Posted by
Thomas Boudier-4 on
Apr 19, 2016; 8:49am
URL: http://imagej.273.s1.nabble.com/Problem-with-3D-Object-Counter-tp5016107p5016175.html
Hi Cédric,
Looks like your image is very very big ;) . I think OC uses a 1D array
to store the data, this is why it crashed. Try the implementation in the
3D ImageJ suite :
http://imagejdocu.tudor.lu/doku.php?id=plugin:segmentation:3d_spots_segmentation:start
, then plugins/3D/simple segmentation provided you have a lot of RAM...
Best,
Thomas
On 12/04/2016 19:51, Devivier C. wrote:
> Dear All,
>
> I am trying to use 3D object counter to obtain an information about the volume and spatial distributions of particles. The volume is 1894x1894x1586 coded in unsigned 16 bits. I have attached the parameters that I used to run the command. Below is the error that I have.
>
> (Fiji Is Just) ImageJ 2.0.0-rc-47/1.50g; Java 1.8.0_66 [64-bit]; Windows 7 6.1; 16539MB of 147306MB (11%)
> java.lang.ArrayIndexOutOfBoundsException: 1394389000
> at Utilities.Counter3D.imgArrayModifier(Counter3D.java:652)
> at Utilities.Counter3D.<init>(Counter3D.java:88)
> at _3D_objects_counter.run(_3D_objects_counter.java:186)
> at ij.IJ.runUserPlugIn(IJ.java:212)
> at ij.IJ.runPlugIn(IJ.java:176)
> at ij.Executer.runCommand(Executer.java:137)
> at ij.Executer.run(Executer.java:66)
> at java.lang.Thread.run(Thread.java:745)
>
> What have I done wrong?
>
> Thank you for your help,
> Cédric
>
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Thomas Boudier, Associate Professor, UPMC,
Université Pierre et Marie Curie, Paris, France.
BioInformatics Institute (BII)/IPAL, Singapore.
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