable in class mdbtools.libmdb.MdbFormatConstants
col_to - Variable in class loci.poi.hssf.record.MergeCellsRecord.MergedRegion: lower right hand corner col
col_type - Variable in class mdbtools.libmdb.MdbColumn
colBreaks - Variable in class loci.poi.hssf.model.Sheet
colCount - Variable in class loci.formats.in.BaseZeissReader
collapseColInfoRecords(int) - Method in class loci.poi.hssf.record.aggregates.ColumnInfoRecordsAggregate
collapseColumn(short) - Method in class loci.poi.hssf.record.aggregates.ColumnInfoRecordsAggregate
collapseRow(int) - Method in class loci.poi.hssf.record.aggregates.RowRecordsAggregate
Color - Class in ome.xml.model.primitives: Primitive type that represents an RGBA color.
Color(Integer) - Constructor for class ome.xml.model.primitives.Color
Color(int, int, int, int) - Constructor for class ome.xml.model.primitives.Color
COLOR_MAP - Static variable in class loci.formats.tiff.IFD
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_NORMAL - Static variable in class loci.poi.hssf.usermodel.HSSFFont: normal type of black color.
COLOR_RED - Static variable in class loci.poi.hssf.usermodel.HSSFFont: Dark Red color
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.
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.
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
Colorizer - Class in loci.plugins.in: Logic for colorizing images.
Colorizer(ImportProcess) - Constructor for class loci.plugins.in.Colorizer
colorMap - Variable in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor: The value of the ColorMap tag.
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 loci.formats.codec.CodecOptions: Color model to use when constructing an image (WRITE).
colorResolution - Variable in class com.sun.media.imageioimpl.plugins.gif.GIFStreamMetadata
colorsImportant - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
colorSpace - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
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
colorTableSizes - Static variable in class com.sun.media.imageioimpl.plugins.gif.GIFStreamMetadata
COLOUR_SPECIFICATION_BOX - Static variable in interface jj2000.j2k.fileformat.FileFormatBoxes
colT - Variable in class loci.formats.in.SDTInfo
column - Variable in class loci.formats.tools.AmiraParameters
Column - Class in ome.metakit: Class representing a column in a Metakit database file.
Column(String) - Constructor for class ome.metakit.Column: Construct a new column from the given string representation.
ColumnComparator - Class in mdbtools.dbengine: Compare the values from a column in two rows
ColumnComparator() - Constructor for class mdbtools.dbengine.ColumnComparator
ColumnInfoRecord - Class in loci.poi.hssf.record: Title: ColumnInfo Record
ColumnInfoRecord() - Constructor for class loci.poi.hssf.record.ColumnInfoRecord
ColumnInfoRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.ColumnInfoRecord: Constructs a ColumnInfo record and sets its fields appropriately
ColumnInfoRecordsAggregate - Class in loci.poi.hssf.record.aggregates
ColumnInfoRecordsAggregate() - Constructor for class loci.poi.hssf.record.aggregates.ColumnInfoRecordsAggregate
ColumnMap - Class in ome.metakit: Class representating a column mapping in a Metakit database file.
ColumnMap(Column, RandomAccessInputStream, int) - Constructor for class ome.metakit.ColumnMap
columns - Variable in class loci.poi.hssf.model.Sheet
columns - Variable in class mdbtools.libmdb.MdbTableDef
ColumnTest - Class in mdbtools.tests
ColumnTest() - Constructor for class mdbtools.tests.ColumnTest
com - Variable in class jj2000.j2k.codestream.HeaderInfo: Reference to the COM marker segments found in main and tile-part headers.
COM - Static variable in interface jj2000.j2k.codestream.Markers: Comment (COM): 0xFF64
com.luratech.lwf - package com.luratech.lwf
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.
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.
CommentAnnotation - Class in ome.xml.model
CommentAnnotation() - Constructor for class ome.xml.model.CommentAnnotation: Default constructor.
CommentAnnotation(Element, OMEModel) - Constructor for class ome.xml.model.CommentAnnotation: Constructs CommentAnnotation recursively from an XML DOM tree.
CommentAnnotation(CommentAnnotation) - Constructor for class ome.xml.model.CommentAnnotation: Copy constructor.
comments - Variable in class com.sun.media.imageioimpl.plugins.bmp.BMPMetadata
comments - Variable in class com.sun.media.imageioimpl.plugins.gif.GIFImageMetadata
CommentShape - Class in loci.poi.hssf.model: Represents a cell comment.
CommentShape(HSSFComment, int) - Constructor for class loci.poi.hssf.model.CommentShape: Creates the low-level records for a comment.
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.
CommonObjectDataSubRecord - Class in loci.poi.hssf.record: The common object data record is used to store all common preferences for an excel object.
CommonObjectDataSubRecord() - Constructor for class loci.poi.hssf.record.CommonObjectDataSubRecord
CommonObjectDataSubRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.CommonObjectDataSubRecord: Constructs a CommonObjectData record and sets its fields appropriately.
CommonsLogger - Class in loci.poi.util: A logger class that strives to make it as easy as possible for developers to write log calls, while simultaneously making those calls as cheap as possible by performing lazy evaluation of the log message.
CommonsLogger() - Constructor for class loci.poi.util.CommonsLogger
comp - Variable in class jj2000.j2k.roi.encoder.ROI: The components for which the ROI is relevant
COMP_POS_RES_LY_PROG - Static variable in interface jj2000.j2k.codestream.ProgressionType: The bit stream is Component/Position/Resolution/Layer progressive : 4
COMPANION_SUFFIXES - Static variable in class loci.formats.in.TiffReader
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(Object, Object) - Method in class loci.poi.poifs.property.DirectoryProperty.PropertyComparator: compare method.
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
compareTo(Object) - Method in class loci.poi.hssf.record.aggregates.FormulaRecordAggregate
compareTo(Object) - Method in class loci.poi.hssf.record.BlankRecord
compareTo(Object) - Method in class loci.poi.hssf.record.BoolErrRecord
compareTo(Object) - Method in class loci.poi.hssf.record.FormulaRecord
compareTo(Object) - Method in class loci.poi.hssf.record.LabelSSTRecord
compareTo(Object) - Method in class loci.poi.hssf.record.NumberRecord
compareTo(Object) - Method in class loci.poi.hssf.record.RowRecord
compareTo(Object) - Method in class loci.poi.hssf.record.UnicodeString
compareTo(Object) - Method in class loci.poi.hssf.record.UnicodeString.FormatRun
compareTo(Object) - Method in class loci.poi.hssf.usermodel.HSSFRichTextString: Compares one rich text string to another.
compareTo(Object) - Method in class loci.poi.hssf.usermodel.HSSFRow
compareTo(Region) - Method in class loci.poi.hssf.util.Region: Compares that the given region is the same less than or greater than this region.
compareTo(Object) - Method in class loci.poi.hssf.util.Region
compDef - Variable in class jj2000.j2k.ModuleSpec: The default value for each component.
COMPLEX - Static variable in class loci.poi.ddf.EscherShapePathProperty
COMPONENT_MAPPING_BOX - Static variable in interface jj2000.j2k.fileformat.FileFormatBoxes
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_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.
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.
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: The CodecOptions parameter should have the following fields set: width height bitsPerSample channels interleaved littleEndian lossless
compress(byte[], CodecOptions) - Method in class loci.formats.codec.JPEGCodec: The CodecOptions parameter should have the following fields set: width height channels bitsPerSample interleaved littleEndian signed
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[], CodecOptions) - Method in enum loci.formats.tiff.TiffCompression: Encodes a strip of data.
compress(byte[]) - Static method in class loci.poi.ddf.EscherBlipWMFRecord: Compress the contents of the provided array
compressBuffer(int, byte[], int, int, int, int) - Method in class loci.formats.out.JPEG2000Writer: Compresses the buffer.
CompressDecompressTest - Class in loci.tests.testng: Tests the various codec used to compress and decompress data.
CompressDecompressTest() - Constructor for class loci.tests.testng.CompressDecompressTest
compressed - Variable in class loci.formats.in.OpenlabReader.PlaneInfo
COMPRESSED_BITS_PER_PIXEL - Static variable in class loci.formats.tiff.IFD
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.BMPMetadata
compression - Variable in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxDecompressor
compression - Variable in class loci.formats.FormatWriter: Current compression type.
COMPRESSION - Static variable in class loci.formats.tiff.IFD
Compression - Enum in ome.xml.model.enums
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.
CompressionEnumHandler - Class in ome.xml.model.enums.handlers: Enumeration handler for Compression.
CompressionEnumHandler() - Constructor for class ome.xml.model.enums.handlers.CompressionEnumHandler
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 - Enum in loci.formats.codec: An enumeration of compression types.
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.
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.
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.
ConCat - Class in mdbtools.dbengine.functions
ConCat() - Constructor for class mdbtools.dbengine.functions.ConCat
concatenate(List<ImagePlus>) - Method in class loci.plugins.in.Concatenator: Concatenates the list of images as appropriate.
concatenateBox - Variable in class loci.plugins.in.MainDialog
Concatenator - Class in loci.plugins.in: Logic for concatenating multiple images together.
Concatenator() - Constructor for class loci.plugins.in.Concatenator
ConcatPtg - Class in loci.poi.hssf.record.formula
ConcatPtg(RecordInputStream) - Constructor for class loci.poi.hssf.record.formula.ConcatPtg
ConcatPtg() - Constructor for class loci.poi.hssf.record.formula.ConcatPtg
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
Condition - Class in mdbtools.dbengine.sql
Condition() - Constructor for class mdbtools.dbengine.sql.Condition
configTree - Static variable in class loci.tests.testng.FormatReaderTest: Configuration tree structure containing dataset metadata.
configTree - Static variable in class loci.tests.testng.FormatWriterTest: Configuration tree structure containing dataset metadata.
Configuration - Class in loci.tests.testng: Source code: Trac, Gitweb
Configuration(String, String) - Constructor for class loci.tests.testng.Configuration
Configuration(IFormatReader, String) - Constructor for class loci.tests.testng.Configuration
ConfigurationTree - Class in loci.tests.testng: Stores configuration data about files in a directory structure.
ConfigurationTree(String) - Constructor for class loci.tests.testng.ConfigurationTree: Creates a new configuration tree rooted at the given directory in the file system.
ConfigWindow - Class in loci.plugins.config: A window for managing configuration of the Bio-Formats plugins.
ConfigWindow() - Constructor for class loci.plugins.config.ConfigWindow
Constants - Class in loci.common: Constants that are used within many classes in loci.common.
Constants() - Constructor for class loci.common.Constants
Constants - Class in loci.poi.hpsf: Defines constants of general use.
Constants() - Constructor for class loci.poi.hpsf.Constants
Constants - Class in mdbtools.libmdb: copied from mdbtools.h
Constants() - Constructor for class mdbtools.libmdb.Constants
construct(int, List) - Method in class loci.poi.hssf.record.aggregates.ValueRecordsAggregate
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.
constructLoader() - Static method in class loci.formats.gui.LegacyQTTools
contains(int, short) - Method in class loci.poi.hssf.util.Region: Answers: "is the row/column inside this range?"
contains(double) - Method in class loci.poi.util.DoubleList: Returns true if this list contains the specified element.
contains(int) - Method in class loci.poi.util.IntList: Returns true if this list contains the specified element.
contains(short) - Method in class loci.poi.util.ShortList: Returns true if this list contains the specified element.
containsAll(DoubleList) - Method in class loci.poi.util.DoubleList: Returns true if this list contains all of the elements of the specified collection.
containsAll(IntList) - Method in class loci.poi.util.IntList: Returns true if this list contains all of the elements of the specified collection.
containsAll(ShortList) - Method in class loci.poi.util.ShortList: Returns true if this list contains all of the elements of the specified collection.
containsKey(Object) - Method in class loci.poi.util.BinaryTree: Returns true if this map contains a mapping for the specified key.
containsPoint(int, int) - Method in class loci.common.Region: Returns true if the point specified by the given X and Y coordinates is contained within this region.
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.
containsValue(int[], int) - Static method in class loci.common.DataTools: Returns true if the given value is contained in the given array.
containsValue(Object) - Method in class loci.poi.util.BinaryTree: Returns true if this map maps one or more keys to the specified value.
CONTIGUOUS_CODESTREAM_BOX - Static variable in interface jj2000.j2k.fileformat.FileFormatBoxes
ContinueRecord - Class in loci.poi.hssf.record: Title: Continue Record - Helper class used primarily for SST Records
ContinueRecord() - Constructor for class loci.poi.hssf.record.ContinueRecord: default constructor
ContinueRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.ContinueRecord: Main constructor -- kinda dummy because we don't validate or fill fields
CONTRAST - Static variable in class loci.formats.tiff.IFD
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.
ContrastMethod - Enum in ome.xml.model.enums
ContrastMethodEnumHandler - Class in ome.xml.model.enums.handlers: Enumeration handler for ContrastMethod.
ContrastMethodEnumHandler() - Constructor for class ome.xml.model.enums.handlers.ContrastMethodEnumHandler
ControlPtg - Class in loci.poi.hssf.record.formula
ControlPtg() - Constructor for class loci.poi.hssf.record.formula.ControlPtg
ConversionTest - Class in loci.tests.testng
ConversionTest() - Constructor for class loci.tests.testng.ConversionTest
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(long, RandomAccessInputStream, int, int, int) - Static method in class loci.poi.poifs.storage.DocumentBlock: convert a single long array into an array of DocumentBlock instances
convert(byte[], int) - Static method in class loci.poi.poifs.storage.SmallDocumentBlock: convert a single long array into an array of SmallDocumentBlock instances
convert(BlockWritable[], int) - Static method in class loci.poi.poifs.storage.SmallDocumentBlock: Factory for creating SmallDocumentBlocks from DocumentBlocks
ConvertAnchor - Class in loci.poi.hssf.model: $Id: ConvertAnchor.java 562536 2007-08-03 18:09:41Z yegor $
ConvertAnchor() - Constructor for class loci.poi.hssf.model.ConvertAnchor
convertDate(long, int) - Static method in class loci.common.DateTools: Converts the given timestamp into an ISO8601 date.
convertDate(long, int, String) - Static method in class loci.common.DateTools: Converts the given timestamp into a date string with the given format.
convertDate(long, int, String, boolean) - Static method in class loci.common.DateTools: Converts the given timestamp into a date string with the given format.
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.
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(MetadataRetrieve, MetadataStore) - Static method in class loci.formats.meta.MetadataConverter: 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
convertObjectToString(Object) - Static method in class com.sun.media.imageioimpl.common.ImageUtil: Converts the provided object to String
convertRenderedImage(RenderedImage) - Static method in class loci.formats.gui.AWTImageTools: Converts a java.awt.image.RenderedImage into a java.awt.image.BufferedImage.
convertSharedFormulaRecord(FormulaRecord) - Method in class loci.poi.hssf.record.SharedFormulaRecord: Creates a non shared formula from the shared formula counter part
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
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
convolve(float[], int, int) - Method in class loci.plugins.util.RecordedImageProcessor
convolve3x3(int[]) - Method in class loci.plugins.util.RecordedImageProcessor
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
copy(byte[], int, int, byte[], int) - Static method in class loci.poi.hpsf.Util: Copies a part of a byte array into another byte array.
copy(byte[], int, int) - Static method in class loci.poi.hpsf.Util: Copies bytes from a source byte array into a new byte array.
copyArea(int, int, int, int, int, int) - Method in class loci.poi.hssf.usermodel.DummyGraphics2d
copyArea(int, int, int, int, int, int) - Method in class loci.poi.hssf.usermodel.EscherGraphics
copyArea(int, int, int, int, int, int) - Method in class loci.poi.hssf.usermodel.EscherGraphics2d
copyBinDataList() - Method in class ome.xml.model.Mask
copyBinDataList() - Method in class ome.xml.model.Pixels
copyBits(ImageProcessor, int, int, int) - Method in class loci.plugins.util.RecordedImageProcessor
copyBooleanAnnotationList() - Method in class ome.xml.model.StructuredAnnotations
copyChannelList() - Method in class ome.xml.model.Pixels
copyCommentAnnotationList() - Method in class ome.xml.model.StructuredAnnotations
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
copyDatasetList() - Method in class ome.xml.model.OME
copyDetectorList() - Method in class ome.xml.model.Instrument
copyDichroicList() - Method in class ome.xml.model.Instrument
copyDoubleAnnotationList() - Method in class ome.xml.model.StructuredAnnotations
copyExperimenterGroupList() - Method in class ome.xml.model.OME
copyExperimenterList() - Method in class ome.xml.model.OME
copyExperimentList() - Method in class ome.xml.model.OME
copyFileAnnotationList() - Method in class ome.xml.model.StructuredAnnotations
copyFilterList() - Method in class ome.xml.model.Instrument
copyFilterSetList() - Method in class ome.xml.model.Instrument
copyImageList() - Method in class ome.xml.model.OME
copyInstrumentList() - Method in class ome.xml.model.OME
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.
copyLightSourceList() - Method in class ome.xml.model.Instrument
copyLightSourceSettingsList() - Method in class ome.xml.model.MicrobeamManipulation
copyLinkedAnnotationList() - Method in class ome.xml.model.Annotation
copyLinkedAnnotationList() - Method in class ome.xml.model.Channel
copyLinkedAnnotationList() - Method in class ome.xml.model.Dataset
copyLinkedAnnotationList() - Method in class ome.xml.model.Experimenter
copyLinkedAnnotationList() - Method in class ome.xml.model.ExperimenterGroup
copyLinkedAnnotationList() - Method in class ome.xml.model.Image
copyLinkedAnnotationList() - Method in class ome.xml.model.Pixels
copyLinkedAnnotationList() - Method in class ome.xml.model.Plane
copyLinkedAnnotationList() - Method in class ome.xml.model.Plate
copyLinkedAnnotationList() - Method in class ome.xml.model.PlateAcquisition
copyLinkedAnnotationList() - Method in class ome.xml.model.Project
copyLinkedAnnotationList() - Method in class ome.xml.model.Reagent
copyLinkedAnnotationList() - Method in class ome.xml.model.ROI
copyLinkedAnnotationList() - Method in class ome.xml.model.Screen
copyLinkedAnnotationList() - Method in class ome.xml.model.Well
copyLinkedAnnotationList() - Method in class ome.xml.model.WellSample
copyLinkedChannelList() - Method in class ome.xml.model.Annotation
copyLinkedChannelList() - Method in class ome.xml.model.FilterSet
copyLinkedDatasetList() - Method in class ome.xml.model.Annotation
copyLinkedDatasetList() - Method in class ome.xml.model.Experimenter
copyLinkedDatasetList() - Method in class ome.xml.model.ExperimenterGroup
copyLinkedDatasetList() - Method in class ome.xml.model.Image
copyLinkedDatasetList() - Method in class ome.xml.model.Project
copyLinkedEmissionFilterList() - Method in class ome.xml.model.FilterSet
copyLinkedEmissionFilterList() - Method in class ome.xml.model.LightPath
copyLinkedExcitationFilterList() - Method in class ome.xml.model.FilterSet
copyLinkedExcitationFilterList() - Method in class ome.xml.model.LightPath
copyLinkedExperimenterGroupList() - Method in class ome.xml.model.Annotation
copyLinkedExperimenterGroupList() - Method in class ome.xml.model.Experimenter
copyLinkedExperimenterGroupList() - Method in class ome.xml.model.Leader
copyLinkedExperimenterList() - Method in class ome.xml.model.Annotation
copyLinkedExperimenterList() - Method in class ome.xml.model.ExperimenterGroup
copyLinkedExperimentList() - Method in class ome.xml.model.Experimenter
copyLinkedFilterSetEmissionFilterList() - Method in class ome.xml.model.Filter
copyLinkedFilterSetExcitationFilterList() - Method in class ome.xml.model.Filter
copyLinkedFilterSetList() - Method in class ome.xml.model.Dichroic
copyLinkedImageList() - Method in class ome.xml.model.Annotation
copyLinkedImageList() - Method in class ome.xml.model.Dataset
copyLinkedImageList() - Method in class ome.xml.model.Experiment
copyLinkedImageList() - Method in class ome.xml.model.Experimenter
copyLinkedImageList() - Method in class ome.xml.model.ExperimenterGroup
copyLinkedImageList() - Method in class ome.xml.model.Instrument
copyLinkedImageList() - Method in class ome.xml.model.MicrobeamManipulation
copyLinkedImageList() - Method in class ome.xml.model.ROI
copyLinkedLaserList() - Method in class ome.xml.model.Pump
copyLinkedLeaderList() - Method in class ome.xml.model.ExperimenterGroup
copyLinkedLightPathEmissionFilterList() - Method in class ome.xml.model.Filter
copyLinkedLightPathExcitationFilterList() - Method in class ome.xml.model.Filter
copyLinkedLightPathList() - Method in class ome.xml.model.Dichroic
copyLinkedMicrobeamManipulationList() - Method in class ome.xml.model.Experimenter
copyLinkedMicrobeamManipulationList() - Method in class ome.xml.model.Image
copyLinkedMicrobeamManipulationList() - Method in class ome.xml.model.ROI
copyLinkedPixelsList() - Method in class ome.xml.model.Annotation
copyLinkedPlaneList() - Method in class ome.xml.model.Annotation
copyLinkedPlateAcquisitionList() - Method in class ome.xml.model.Annotation
copyLinkedPlateAcquisitionList() - Method in class ome.xml.model.WellSample
copyLinkedPlateList() - Method in class ome.xml.model.Annotation
copyLinkedPlateList() - Method in class ome.xml.model.Screen
copyLinkedProjectList() - Method in class ome.xml.model.Annotation
copyLinkedProjectList() - Method in class ome.xml.model.Dataset
copyLinkedProjectList() - Method in class ome.xml.model.Experimenter
copyLinkedProjectList() - Method in class ome.xml.model.ExperimenterGroup
copyLinkedReagentList() - Method in class ome.xml.model.Annotation
copyLinkedROIList() - Method in class ome.xml.model.Annotation
copyLinkedROIList() - Method in class ome.xml.model.Image
copyLinkedROIList() - Method in class ome.xml.model.MicrobeamManipulation
copyLinkedScreenList() - Method in class ome.xml.model.Annotation
copyLinkedScreenList() - Method in class ome.xml.model.Plate
copyLinkedWellList() - Method in class ome.xml.model.Annotation
copyLinkedWellList() - Method in class ome.xml.model.Reagent
copyLinkedWellSampleList() - Method in class ome.xml.model.Annotation
copyLinkedWellSampleList() - Method in class ome.xml.model.Image
copyLinkedWellSampleList() - Method in class ome.xml.model.PlateAcquisition
copyListAnnotationList() - Method in class ome.xml.model.StructuredAnnotations
copyLongAnnotationList() - Method in class ome.xml.model.StructuredAnnotations
copyMicrobeamManipulationList() - Method in class ome.xml.model.Experiment
copyNodes(POIFSFileSystem, POIFSFileSystem, List) - Method in class loci.poi.POIDocument: Copies nodes from one POIFS to the other minus the excepts
copyObjectiveList() - Method in class ome.xml.model.Instrument
copyPlaneList() - Method in class ome.xml.model.Pixels
copyPlateAcquisitionList() - Method in class ome.xml.model.Plate
copyPlateList() - Method in class ome.xml.model.OME
copyProjectList() - Method in class ome.xml.model.OME
copyReagentList() - Method in class ome.xml.model.Screen
copyright - Static variable in class jj2000.j2k.JJ2KInfo: The copyright message string.
COPYRIGHT - Static variable in class loci.formats.tiff.IFD
copyROIList() - Method in class ome.xml.model.OME
copyScaled(BufferedImage, BufferedImage, Object) - Static method in class loci.formats.gui.AWTImageTools: Copies the source image into the target, applying scaling.
copyScreenList() - Method in class ome.xml.model.OME
copyShapeList() - Method in class ome.xml.model.Union
copyTagAnnotationList() - Method in class ome.xml.model.StructuredAnnotations
copyTermAnnotationList() - Method in class ome.xml.model.StructuredAnnotations
copyTiffDataList() - Method in class ome.xml.model.Pixels
copyTimestampAnnotationList() - Method in class ome.xml.model.StructuredAnnotations
copyWellList() - Method in class ome.xml.model.Plate
copyWellSampleList() - Method in class ome.xml.model.Well
copyXMLAnnotationList() - Method in class ome.xml.model.StructuredAnnotations
core - Variable in class loci.formats.FormatReader: Core metadata values.
coreIndex - Variable in class loci.formats.FormatReader: The number of the current series.
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.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
Correction - Enum in ome.xml.model.enums
CorrectionEnumHandler - Class in ome.xml.model.enums.handlers: Enumeration handler for Correction.
CorrectionEnumHandler() - Constructor for class ome.xml.model.enums.handlers.CorrectionEnumHandler
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 - Static variable in class loci.poi.hssf.record.FnGroupCountRecord: suggested default (14 dec)
Count - Class in mdbtools.dbengine.functions
Count() - Constructor for class mdbtools.dbengine.functions.Count
countBlocks() - Method in interface loci.poi.poifs.filesystem.BATManaged: Return the number of BigBlock's this instance uses
countBlocks() - Method in class loci.poi.poifs.filesystem.POIFSDocument: Return the number of BigBlock's this instance uses
countBlocks() - Method in class loci.poi.poifs.property.PropertyTable: Return the number of BigBlock's this instance uses
countBlocks() - Method in class loci.poi.poifs.storage.BlockAllocationTableWriter: Return the number of BigBlock's this instance uses
countBlocks() - Method in class loci.poi.poifs.storage.SmallBlockTableWriter: Return the number of BigBlock's this instance uses
countImages() - Method in class loci.formats.in.BaseZeissReader
countImages() - Method in class loci.formats.in.ZeissTIFFReader
countImages() - Method in class loci.formats.in.ZeissZVIReader
countOfAllChildren() - Method in class loci.poi.hssf.usermodel.HSSFPatriarch: Total count of all children and their children's children.
countOfAllChildren() - Method in class loci.poi.hssf.usermodel.HSSFShape: Count of all children and their childrens children.
countOfAllChildren() - Method in class loci.poi.hssf.usermodel.HSSFShapeGroup: Count of all children and their childrens children.
CountryRecord - Class in loci.poi.hssf.record: Title: Country Record (aka WIN.INI country)
CountryRecord() - Constructor for class loci.poi.hssf.record.CountryRecord
CountryRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.CountryRecord: Constructs a CountryRecord and sets its fields appropriately
CP_037 - Static variable in class loci.poi.hpsf.Constants: Codepage 037, a special case
CP_EUC_JP - Static variable in class loci.poi.hpsf.Constants: Codepage for EUC-JP
CP_EUC_KR - Static variable in class loci.poi.hpsf.Constants: Codepage for EUC-KR
CP_GB18030 - Static variable in class loci.poi.hpsf.Constants: Codepage for GB18030
CP_GB2312 - Static variable in class loci.poi.hpsf.Constants: Codepage for GB2312
CP_GBK - Static variable in class loci.poi.hpsf.Constants: Codepage for GBK, aka MS936
CP_ISO_2022_JP1 - Static variable in class loci.poi.hpsf.Constants: Codepage for ISO-2022-JP
CP_ISO_2022_JP2 - Static variable in class loci.poi.hpsf.Constants: Another codepage for ISO-2022-JP
CP_ISO_2022_JP3 - Static variable in class loci.poi.hpsf.Constants: Yet another codepage for ISO-2022-JP
CP_ISO_2022_KR - Static variable in class loci.poi.hpsf.Constants: Codepage for ISO-2022-KR
CP_ISO_8859_1 - Static variable in class loci.poi.hpsf.Constants: Codepage for ISO-8859-1
CP_ISO_8859_2 - Static variable in class loci.poi.hpsf.Constants: Codepage for ISO-8859-2
CP_ISO_8859_3 - Static variable in class loci.poi.hpsf.Constants: Codepage for ISO-8859-3
CP_ISO_8859_4 - Static variable in class loci.poi.hpsf.Constants: Codepage for ISO-8859-4
CP_ISO_8859_5 - Static variable in class loci.poi.hpsf.Constants: Codepage for ISO-8859-5
CP_ISO_8859_6 - Static variable in class loci.poi.hpsf.Constants: Codepage for ISO-8859-6
CP_ISO_8859_7 - Static variable in class loci.poi.hpsf.Constants: Codepage for ISO-8859-7
CP_ISO_8859_8 - Static variable in class loci.poi.hpsf.Constants: Codepage for ISO-8859-8
CP_ISO_8859_9 - Static variable in class loci.poi.hpsf.Constants: Codepage for ISO-8859-9
CP_JOHAB - Static variable in class loci.poi.hpsf.Constants: Codepage for Johab
CP_KOI8_R - Static variable in class loci.poi.hpsf.Constants: Codepage for KOI8-R
CP_MAC_ARABIC - Static variable in class loci.poi.hpsf.Constants: Codepage for Macintosh Arabic (Java: MacArabic)
CP_MAC_CENTRAL_EUROPE - Static variable in class loci.poi.hpsf.Constants: Codepage for Macintosh Central Europe (Latin-2) (Java: MacCentralEurope)
CP_MAC_CHINESE_SIMPLE - Static variable in class loci.poi.hpsf.Constants: Codepage for Macintosh Chinese Simplified (Java: unknown - use EUC_CN, ISO2022_CN_GB, MS936 or cp935)
CP_MAC_CHINESE_TRADITIONAL - Static variable in class loci.poi.hpsf.Constants: Codepage for Macintosh Chinese Traditional (Java: unknown - use Big5, MS950, or cp937)
CP_MAC_CROATIAN - Static variable in class loci.poi.hpsf.Constants: Codepage for Macintosh Croatian (Java: MacCroatian)
CP_MAC_CYRILLIC - Static variable in class loci.poi.hpsf.Constants: Codepage for Macintosh Cyrillic (Java: MacCyrillic)
CP_MAC_GREEK - Static variable in class loci.poi.hpsf.Constants: Codepage for Macintosh Greek (Java: MacGreek)
CP_MAC_HEBREW - Static variable in class loci.poi.hpsf.Constants: Codepage for Macintosh Hebrew (Java: MacHebrew)
CP_MAC_ICELAND - Static variable in class loci.poi.hpsf.Constants: Codepage for Macintosh Iceland (Java: MacIceland)
CP_MAC_JAPAN - Static variable in class loci.poi.hpsf.Constants: Codepage for Macintosh Japan (Java: unknown - use SJIS, cp942 or cp943)
CP_MAC_KOREAN - Static variable in class loci.poi.hpsf.Constants: Codepage for Macintosh Korean (Java: unknown - use EUC_KR or cp949)
CP_MAC_ROMAN - Static variable in class loci.poi.hpsf.Constants: Codepage for Macintosh Roman (Java: MacRoman)
CP_MAC_ROMANIA - Static variable in class loci.poi.hpsf.Constants: Codepage for Macintosh Romanian (Java: MacRomania)
CP_MAC_THAI - Static variable in class loci.poi.hpsf.Constants: Codepage for Macintosh Thai (Java: MacThai)
CP_MAC_TURKISH - Static variable in class loci.poi.hpsf.Constants: Codepage for Macintosh Turkish (Java: MacTurkish)
CP_MAC_UKRAINE - Static variable in class loci.poi.hpsf.Constants: Codepage for Macintosh Ukrainian (Java: MacUkraine)
CP_MS949 - Static variable in class loci.poi.hpsf.Constants: Codepage for MS949
CP_SJIS - Static variable in class loci.poi.hpsf.Constants: Codepage for SJIS
CP_UNICODE - Static variable in class loci.poi.hpsf.Constants: Codepage for Unicode
CP_US_ACSII - Static variable in class loci.poi.hpsf.Constants: Codepage for US-ASCII
CP_US_ASCII2 - Static variable in class loci.poi.hpsf.Constants: Another codepage for US-ASCII
CP_UTF16 - Static variable in class loci.poi.hpsf.Constants: Codepage for UTF-16
CP_UTF16_BE - Static variable in class loci.poi.hpsf.Constants: Codepage for UTF-16 big-endian
CP_UTF8 - Static variable in class loci.poi.hpsf.Constants: Codepage for UTF-8
CP_WINDOWS_1250 - Static variable in class loci.poi.hpsf.Constants: Codepage for Windows 1250
CP_WINDOWS_1251 - Static variable in class loci.poi.hpsf.Constants: Codepage for Windows 1251
CP_WINDOWS_1252 - Static variable in class loci.poi.hpsf.Constants: Codepage for Windows 1252
CP_WINDOWS_1253 - Static variable in class loci.poi.hpsf.Constants: Codepage for Windows 1253
CP_WINDOWS_1254 - Static variable in class loci.poi.hpsf.Constants: Codepage for Windows 1254
CP_WINDOWS_1255 - Static variable in class loci.poi.hpsf.Constants: Codepage for Windows 1255
CP_WINDOWS_1256 - Static variable in class loci.poi.hpsf.Constants: Codepage for Windows 1256
CP_WINDOWS_1257 - Static variable in class loci.poi.hpsf.Constants: Codepage for Windows 1257
CP_WINDOWS_1258 - Static variable in class loci.poi.hpsf.Constants: Codepage for Windows 1258
cqcc - Variable in class jj2000.j2k.codestream.HeaderInfo.QCC
CRC - Class in loci.common: A simple class to hold and calculate the CRC for sanity checking the data.
CRC() - Constructor for class loci.common.CRC
CRC_32_TABLE - Static variable in class loci.common.CRC
create(InputStream) - Static method in class loci.poi.hpsf.PropertySetFactory: Creates the most specific PropertySet from an InputStream.
create() - Method in class loci.poi.hssf.usermodel.DummyGraphics2d
create(int, int, int, int) - Method in class loci.poi.hssf.usermodel.DummyGraphics2d
create() - Method in class loci.poi.hssf.usermodel.EscherGraphics
create() - Method in class loci.poi.hssf.usermodel.EscherGraphics2d
create(String, Properties) - Static method in class loci.poi.hssf.usermodel.FontDetails: Create an instance of FontDetails by loading them from the provided property object.
createAggregate(List, int, DrawingManager2) - Static method in class loci.poi.hssf.record.EscherAggregate: Collapses the drawing records into an aggregate.
createAnchor(HSSFAnchor) - Method in class loci.poi.hssf.model.AbstractShape: Creates an escher anchor record from a HSSFAnchor.
createAnchor(HSSFAnchor) - Static method in class loci.poi.hssf.model.ConvertAnchor
createArrayForType(int, int) - Static method in class com.sun.media.imageio.plugins.tiff.TIFFField: Creates an array appropriate for the indicated data type.
createBackup() - Method in class loci.poi.hssf.model.Workbook: creates the Backup record with backup set to 0.
createBATBlocks(int[], int) - Static method in class loci.poi.poifs.storage.BATBlock: Create an array of BATBlocks from an array of int block allocation table entries
createBlank(int, short) - Method in class loci.poi.hssf.model.Sheet: create a BLANK record (does not add it to the records contained in this sheet)
createBlocks(int) - Method in class loci.poi.poifs.storage.BlockAllocationTableWriter: Create the BATBlocks we need
createBOF() - Method in class loci.poi.hssf.model.Sheet: creates the BOF record
createBOF() - Method in class loci.poi.hssf.model.Workbook: creates the BOF record
createBookBool() - Method in class loci.poi.hssf.model.Workbook: creates the BookBool record with saveLinkValues set to 0.
createBoundSheet(int) - Method in class loci.poi.hssf.model.Workbook: create a "bound sheet" or "bundlesheet" (depending who you ask) record Always sets the sheet's bof to 0.
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.
createBuilder() - Static method in class loci.common.xml.XMLTools: Creates a new DocumentBuilder via DocumentBuilderFactory or logs and throws a RuntimeException.
createBuiltInName(byte, int) - Method in class loci.poi.hssf.model.Workbook: Generates a NameRecord to represent a built-in region
createCalcCount() - Method in class loci.poi.hssf.model.Sheet: creates the CalcCount record and sets it to 0x64 (default number of iterations)
createCalcMode() - Method in class loci.poi.hssf.model.Sheet: creates the CalcMode record and sets it to 1 (automatic formula caculation)
createCell(short) - Method in class loci.poi.hssf.usermodel.HSSFRow: Use this to create new cells within the row and return it.
createCell(short, int) - Method in class loci.poi.hssf.usermodel.HSSFRow: Use this to create new cells within the row and return it.
createCellFromRecord(CellValueRecordInterface) - Method in class loci.poi.hssf.usermodel.HSSFRow: create a high level HSSFCell object from an existing low level record.
createCellStyle() - Method in class loci.poi.hssf.usermodel.HSSFWorkbook: create a new Cell style and add it to the workbook's style table
createCellXF() - Method in class loci.poi.hssf.model.Workbook: creates a new Cell-type Extneded Format Record and adds it to the end of ExtendedFormatRecords collection
createCodepage() - Method in class loci.poi.hssf.model.Workbook: creates the Codepage record containing the constant stored in CODEPAGE
createColInfo() - Method in class loci.poi.hssf.model.Sheet: creates the ColumnInfo Record and sets it to a default column/width
createColInfo() - Static method in class loci.poi.hssf.record.aggregates.ColumnInfoRecordsAggregate: creates the ColumnInfo Record and sets it to a default column/width
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
createComment(HSSFAnchor) - Method in class loci.poi.hssf.usermodel.HSSFPatriarch: Constructs a cell comment.
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
createCountry() - Method in class loci.poi.hssf.model.Workbook: Creates the Country record with the default country set to 1 and current country set to 7 in case of russian locale ("ru_RU") and 1 otherwise
created - Variable in class loci.formats.out.QTWriter: Time the file was created.
createData() - Method in class loci.tests.IOTester
createDataFormat() - Method in class loci.poi.hssf.usermodel.HSSFWorkbook: Returns the instance of HSSFDataFormat for this workbook.
createDateWindow1904() - Method in class loci.poi.hssf.model.Workbook: creates the DateWindow1904 record with windowing set to 0.
createDefaultColWidth() - Method in class loci.poi.hssf.model.Sheet: creates the DefaultColWidth Record and sets it to 8
createDefaultRowHeight() - Method in class loci.poi.hssf.model.Sheet: creates the DefaultRowHeight Record and sets its options to 0 and rowheight to 0xff
createDelta() - Method in class loci.poi.hssf.model.Sheet: creates the Delta record and sets it to 0.0010 (default accuracy)
createDequantizer(CBlkQuantDataSrcDec, int[], DecoderSpecs) - Method in class jj2000.j2k.codestream.reader.HeaderDecoder: Returns the dequantizer parameters.
createDgRecord() - Method in class loci.poi.hssf.model.DrawingManager
createDgRecord() - Method in class loci.poi.hssf.model.DrawingManager2
createDimensions() - Method in class loci.poi.hssf.model.Sheet: creates the Dimensions Record and sets it to bogus values (you should set this yourself or let the high level API do it for you)
createDirectory(String) - Method in interface loci.poi.poifs.filesystem.DirectoryEntry: create a new DirectoryEntry
createDirectory(String) - Method in class loci.poi.poifs.filesystem.DirectoryNode: create a new DirectoryEntry
createDirectory(String) - Method in class loci.poi.poifs.filesystem.POIFSFileSystem: create a new DirectoryEntry in the root directory
createDocument() - Static method in class loci.common.xml.XMLTools: Calls DocumentBuilder.newDocument() on a new builder.
createDocument(String, RandomAccessInputStream) - Method in interface loci.poi.poifs.filesystem.DirectoryEntry: create a new DocumentEntry
createDocument(String, int, POIFSWriterListener) - Method in interface loci.poi.poifs.filesystem.DirectoryEntry: create a new DocumentEntry; the data will be provided later
createDocument(String, RandomAccessInputStream) - Method in class loci.poi.poifs.filesystem.DirectoryNode: create a new DocumentEntry
createDocument(String, int, POIFSWriterListener) - Method in class loci.poi.poifs.filesystem.DirectoryNode: create a new DocumentEntry; the data will be provided later
createDocument(RandomAccessInputStream, String) - Method in class loci.poi.poifs.filesystem.POIFSFileSystem: Create a new document to be added to the root directory
createDocument(String, int, POIFSWriterListener) - Method in class loci.poi.poifs.filesystem.POIFSFileSystem: create a new DocumentEntry in the root entry; the data will be provided later
createDocumentInputStream(String) - Method in class loci.poi.poifs.filesystem.POIFSFileSystem: open a document in the root entry's list of entries
createDrawingGroup() - Method in class loci.poi.hssf.model.Workbook: Creates a drawing group record.
createDrawingPatriarch() - Method in class loci.poi.hssf.usermodel.HSSFSheet: Creates the toplevel drawing patriarch.
createDSF() - Method in class loci.poi.hssf.model.Workbook: creates the DSF record containing a 0 since HSSF can't even create Dual Stream Files
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.
createEOF() - Method in class loci.poi.hssf.model.Sheet: creates the EOF record
createEOF() - Method in class loci.poi.hssf.model.Workbook: creates the EOF record
createExtendedFormat(int) - Method in class loci.poi.hssf.model.Workbook: Creates an ExtendedFormatRecord object
createExtendedFormat() - Method in class loci.poi.hssf.model.Workbook: creates an default cell type ExtendedFormatRecord object.
createExtendedSST() - Method in class loci.poi.hssf.model.Workbook: Creates the ExtendedSST record with numstrings per bucket set to 0x8.
createExternSheet() - Method in class loci.poi.hssf.model.Workbook: creates a new extern sheet record
createExtSSTRecord(int) - Method in class loci.poi.hssf.record.SSTRecord: Creates an extended string record based on the current contents of the current SST record.
createFnGroupCount() - Method in class loci.poi.hssf.model.Workbook: creates the FnGroupCount record containing the Magic number constant of 14.
createFont() - Method in class loci.poi.hssf.model.Workbook: creates a Font record with the following magic values:
createFont() - Method in class loci.poi.hssf.usermodel.HSSFWorkbook: create a new Font and add it to the workbook's font table
createFooter() - Method in class loci.poi.hssf.model.Sheet: creates the Footer Record and sets it to nothing/0 length
createFormat(int) - Method in class loci.poi.hssf.model.Workbook: Creates a FormatRecord object
createFormat(String) - Method in class loci.poi.hssf.model.Workbook: Creates a FormatRecord, inserts it, and returns the index code.
createFormula(int, short, String) - Method in class loci.poi.hssf.model.Sheet: Attempts to parse the formula into PTGs and create a formula record DOES NOT WORK YET
createFreezePane(int, int, int, int) - Method in class loci.poi.hssf.model.Sheet: Creates a split (freezepane).
createFreezePane(int, int, int, int) - Method in class loci.poi.hssf.usermodel.HSSFSheet: Creates a split (freezepane).
createFreezePane(int, int) - Method in class loci.poi.hssf.usermodel.HSSFSheet: Creates a split (freezepane).
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.
createGridset() - Method in class loci.poi.hssf.model.Sheet: creates the Gridset record and sets it to true (user has mucked with the gridlines)
createGroup(HSSFClientAnchor) - Method in class loci.poi.hssf.usermodel.HSSFPatriarch: Creates a new group record stored under this patriarch.
createGroup(HSSFChildAnchor) - Method in class loci.poi.hssf.usermodel.HSSFShapeGroup: Create another group under this group.
createGuts() - Method in class loci.poi.hssf.model.Sheet: creates the Guts record and sets leftrow/topcol guttter and rowlevelmax/collevelmax to 0
createHCenter() - Method in class loci.poi.hssf.model.Sheet: creates the HCenter Record and sets it to false (don't horizontally center)
createHeader() - Method in class loci.poi.hssf.model.Sheet: creates the Header Record and sets it to nothing/0 length
createHideObj() - Method in class loci.poi.hssf.model.Workbook: creates the HideObj record with hide object set to 0.
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
createIndex() - Method in class loci.poi.hssf.model.Sheet: creates the Index record - not currently used
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.
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.
createInstances() - Method in class loci.tests.testng.FormatReaderTestFactory
createInstances() - Method in class loci.tests.testng.FormatWriterTestFactory
createInterfaceEnd() - Method in class loci.poi.hssf.model.Workbook: creates the InterfaceEnd record
createInterfaceHdr() - Method in class loci.poi.hssf.model.Workbook: creates the InterfaceHdr record
createIteration() - Method in class loci.poi.hssf.model.Sheet: creates the Iteration record and sets it to false (don't iteratively calculate formulas)
createLabelSST(int, short, int) - Method in class loci.poi.hssf.model.Sheet: Create a LABELSST Record (does not add it to the records contained in this sheet)
createLogFile() - Static method in class loci.tests.testng.TestTools: Creates a new log file.
createLSID(String, int...) - Static method in class loci.formats.MetadataTools: Constructs an LSID, given the object type and indices.
createMergedCells() - Method in class loci.poi.hssf.model.Sheet
createMMS() - Method in class loci.poi.hssf.model.Workbook: creates an MMS record
createName() - Method in class loci.poi.hssf.model.Workbook: creates new name
createName() - Method in class loci.poi.hssf.usermodel.HSSFWorkbook: creates a new named range and add it to the model
createNewDocument() - Method in class ome.xml.meta.AbstractOMEXMLMetadata
createNewFile() - Method in class loci.common.Location: Creates a new empty file named by this Location's path name iff a file with this name does not already exist.
createNewFont() - Method in class loci.poi.hssf.model.Workbook: creates a new font record and adds it to the "font table".
createNumber(int, short, double) - Method in class loci.poi.hssf.model.Sheet: Create a NUMBER Record (does not add it to the records contained in this sheet)
createObjectProtect() - Method in class loci.poi.hssf.model.Sheet: creates an ObjectProtect record with protect set to false.
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
createOutputStreamInstance(Object, boolean, File) - Method in class com.sun.media.imageioimpl.stream.ChannelImageOutputStreamSpi
createPalette() - Method in class loci.poi.hssf.model.Workbook: Creates a palette record initialized to the default palette
createParsedExpressionTokens(short, RecordInputStream) - Static method in class loci.poi.hssf.record.formula.Ptg
createPassword() - Method in class loci.poi.hssf.model.Sheet: creates a Password record with password set to 00.
createPassword() - Method in class loci.poi.hssf.model.Workbook: creates the Password record with password set to 0.
createPasswordRev4() - Method in class loci.poi.hssf.model.Workbook: creates the PasswordRev4 record with password set to 0.
createPicture(HSSFClientAnchor, int) - Method in class loci.poi.hssf.usermodel.HSSFPatriarch: Creates a picture.
createPicture(HSSFChildAnchor, int) - Method in class loci.poi.hssf.usermodel.HSSFShapeGroup: Creates a picture.
createPolygon(HSSFClientAnchor) - Method in class loci.poi.hssf.usermodel.HSSFPatriarch: Creates a polygon
createPolygon(HSSFChildAnchor) - Method in class loci.poi.hssf.usermodel.HSSFShapeGroup: Creates a polygon
createPrecision() - Method in class loci.poi.hssf.model.Workbook: creates the Precision record with precision set to true.
createPrintGridlines() - Method in class loci.poi.hssf.model.Sheet: creates the PrintGridlines record and sets it to false (that makes for ugly sheets).
createPrintHeaders() - Method in class loci.poi.hssf.model.Sheet: creates the PrintHeaders record and sets it to false (we don't create headers yet so why print them)
createPrintSetup() - Method in class loci.poi.hssf.model.Sheet: creates the PrintSetup Record and sets it to defaults and marks it invalid
createProcessor(int, int) - Method in class loci.plugins.util.RecordedImageProcessor
createProperties(byte[], int, short) - Method in class loci.poi.ddf.EscherPropertyFactory: Create new properties from a byte array.
createPropertyBlockArray(List, int) - Static method in class loci.poi.poifs.storage.PropertyBlock: Create an array of PropertyBlocks from an array of Property instances, creating empty Property instances to make up any shortfall
createProtect() - Method in class loci.poi.hssf.model.Sheet: creates a Protect record with protect set to false.
createProtect() - Method in class loci.poi.hssf.model.Workbook: creates the Protect record with protect set to false.
createProtectionRev4() - Method in class loci.poi.hssf.model.Workbook: creates the ProtectionRev4 record with protect set to false.
createPtg(RecordInputStream) - Static method in class loci.poi.hssf.record.formula.Ptg
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
createRecord(byte[], int) - Method in class loci.poi.ddf.DefaultEscherRecordFactory: Generates an escher record including the any children contained under that record.
createRecord(byte[], int) - Method in interface loci.poi.ddf.EscherRecordFactory: Create a new escher record from the data provided.
createRecord(RecordInputStream) - Static method in class loci.poi.hssf.eventmodel.EventRecordFactory: create a record, if there are MUL records than multiple records are returned digested into the non-mul form.
createRecord(RecordInputStream) - Static method in class loci.poi.hssf.record.RecordFactory: Deprecated.
createRecords(InputStream, boolean) - Static method in class loci.poi.hssf.dev.BiffViewer: Create an array of records from an input stream
createRecords(InputStream) - Static method in class loci.poi.hssf.record.RecordFactory: Deprecated.

Create an array of records from an input stream
createRefMode() - Method in class loci.poi.hssf.model.Sheet: creates the RefMode record and sets it to A1 Mode (default reference mode)
createRefreshAll() - Method in class loci.poi.hssf.model.Workbook: creates the RefreshAll record with refreshAll set to true.
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() - Method in class ome.xml.meta.AggregateMetadata
createRoot() - Method in class ome.xml.meta.DummyMetadata
createRoot() - Method in class ome.xml.meta.FilterMetadata
createRoot() - Method in interface ome.xml.meta.MetadataStore
createRoot() - Method in class ome.xml.meta.OMEXMLMetadataImpl
createRow(int) - Method in class loci.poi.hssf.model.Sheet: Create a row record.
createRow(int) - Static method in class loci.poi.hssf.record.aggregates.RowRecordsAggregate: Create a row record.
createRow(int) - Method in class loci.poi.hssf.usermodel.HSSFSheet: Create a new row within the sheet and return the high level representation
createSaveRecalc() - Method in class loci.poi.hssf.model.Sheet: creates the SaveRecalc record and sets it to true (recalculate before saving)
createScenarioProtect() - Method in class loci.poi.hssf.model.Sheet: creates a ScenarioProtect record with protect set to false.
createSelection() - Method in class loci.poi.hssf.model.Sheet: Creates the Selection record and sets it to nothing selected
createShape(HSSFShape, int) - Static method in class loci.poi.hssf.model.AbstractShape: Create a new shape object used to create the escher records.
createShape(HSSFChildAnchor) - Method in class loci.poi.hssf.usermodel.HSSFShapeGroup: Create a new simple shape under this group.
createSheet(List, int, int) - Static method in class loci.poi.hssf.model.Sheet: read support (offset used as starting point for search) for low level API.
createSheet(List, int) - Static method in class loci.poi.hssf.model.Sheet: read support (offset = 0) Same as createSheet(Record[] recs, int, int) only the record offset is assumed to be 0.
createSheet() - Static method in class loci.poi.hssf.model.Sheet: Creates a sheet with all the usual records minus values and the "index" record (not required).
createSheet() - Method in class loci.poi.hssf.usermodel.HSSFWorkbook: create an HSSFSheet for this HSSFWorkbook, adds it to the sheets and returns the high level representation.
createSheet(String) - Method in class loci.poi.hssf.usermodel.HSSFWorkbook: create an HSSFSheet for this HSSFWorkbook, adds it to the sheets and returns the high level representation.
createSimpleShape(HSSFClientAnchor) - Method in class loci.poi.hssf.usermodel.HSSFPatriarch: Creates a simple shape.
createSplitPane(int, int, int, int, int) - Method in class loci.poi.hssf.model.Sheet: Creates a split pane.
createSplitPane(int, int, int, int, int) - Method in class loci.poi.hssf.usermodel.HSSFSheet: Creates a split pane.
createSST() - Method in class loci.poi.hssf.model.Workbook: Creates the SST record with no strings and the unique/num string set to 0
createStack(List<ImageProcessor>, List<String>, List<LUT>) - Static method in class loci.plugins.in.ImagePlusReader: Creates an image stack from the given image processors.
createStyle(int) - Method in class loci.poi.hssf.model.Workbook: Creates a StyleRecord object
createSubRecord(RecordInputStream) - Static method in class loci.poi.hssf.record.SubRecord
createTabId() - Method in class loci.poi.hssf.model.Workbook: creates the TabId record containing an array of 0,1,2.
createTempFile(String, String) - Static method in class loci.poi.util.TempFile: Creates a temporary file.
createTextbox(HSSFClientAnchor) - Method in class loci.poi.hssf.usermodel.HSSFPatriarch: Constructs a textbox under the patriarch.
createTextbox(HSSFChildAnchor) - Method in class loci.poi.hssf.usermodel.HSSFShapeGroup: Create a new textbox under this group.
createUseSelFS() - Method in class loci.poi.hssf.model.Workbook: Creates the UseSelFS object with the use natural language flag set to 0 (false)
createVCenter() - Method in class loci.poi.hssf.model.Sheet: creates the VCenter Record and sets it to false (don't horizontally center)
createWindowOne() - Method in class loci.poi.hssf.model.Workbook: creates the WindowOne record with the following magic values:
createWindowProtect() - Method in class loci.poi.hssf.model.Workbook: creates the WindowProtect record with protect set to false.
createWindowTwo() - Method in class loci.poi.hssf.model.Sheet: creates the WindowTwo Record and sets it to:
createWorkbook(List) - Static method in class loci.poi.hssf.model.Workbook: read support for low level API.
createWorkbook() - Static method in class loci.poi.hssf.model.Workbook: Creates an empty workbook object with three blank sheets and all the empty fields.
createWriteAccess() - Method in class loci.poi.hssf.model.Workbook: creates the WriteAccess record containing the logged in user's name
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
createWSBool() - Method in class loci.poi.hssf.model.Sheet: creates the WSBoolRecord and sets its values to defaults
createXBATBlocks(int[], int, int) - Static method in class loci.poi.poifs.storage.BATBlock: Create an array of XBATBlocks from an array of int block allocation table entries
crg - Variable in class jj2000.j2k.codestream.HeaderInfo: Reference to the CRG marker segment found in main header
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.
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_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_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
css - Variable in class jj2000.j2k.entropy.encoder.StdEntropyCoder: Causal stripes specifications
CSV_SUFFIX - Static variable in class loci.formats.in.PerkinElmerReader
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
ctX - Variable in class jj2000.j2k.codestream.reader.BitstreamReaderAgent: The current tile horizontal index
ctY - Variable in class jj2000.j2k.codestream.reader.BitstreamReaderAgent: The current tile vertical index
cTypes - Variable in class loci.formats.CoreMetadata: Deprecated.
use CoreMetadata.moduloC instead
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.
cur_pg - Variable in class mdbtools.libmdb.MdbHandle
cur_pg_num - Variable in class mdbtools.libmdb.MdbTableDef
cur_phys_pg - Variable in class mdbtools.libmdb.MdbTableDef
cur_pos - Variable in class mdbtools.libmdb.MdbHandle
cur_row - Variable in class mdbtools.libmdb.MdbTableDef
cur_value_len - Variable in class mdbtools.libmdb.MdbColumn
cur_value_start - Variable in class mdbtools.libmdb.MdbColumn
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.
current - Variable in class loci.formats.ImageWriter: Current form index.
currentId - Variable in class loci.formats.FormatHandler: Name of current file.
currentId - Variable in class loci.formats.ImageWriter: Name of current file.
currentLength - Variable in class loci.poi.hssf.record.RecordInputStream
currentPos - Variable in class loci.formats.cache.Cache: Current dimensional position.
currentRow - Variable in class mdbtools.dbengine.MemoryData
currentSid - Variable in class loci.poi.hssf.record.RecordInputStream
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).
curve - Variable in class loci.formats.codec.NikonCodecOptions
CURVES - Static variable in class loci.poi.ddf.EscherShapePathProperty
CUSTOM - Static variable in interface jj2000.j2k.wavelet.FilterTypes: User-defined filter: -1
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.
CustomField - Interface in loci.poi.hssf.record
CustomProperties - Class in loci.poi.hpsf: Maintains the instances of CustomProperty that belong to a DocumentSummaryInformation.
CustomProperties() - Constructor for class loci.poi.hpsf.CustomProperties
CustomProperty - Class in loci.poi.hpsf: This class represents custum properties in the document summary information stream.
CustomProperty() - Constructor for class loci.poi.hpsf.CustomProperty: Creates an empty CustomProperty.
CustomProperty(Property) - Constructor for class loci.poi.hpsf.CustomProperty: Creates a CustomProperty without a name by copying the underlying Property' attributes.
CustomProperty(Property, String) - Constructor for class loci.poi.hpsf.CustomProperty: Creates a CustomProperty with a name.
cycles - Variable in class loci.formats.in.SDTInfo: Cycles (accumulation cycles in FLOW mode).





D

DAILY_BUILD - Static variable in class loci.formats.UpgradeChecker

Location of the JAR artifacts for Bio-Formats' daily build.

DASH_DOT - Static variable in class loci.poi.hssf.record.ExtendedFormatRecord
 
DASH_DOT_DOT - Static variable in class loci.poi.hssf.record.ExtendedFormatRecord
 
DASHED - Static variable in class loci.poi.hssf.record.ExtendedFormatRecord
 
data - Variable in class com.sun.media.imageioimpl.plugins.jpeg2000.Box
 
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.poi.hssf.record.RecordInputStream
 
Data - Interface in mdbtools.dbengine

Data represents a set of rows containing data

Data - Class in mdbtools.libmdb
 
Data() - Constructor for class mdbtools.libmdb.Data
 
DATA_IDENTIFIER - Static variable in class loci.formats.in.SDTInfo

For normal .sdt files (setup + data).

DATA_LABEL_PLACEMENT_ABOVE - Static variable in class loci.poi.hssf.record.TextRecord
 
DATA_LABEL_PLACEMENT_AUTO - Static variable in class loci.poi.hssf.record.TextRecord
 
DATA_LABEL_PLACEMENT_AXIS - Static variable in class loci.poi.hssf.record.TextRecord
 
DATA_LABEL_PLACEMENT_BELOW - Static variable in class loci.poi.hssf.record.TextRecord
 
DATA_LABEL_PLACEMENT_CENTER - Static variable in class loci.poi.hssf.record.TextRecord
 
DATA_LABEL_PLACEMENT_CHART_DEPENDENT - Static variable in class loci.poi.hssf.record.TextRecord
 
DATA_LABEL_PLACEMENT_INSIDE - Static variable in class loci.poi.hssf.record.TextRecord
 
DATA_LABEL_PLACEMENT_LEFT - Static variable in class loci.poi.hssf.record.TextRecord
 
DATA_LABEL_PLACEMENT_OUTSIDE - Static variable in class loci.poi.hssf.record.TextRecord
 
DATA_LABEL_PLACEMENT_RIGHT - Static variable in class loci.poi.hssf.record.TextRecord
 
DATA_LABEL_PLACEMENT_USER_MOVED - Static variable in class loci.poi.hssf.record.TextRecord
 
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.

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
 
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
 
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.

DataFormatRecord - Class in loci.poi.hssf.record

The data format record is used to index into a series.

DataFormatRecord() - Constructor for class loci.poi.hssf.record.DataFormatRecord
 
DataFormatRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.DataFormatRecord

Constructs a DataFormat record and sets its fields appropriately.

dataOffs - Variable in class loci.formats.in.SDTInfo

Offset of the data block from the beginning of the file.

Dataset - Class in ome.xml.model
 
Dataset() - Constructor for class ome.xml.model.Dataset

Default constructor.

Dataset(Element, OMEModel) - Constructor for class ome.xml.model.Dataset

Constructs Dataset recursively from an XML DOM tree.

Dataset(Dataset) - Constructor for class ome.xml.model.Dataset

Copy constructor.

datasetDescription - Variable in class loci.formats.FormatReader

Short description of the structure of the dataset.

DatasetRef - Class in ome.xml.model
 
DatasetRef() - Constructor for class ome.xml.model.DatasetRef

Default constructor.

DatasetRef(Element, OMEModel) - Constructor for class ome.xml.model.DatasetRef

Constructs DatasetRef recursively from an XML DOM tree.

DatasetRef(DatasetRef) - Constructor for class ome.xml.model.DatasetRef

Copy constructor.

DataSource - Interface in mdbtools.dbengine

DataSource represents the data store.

DataTools - Class in loci.common

A utility class with convenience methods for
 reading, writing and decoding words.

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
 
DATE - Static variable in class loci.formats.FormatTools

Date on which this release was built.

date - Variable in class loci.formats.in.SDTInfo

Date of creation.

date() - Static method in class loci.poi.hssf.usermodel.HSSFFooter

Returns the string representing the current date

date() - Static method in class loci.poi.hssf.usermodel.HSSFHeader

Returns the string representing the current date

DATE_FORMAT - Static variable in class loci.formats.in.DeltavisionReader
 
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.IvisionReader
 
DATE_FORMAT - Static variable in class loci.formats.in.L2DReader
 
DATE_FORMAT - Static variable in class loci.formats.in.MicromanagerReader
 
DATE_FORMAT - Static variable in class loci.formats.in.PerkinElmerReader
 
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.ICSReader
 
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
 
dateToFileTime(Date) - Static method in class loci.poi.hpsf.Util

Converts a Date into a filetime.

DateTools - Class in loci.common

A utility class with convenience methods for working with dates.

DateWindow1904Record - Class in loci.poi.hssf.record

Title:        Date Window 1904 Flag record

DateWindow1904Record() - Constructor for class loci.poi.hssf.record.DateWindow1904Record
 
DateWindow1904Record(RecordInputStream) - Constructor for class loci.poi.hssf.record.DateWindow1904Record

Constructs a DateWindow1904 record and sets its fields appropriately.

DatRecord - Class in loci.poi.hssf.record

The dat record is used to store options for the chart.

DatRecord() - Constructor for class loci.poi.hssf.record.DatRecord
 
DatRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.DatRecord

Constructs a Dat record and sets its fields appropriately.

db_passwd - Variable in class mdbtools.libmdb.MdbFile
 
DBCELL_CAPACITY - Static variable in class loci.poi.hssf.record.IndexRecord
 
DBCellRecord - Class in loci.poi.hssf.record

Title:        DBCell Record
 Description:  Used by Excel and other MS apps to quickly find rows in the sheets.

DBCellRecord() - Constructor for class loci.poi.hssf.record.DBCellRecord
 
DBCellRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.DBCellRecord

Constructs a DBCellRecord and sets its fields appropriately

DC_OFFSET - Static variable in class jj2000.j2k.image.input.ImgReaderPGM

DC offset value used when reading image

deadTimeComp - Variable in class loci.formats.in.SDTInfo
 
debug(String) - Static method in class loci.plugins.BF
 
DEBUG - Static variable in class loci.poi.util.POILogger
 
DebugTools - Class in loci.common

A utility class with convenience methods for debugging.

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() - Method in class loci.poi.hssf.record.AbstractEscherHolderRecord

Convert raw data to escher records.

decodeDate(int) - Static method in class loci.formats.in.MetamorphReader

Converts a Julian date value into a human-readable string.

decodeNextScanline(int) - Method in class com.sun.media.imageioimpl.plugins.tiff.TIFFFaxDecompressor
 
decodeNumber(int) - Static method in class loci.poi.hssf.util.RKUtil

Do the dirty work of decoding; made a private static method to
 facilitate testing the algorithm

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
 
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
 
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 class com.luratech.lwf.lwfDecoder
 
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 class com.luratech.lwf.lwfDecoder
 
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
 
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

The CodecOptions parameter must be an instance of
 HuffmanCodecOptions, and should have the following fields set:
   table
   bitsPerSample
   maxBytes

decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.JPEG2000Codec

The CodecOptions parameter should have the following fields set:
 interleaved
 littleEndian

decompress(byte[], CodecOptions) - Method in class loci.formats.codec.JPEG2000Codec

The CodecOptions parameter should have the following fields set:
 interleaved
 littleEndian

decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.JPEGCodec

The CodecOptions parameter should have the following fields set:
  interleaved
  littleEndian

decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.LosslessJPEGCodec

The CodecOptions parameter should have the following fields set:
  interleaved
  littleEndian

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

The CodecOptions parameter must be an instance of MJPBCodecOptions,
 and should have the following fields set:
  interlaced
  width
  height
  bitsPerSample
  littleEndian
  interleaved

decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.MSRLECodec

The CodecOptions parameter should have the following fields set:
  width
  height
  previousImage

decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.MSVideoCodec

The CodecOptions parameter should have the following fields set:
  width
  height
  bitsPerSample
  previousImage

decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.NikonCodec

The CodecOptions parameter must be an instance of
 NikonCodecOptions, and should have the following fields set:
  lossy
  vPredictor
  curve
  split
  bitsPerSample
  maxBytes
  width
  height

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

The CodecOptions parameter should have the following fields set:
  width
  height
  bitsPerSample
  previousImage

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

The CodecOptions parameter should have the following fields set:
  maxBytes
  CodecOptions.bitsPerSample

decompress(RandomAccessInputStream, CodecOptions) - Method in class loci.formats.codec.ZlibCodec
 
decompress(byte[], CodecOptions) - Method in enum loci.formats.tiff.TiffCompression

Decodes a strip of data.

decompress(byte[], int, int) - Static method in class loci.poi.ddf.EscherBlipWMFRecord

Decompresses a byte array.

decSpec - Variable in class jj2000.j2k.codestream.reader.BitstreamReaderAgent

The decoder specifications

decSpec - Variable in class jj2000.j2k.wavelet.synthesis.InvWTAdapter

The decoder specifications

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_backend - Variable in class mdbtools.libmdb.MdbFile
 
default_backend - Variable in class mdbtools.libmdb.MdbHandle
 
DEFAULT_BLOCK_SIZE - Static variable in class loci.common.NIOInputStream

Block size to use when searching through the stream.

DEFAULT_BLOCK_SIZE - Static variable in class loci.common.RandomAccessInputStream

Block size to use when searching through the stream.

DEFAULT_BUCKET_SIZE - Static variable in class loci.poi.hssf.record.ExtSSTRecord
 
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_CHARSET - Static variable in class loci.poi.hssf.usermodel.HSSFFont

Default character set.

DEFAULT_DIMENSION_ORDER - Static variable in class loci.formats.in.FakeReader
 
DEFAULT_DISPLAY_RESOLUTION_BOX - Static variable in interface jj2000.j2k.fileformat.FileFormatBoxes
 
DEFAULT_HEADER - Static variable in class loci.common.IniTable

Default header name when no header is available.

DEFAULT_MINIMUM_ELAPSED - Static variable in class loci.formats.Memoizer

Default value for Memoizer.minimumElapsed if none is provided in the
 constructor.

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_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_STREAM_NAME - Static variable in class loci.poi.hpsf.DocumentSummaryInformation

The document name a document summary information stream
 usually has in a POIFS filesystem.

DEFAULT_STREAM_NAME - Static variable in class loci.poi.hpsf.SummaryInformation

The document name a summary information stream usually has in a POIFS
 filesystem.

DEFAULT_VALUE - Static variable in class loci.poi.hssf.record.DeltaRecord
 
defaultBufferSize - Static variable in class loci.common.NIOFileHandle

Default NIO buffer size to facilitate buffered I/O.

defaultcolwidth - Variable in class loci.poi.hssf.model.Sheet
 
DefaultColWidthRecord - Class in loci.poi.hssf.record

Title:        Default Column Width Record

DefaultColWidthRecord() - Constructor for class loci.poi.hssf.record.DefaultColWidthRecord
 
DefaultColWidthRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.DefaultColWidthRecord

Constructs a DefaultColumnWidth record and sets its fields appropriately.

DefaultDataLabelTextPropertiesRecord - Class in loci.poi.hssf.record

The default data label text properties record identifies the text characteristics of the preceeding text record.

DefaultDataLabelTextPropertiesRecord() - Constructor for class loci.poi.hssf.record.DefaultDataLabelTextPropertiesRecord
 
DefaultDataLabelTextPropertiesRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.DefaultDataLabelTextPropertiesRecord

Constructs a DefaultDataLabelTextProperties record and sets its fields appropriately.

DefaultEscherRecordFactory - Class in loci.poi.ddf

Generates escher records when provided the byte array containing those records.

DefaultEscherRecordFactory() - Constructor for class loci.poi.ddf.DefaultEscherRecordFactory

Creates an instance of the escher record factory

DefaultMetadataOptions - Class in loci.formats.in

Source code:
 Trac,
 Gitweb

DefaultMetadataOptions() - Constructor for class loci.formats.in.DefaultMetadataOptions
 
DefaultMetadataOptions(MetadataLevel) - Constructor for class loci.formats.in.DefaultMetadataOptions
 
defaultMinMax(int) - Static method in class loci.formats.FormatTools

Get the default range for the specified pixel type.

defaultrowheight - Variable in class loci.poi.hssf.model.Sheet
 
DefaultRowHeightRecord - Class in loci.poi.hssf.record

Title:        Default Row Height Record
 Description:  Row height for rows with undefined or not explicitly defined
               heights.

DefaultRowHeightRecord() - Constructor for class loci.poi.hssf.record.DefaultRowHeightRecord
 
DefaultRowHeightRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.DefaultRowHeightRecord

Constructs a DefaultRowHeight record and sets its fields appropriately.

defaultRWBufferSize - Static variable in class loci.common.NIOFileHandle

Default NIO buffer size to facilitate buffered I/O for read/write streams.

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.

delayTime - Variable in class com.sun.media.imageioimpl.plugins.gif.GIFImageMetadata
 
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.

delete() - Method in class loci.common.Location

Deletes this file.

delete() - Method in interface loci.poi.poifs.filesystem.Entry

Delete this Entry.

delete() - Method in class loci.poi.poifs.filesystem.EntryNode

Delete this Entry.

deleteChild(Property) - Method in class loci.poi.poifs.property.DirectoryProperty

Delete a Property

DeletedArea3DPtg - Class in loci.poi.hssf.record.formula

Title:        Deleted Area 3D Ptg - 3D referecnce (Sheet + Area)

DeletedArea3DPtg(String, short) - Constructor for class loci.poi.hssf.record.formula.DeletedArea3DPtg

Creates new DeletedArea3DPtg

DeletedArea3DPtg(RecordInputStream) - Constructor for class loci.poi.hssf.record.formula.DeletedArea3DPtg
 
deleteData(String) - Method in class loci.tests.IOTester
 
DeletedRef3DPtg - Class in loci.poi.hssf.record.formula

Title:        Deleted Reference 3D Ptg

DeletedRef3DPtg(RecordInputStream) - Constructor for class loci.poi.hssf.record.formula.DeletedRef3DPtg

Creates new DeletedRef3DPtg

DeletedRef3DPtg(String, short) - Constructor for class loci.poi.hssf.record.formula.DeletedRef3DPtg
 
deleteOnExit() - Method in class loci.common.Location

Request that this file be deleted when the JVM terminates.

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

DeltaRecord - Class in loci.poi.hssf.record

Title:        Delta Record

DeltaRecord() - Constructor for class loci.poi.hssf.record.DeltaRecord
 
DeltaRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.DeltaRecord

Constructs a Delta record and sets its fields appropriately.

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.

denom - Variable in class loci.formats.tiff.TiffRational

Components of the rational's fractional representation.

DependencyException - Exception in loci.common.services

Exception thrown when there is an object instantiation error or error
 processing dependencies.

DependencyException(String) - Constructor for exception loci.common.services.DependencyException

Default constructor.

DependencyException(String, Class<? extends Service>) - Constructor for exception loci.common.services.DependencyException

Default constructor.

DependencyException(String, Class<? extends Service>, Throwable) - Constructor for exception loci.common.services.DependencyException

Default constructor.

DependencyException(Throwable) - Constructor for exception loci.common.services.DependencyException

Default constructor.

depth - Variable in class loci.formats.tools.AmiraParameters
 
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).

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.

destinationBands - Variable in class com.sun.media.imageio.plugins.tiff.TIFFDecompressor

The sequence of destination bands to receive the source data.

Detector - Class in ome.xml.model
 
Detector() - Constructor for class ome.xml.model.Detector

Default constructor.

Detector(Element, OMEModel) - Constructor for class ome.xml.model.Detector

Constructs Detector recursively from an XML DOM tree.

Detector(Detector) - Constructor for class ome.xml.model.Detector

Copy constructor.

detectorGain - Variable in class loci.formats.in.BaseZeissReader
 
detectorOffset - Variable in class loci.formats.in.BaseZeissReader
 
DetectorSettings - Class in ome.xml.model
 
DetectorSettings() - Constructor for class ome.xml.model.DetectorSettings

Default constructor.

DetectorSettings(Element, OMEModel) - Constructor for class ome.xml.model.DetectorSettings

Constructs DetectorSettings recursively from an XML DOM tree.

DetectorSettings(DetectorSettings) - Constructor for class ome.xml.model.DetectorSettings

Copy constructor.

DetectorType - Enum in ome.xml.model.enums
 
DetectorTypeEnumHandler - Class in ome.xml.model.enums.handlers

Enumeration handler for DetectorType.

DetectorTypeEnumHandler() - Constructor for class ome.xml.model.enums.handlers.DetectorTypeEnumHandler
 
detType - Variable in class loci.formats.in.SDTInfo

Detector type (SPC-930 in camera mode).

DG_CONTAINER - Static variable in class loci.poi.ddf.EscherContainerRecord
 
DGG_CONTAINER - Static variable in class loci.poi.ddf.EscherContainerRecord
 
DIAMONDS - Static variable in class loci.poi.hssf.record.ExtendedFormatRecord
 
DIAMONDS - Static variable in class loci.poi.hssf.usermodel.HSSFCellStyle

Diamonds

Dichroic - Class in ome.xml.model
 
Dichroic() - Constructor for class ome.xml.model.Dichroic

Default constructor.

Dichroic(Element, OMEModel) - Constructor for class ome.xml.model.Dichroic

Constructs Dichroic recursively from an XML DOM tree.

Dichroic(Dichroic) - Constructor for class ome.xml.model.Dichroic

Copy constructor.

DichroicRef - Class in ome.xml.model
 
DichroicRef() - Constructor for class ome.xml.model.DichroicRef

Default constructor.

DichroicRef(Element, OMEModel) - Constructor for class ome.xml.model.DichroicRef

Constructs DichroicRef recursively from an XML DOM tree.

DichroicRef(DichroicRef) - Constructor for class ome.xml.model.DichroicRef

Copy constructor.

DICOM_MAGIC_STRING - 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.

dictionary - Variable in class loci.poi.hpsf.Section

Maps property IDs to section-private PID strings.

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
 
dilate() - Method in class loci.plugins.util.RecordedImageProcessor
 
dimensionOrder - Variable in class loci.formats.CoreMetadata

Order in which dimensions are stored.

DimensionOrder - Enum in ome.xml.model.enums
 
DimensionOrderEnumHandler - Class in ome.xml.model.enums.handlers

Enumeration handler for DimensionOrder.

DimensionOrderEnumHandler() - Constructor for class ome.xml.model.enums.handlers.DimensionOrderEnumHandler
 
DimensionsRecord - Class in loci.poi.hssf.record

Title:        Dimensions Record

DimensionsRecord() - Constructor for class loci.poi.hssf.record.DimensionsRecord
 
DimensionsRecord(RecordInputStream) - Constructor for class loci.poi.hssf.record.DimensionsRecord

Constructs a Dimensions record and sets its fields appropriately.

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.

dimOrder - Variable in class loci.formats.AxisGuesser

Original ordering of internal dimensional axes.

dims - Variable in class loci.poi.hssf.model.Sheet
 
dimsloc - Variable in class loci.poi.hssf.model.Sheet
 
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_TYPE - Static variable in interface loci.poi.poifs.property.PropertyConstants
 
DirectoryEntry - Interface in loci.poi.poifs.filesystem

This interface defines methods specific to Directory objects
 managed by a Filesystem instance.