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Task #9929 (closed)

Opened 11 years ago

Closed 11 years ago

Bug: incorrect IFD entry size causes exception

Reported by:	omero-qa	Owned by:	mlinkert
Priority:	minor	Milestone:	Unscheduled
Component:	from QA	Version:	n.a.
Keywords:	n.a.	Cc:	CJW@…
Resources:	n.a.	Referenced By:	n.a.
References:	n.a.	Remaining Time:	n.a.
Sprint:	n.a.

Description

The 'Make' entry is supposed to have an array size of 1, but actually has a size of 0.

https://www.openmicroscopy.org/qa2/qa2/qa/feedback/4745/

Comment: This tiff file does not import to omero, and bioformats won't open it in imagej.
Thanks
Chris

java.lang.ArrayIndexOutOfBoundsException
	at java.lang.reflect.Array.get(Native Method)
	at loci.formats.tiff.IFD.getIFDValue(IFD.java:274)
	at loci.formats.tiff.IFD.getIFDIntValue(IFD.java:320)
	at loci.formats.tiff.IFD.getIFDIntValue(IFD.java:308)
	at loci.formats.in.BaseTiffReader.putInt(BaseTiffReader.java:511)
	at loci.formats.in.BaseTiffReader.initStandardMetadata(BaseTiffReader.java:228)
	at loci.formats.in.TiffReader.initStandardMetadata(TiffReader.java:128)
	at loci.formats.in.BaseTiffReader.initMetadata(BaseTiffReader.java:98)
	at loci.formats.in.BaseTiffReader.initFile(BaseTiffReader.java:519)
	at loci.formats.FormatReader.setId(FormatReader.java:1105)
	at loci.formats.DelegateReader.setId(DelegateReader.java:245)
	at loci.formats.ImageReader.setId(ImageReader.java:695)
	at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:505)
	at loci.formats.ChannelFiller.setId(ChannelFiller.java:263)
	at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:505)
	at loci.formats.ChannelSeparator.setId(ChannelSeparator.java:274)
	at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:505)
	at ome.formats.importer.ImportLibrary.open(ImportLibrary.java:310)
	at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:486)
	at org.openmicroscopy.shoola.env.data.OMEROGateway.importImage(OMEROGateway.java:6335)
	at org.openmicroscopy.shoola.env.data.OmeroImageServiceImpl.importFile(OmeroImageServiceImpl.java:1212)
	at org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter.importFile(ImagesImporter.java:85)
	at org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter.access$000(ImagesImporter.java:54)
	at org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter$1.doCall(ImagesImporter.java:110)
	at org.openmicroscopy.shoola.env.data.views.BatchCall.doStep(BatchCall.java:144)
	at org.openmicroscopy.shoola.util.concur.tasks.CompositeTask.doStep(CompositeTask.java:226)
	at org.openmicroscopy.shoola.env.data.views.CompositeBatchCall.doStep(CompositeBatchCall.java:126)
	at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.exec(ExecCommand.java:165)
	at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.run(ExecCommand.java:276)
	at org.openmicroscopy.shoola.util.concur.tasks.AsyncProcessor$Runner.run(AsyncProcessor.java:91)
	at java.lang.Thread.run(Thread.java:680)

References

Change History (1)

comment:1 Changed 11 years ago by mlinkert

Resolution set to fixed
Status changed from new to closed

PR filed: https://github.com/openmicroscopy/bioformats/pull/272

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