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Re: Multiview Reconstruction plugin fails because of missing class in imglib2

Posted by Ignacio Arganda-Carreras on Dec 15, 2014; 9:13am
URL: http://imagej.273.s1.nabble.com/Multiview-Reconstruction-plugin-fails-because-of-missing-class-in-imglib2-tp5010934p5010946.html

I have the same problem as Nico since last Monday. I think it has to do
with the big update that Curtis made.

Building from source works as expected though.

Cheers!

On Sun, Dec 14, 2014 at 12:07 PM, Stephan Preibisch <[hidden email]>
wrote:

>
> Hi Nico,
>
> I am a bit confused why that happens. In ImgLib2, the Pair class was moved
> from net.imglib2 to net.imglib2.util for the release version. To the best
> of my knowledge, Fiji currently still comes with imglib2-2.0.0-beta-26.jar
> - so that’s why it doesn’t find the class. But the multi-view
> reconstruction plugin (http://fiji.sc/Multiview-Reconstruction <
> http://fiji.sc/Multiview-Reconstruction>) that comes with the
> bigdataviewer update site is still build for the imglib2-2.0.0-beta-26.jar.
> If you build it yourself, please use the branch “compatibility” as “master”
> works with the release version of imglib2.
>
> Cheers,
> Stephan
>
> > On Dec 12, 2014, at 20:52 , Nico Stuurman <[hidden email]>
> wrote:
> >
> > Using an up-to-date Fiji installation, the Multiview Registration plugin
> fails because it can not find the class net.imglib2.util.Pair.  Indeed, the
> same error can be triggered with the following Beanshell script:
> >
> > import net.imglib2.util.*;
> > t = new Pair();
> >
> > It is a bit unclear to me whether the function has just been removed or
> was just added, but clearly, the plugin code and Fiji itself use different
> version of the imglib2. Is there any way to get this to work (I would love
> to try out the plugin with my data)?
> >
> > I did try the lifeline version, but not sure if that autoupdates to the
> latest when I add the BigDataViewer update site, in any case, that version
> gives me the same problem.
> >
> > B.t.w., I am not sure how the developers would like to be contacted, but
> I did file a bug report (#975). Also happy to try fix this myself, but this
> seems to be a higher level packaging problem that is not easily penetrable.
> >
> > Best,
> >
> > Nico
> >
> > --
> > ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>


--
Ignacio Arganda-Carreras, Ph.D.
Seung's lab, 46-5065
Department of Brain and Cognitive Sciences
Massachusetts Institute of Technology
43 Vassar St.
Cambridge, MA 02139
USA

Phone: (001) 617-324-3747
Website: http://bioweb.cnb.csic.es/~iarganda/index_EN.html

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