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Re: I cannot open lif files from the SP8 confocal in Fiji

Posted by Nikolay Kladt on Oct 15, 2014; 10:47am
URL: http://imagej.273.s1.nabble.com/I-cannot-open-lif-files-from-the-SP8-confocal-in-Fiji-tp5010050p5010052.html

Hi Judit,

This is a known problem, see:
http://www.openmicroscopy.org/community/viewtopic.php?f=13&t=7581&p=14588&hilit=leica#p14588

Best,
Niko

On Wed, Oct 15, 2014 at 12:23 PM, Judit Pampalona <
[hidden email]> wrote:

> Hello all,
>
> I would be very grateful if someone can help me with this issue. When I try
> to open a lif file obtained from an SP8 confocal by dragging the file to
> the fiji barr, it appears the following message :
>
> "File is not in a supported format, a reader plugin is not available, or it
> was not found"
>
> When I try to import the very same file using the File<import<Bioformats ,
> viewing as Hyperstack, it opens a log window with the following text:
>
> loci.formats.FormatException: Invalid Memory Block: found magic bytes 0,
> expected 112
>     at loci.formats.in.LIFReader.initFile(LIFReader.java:412)
>     at loci.formats.FormatReader.setId(FormatReader.java:1183)
>     at loci.plugins.in.ImportProcess.initializeFile(ImportProcess.java:482)
>     at loci.plugins.in.ImportProcess.execute(ImportProcess.java:146)
>     at loci.plugins.in.Importer.showDialogs(Importer.java:141)
>     at loci.plugins.in.Importer.run(Importer.java:79)
>     at loci.plugins.LociImporter.run(LociImporter.java:81)
>     at ij.IJ.runUserPlugIn(IJ.java:202)
>     at ij.IJ.runPlugIn(IJ.java:166)
>     at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
>     at
>
> sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
>     at
>
> sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
>     at java.lang.reflect.Method.invoke(Method.java:597)
>     at ij.Command.runPlugIn(Command.java:148)
>     at ij.Command.runCommand(Command.java:97)
>     at ij.Executer.run(Executer.java:64)
>     at java.lang.Thread.run(Thread.java:662)
>
>
>
> Then I tried to update the LOCI plugins (the three options) and it says
> every time that there is an error when trying to install them.
>
> My version of Fiji is v1.49i, do you know how to solve this?
>
>
> Thanks in advance,
>
> Judit
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>



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Dr. Nikolay Kladt
Image and Data Analyst, CECAD Imaging Facility
[hidden email]
++49 221 478 84028
https://www.linkedin.com/in/kladtn

CECAD Cologne - Excellent in Aging Research
Universität zu Köln
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50931 Cologne

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