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java.lang.Objectloci.formats.FormatHandler
loci.formats.FormatReader
ome.services.formats.OmeroReader
public class OmeroReader
Implementation of IFormatReader
for use in export. This is copied
from the OMERO 2.3 Reader available from: https://skyking.microscopy.wisc.edu/trac/java/browser/trunk/components/ome-
io/src/loci/ome/io
Field Summary | |
---|---|
int |
planes
|
int |
sizeC
|
int |
sizeT
|
int |
sizeX
|
int |
sizeY
|
int |
sizeZ
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Fields inherited from class loci.formats.FormatReader |
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core, domains, filterMetadata, group, hasCompanionFiles, in, indexedAsRGB, metadata, metadataOptions, metadataStore, normalizeData, saveOriginalMetadata, series, suffixNecessary, suffixSufficient, THUMBNAIL_DIMENSION |
Fields inherited from class loci.formats.FormatHandler |
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COMPRESSION_SUFFIXES, currentId, format, LOGGER, suffixes |
Fields inherited from interface loci.formats.IFormatReader |
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CAN_GROUP, CANNOT_GROUP, MUST_GROUP |
Constructor Summary | |
---|---|
OmeroReader(RawPixelsStore raw,
omero.model.Pixels pix)
|
|
OmeroReader(omero.api.RawPixelsStorePrx prx,
omero.model.Pixels pix)
|
Method Summary | |
---|---|
void |
close()
|
protected void |
initFile(String id)
|
boolean |
isThisType(loci.common.RandomAccessInputStream stream)
|
boolean |
isThisType(String name,
boolean open)
|
byte[] |
openBytes(int no,
byte[] buf,
int x1,
int y1,
int w1,
int h1)
|
Methods inherited from class loci.formats.FormatReader |
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addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, close, fileGroupOption, get16BitLookupTable, get8BitLookupTable, 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, getThumbSizeX, getThumbSizeY, 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, openThumbBytes, readPlane, readPlane, setGroupFiles, setId, setMetadataCollected, setMetadataFiltered, setMetadataOptions, setMetadataStore, setNormalized, setOriginalMetadataPopulated, setSeries |
Methods inherited from class loci.formats.FormatHandler |
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checkSuffix, checkSuffix, getFormat, getNativeDataType, getSuffixes |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Methods inherited from interface loci.formats.IFormatHandler |
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getFormat, getNativeDataType, getSuffixes |
Field Detail |
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public final int sizeX
public final int sizeY
public final int sizeZ
public final int sizeT
public final int sizeC
public final int planes
Constructor Detail |
---|
public OmeroReader(RawPixelsStore raw, omero.model.Pixels pix)
public OmeroReader(omero.api.RawPixelsStorePrx prx, omero.model.Pixels pix)
Method Detail |
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public boolean isThisType(String name, boolean open)
isThisType
in interface loci.formats.IFormatReader
isThisType
in class loci.formats.FormatReader
public boolean isThisType(loci.common.RandomAccessInputStream stream) throws IOException
isThisType
in interface loci.formats.IFormatReader
isThisType
in class loci.formats.FormatReader
IOException
public byte[] openBytes(int no, byte[] buf, int x1, int y1, int w1, int h1) throws loci.formats.FormatException, IOException
openBytes
in interface loci.formats.IFormatReader
openBytes
in class loci.formats.FormatReader
loci.formats.FormatException
IOException
public void close() throws IOException
close
in interface loci.formats.IFormatHandler
close
in class loci.formats.FormatReader
IOException
protected void initFile(String id) throws loci.formats.FormatException, IOException
initFile
in class loci.formats.FormatReader
loci.formats.FormatException
IOException
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Version: Beta4.2.1-r8614-Beta4.2-b41
Copyright © 2009 The University of Dundee. All Rights Reserved.