public class MetamorphTiffReader extends BaseTiffReader
DATE_FORMATS, LOGGERequalStrips, ifds, noSubresolutions, subResolutionIFDs, thumbnailIFDs, tiffParser, use64Bitcore, datasetDescription, domains, filterMetadata, flattenedResolutions, group, hasCompanionFiles, in, indexedAsRGB, metadata, metadataOptions, metadataStore, normalizeData, resolution, saveOriginalMetadata, series, suffixNecessary, suffixSufficient, THUMBNAIL_DIMENSIONCOMPRESSION_SUFFIXES, currentId, format, suffixesCAN_GROUP, CANNOT_GROUP, MUST_GROUP| Constructor and Description |
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MetamorphTiffReader()
Constructs a new Metamorph TIFF reader.
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| Modifier and Type | Method and Description |
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String[] |
getDomains()
Returns the list of domains represented by the current file.
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String[] |
getUsedFiles(boolean noPixels)
Returns an array of filenames needed to open this dataset.
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protected void |
initFile(String id)
Initializes the given file (parsing header information, etc.).
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boolean |
isThisType(RandomAccessInputStream stream)
Checks if the given stream is a valid stream for this file format.
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byte[] |
openBytes(int no,
byte[] buf,
int x,
int y,
int w,
int h)
Obtains a sub-image of the specified image plane
into a pre-allocated byte array.
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getExifTagName, getImageCreationDate, initMetadata, initMetadataStore, initStandardMetadata, put, put, put, put, put, put, put, put, put, put, putIntclose, get16BitLookupTable, get8BitLookupTable, getIFDs, getOptimalTileHeight, getOptimalTileWidth, getThumbnailIFDs, getThumbSizeX, getThumbSizeY, openThumbBytes, setResolutionLeveladdGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addGlobalMeta, addMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, addSeriesMeta, close, coreIndexToSeries, fileGroupOption, getAcquisitionMode, getAdvancedSeriesUsedFiles, getAdvancedUsedFiles, getArcType, getBinning, getBitsPerPixel, getChannelDimLengths, getChannelDimTypes, getCompression, getContrastMethod, getCoreIndex, getCoreMetadata, getCorrection, getCurrentFile, getDatasetStructureDescription, getDetectorType, getDimensionOrder, getDimensionOrder, 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, getResolution, getResolutionCount, getRGBChannelCount, getRotationTransform, getSeries, getSeriesCount, getSeriesMeta, getSeriesMetadata, getSeriesMetadataValue, getSeriesUsedFiles, getSeriesUsedFiles, getSizeC, getSizeT, getSizeX, getSizeY, getSizeZ, getSupportedMetadataLevels, getUnderlyingReaders, getUsedFiles, getZCTCoords, hasCompanionFiles, hasFlattenedResolutions, isFalseColor, isGroupFiles, isIndexed, isInterleaved, isInterleaved, isLittleEndian, isMetadataCollected, isMetadataComplete, isMetadataFiltered, isNormalized, isOrderCertain, isOriginalMetadataPopulated, isRGB, isSingleFile, isThisType, isThisType, isThisType, isThumbnailSeries, isUsedFile, makeFilterMetadata, openBytes, openBytes, openBytes, openPlane, readPlane, readPlane, seriesToCoreIndex, setFlattenedResolutions, setGroupFiles, setId, setMetadataCollected, setMetadataFiltered, setMetadataOptions, setMetadataStore, setNormalized, setOriginalMetadataPopulated, setResolution, setSeriescheckSuffix, checkSuffix, getFormat, getNativeDataType, getSuffixesclone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, waitgetFormat, getNativeDataType, getSuffixespublic MetamorphTiffReader()
public boolean isThisType(RandomAccessInputStream stream) throws IOException
IFormatReaderisThisType in interface IFormatReaderisThisType in class MinimalTiffReaderIOExceptionpublic String[] getDomains()
IFormatReadergetDomains in interface IFormatReadergetDomains in class FormatReaderpublic String[] getUsedFiles(boolean noPixels)
IFormatReadergetUsedFiles in interface IFormatReadergetUsedFiles in class FormatReaderpublic byte[] openBytes(int no,
byte[] buf,
int x,
int y,
int w,
int h)
throws FormatException,
IOException
IFormatReaderopenBytes in interface IFormatReaderopenBytes in class MinimalTiffReaderno - the image index within the file.buf - a pre-allocated buffer.x - X coordinate of the upper-left corner of the sub-imagey - Y coordinate of the upper-left corner of the sub-imagew - width of the sub-imageh - height of the sub-imagebuf for convenience.FormatException - if there was a problem parsing the metadata of the
file.IOException - if there was a problem reading the file.IFormatReader.openBytes(int, byte[], int, int, int, int)protected void initFile(String id) throws FormatException, IOException
FormatReaderinitFile in class BaseTiffReaderFormatException - if a parsing error occurs processing the file.IOException - if an I/O error occurs processing the fileCopyright © 2014 Open Microscopy Environment