[ome-users] Bug report: Cannot open jp2 file created by StereoInvestigator

[Kouichi C. Nakamura]

Dear Roger,

I hope that you can read this (I'm not sure how this mailing list is 
organized).

Thank you so much for your investigation. Following the instruction, 
I've increased the memory up to 2500m (see below), but still I cannot 
open the same file with the same error message. I've reinstalled 
bioformats toolbox 5.7.1. Any thoughts?

Best,

Kouichi


 >> java.lang.Runtime.getRuntime.maxMemory
ans =
    2.4033e+09


MATLAB R2017b,

Windows 7,

Bioformats toolbox 5.7.1



     .Error using bfGetPlane (line 78)
Java exception occurred:
java.lang.RuntimeException: 
jj2000.j2k.fileformat.reader.FileFormatReader.<init>(Ljj2000/j2k/io/RandomAccessIO;Lcom/sun/media/imageioimpl/plugins/jpeg2000/J2KMetadata;)V

     at 
com.sun.media.imageioimpl.plugins.jpeg2000.J2KReadState.initializeRead(J2KReadState.java:729)

     at 
com.sun.media.imageioimpl.plugins.jpeg2000.J2KReadState.<init>(J2KReadState.java:241)

     at 
com.sun.media.imageioimpl.plugins.jpeg2000.J2KImageReader.readRaster(J2KImageReader.java:551)

     at 
ome.codecs.services.JAIIIOServiceImpl.readRaster(JAIIIOServiceImpl.java:177)

     at ome.codecs.JPEG2000Codec.decompress(JPEG2000Codec.java:296)

     at ome.codecs.JPEG2000Codec.decompress(JPEG2000Codec.java:267)

     at loci.formats.codec.WrappedCodec.decompress(WrappedCodec.java:132)

     at loci.formats.codec.JPEG2000Codec.decompress(JPEG2000Codec.java:63)

     at loci.formats.in.JPEG2000Reader.openBytes(JPEG2000Reader.java:182)

     at loci.formats.ImageReader.openBytes(ImageReader.java:457)

     at loci.formats.ChannelFiller.openBytes(ChannelFiller.java:156)

     at loci.formats.ChannelFiller.openBytes(ChannelFiller.java:148)

     at loci.formats.ChannelSeparator.openBytes(ChannelSeparator.java:198)

     at loci.formats.ChannelSeparator.openBytes(ChannelSeparator.java:159)

Caused by: java.lang.NoSuchMethodError:
jj2000.j2k.fileformat.reader.FileFormatReader.<init>(Ljj2000/j2k/io/RandomAccessIO;Lcom/sun/media/imageioimpl/plugins/jpeg2000/J2KMetadata;)V

     at 
com.sun.media.imageioimpl.plugins.jpeg2000.J2KReadState.initializeRead(J2KReadState.java:450)

     ... 13 more

Error in bfopen (line 150)
         arr = bfGetPlane(r, i, varargin{:});
78  plane = r.openBytes(...







-- 
Kouichi C. Nakamura, PhD
Senior Postdoctoral Neuroscientist
MRC Brain Network Dynamics Unit
University of Oxford
Mansfield Road, Oxford OX1 3TH, United Kingdom
+44-1865-271582 (office)
http://www.mrcbndu.ox.ac.uk/people/dr-kouichi-c-nakamura
kouichi.c.nakamura at gmail.com
kouichi.nakamura at pharm.ox.ac.uk

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