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Task #9470 (closed)

Opened 12 years ago

Closed 12 years ago

Bug: tubhiswt-4D.zip fails to import

Reported by:	omero-qa	Owned by:	mlinkert
Priority:	minor	Milestone:	OMERO-4.4.7
Component:	Bio-Formats	Version:	n.a.
Keywords:	n.a.	Cc:	mike.hostetler@…
Resources:	n.a.	Referenced By:	n.a.
References:	n.a.	Remaining Time:	n.a.
Sprint:	n.a.

Description

http://qa.openmicroscopy.org.uk/qa/feedback/4585/

Comment: This was a sample I grabbed from
http://www.openmicroscopy.org/site/support/file-formats/ome-tiff/ome-tiff-data

java.lang.OutOfMemoryError: Java heap space
	at java.io.BufferedInputStream.<init>(BufferedInputStream.java:178)
	at loci.common.ZipHandle.resetStream(ZipHandle.java:178)
	at loci.common.ZipHandle.<init>(ZipHandle.java:97)
	at loci.common.Location.getHandle(Location.java:298)
	at loci.common.Location.getHandle(Location.java:278)
	at loci.common.Location.getHandle(Location.java:268)
	at loci.common.RandomAccessInputStream.<init>(RandomAccessInputStream.java:95)
	at loci.formats.in.OMETiffReader.openBytes(OMETiffReader.java:235)
	at loci.formats.ImageReader.openBytes(ImageReader.java:414)
	at loci.formats.ChannelFiller.openBytes(ChannelFiller.java:197)
	at loci.formats.ChannelSeparator.openBytes(ChannelSeparator.java:226)
	at loci.formats.ReaderWrapper.openBytes(ReaderWrapper.java:317)
	at loci.formats.MinMaxCalculator.openBytes(MinMaxCalculator.java:273)
	at ome.formats.importer.ImportLibrary.writeDataTileBased(ImportLibrary.java:872)
	at ome.formats.importer.ImportLibrary.importData(ImportLibrary.java:797)
	at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:573)
	at org.openmicroscopy.shoola.env.data.OMEROGateway.importImage(OMEROGateway.java:6335)
	at org.openmicroscopy.shoola.env.data.OmeroImageServiceImpl.importFile(OmeroImageServiceImpl.java:1248)
	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 (2)

comment:1 Changed 12 years ago by mlinkert

Component changed from from QA to Bio-Formats
Milestone changed from Unscheduled to OMERO-4.5

comment:2 Changed 12 years ago by mlinkert

Resolution set to fixed
Status changed from new to closed

Fixed with: https://github.com/openmicroscopy/bioformats/pull/162

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