__group__ ticket milestone priority summary keywords metadata 11862 GatherReqs minor Bug: OME-TIFF support for reading and writing complex pixel types metadata metadata 12599 GatherReqs minor Bug: OMERO clients report BIT pixel type as uint8 metadata, model model 11860 GatherReqs major Bug: FormatTools support for complex numbers model model 11861 GatherReqs major Bug: DeltaVision reader does not support complex pixel formats model model 12599 GatherReqs minor Bug: OMERO clients report BIT pixel type as uint8 metadata, model OMETiffReader 12740 OME-Files minor Bug: Miscellaneous OMETiffReader defects OMETiffReader api 4190 Pyramids major Add reader wrapper that provides simpler tile access api codec 6229 Pyramids major Bio-Formats JAI ImageIO service examination codec, jpeg2000 export 4133 Pyramids major OME-XML writer does not support saving tiles export, OMEXMLWriter export 9901 Pyramids major Refactor PyramidTiffReader out of MinimalTiffReader export, pyramid external 13004 Pyramids minor RFE : Optimise performance for reading tiles in big Images performance, external IO 12276 Pyramids critical Allow inspection of optimal reading order IO jpeg2000 6229 Pyramids major Bio-Formats JAI ImageIO service examination codec, jpeg2000 OMEXMLWriter 4133 Pyramids major OME-XML writer does not support saving tiles export, OMEXMLWriter performance 13004 Pyramids minor RFE : Optimise performance for reading tiles in big Images performance, external pyramid 9901 Pyramids major Refactor PyramidTiffReader out of MinimalTiffReader export, pyramid api 4155 Unscheduled major Expand (and clean up) use of new 'setWriteSequentially' method api, export api 4157 Unscheduled major Make it easier to get/set the pixels' compression type api, codec, export, external api 12181 Unscheduled major Bio-Formats API improvements api api 8215 Unscheduled minor Set up some way of mapping plane indices to file names model, api APNGWriter 4129 Unscheduled major APNG writer does not support saving tiles export, APNGWriter AVIReader 13178 Unscheduled minor BUG: Unsupported Compression Type 1145656920 for AVIReader codec, AVIReader, external AVIReader 4092 Unscheduled trivial AVI codecs supported by NIS Elements codec, AVIReader AVIWriter 4128 Unscheduled major AVI writer does not support saving tiles export, AVIWriter AVIWriter 8126 Unscheduled minor RFE: Allow writing of AVI 2.0 files export, AVIWriter codec 4117 Unscheduled major Support for Group 3 Fax TIFF compression codec, TiffReader, external, new-feature codec 4165 Unscheduled major Consider writing decoder for compressed Flex files codec, FlexReader codec 11612 Unscheduled major Make codecs discoverable codec codec 4090 Unscheduled minor Better usage of JAI Image I/O Tools codec, TiffReader codec 4091 Unscheduled minor Add support for compressed LIM files codec, LIMReader codec 7781 Unscheduled minor Support for Group 4 fax compression codec, TiffReader codec 13178 Unscheduled minor BUG: Unsupported Compression Type 1145656920 for AVIReader codec, AVIReader, external codec 4082 Unscheduled trivial Support for QuickTime Sorenson 3 codec codec, NativeQTReader codec 4092 Unscheduled trivial AVI codecs supported by NIS Elements codec, AVIReader codec 11765 Unscheduled trivial Add LZ4 service codec codec 4157 Unscheduled major Make it easier to get/set the pixels' compression type api, codec, export, external codec 4177 Unscheduled major Certain JPEG-2000 files are not read correctly JPEG2000Reader, codec, external codec 4106 Unscheduled minor Add support for MPEG-2/.vob files new-format, codec codec 9037 Unscheduled minor Add support for QuickTime H.264 NativeQTReader, external, codec codec 4148 Unscheduled trivial Native support for Quicktime Sorenson 1 codec (SVQ1) NativeQTReader, codec, external DicomReader 9336 Unscheduled minor Some DICOM files do not read all planes DicomReader, external docs 4171 Unscheduled major Overwriting compressed planes doesn't always work export, external, docs docs 6311 Unscheduled trivial Add tooltips to the OME-XML window in ImageJ imagej, model, docs EasyRatioPro 13015 Unscheduled major Add support for EasyRatioPro format EasyRatioPro, new-format, external EPSReader 4102 Unscheduled minor Add support for vector data in PS/EPS files EPSReader export 4128 Unscheduled major AVI writer does not support saving tiles export, AVIWriter export 4129 Unscheduled major APNG writer does not support saving tiles export, APNGWriter export 4131 Unscheduled major JPEG-2000 writer does not support saving tiles export, JPEG2000Writer export 4132 Unscheduled major JPEG writer does not support saving tiles export, JPEGWriter export 4167 Unscheduled major Writers do not support overwriting metadata export export 4171 Unscheduled major Overwriting compressed planes doesn't always work export, external, docs export 6721 Unscheduled major Investigate improving performance of TIFF export with setWriteSequential(false) export, TiffWriter, external export 8126 Unscheduled minor RFE: Allow writing of AVI 2.0 files export, AVIWriter export 10612 Unscheduled minor Export: prevent overwriting of existing files export export 4107 Unscheduled major More robust support for 1, 2 and 4 bit images model, TiffReader, export export 4155 Unscheduled major Expand (and clean up) use of new 'setWriteSequentially' method api, export export 4157 Unscheduled major Make it easier to get/set the pixels' compression type api, codec, export, external export 11831 Unscheduled minor Attempt to improve metadata exported from ImageJ imagej, export export 11967 Unscheduled minor RFE: ImageJ plugin interface does not expose reader-specific export options QTWriter, imagej, export external 4097 Unscheduled major Add support for Patch-Master electrophysiology files new-format, external external 4104 Unscheduled major Add support for HDF files produced by Huygens new-format, hdf, external external 4113 Unscheduled major Add support for .nex file format new-format, external external 4117 Unscheduled major Support for Group 3 Fax TIFF compression codec, TiffReader, external, new-feature external 4120 Unscheduled major Add support for Intervision MV format new-format, external external 4124 Unscheduled major Add support for Matlab matrix files new-format, external external 4125 Unscheduled major Add support for OpenEXR files new-format, external external 4157 Unscheduled major Make it easier to get/set the pixels' compression type api, codec, export, external external 4169 Unscheduled major Add support for Micro-CT VOL files new-format, external external 4171 Unscheduled major Overwriting compressed planes doesn't always work export, external, docs external 4177 Unscheduled major Certain JPEG-2000 files are not read correctly JPEG2000Reader, codec, external external 4185 Unscheduled major Add support for Zeiss FCS files new-format, external external 6721 Unscheduled major Investigate improving performance of TIFF export with setWriteSequential(false) export, TiffWriter, external external 6824 Unscheduled major Add support for .emi files new-format, external external 8336 Unscheduled major Add support for Zeiss Orion data new-format, external external 8428 Unscheduled major Add support for DV-DIF files new-format, external external 8792 Unscheduled major Add support for .ser files new-format, external external 10903 Unscheduled major Add support for Ariol data new-format, external external 11379 Unscheduled major Add support for PerkinElmer Living Image data new-format, external external 12057 Unscheduled major Add support for FEI .ser data new-format, external external 12245 Unscheduled major Add support for Incucyte data new-format, external external 12483 Unscheduled major Add support for MetaSystems .vsi data new-format, external external 12584 Unscheduled major Add support for .oct files new-format, external external 12730 Unscheduled major Add support for Tissuegnostics data new-format, external external 12731 Unscheduled major Update L2DReader to support Li-Cor Odyssey data L2DReader, external, new-format external 12836 Unscheduled major Read lookup tables from Imspector .msr files OBFReader, external external 12841 Unscheduled major Bug: Imspector channels detected incorrectly OBFReader, external, our-fault external 13015 Unscheduled major Add support for EasyRatioPro format EasyRatioPro, new-format, external external 13120 Unscheduled major Add support for RayScan .rec data new-format, external external 13136 Unscheduled major Add support for Berthold Nightshade data new-format, external external 4115 Unscheduled minor Add support for scanning microscopy formats new-format, external external 4152 Unscheduled minor LSM reader XT linescan opened as XY model, ZeissLSMReader, external external 6413 Unscheduled minor Fix support for RGB Volocity clipping files VolocityClippingReader, external external 7701 Unscheduled minor Add support for Bruker Optics data new-format, external external 9037 Unscheduled minor Add support for QuickTime H.264 NativeQTReader, external, codec external 9336 Unscheduled minor Some DICOM files do not read all planes DicomReader, external external 9516 Unscheduled minor RFE: add support for SICM data new-format, external external 12898 Unscheduled minor Extend Bio-Formats Macro Extensions to extract Channel name,etc. imagej, external external 12938 Unscheduled minor Text image file support new-format, external external 13064 Unscheduled minor RFE: New Reader for Picoquant HydraHarp (.pt3) new-format, external external 13106 Unscheduled minor TiffReader: Does not handle YCbCr conversion TiffReader YCbCr, external external 13178 Unscheduled minor BUG: Unsupported Compression Type 1145656920 for AVIReader codec, AVIReader, external external 4148 Unscheduled trivial Native support for Quicktime Sorenson 1 codec (SVQ1) NativeQTReader, codec, external external 6375 Unscheduled trivial Add basic support for PDF files new-format, external FlexReader 4165 Unscheduled major Consider writing decoder for compressed Flex files codec, FlexReader FV1000Reader 5873 Unscheduled minor openThumb* should return the stored thumbnail for FV1000 files FV1000Reader hdf 9652 Unscheduled major Improve performance of HDF-based readers hdf, ImarisReader hdf 4104 Unscheduled major Add support for HDF files produced by Huygens new-format, hdf, external hdf 12257 Unscheduled major netCDF cannot open certain large .ims files ImarisHDFReader, hdf, netcdf imagej 4089 Unscheduled major FB 863: Allow sending feedback from loci tools imagej imagej 4126 Unscheduled major Allow user to specify dimensions during stack concatenation imagej imagej 4163 Unscheduled major Make error message windows more friendly imagej imagej 11831 Unscheduled minor Attempt to improve metadata exported from ImageJ imagej, export imagej 12898 Unscheduled minor Extend Bio-Formats Macro Extensions to extract Channel name,etc. imagej, external imagej 6311 Unscheduled trivial Add tooltips to the OME-XML window in ImageJ imagej, model, docs imagej 11967 Unscheduled minor RFE: ImageJ plugin interface does not expose reader-specific export options QTWriter, imagej, export ImarisHDFReader 12257 Unscheduled major netCDF cannot open certain large .ims files ImarisHDFReader, hdf, netcdf ImarisReader 9652 Unscheduled major Improve performance of HDF-based readers hdf, ImarisReader improvement 12385 Unscheduled minor Unnecessary thread safety from Vector? improvement jpeg2000 9544 Unscheduled major Bug: very large .jp2 files do not import correctly jpeg2000 JPEG2000Reader 4177 Unscheduled major Certain JPEG-2000 files are not read correctly JPEG2000Reader, codec, external JPEG2000Writer 4131 Unscheduled major JPEG-2000 writer does not support saving tiles export, JPEG2000Writer JPEGReader 13098 Unscheduled minor BUG: JPEG Reader (Could not determine subsample type) turbojpeg, JPEGReader JPEGWriter 4132 Unscheduled major JPEG writer does not support saving tiles export, JPEGWriter L2DReader 12731 Unscheduled major Update L2DReader to support Li-Cor Odyssey data L2DReader, external, new-format LIFReader our-fault 12237 Unscheduled minor Bug: LIFReader: Original metadata regression from 4.4 LIFReader our-fault LIMReader 4091 Unscheduled minor Add support for compressed LIM files codec, LIMReader MetamorphReader 8875 Unscheduled minor Add some missing Metamorph screen metadata MetamorphReader MinimalTiffReader 13144 Unscheduled minor Bug: Minimal Tiff Reader - Index out of bounds exception MinimalTiffReader, our-fault model 4107 Unscheduled major More robust support for 1, 2 and 4 bit images model, TiffReader, export model 4100 Unscheduled minor Handle mixed OME/non-OME XML blocks model, OMEXMLReader model 4103 Unscheduled minor Add enumeration for OME-XML versions model model 4152 Unscheduled minor LSM reader XT linescan opened as XY model, ZeissLSMReader, external model 8215 Unscheduled minor Set up some way of mapping plane indices to file names model, api model 6311 Unscheduled trivial Add tooltips to the OME-XML window in ImageJ imagej, model, docs NativeQTReader 9037 Unscheduled minor Add support for QuickTime H.264 NativeQTReader, external, codec NativeQTReader 4148 Unscheduled trivial Native support for Quicktime Sorenson 1 codec (SVQ1) NativeQTReader, codec, external NativeQTReader 4082 Unscheduled trivial Support for QuickTime Sorenson 3 codec codec, NativeQTReader netcdf 12257 Unscheduled major netCDF cannot open certain large .ims files ImarisHDFReader, hdf, netcdf new-feature 4117 Unscheduled major Support for Group 3 Fax TIFF compression codec, TiffReader, external, new-feature new-format 12731 Unscheduled major Update L2DReader to support Li-Cor Odyssey data L2DReader, external, new-format new-format 13015 Unscheduled major Add support for EasyRatioPro format EasyRatioPro, new-format, external new-format 4097 Unscheduled major Add support for Patch-Master electrophysiology files new-format, external new-format 4104 Unscheduled major Add support for HDF files produced by Huygens new-format, hdf, external new-format 4113 Unscheduled major Add support for .nex file format new-format, external new-format 4120 Unscheduled major Add support for Intervision MV format new-format, external new-format 4124 Unscheduled major Add support for Matlab matrix files new-format, external new-format 4125 Unscheduled major Add support for OpenEXR files new-format, external new-format 4147 Unscheduled major Add support for Varian FID files new-format new-format 4169 Unscheduled major Add support for Micro-CT VOL files new-format, external new-format 4179 Unscheduled major Add support for Leica Stereo Microscope data new-format new-format 4185 Unscheduled major Add support for Zeiss FCS files new-format, external new-format 6824 Unscheduled major Add support for .emi files new-format, external new-format 8336 Unscheduled major Add support for Zeiss Orion data new-format, external new-format 8428 Unscheduled major Add support for DV-DIF files new-format, external new-format 8792 Unscheduled major Add support for .ser files new-format, external new-format 10903 Unscheduled major Add support for Ariol data new-format, external new-format 11379 Unscheduled major Add support for PerkinElmer Living Image data new-format, external new-format 11568 Unscheduled major Add support for FreeSurfer MGH files new-format new-format 12057 Unscheduled major Add support for FEI .ser data new-format, external new-format 12245 Unscheduled major Add support for Incucyte data new-format, external new-format 12483 Unscheduled major Add support for MetaSystems .vsi data new-format, external new-format 12584 Unscheduled major Add support for .oct files new-format, external new-format 12730 Unscheduled major Add support for Tissuegnostics data new-format, external new-format 13120 Unscheduled major Add support for RayScan .rec data new-format, external new-format 13136 Unscheduled major Add support for Berthold Nightshade data new-format, external new-format 4106 Unscheduled minor Add support for MPEG-2/.vob files new-format, codec new-format 4115 Unscheduled minor Add support for scanning microscopy formats new-format, external new-format 4213 Unscheduled minor Add support for MetaFluor/OptoFluor data new-format new-format 7701 Unscheduled minor Add support for Bruker Optics data new-format, external new-format 9516 Unscheduled minor RFE: add support for SICM data new-format, external new-format 9932 Unscheduled minor Add support for OASIS slide datasets new-format new-format 10025 Unscheduled minor Add support for MetaIO files new-format new-format 11318 Unscheduled minor EMBL-Heidelberg Format new-format new-format 11666 Unscheduled minor Add support for EVOS data new-format new-format 12897 Unscheduled minor RFE: parse metadata from U. Fribourg 2-photon data new-format new-format 12938 Unscheduled minor Text image file support new-format, external new-format 13064 Unscheduled minor RFE: New Reader for Picoquant HydraHarp (.pt3) new-format, external new-format 6375 Unscheduled trivial Add basic support for PDF files new-format, external new-format 10340 Unscheduled trivial Add support for VTK files new-format OBFReader 12836 Unscheduled major Read lookup tables from Imspector .msr files OBFReader, external OBFReader 12841 Unscheduled major Bug: Imspector channels detected incorrectly OBFReader, external, our-fault OMEXMLReader 13270 Unscheduled major Bug: images not matching with well placement OMEXMLReader OMEXMLReader 4100 Unscheduled minor Handle mixed OME/non-OME XML blocks model, OMEXMLReader our-fault 12841 Unscheduled major Bug: Imspector channels detected incorrectly OBFReader, external, our-fault our-fault 13144 Unscheduled minor Bug: Minimal Tiff Reader - Index out of bounds exception MinimalTiffReader, our-fault PSDReader 4108 Unscheduled minor Vector .psd files not supported PSDReader QTWriter 11967 Unscheduled minor RFE: ImageJ plugin interface does not expose reader-specific export options QTWriter, imagej, export schema 6309 Unscheduled minor Bio-Formats to provide strict and lax validation schema, validator SlidebookReader 11560 Unscheduled minor Bug: Incorrect pixel offsets for some .spl files SlidebookReader TiffReader 4107 Unscheduled major More robust support for 1, 2 and 4 bit images model, TiffReader, export TiffReader 4117 Unscheduled major Support for Group 3 Fax TIFF compression codec, TiffReader, external, new-feature TiffReader 4090 Unscheduled minor Better usage of JAI Image I/O Tools codec, TiffReader TiffReader 7781 Unscheduled minor Support for Group 4 fax compression codec, TiffReader TiffReader YCbCr 13106 Unscheduled minor TiffReader: Does not handle YCbCr conversion TiffReader YCbCr, external TiffWriter 6721 Unscheduled major Investigate improving performance of TIFF export with setWriteSequential(false) export, TiffWriter, external turbojpeg 13098 Unscheduled minor BUG: JPEG Reader (Could not determine subsample type) turbojpeg, JPEGReader validator 6309 Unscheduled minor Bio-Formats to provide strict and lax validation schema, validator VolocityClippingReader 6413 Unscheduled minor Fix support for RGB Volocity clipping files VolocityClippingReader, external ZeissLSMReader 4152 Unscheduled minor LSM reader XT linescan opened as XY model, ZeissLSMReader, external