Posted by
Dr. Michael DOUBE on
Dec 18, 2018; 6:25am
URL: http://imagej.273.s1.nabble.com/bonej-tp5021576p5021585.html
Hi Larry,
> I went to the bonej2/issues on Github and it looks to me like you have already found my initial posting and reposted it there,
> so I didn't repost. Is this right?
Yes that's correct. I've also chatted with some of the core Ops
developers on Gitter and tried a couple of things but so far we haven't
got a proper solution for larger data implemented.
> I also see that you commented, but assume that comment is not a solution for me, but a suggestion for
> those who might fix the problem
That's correct, I've just flagged where the problem is coming from. In
short it seems like the way we are transforming ImageJ1-style ImagePlus
into ImageJ2-style Img is leading to a hard limit of data size. I'm
testing at the moment and can run fractal dimension on data
1024x1024x2048 successfully (but not 1024x1024x4096, which causes the
same exception), so hopefully you don't have to crop too much. Could you
try cropping and report back?
> I'm happy to stick with bonej2.
Great, thanks!
> If you need the original image that was causing the problems just let me know and I will send it to you
Thanks for the offer - not needed at the moment becuase I can replicate
just by using File>Image>New... and inputting your stack dimensions on a
black 8-bit image.
Michael
>
>
> On 12/16/18, 11:05 PM, "ImageJ Interest Group on behalf of Dr. Michael DOUBE" <
[hidden email] on behalf of
[hidden email]> wrote:
>
> Hi Larry,
>
> We're now providing support for BoneJ via the forum:
>
https://forum.image.sc/tags/bonej>
> Since many of the same people are here and there, I'll reply to this
> issue on the mailing list. Thanks for raising it.
>
> > Didn’t have any luck with FIJI/BoneJ2 due to some sort of Java exception (posted last Monday, analyzing an approx. 2300 slice stack)
>
> Where did you post this exception? I may have missed it. Would you mind
> posting a bug report on GitHub?
>
https://github.com/bonej-org/BoneJ2/issues>
> > So I went to Bonej1. The problem now is that 3D viewer won’t correctly install Java3D.
>
> Better to stick with BoneJ2. Please bear with us while we iron out the bugs.
>
> > I get the following error when I attempt to auto-install it from 3D viewer.
>
> Not sure about this one. Mac has been problematic for us in general.
> this is one of the things that has forced us to move to ImageJ2 / Java8.
>
> > Can anyone please tell me how to fix this (or get BoneJ2 running? Thank you
>
> Please post your exception in a bug report on the BoneJ2 issue tracker.
>
> Thanks,
>
> Michael
>
> --
> Dr. Michael DOUBE
> Associate Professor
> Jockey Club College of Veterinary Medicine and Life Sciences
> City University of Hong Kong
> Tat Chee Avenue, Kowloon
> Hong Kong
>
> Tel: +852 3442 6782
>
>
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--
Dr. Michael DOUBE
Associate Professor
Jockey Club College of Veterinary Medicine and Life Sciences
City University of Hong Kong
Tat Chee Avenue, Kowloon
Hong Kong
Tel: +852 3442 6782
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