ome.io.bioformats
Class OmeroPixelsPyramidReader

java.lang.Object
  extended by loci.formats.FormatHandler
      extended by loci.formats.FormatReader
          extended by loci.formats.in.MinimalTiffReader
              extended by ome.io.bioformats.OmeroPixelsPyramidReader
All Implemented Interfaces:
loci.formats.IFormatHandler, loci.formats.IFormatReader, loci.formats.IMetadataConfigurable

public class OmeroPixelsPyramidReader
extends loci.formats.in.MinimalTiffReader

File format reader for OMERO pixels pyramid files.

Since:
Beta4.3
Author:
Chris Allan, callan at blackcat dot ca

Field Summary
 
Fields inherited from class loci.formats.in.MinimalTiffReader
ifds, subResolutionIFDs, thumbnailIFDs, tiffParser
 
Fields inherited from class loci.formats.FormatReader
core, domains, filterMetadata, group, hasCompanionFiles, in, indexedAsRGB, metadata, metadataOptions, metadataStore, normalizeData, saveOriginalMetadata, series, suffixNecessary, suffixSufficient, THUMBNAIL_DIMENSION
 
Fields inherited from class loci.formats.FormatHandler
COMPRESSION_SUFFIXES, currentId, format, suffixes
 
Fields inherited from interface loci.formats.IFormatReader
CAN_GROUP, CANNOT_GROUP, MUST_GROUP
 
Constructor Summary
OmeroPixelsPyramidReader()
           
 
Method Summary
 void close()
           
protected  void initFile(String id)
           
 boolean isThisType(String name, boolean open)
           
 void setId(String id)
           
protected  void setResolutionLevel(loci.formats.tiff.IFD ifd)
           
 
Methods inherited from class loci.formats.in.MinimalTiffReader
close, get16BitLookupTable, get8BitLookupTable, getIFDs, getOptimalTileHeight, getOptimalTileWidth, getThumbnailIFDs, getThumbSizeX, getThumbSizeY, isThisType, openBytes, openThumbBytes
 
Methods inherited from class loci.formats.FormatReader
addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, fileGroupOption, getAcquisitionMode, getAdvancedSeriesUsedFiles, getAdvancedUsedFiles, getArcType, getBinning, getBitsPerPixel, getChannelDimLengths, getChannelDimTypes, getCompression, getContrastMethod, getCoreMetadata, getCorrection, getCurrentFile, getDetectorType, getDimensionOrder, getDimensionOrder, getDomains, getEffectiveSizeC, getExperimentType, getFilamentType, getFillRule, getFilterType, getFontFamily, getFontStyle, getGlobalMeta, getGlobalMetadata, getIlluminationType, getImageCount, getImmersion, getIndex, getLaserMedium, getLaserType, getLineCap, getMarker, getMedium, getMetadata, getMetadataOptions, getMetadataStore, getMetadataStoreRoot, getMetadataValue, getMicrobeamManipulationType, getMicroscopeType, getNamingConvention, getPixelType, getPixelType, getPossibleDomains, getPulse, getRGBChannelCount, getSeries, getSeriesCount, getSeriesMeta, getSeriesMetadata, getSeriesMetadataValue, getSeriesUsedFiles, getSeriesUsedFiles, getSizeC, getSizeT, getSizeX, getSizeY, getSizeZ, getSupportedMetadataLevels, getUnderlyingReaders, getUsedFiles, getUsedFiles, getZCTCoords, hasCompanionFiles, isFalseColor, isGroupFiles, isIndexed, isInterleaved, isInterleaved, isLittleEndian, isMetadataCollected, isMetadataComplete, isMetadataFiltered, isNormalized, isOrderCertain, isOriginalMetadataPopulated, isRGB, isSingleFile, isThisType, isThisType, isThumbnailSeries, isUsedFile, makeFilterMetadata, openBytes, openBytes, openBytes, openPlane, readPlane, readPlane, setGroupFiles, setMetadataCollected, setMetadataFiltered, setMetadataOptions, setMetadataStore, setNormalized, setOriginalMetadataPopulated, setSeries
 
Methods inherited from class loci.formats.FormatHandler
checkSuffix, checkSuffix, getFormat, getNativeDataType, getSuffixes
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 
Methods inherited from interface loci.formats.IFormatHandler
getFormat, getNativeDataType, getSuffixes
 

Constructor Detail

OmeroPixelsPyramidReader

public OmeroPixelsPyramidReader()
Method Detail

isThisType

public boolean isThisType(String name,
                          boolean open)
Specified by:
isThisType in interface loci.formats.IFormatReader
Overrides:
isThisType in class loci.formats.FormatReader

setId

public void setId(String id)
           throws loci.formats.FormatException,
                  IOException
Specified by:
setId in interface loci.formats.IFormatHandler
Overrides:
setId in class loci.formats.FormatReader
Throws:
loci.formats.FormatException
IOException

close

public void close()
           throws IOException
Specified by:
close in interface loci.formats.IFormatHandler
Overrides:
close in class loci.formats.FormatReader
Throws:
IOException

initFile

protected void initFile(String id)
                 throws loci.formats.FormatException,
                        IOException
Overrides:
initFile in class loci.formats.in.MinimalTiffReader
Throws:
loci.formats.FormatException
IOException

setResolutionLevel

protected void setResolutionLevel(loci.formats.tiff.IFD ifd)
Overrides:
setResolutionLevel in class loci.formats.in.MinimalTiffReader


OmeroJava Api

Version: 4.3.4-dbcbce5a-b4

Copyright © 2009 The University of Dundee. All Rights Reserved.