[ome-users] Loading CZI File not working

[Emil Rozbicki]

Hi Sebastian,

thank you for the e-mail. We're currently working on the fix. I have opened a PR for it at https://github.com/openmicroscopy/bioformats/pull/1299

Kind Regards,
Emil Rozbicki

On 29 Aug 2014, at 08:00, Sebastian Rhode <sebrhode at gmail.com> wrote:

> This is the original bug decription on Fiji´s bugzilla, but somehow the HTML attachment got scrubbed, when Flaviu was sending this to the OME list.
> 
> See: http://lists.openmicroscopy.org.uk/pipermail/ome-users/2014-August/004653.html
> 
> So I try it again.
> 
> Sebi
> Hi,
> 
> it seems that Fiji (Bio-formats) can’t read our czi File and right now we have no idea why.
> We get the follow error message:
> 
> (Fiji Is Just) ImageJ 2.0.0-rc-13/1.49e; Java 1.6.0_24 [64-bit]; Windows 7 6.1; 28MB of 6065MB (<1%)
>  
> java.lang.NumberFormatException: empty String
> 	at sun.misc.FloatingDecimal.readJavaFormatString(FloatingDecimal.java:992)
> 	at java.lang.Double.valueOf(Double.java:475)
> 	at java.lang.Double.<init>(Double.java:567)
> 	at loci.formats.in.ZeissCZIReader.translateInformation(ZeissCZIReader.java:1450)
> 	at loci.formats.in.ZeissCZIReader.translateMetadata(ZeissCZIReader.java:1215)
> 	at loci.formats.in.ZeissCZIReader.initFile(ZeissCZIReader.java:699)
> 	at loci.formats.FormatReader.setId(FormatReader.java:1317)
> 	at loci.plugins.in.ImportProcess.initializeFile(ImportProcess.java:494)
> 	at loci.plugins.in.ImportProcess.execute(ImportProcess.java:144)
> 	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 ij.Executer.runCommand(Executer.java:131)
> 	at ij.Executer.run(Executer.java:64)
> 	at ij.IJ.run(IJ.java:272)
> 	at ij.IJ.run(IJ.java:250)
> 	at ij.macro.Functions.doRun(Functions.java:593)
> 	at ij.macro.Functions.doFunction(Functions.java:89)
> 	at ij.macro.Interpreter.doStatement(Interpreter.java:227)
> 	at ij.macro.Interpreter.doStatements(Interpreter.java:215)
> 	at ij.macro.Interpreter.run(Interpreter.java:112)
> 	at ij.macro.Interpreter.run(Interpreter.java:82)
> 	at ij.macro.MacroRunner.run(MacroRunner.java:139)
> 	at java.lang.Thread.run(Thread.java:662)
> 
> 
> Link to the Image:   https://www.dropbox.com/s/erjeucsabgzm1i2/EB3_H2B_z%20over%20time.czi
> 
> However, this one seems to work fine:
>  
> Link to the Image:    https://www.dropbox.com/s/wav004q9dvvagef/3CH_Z-Stack.czi
> 
> 
> So the question would be what is the difference between the two Images that is causing the problem?
> 
> Kind regards,
> Flaviu
> 
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