17:52:55,271 INFO c.g.bioformats2raw.Converter - requesting tile to write at to /0 17:52:55,271 INFO c.g.bioformats2raw.Converter - Successfully processed tile resolution=0 plane=1 xx=36864 yy=11264 width=18 height=1024 17:52:55,271 INFO c.g.bioformats2raw.Converter - successfully wrote at to /0 17:52:55,131 INFO c.g.bioformats2raw.Converter - requesting tile to write at to /0 17:52:55,131 INFO c.g.bioformats2raw.Converter - successfully wrote at to /0 17:52:55,100 INFO c.g.bioformats2raw.Converter - requesting tile to write at to /0 17:52:55,100 INFO c.g.bioformats2raw.Converter - Successfully processed tile resolution=0 plane=3 xx=36864 yy=11264 width=18 height=1024 17:52:55,100 INFO c.g.bioformats2raw.Converter - successfully wrote at to /0 17:52:55,068 INFO c.g.bioformats2raw.Converter - requesting tile to write at to /0 17:52:55,068 INFO c.g.bioformats2raw.Converter - successfully wrote at to /0 17:52:54,990 INFO c.g.bioformats2raw.Converter - requesting tile to write at to /0 Has been thrown and no special action was defined for this Thread. The Thread is being terminated bacause an Exception (shown above) 17:52:54,975 INFO c.g.bioformats2raw.Converter - requesting tile to write at to /0Īt .InvWTFull.waveletTreeReconstruction(InvWTFull.java:572)Īt .InvWTFull.getInternCompData(InvWTFull.java:314)Īt .getData(ImgDataConverter.java:280)Īt .getInternCompData(ImgDataConverter.java:236)Īt .InvCompTransf.getInternCompData(InvCompTransf.java:391)Īt .(J2KReadState.java:862)Īt .(J2KReadState.java:437)Īt .(J2KImageReader.java:556)Īt .readRaster(JAIIIOServiceImpl.java:177)Īt (JPEG2000Codec.java:296)Īt (JPEG2000Codec.java:267)Īt .decompress(WrappedCodec.java:132)Īt compress(JPEG2000Codec.java:63)Īt .readTile(MiraxReader.java:1058)Īt .openBytes(MiraxReader.java:266)Īt (ChannelSeparator.java:229)Īt (ChannelSeparator.java:161)Īt .getTile(Converter.java:391)Īt .processTile(Converter.java:424)Īt .lambda$saveResolutions$2(Converter.java:574)Īt java.base/.runWorker(ThreadPoolExecutor.java:1128)Īt java.base/$n(ThreadPoolExecutor.java:628)Īt java.base/(Thread.java:834) 17:52:54,943 INFO - start time tagĪt (JJ2KExceptionHandler.java:109)Īt .FileBitstreamReaderAgent.getCodeBlock(FileBitstreamReaderAgent.java:2494)Īt .StdEntropyDecoder.getCodeBlock(StdEntropyDecoder.java:745)Īt .StdEntropyDecoder.getInternCodeBlock(StdEntropyDecoder.java:977)Īt .getInternCodeBlock(ROIDeScaler.java:292)Īt .getCodeBlock(ROIDeScaler.java:239)Īt .StdDequantizer.getInternCodeBlock(StdDequantizer.java:312)Īt .InvWTFull.waveletTreeReconstruction(InvWTFull.java:547) 17:52:54,975 INFO c.g.bioformats2raw.Converter - successfully wrote at to /0 17:52:54,803 INFO c.g.bioformats2raw.Converter - requesting tile to write at to /0 17:52:54,803 INFO c.g.bioformats2raw.Converter - Successfully processed tile resolution=0 plane=0 xx=36864 yy=11264 width=18 height=1024 17:52:54,803 INFO c.g.bioformats2raw.Converter - successfully wrote at to /0 This should be the beginning of the stack trace (although it is truncated, so I will try to grab the rest): 17:52:54,787 INFO c.g.bioformats2raw.Converter - tile read complete 1731/4588 I can succesfully convert the same images to “intermediate” N5 structures if they are in 8-bit lossy JPEG compression at 90% quality, with no EOFExceptions. Is this supported? Or is there a known bug with JPEG2k? 120 gb 4-channel 38000 x 32000 px) and use lossless JPEG2000 compression. It prints that it has succesfully processed the final tile, but then appears to hang indefinitely unless terminated using Ctrl + C to return to the command line. I’m trying to run bioformats2raw on Windows 10 but it throws EOFException and terminates the thread.
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