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

[David Gault (Staff)]

Hi Kouichi,

Thank you for providing updates on your testing. We are still investigating this issue internally to try and isolate the problem and provide a solution. It does appear to be caused by a conflict of Java classes. One potential solution that might be worth trying is to force MATLAB to give priority to the Bio-Formats library when loading the Java class path. This can be done by modifying the file javaclasspath.txt.

  *   If you do not have a javaclasspath.txt file already you can create one in your MATLAB preferences folder.
  *   To find the location of the preferences folder you can use the command  'prefdir'
  *   In the text file add the following:

<before>
path/to/bioformats_package.jar

For more details on adding jars to javaclassoath.txt you can see https://uk.mathworks.com/help/matlab/matlab_external/static-path.html#bvjg_eg-1


With Thanks,
David Gault

On 24 Oct 2017, at 11:44, Kouichi C. Nakamura <kouichi.c.nakamura at gmail.com<mailto:kouichi.c.nakamura at gmail.com>> wrote:


Dear Roger,

I temporally removed `C:\Program Files\MATLAB\R2017b\java\jarext\jung\jung-jai.jar` and relaunched MATLAB R2017b.

When trying to open the .jp2 file, I've got the same error message (Error using bfGetPlane<matlab:matlab.internal.language.introspective.errorDocCallback%28%27bfGetPlane%27,%20%27D:%5CDropbox%5CPrivate_Dropbox%5Cmatlab_toolbox%5Cbfmatlab%5CbfGetPlane.m%27,%2078%29> (line 78<matlab:%20opentoline%28%27D:%5CDropbox%5CPrivate_Dropbox%5Cmatlab_toolbox%5Cbfmatlab%5CbfGetPlane.m%27,78,0%29>)).

Best,
Kouichi


--
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<mailto:kouichi.c.nakamura at gmail.com>
kouichi.nakamura at pharm.ox.ac.uk<mailto:kouichi.nakamura at pharm.ox.ac.uk>

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