.czi image can't be read, loci error

[Cseresnyes, Zoltan]

Hi everyone,

After updating Fiji a few seconds ago, now I can't open the .czi file format. When I try directly via loci Bioformat Importer, I get the following message (which is the same that I get with the Open command):

(Fiji Is Just) ImageJ 2.0.0-rc-26/1.49p; Java 1.6.0_65 [64-bit]; Mac OS X 10.8.5; 118MB of 7165MB (1%)

java.lang.NoClassDefFoundError: Could not initialize class loci.common.Location
at loci.plugins.in.ImporterOptions.parseArg(ImporterOptions.java:171)
at loci.plugins.in.Importer.parseOptions(Importer.java:112)
at loci.plugins.in.Importer.run(Importer.java:69)
at loci.plugins.LociImporter.run(LociImporter.java:78)
at ij.IJ.runUserPlugIn(IJ.java:199)
at ij.IJ.runPlugIn(IJ.java:163)
at ij.Executer.runCommand(Executer.java:131)
at ij.Executer.run(Executer.java:64)
at java.lang.Thread.run(Thread.java:695)


Any suggestions will be much appreciated!!

Best wishes,

Zoltan

-------------------------------------------------
Dr. Zoltan Cseresnyes
2-Photon and Confocal Microscopy Core Facility
Max-Delbrück-Center for Molecular Medicine Berlin
13125 Berlin
Germany
Phone: [phone]
http://www.mdc-berlin.de/en/research/core_facilities/

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ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[ctrueden]

Hi Zoltan,

> After updating Fiji a few seconds ago, now I can't open the .czi file
format.

Which update sites do you have enabled?

I cannot reproduce this problem with a regular Fiji, nor one with the
Bio-Formats update site enabled.

If you have third party update sites enabled, try disabling them. See also
this article:
http://imagej.net/FAQ#How_can_I_verify_that_my_ImageJ_is_really_100.25_up_to_date.3F

Regards,
Curtis

On Tue, Mar 24, 2015 at 8:21 PM, [hidden email] <
[hidden email]> wrote:

> Hi everyone,
>
> After updating Fiji a few seconds ago, now I can't open the .czi file
> format. When I try directly via loci Bioformat Importer, I get the
> following message (which is the same that I get with the Open command):
>
> (Fiji Is Just) ImageJ 2.0.0-rc-26/1.49p; Java 1.6.0_65 [64-bit]; Mac OS X
> 10.8.5; 118MB of 7165MB (1%)
>
> java.lang.NoClassDefFoundError: Could not initialize class
> loci.common.Location
> at loci.plugins.in.ImporterOptions.parseArg(ImporterOptions.java:171)
> at loci.plugins.in.Importer.parseOptions(Importer.java:112)
> at loci.plugins.in.Importer.run(Importer.java:69)
> at loci.plugins.LociImporter.run(LociImporter.java:78)
> at ij.IJ.runUserPlugIn(IJ.java:199)
> at ij.IJ.runPlugIn(IJ.java:163)
> at ij.Executer.runCommand(Executer.java:131)
> at ij.Executer.run(Executer.java:64)
> at java.lang.Thread.run(Thread.java:695)
>
>
> Any suggestions will be much appreciated!!
>
> Best wishes,
>
> Zoltan
>
> -------------------------------------------------
> Dr. Zoltan Cseresnyes
> 2-Photon and Confocal Microscopy Core Facility
> Max-Delbrück-Center for Molecular Medicine Berlin
> 13125 Berlin
> Germany
> Phone: [phone]
> http://www.mdc-berlin.de/en/research/core_facilities/
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[Cseresnyes, Zoltan]

Thank you Curtis!  I turned off all 3rd party update sites, still no luck. Then I just deleted Fiji, downloaded a new copy and now it's working again. I'm not sure what/which caused the error. Anyway, all OK now. Thanks again!

Zoltan



-------------------------------------------------
Dr. Zoltan Cseresnyes
2-Photon and Confocal Microscopy Core Facility
Max-Delbrück-Center for Molecular Medicine Berlin
13125 Berlin
Germany
Phone: [phone]
http://www.mdc-berlin.de/en/research/core_facilities/

________________________________________
From: ImageJ Interest Group [[hidden email]] on behalf of Curtis Rueden [[hidden email]]
Sent: Wednesday, March 25, 2015 3:13 AM
To: [hidden email]
Subject: Re: .czi image can't be read, loci error

Hi Zoltan,

> After updating Fiji a few seconds ago, now I can't open the .czi file
format.

Which update sites do you have enabled?

I cannot reproduce this problem with a regular Fiji, nor one with the
Bio-Formats update site enabled.

If you have third party update sites enabled, try disabling them. See also
this article:
http://imagej.net/FAQ#How_can_I_verify_that_my_ImageJ_is_really_100.25_up_to_date.3F

Regards,
Curtis

On Tue, Mar 24, 2015 at 8:21 PM, [hidden email] <
[hidden email]> wrote:

> Hi everyone,
>
> After updating Fiji a few seconds ago, now I can't open the .czi file
> format. When I try directly via loci Bioformat Importer, I get the
> following message (which is the same that I get with the Open command):
>
> (Fiji Is Just) ImageJ 2.0.0-rc-26/1.49p; Java 1.6.0_65 [64-bit]; Mac OS X
> 10.8.5; 118MB of 7165MB (1%)
>
> java.lang.NoClassDefFoundError: Could not initialize class
> loci.common.Location
> at loci.plugins.in.ImporterOptions.parseArg(ImporterOptions.java:171)
> at loci.plugins.in.Importer.parseOptions(Importer.java:112)
> at loci.plugins.in.Importer.run(Importer.java:69)
> at loci.plugins.LociImporter.run(LociImporter.java:78)
> at ij.IJ.runUserPlugIn(IJ.java:199)
> at ij.IJ.runPlugIn(IJ.java:163)
> at ij.Executer.runCommand(Executer.java:131)
> at ij.Executer.run(Executer.java:64)
> at java.lang.Thread.run(Thread.java:695)
>
>
> Any suggestions will be much appreciated!!
>
> Best wishes,
>
> Zoltan
>
> -------------------------------------------------
> Dr. Zoltan Cseresnyes
> 2-Photon and Confocal Microscopy Core Facility
> Max-Delbrück-Center for Molecular Medicine Berlin
> 13125 Berlin
> Germany
> Phone: [phone]
> http://www.mdc-berlin.de/en/research/core_facilities/
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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ImageJ mailing list: http://imagej.nih.gov/ij/list.html

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