[ome-users] Fiji BioFormats TillVision import problems

[Melissa Linkert]

Hi Ian,

> I am having a little trouble reading in some TillPhotonics TillVision 4 .vws workspace files into Fuji using BioFormats import. Its very strange in that some workspace files work beautifully but others always produce this error:
> 
> Log for the misbehaving vws files is as follows:
*snip*
> 
> There are of course images in the misbehaving workspaces that open fine in TillVision so its a little odd!
> 
> I am using Fuji w/ImageJ 1.46 on Java 1.6.0_31 64bit on OS X 10.7.3 and the trunk build of the LOCI plugins (though I have tried the stable and the dailies too). I have also the same error trying this on using ImageJ 2.00 Beta 1.
> 
> This problem looks similar to this OMERO issue which is marked as closed:
> http://trac.openmicroscopy.org.uk/ome/ticket/5919  
> 
> 
> 
> I can happily ftp some working and non working .vws files as needed.  

Thank you for reporting this problem.

The best thing to do is to send us at least one of the datasets that
doesn't open (the .vws file and a similarly named folder that ends in
".pst", if present).  I will send you information on how to upload
datasets in a private email.

Regards,
-Melissa


On Wed, Apr 11, 2012 at 04:15:12PM +0200, Ian Dublon wrote:
> Hello OME people,
> 
> I am having a little trouble reading in some TillPhotonics TillVision 4 .vws workspace files into Fuji using BioFormats import. Its very strange in that some workspace files work beautifully but others always produce this error:
> 
> Log for the misbehaving vws files is as follows:
> loci.formats.FormatException: No images found.
> at loci.formats.in.TillVisionReader.initFile(TillVisionReader.java:393)
> at loci.formats.FormatReader.setId(FormatReader.java:1087)
> at loci.plugins.in.ImportProcess.initializeFile(ImportProcess.java:480)
> at loci.plugins.in.ImportProcess.execute(ImportProcess.java:144)
> at loci.plugins.in.Importer.showDialogs(Importer.java:139)
> at loci.plugins.in.Importer.run(Importer.java:77)
> at loci.plugins.LociImporter.run(LociImporter.java:79)
> at ij.IJ.runUserPlugIn(IJ.java:183)
> at ij.IJ.runPlugIn(IJ.java:150)
> 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:146)
> at ij.Command.runCommand(Command.java:95)
> at ij.Executer.run(Executer.java:64)
> at java.lang.Thread.run(Thread.java:680)
> 
> 
> 
> There are of course images in the misbehaving workspaces that open fine in TillVision so its a little odd!
> 
> I am using Fuji w/ImageJ 1.46 on Java 1.6.0_31 64bit on OS X 10.7.3 and the trunk build of the LOCI plugins (though I have tried the stable and the dailies too). I have also the same error trying this on using ImageJ 2.00 Beta 1.
> 
> This problem looks similar to this OMERO issue which is marked as closed:
> http://trac.openmicroscopy.org.uk/ome/ticket/5919  
> 
> 
> 
> I can happily ftp some working and non working .vws files as needed.  
> 
> Any ideas shall be gratefully received,
> 
> Kind regards,
> 
> Ian Dublon
> 
> --
> Ian Dublon Ph.D.
> Postdoctoral Research Fellow
> ian.dublon at slu.se (mailto:ian.dublon at slu.se) | ian.dublon at gmail.com (mailto:ian.dublon at gmail.com)
> 
> sv: +46(0)4041 5105 | m: +46(0)7035 81562  
> uk: +44(0)7792 775262
> 
> http://www.slu.se/ian-dublon
> Plant Protection Biology (Chemical Ecology Division)
> Swedish University of Agricultural Sciences (SLU), P.O. Box 102, SE-230 53 Alnarp, Skåne, Sweden
> 
> 
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> 
> 
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