Task #13318 (closed)
Opened 7 years ago
Closed 5 years ago
BUG: ImarisHDFReader -new version of files not being read by BF
Reported by: | bramalingam | Owned by: | |
---|---|---|---|
Priority: | minor | Milestone: | Unscheduled |
Component: | Bio-Formats | Version: | Bio-Formats-5.1.8 |
Keywords: | n.a. | Cc: | Ann.Wheeler@… |
Resources: | n.a. | Referenced By: | n.a. |
References: | n.a. | Remaining Time: | n.a. |
Sprint: | n.a. |
Description
ref: http://lists.openmicroscopy.org.uk/pipermail/ome-devel/2017-January/003868.html
https://www.openmicroscopy.org/qa2/qa/feedback/17515/
Testing summary:
Tested with BF 5.3.2 and the error reported was reproducible :
stacktrace:
java.io.IOException: java.lang.IllegalStateException: MessageDataspace: unknown version= 49 at ucar.nc2.NetcdfFile.open(NetcdfFile.java:425) at ucar.nc2.NetcdfFile.open(NetcdfFile.java:392) at ucar.nc2.NetcdfFile.open(NetcdfFile.java:379) at ucar.nc2.NetcdfFile.open(NetcdfFile.java:367) at loci.formats.services.NetCDFServiceImpl.init(NetCDFServiceImpl.java:307) at loci.formats.services.NetCDFServiceImpl.setFile(NetCDFServiceImpl.java:100) at loci.formats.in.ImarisHDFReader.initFile(ImarisHDFReader.java:247) at loci.formats.FormatReader.setId(FormatReader.java:1399) at loci.plugins.in.ImportProcess.initializeFile(ImportProcess.java:498) at loci.plugins.in.ImportProcess.execute(ImportProcess.java:141) at loci.plugins.in.Importer.showDialogs(Importer.java:140) at loci.plugins.in.Importer.run(Importer.java:76) at loci.plugins.LociImporter.run(LociImporter.java:78) at ij.IJ.runUserPlugIn(IJ.java:217) at ij.IJ.runPlugIn(IJ.java:181) at ij.Executer.runCommand(Executer.java:137) at ij.Executer.run(Executer.java:66) at java.lang.Thread.run(Thread.java:745) Caused by: java.lang.IllegalStateException: MessageDataspace: unknown version= 49 at ucar.nc2.iosp.hdf5.H5header$MessageDataspace.read(H5header.java:2826) at ucar.nc2.iosp.hdf5.H5header$MessageAttribute.read(H5header.java:3683) at ucar.nc2.iosp.hdf5.H5header$DataObject.processAttributeInfoMessage(H5header.java:2364) at ucar.nc2.iosp.hdf5.H5header$DataObject.<init>(H5header.java:2332) at ucar.nc2.iosp.hdf5.H5header$DataObject.<init>(H5header.java:2180) at ucar.nc2.iosp.hdf5.H5header.getDataObject(H5header.java:2027) at ucar.nc2.iosp.hdf5.H5header.access$600(H5header.java:70) at ucar.nc2.iosp.hdf5.H5header$DataObjectFacade.<init>(H5header.java:2073) at ucar.nc2.iosp.hdf5.H5header.readGroupNew(H5header.java:3920) at ucar.nc2.iosp.hdf5.H5header.access$900(H5header.java:70) at ucar.nc2.iosp.hdf5.H5header$H5Group.<init>(H5header.java:2153) at ucar.nc2.iosp.hdf5.H5header$H5Group.<init>(H5header.java:2118) at ucar.nc2.iosp.hdf5.H5header.makeNetcdfGroup(H5header.java:472) at ucar.nc2.iosp.hdf5.H5header.read(H5header.java:215) at ucar.nc2.iosp.hdf5.H5iosp.open(H5iosp.java:128) at ucar.nc2.NetcdfFile.<init>(NetcdfFile.java:1521) at ucar.nc2.NetcdfFile.open(NetcdfFile.java:813) at ucar.nc2.NetcdfFile.open(NetcdfFile.java:422) ... 17 more
Change History (1)
comment:1 Changed 5 years ago by sbesson
- Resolution set to fixed
- Status changed from new to closed
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Closed with https://github.com/openmicroscopy/bioformats/pull/3358. This will be included in the next Bio-Formats release