Re: JAVA error messages

Posted by Piotr Wendykier-2 on Apr 04, 2011; 3:05pm
URL: http://imagej.273.s1.nabble.com/JAVA-error-messages-tp3684729p3684734.html

Mark,

I'm the author of Parallel Spectral/Iterative Deconvolution plugins.
There is something wrong with the configuration of your Micro-Manager 1.3.
You can try to search for parallelcolt*.jar in the plugins directory.
There should be only one file that matches this pattern.

I hope this helps,

Piotr


On Mon, Apr 4, 2011 at 9:47 AM, Mark Adelman (Work)
<[hidden email]> wrote:

> Can someone give me some guidance regarding JAVA error messages I am
> getting?  An example is included at the end of this message.  Am learning to
> do some wide-field image deconvolution work.  My platform is a MacBook (2.13
> GHz Intel Core 2 Duo, 4 GB MHz DDR2 SDRAM, OS 10.5.8).  It is up-to-date on
> all Mac software updates (including the JAVA that Mac provides).  I am
> running ImageJ 1.45d (under Micro-Manager 1.3).  My knowledge of JAVA,
> programming, etc. is quite limited.  Have been using an old confocal
> microscopy (MRC600) data set as a test sample.  Have gotten some pretty nice
> results using the plugins by Bob Dougherty (in the Deconvolution folder) to
> generate a PSF and to do Iterative 3D deconvolutions, first of the confocal
> set and then of some actual wide field data sets.  I was also able to run a
> number of the plugins in the DeconvolutionLab folder.  When I tried Parallel
> Iterative Deconvolutions a number of one line JAVA error messages (about
> thrown threads, exceptions, etc....) showed up.  I moved on to Parallel
> Spectral Deconvolutions and, no matter what I tried, got long error messages
> (see example below) and the program locked.  Can someone suggest how to
> figure out what I'm doing wrong?  Have looked at the Wiki page and done a
> number of Google searches, to no avail.  Am just starting to read on JAVA
> and other programming issues, but am a LONG way from being able to resolve
> this without some guidance from people more knowledgeable than me.  Thanks
> in advance for any help!
>
> Mark Adelman
>
>>
>> java.lang.NoSuchMethodError: cern.colt.matrix.tfloat.FloatMatrix3D.size()J
>>        at
>> edu.emory.mathcs.restoretools.spectral.FloatCommon3D.assignPixelsToMatrix(Unknown
>> Source)
>>        at
>> edu.emory.mathcs.restoretools.spectral.AbstractFloatSpectralDeconvolver3D.<init>(Unknown
>> Source)
>>        at
>> edu.emory.mathcs.restoretools.spectral.tik.FloatReflexiveTikhonov3D.<init>(Unknown
>> Source)
>>        at
>> edu.emory.mathcs.restoretools.spectral.ParallelSpectralDeconvolution3D$MainPanel$DeconvolveButtonActionListener$1.run(Unknown
>> Source)
>>        at java.lang.Thread.run(Thread.java:655)
>>
>