Re: NoSuchFieldError between BlockMatching and TrakEM2

Posted by ctrueden on Jul 15, 2015; 6:26pm
URL: http://imagej.273.s1.nabble.com/NoSuchFieldError-between-BlockMatching-and-TrakEM2-tp5013555p5013577.html

Hi Eva, Stephan, everyone,

> TrakEM2_ is outdated.

In general, it should not be possible to receive NoSuchFieldError or
similar "jar skew" problems with a fully up-to-date version of all ImageJ
and Fiji components. If that happens, it is a bug.

Eva: is your Fiji fully up to date? [1]

Stephan: Do new versions of any TrakEM2 components need to be uploaded to
the Fiji update site? If so, which?

Regards,
Curtis

[1]
http://imagej.net/FAQ#How_can_I_verify_that_my_ImageJ_is_really_100.25_up_to_date.3F

On Wed, Jul 15, 2015 at 8:43 AM, Saalfeld, Stephan <
[hidden email]> wrote:

> Hi Eva,
>
> you can find the most recent snapshots of all involved jar files at the
> ImageJ maven repository:
>
>
> http://maven.imagej.net/index.html#nexus-search;gav~sc.fiji~TrakEM2_~~~~kw,versionexpand
>
> jars/mpicbg-1.0.1
> jars/mpicbg-trakem-1.2.2
> plugins/blockmatching_2.1.1
> plugins/mpicbg_-1.0.1
> plugins/TrakEM2_-1.0f
>
> should work.  I.e. TrakEM2_ is outdated.
>
> Cheers,
> Stephan
>
> On Tue, 2015-07-14 at 07:16 -0700, Eva_Fiorinelli wrote:
> > Dear all,
> >
> > I'm using the block matching plugin of Stephan Saalfeld in Java.
> > When I execute the command :
> >
> > IJ.run(Brain, "Extract Block Matching Correspondences",
> > "source_image=IMG1.dcm target_image=Brain layer_scale=1 search_radius=50
> > block_radius=50 resolution=24 minimal_pmcc_r=0.10
> > maximal_curvature_ratio=1000 maximal_second_best_r/best_r=1
> > use_local_smoothness_filter approximate_local_transformation=Affine
> > local_region_sigma=65 maximal_local_displacement=12 export");
> >
> > I obtain this error :
> >
> > java.lang.NoSuchFieldError: m00
> >       at
> mpicbg.trakem2.transform.AffineModel2D.copy(AffineModel2D.java:76)
> >       at
> mpicbg.trakem2.transform.AffineModel2D.copy(AffineModel2D.java:22)
> >       at mpicbg.models.AbstractModel.filter(AbstractModel.java:181)
> >       at mpicbg.models.AbstractModel.filter(AbstractModel.java:239)
> >       at
> > mpicbg.models.AbstractModel.localSmoothnessFilter(AbstractModel.java:677)
> >       at
> >
> mpicbg.ij.plugin.BlockMatching_ExtractPoinRoi.run(BlockMatching_ExtractPoinRoi.java:152)
> >       at ij.IJ.runUserPlugIn(IJ.java:199)
> >       at ij.IJ.runPlugIn(IJ.java:163)
> >       at ij.Executer.runCommand(Executer.java:132)
> >       at ij.Executer.run(Executer.java:65)
> >       at ij.IJ.run(IJ.java:279)
> >       at ij.IJ.run(IJ.java:334)
> >       at
> strokeDetection.model.ArterialMatching.match(ArterialMatching.java:110)
> >       at
> strokeDetection.model.ArterialMatching.<init>(ArterialMatching.java:24)
> >       at strokeDetection.Main.main(Main.java:25)
> >
> > The  documentation
> > <
> http://docs.oracle.com/javase/7/docs/api/java/lang/NoSuchFieldError.html>
> > says that the NoSuchField error is :
> >
> > Thrown if an application tries to access or modify a specified field of
> an
> > object, and that object no longer has that field.
> > Normally, this error is caught by the compiler; this error can only
> occur at
> > run time if the definition of a class has incompatibly changed.
> >
> > So I think I have the bad version for one of the dependencies but I don't
> > find which one.
> > In Fiji/jars there are mpicbg-1.0.1.jar and mpicbg-trakem2-1.2.2.
> > In Fiji/plugins I use TrakEM2_-1.0b-SNAPSHOT.jar and
> blockmatching_-2.1.1.
> >
> > Does anyone know what versions of blockmatching and TrakEM2 I need ?
> >
> > Thank you,
> >
> > Eva
> >
> >
> >
> > --
> > View this message in context:
> http://imagej.1557.x6.nabble.com/NoSuchFieldError-between-BlockMatching-and-TrakEM2-tp5013555.html
> > Sent from the ImageJ mailing list archive at Nabble.com.
> >
> > --
> > ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>
> --
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>

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