Deprecated API

Contents

• Deprecated Classes
• Deprecated Fields
• Deprecated Methods

Deprecated Classes

Class and Description
loci.formats.codec.BitBuffer Use loci.common.RandomAccessInputStream instead
loci.formats.codec.BitWriter Use loci.common.RandomAccessOutputStream instead
loci.formats.meta.MetadataConverter Use ome.xml.meta.MetadataConverter.

Deprecated Fields

Field and Description
loci.formats.in.DeltavisionReader.DATE_FORMAT Use DeltavisionReader.DATE_FORMATS instead
loci.formats.UpgradeChecker.OLD_TOOLS Removed in Bio-Formats 6.9.0
loci.formats.FormatTools.PROPERTY_FILE The property file is no longer used.
loci.formats.UpgradeChecker.STABLE_VERSION As of release 6.6.0
loci.formats.in.ND2Reader.USE_CHUNKMAP_LEGACY_KEY
loci.formats.FormatTools.VCS_SHORT_REVISION Use the general FormatTools.VCS_REVISION field.

Deprecated Methods

Method and Description
loci.formats.IFormatReader.coreIndexToSeries(int) This method is no longer required for sub-resolution support.
loci.formats.FormatReader.getAcquisitionMode(String) Use MetadataTools.getAcquisitionMode(String).
loci.formats.in.OperettaReader.getAcquisitionMode(String)
loci.formats.FormatReader.getArcType(String) Use MetadataTools.getArcType(String).
loci.formats.FormatReader.getBinning(String) Use MetadataTools.getBinning(String).
loci.formats.FormatReader.getCompression(String) Use MetadataTools.getCompression(String).
loci.formats.FormatReader.getContrastMethod(String) Use MetadataTools.getContrastMethod(String).
loci.formats.IFormatReader.getCoreIndex() This method is no longer required for sub-resolution support.
loci.formats.IFormatReader.getCoreMetadataList() Reader internals should not be accessed by reader users
loci.formats.FormatReader.getCorrection(String) Use MetadataTools.getCorrection(String).
loci.formats.FormatReader.getDetectorType(String) Use MetadataTools.getDetectorType(String).
loci.formats.FormatReader.getDimensionOrder(String) Use MetadataTools.getDimensionOrder(String).
loci.formats.FormatReader.getExperimentType(String) Use MetadataTools.getExperimentType(String).
loci.formats.FormatReader.getFilamentType(String) Use MetadataTools.getFilamentType(String).
loci.formats.FormatReader.getFillRule(String) Use MetadataTools.getFillRule(String).
loci.formats.FormatReader.getFilterType(String) Use MetadataTools.getFilterType(String).
loci.formats.FormatReader.getFontFamily(String) Use MetadataTools.getFontFamily(String).
loci.formats.FormatReader.getFontStyle(String) Use MetadataTools.getFontStyle(String).
loci.formats.tiff.TiffParser.getIFDs() Use TiffParser.getMainIFDs() and TiffParser.getSubIFDs(IFD) instead.
loci.formats.FormatReader.getIlluminationType(String) Use MetadataTools.getIlluminationType(String).
loci.formats.FormatReader.getImmersion(String) Use MetadataTools.getImmersion(String).
loci.formats.FormatReader.getLaserMedium(String) Use MetadataTools.getLaserMedium(String).
loci.formats.FormatReader.getLaserType(String) Use MetadataTools.getLaserType(String).
loci.formats.FormatReader.getMarker(String) Use MetadataTools.getMarker(String).
loci.formats.FormatReader.getMedium(String) Use MetadataTools.getMedium(String).
loci.formats.in.OMETiffReader.getMetadataStoreForConversion() Use the general FormatReader.getMetadataStore() method.
loci.formats.in.OMETiffReader.getMetadataStoreForDisplay() Use the general FormatReader.getMetadataStore() method.
loci.formats.FormatReader.getMicrobeamManipulationType(String) Use MetadataTools.getMicrobeamManipulationType(String).
loci.formats.FormatReader.getMicroscopeType(String) Use MetadataTools.getMicroscopeType(String).
loci.formats.FormatReader.getNamingConvention(String) Use MetadataTools.getNamingConvention(String).
loci.formats.FormatReader.getPixelType(String) Use MetadataTools.getPixelType(String).
loci.formats.FormatReader.getPulse(String) Use MetadataTools.getPulse(String).
loci.formats.codec.HuffmanCodec.getSample(BitBuffer, CodecOptions)
loci.formats.ClassList.isWhitelistedKey(String) Use ClassList.isAllowedKey(String) instead.
loci.formats.FormatTools.loadProperties() This method should no longer be used. The properties are now obtained from the jar manifest.
loci.formats.tools.EditTiffG.openFile(String)
loci.formats.IFormatReader.seriesToCoreIndex(int) This method is no longer required for sub-resolution support.
loci.formats.IFormatReader.setCoreIndex(int) This method is no longer required for sub-resolution support.