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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.
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
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.
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
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
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.