Open Microscopy Environment

Hi all:
I tried to use bioformat (ImageJ plugin) to open several nd2 files acquired by a recent version NIS-element, but always get error message "
java.lang.IllegalArgumentException: 0 must not be null and positive.
at ome.xml.model.primitives.PositiveInteger.<init>(PositiveInteger.java:41)
at loci.formats.MetadataTools.populateMetadata(MetadataTools.java:208)
at loci.formats.MetadataTools.populatePixels(MetadataTools.java:121)
at loci.formats.MetadataTools.populatePixels(MetadataTools.java:96)
at loci.formats.in.NativeND2Reader.populateMetadataStore(NativeND2Reader.java:967)
at loci.formats.in.NativeND2Reader.initFile(NativeND2Reader.java:724)
at loci.formats.FormatReader.setId(FormatReader.java:1087)
at loci.formats.DelegateReader.setId(DelegateReader.java:232)
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 ij.Executer.runCommand(Executer.java:127)
at ij.Executer.run(Executer.java:64)
at java.lang.Thread.run(Unknown Source)
"
there may be a compatibility issue. I also upload the nd2 file, ID=4206
Is there any one knowing how to fix the problem?
Thanks!

Hi,

I tried to use bioformat (ImageJ plugin) to open several nd2 files acquired by a recent version NIS-element, but always get error message "
java.lang.IllegalArgumentException: 0 must not be null and positive.
at ome.xml.model.primitives.PositiveInteger.<init>(PositiveInteger.java:41)
at loci.formats.MetadataTools.populateMetadata(MetadataTools.java:208)
at loci.formats.MetadataTools.populatePixels(MetadataTools.java:121)
at loci.formats.MetadataTools.populatePixels(MetadataTools.java:96)
at loci.formats.in.NativeND2Reader.populateMetadataStore(NativeND2Reader.java:967)
at loci.formats.in.NativeND2Reader.initFile(NativeND2Reader.java:724)
at loci.formats.FormatReader.setId(FormatReader.java:1087)
at loci.formats.DelegateReader.setId(DelegateReader.java:232)
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 ij.Executer.runCommand(Executer.java:127)
at ij.Executer.run(Executer.java:64)
at java.lang.Thread.run(Unknown Source)
"
there may be a compatibility issue. I also upload the nd2 file, ID=4206
Is there any one knowing how to fix the problem?

Thank you for reporting this problem. There is already a ticket for it on our issue tracking system:

http://trac.openmicroscopy.org.uk/ome/ticket/7947

If you would like to receive automated email notifications of updates to that ticket (including when the problem is fixed), please let me know and I will add you to the CC list.

Regards,
-Melissa

With new stable release of bioformats plugin, ImageJ can now open newer Nd2 files.