@Deprecated
public class OmeroReader
extends loci.formats.FormatReader
Modifier and Type | Field and Description |
---|---|
static int |
DEFAULT_PORT
Deprecated.
|
core, coreIndex, datasetDescription, domains, filterMetadata, flattenedResolutions, hasCompanionFiles, in, indexedAsRGB, metadata, metadataStore, normalizeData, resolution, saveOriginalMetadata, series, suffixNecessary, suffixSufficient, THUMBNAIL_DIMENSION
Constructor and Description |
---|
OmeroReader()
Deprecated.
|
Modifier and Type | Method and Description |
---|---|
void |
close(boolean fileOnly)
Deprecated.
|
protected void |
initFile(java.lang.String id)
Deprecated.
|
boolean |
isThisType(java.lang.String name,
boolean open)
Deprecated.
|
static void |
main(java.lang.String[] args)
Deprecated.
A simple command line tool for downloading images from OMERO.
|
byte[] |
openBytes(int no,
byte[] buf,
int x,
int y,
int w,
int h)
Deprecated.
|
protected static java.lang.String |
parsePoints(java.lang.String str)
Deprecated.
Parse Points String obtained from convertPoints and extract Coordinates as String
|
static void |
saveOmeroRoiToMetadataStore(java.util.List<Roi> rois,
loci.formats.meta.MetadataStore store)
Deprecated.
Converts omero.model.Roi to ome.xml.model.* and updates the MetadataStore
|
void |
setEncrypted(boolean encrypted)
Deprecated.
|
void |
setGroupID(java.lang.Long groupID)
Deprecated.
|
void |
setGroupName(java.lang.String group)
Deprecated.
|
void |
setPassword(java.lang.String password)
Deprecated.
|
void |
setPort(int port)
Deprecated.
|
void |
setServer(java.lang.String server)
Deprecated.
|
void |
setSessionID(java.lang.String sessionID)
Deprecated.
|
void |
setUsername(java.lang.String username)
Deprecated.
|
addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMetaList, addMeta, addMetaList, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMetaList, close, coreIndexToSeries, fileGroupOption, flattenHashtables, get16BitLookupTable, get8BitLookupTable, getAcquisitionMode, getAdvancedSeriesUsedFiles, getAdvancedUsedFiles, getArcType, getBinning, getBitsPerPixel, getCompression, getContrastMethod, getCoreIndex, getCoreMetadataList, getCorrection, getCurrentCore, getCurrentFile, getDatasetStructureDescription, getDetectorType, getDimensionOrder, getDimensionOrder, getDomains, getEffectiveSizeC, getExperimentType, getFilamentType, getFillRule, getFilterType, getFontFamily, getFontStyle, getGlobalMeta, getGlobalMetadata, getIlluminationType, getImageCount, getImmersion, getIndex, getIndex, getLaserMedium, getLaserType, getMarker, getMedium, getMetadataStore, getMetadataStoreRoot, getMetadataValue, getMicrobeamManipulationType, getMicroscopeType, getModuloC, getModuloT, getModuloZ, getNamingConvention, getOptimalTileHeight, getOptimalTileWidth, getPixelType, getPixelType, getPossibleDomains, getPulse, getRequiredDirectories, getResolution, getResolutionCount, getRGBChannelCount, getRotationTransform, getSeries, getSeriesCount, getSeriesMeta, getSeriesMetadata, getSeriesMetadataValue, getSeriesUsedFiles, getSeriesUsedFiles, getSizeC, getSizeT, getSizeX, getSizeY, getSizeZ, getThumbSizeX, getThumbSizeY, getUnderlyingReaders, getUsedFiles, getUsedFiles, getZCTCoords, getZCTModuloCoords, hasCompanionFiles, hasFlattenedResolutions, isFalseColor, isGroupFiles, isIndexed, isInterleaved, isInterleaved, isLittleEndian, isMetadataComplete, isMetadataFiltered, isNormalized, isOrderCertain, isOriginalMetadataPopulated, isRGB, isSingleFile, isThisType, isThisType, isThisType, isThumbnailSeries, isUsedFile, makeFilterMetadata, openBytes, openBytes, openBytes, openPlane, openThumbBytes, readPlane, readPlane, reopenFile, seriesToCoreIndex, setCoreIndex, setFlattenedResolutions, setGroupFiles, setId, setMetadataFiltered, setMetadataStore, setNormalized, setOriginalMetadataPopulated, setResolution, setSeries, updateMetadataLists
checkSuffix, checkSuffix, getFormat, getMetadataOptions, getNativeDataType, getSuffixes, getSupportedMetadataLevels, setMetadataOptions
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
public static final int DEFAULT_PORT
public void setServer(java.lang.String server)
public void setPort(int port)
public void setUsername(java.lang.String username)
public void setPassword(java.lang.String password)
public void setSessionID(java.lang.String sessionID)
public void setEncrypted(boolean encrypted)
public void setGroupName(java.lang.String group)
public void setGroupID(java.lang.Long groupID)
public boolean isThisType(java.lang.String name, boolean open)
isThisType
in interface loci.formats.IFormatReader
isThisType
in class loci.formats.FormatReader
public byte[] openBytes(int no, byte[] buf, int x, int y, int w, int h) throws loci.formats.FormatException, java.io.IOException
openBytes
in interface loci.formats.IFormatReader
openBytes
in class loci.formats.FormatReader
loci.formats.FormatException
java.io.IOException
public void close(boolean fileOnly) throws java.io.IOException
close
in interface loci.formats.IFormatReader
close
in class loci.formats.FormatReader
java.io.IOException
protected void initFile(java.lang.String id) throws loci.formats.FormatException, java.io.IOException
initFile
in class loci.formats.FormatReader
loci.formats.FormatException
java.io.IOException
public static void main(java.lang.String[] args) throws java.lang.Exception
java.lang.Exception
public static void saveOmeroRoiToMetadataStore(java.util.List<Roi> rois, loci.formats.meta.MetadataStore store)
protected static java.lang.String parsePoints(java.lang.String str)