[ome-users] OMERO 5 new czi problem

[Jianguo Rao]

Here is the error message:

loci.formats.UnsupportedCompressionException: JPEG-XR not yet supported
at  
loci.formats.in.ZeissCZIReader$SubBlock.readPixelData(ZeissCZIReader.java:2471)
	at loci.formats.in.ZeissCZIReader.initFile(ZeissCZIReader.java:490)
	at loci.formats.FormatReader.setId(FormatReader.java:1360)
	at loci.formats.ImageReader.setId(ImageReader.java:781)
	at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:576)
	at loci.formats.ChannelFiller.setId(ChannelFiller.java:263)
	at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:576)
	at loci.formats.ChannelSeparator.setId(ChannelSeparator.java:274)
	at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:576)
	at loci.formats.Memoizer.setId(Memoizer.java:471)
	at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:576)
	at  
ome.formats.importer.ImportCandidates.singleFile(ImportCandidates.java:414)
	at  
ome.formats.importer.ImportCandidates.handleFile(ImportCandidates.java:595)
	at ome.formats.importer.ImportCandidates.execute(ImportCandidates.java:371)
	at ome.formats.importer.ImportCandidates.<init>(ImportCandidates.java:229)
	at ome.formats.importer.ImportCandidates.<init>(ImportCandidates.java:180)
	at  
org.openmicroscopy.shoola.env.data.OMEROGateway.getImportCandidates(OMEROGateway.java:6374)
	at  
org.openmicroscopy.shoola.env.data.OmeroImageServiceImpl.importFile(OmeroImageServiceImpl.java:1196)
	at  
org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter.importFile(ImagesImporter.java:77)
	at  
org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter.access$000(ImagesImporter.java:53)
	at  
org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter$1.doCall(ImagesImporter.java:102)
	at  
org.openmicroscopy.shoola.env.data.views.BatchCall.doStep(BatchCall.java:144)
	at  
org.openmicroscopy.shoola.util.concur.tasks.CompositeTask.doStep(CompositeTask.java:226)
	at  
org.openmicroscopy.shoola.env.data.views.CompositeBatchCall.doStep(CompositeBatchCall.java:126)
	at  
org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.exec(ExecCommand.java:165)
	at  
org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.run(ExecCommand.java:276)
	at  
org.openmicroscopy.shoola.util.concur.tasks.AsyncProcessor$Runner.run(AsyncProcessor.java:91)
	at java.lang.Thread.run(Thread.java:619)

	at  
org.openmicroscopy.shoola.env.data.util.StatusLabel.update(StatusLabel.java:659)
	at  
ome.formats.importer.ImportCandidates.safeUpdate(ImportCandidates.java:555)
	at  
ome.formats.importer.ImportCandidates.singleFile(ImportCandidates.java:446)
	at  
ome.formats.importer.ImportCandidates.handleFile(ImportCandidates.java:595)
	at ome.formats.importer.ImportCandidates.execute(ImportCandidates.java:371)
	at ome.formats.importer.ImportCandidates.<init>(ImportCandidates.java:229)
	at ome.formats.importer.ImportCandidates.<init>(ImportCandidates.java:180)
	at  
org.openmicroscopy.shoola.env.data.OMEROGateway.getImportCandidates(OMEROGateway.java:6374)
	at  
org.openmicroscopy.shoola.env.data.OmeroImageServiceImpl.importFile(OmeroImageServiceImpl.java:1196)
	at  
org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter.importFile(ImagesImporter.java:77)
	at  
org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter.access$000(ImagesImporter.java:53)
	at  
org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter$1.doCall(ImagesImporter.java:102)
	at  
org.openmicroscopy.shoola.env.data.views.BatchCall.doStep(BatchCall.java:144)
	at  
org.openmicroscopy.shoola.util.concur.tasks.CompositeTask.doStep(CompositeTask.java:226)
	at  
org.openmicroscopy.shoola.env.data.views.CompositeBatchCall.doStep(CompositeBatchCall.java:126)
	at  
org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.exec(ExecCommand.java:165)
	at  
org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.run(ExecCommand.java:276)
	at  
org.openmicroscopy.shoola.util.concur.tasks.AsyncProcessor$Runner.run(AsyncProcessor.java:91)
	at java.lang.Thread.run(Thread.java:619)
Caused by: loci.formats.UnsupportedCompressionException: JPEG-XR not  
yet supported
	at  
loci.formats.in.ZeissCZIReader$SubBlock.readPixelData(ZeissCZIReader.java:2471)
	at loci.formats.in.ZeissCZIReader.initFile(ZeissCZIReader.java:490)
	at loci.formats.FormatReader.setId(FormatReader.java:1360)
	at loci.formats.ImageReader.setId(ImageReader.java:781)
	at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:576)
	at loci.formats.ChannelFiller.setId(ChannelFiller.java:263)
	at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:576)
	at loci.formats.ChannelSeparator.setId(ChannelSeparator.java:274)
	at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:576)
	at loci.formats.Memoizer.setId(Memoizer.java:471)
	at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:576)
	at  
ome.formats.importer.ImportCandidates.singleFile(ImportCandidates.java:414)
	... 16 more

Quoting Jianguo Rao <JIANGUO.RAO at igmm.ed.ac.uk> on Fri, 28 Mar 2014  
10:59:44 +0000:

> Dear All,
>
> We tried to upload a 3 GB file in czi format to the OMERO 5 server,  
> but an "Unkown format" error occurred during upload. This is an new  
> czi format and
> it comes from an newest scanner. Please help and let me know where and how to
> put the file for your test.
>
> Many thanks,
>
> Jianguo
>
> -- 
> The University of Edinburgh is a charitable body, registered in
> Scotland, with registration number SC005336.
>
>
> _______________________________________________
> ome-users mailing list
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>
>



-- 


-- 
The University of Edinburgh is a charitable body, registered in
Scotland, with registration number SC005336.