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Task #9265 (closed)

Opened 12 years ago

Closed 12 years ago

BUG:MetaExpress import

Reported by:	omero-qa	Owned by:	mlinkert
Priority:	major	Milestone:	OMERO-4.4.7
Component:	Bio-Formats	Version:	n.a.
Keywords:	n.a.	Cc:	Jay_Copeland@…
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/4493/

Roger could you test with the latest version?

Comment: An attempt to use the importer in Insight for Mac to do a metaxpress import.

java.lang.IllegalArgumentException: Invalid series: 0
	at loci.formats.FormatReader.setSeries(FormatReader.java:792)
	at loci.formats.MetadataTools.populatePixels(MetadataTools.java:156)
	at loci.formats.MetadataTools.populatePixels(MetadataTools.java:87)
	at loci.formats.in.MetaxpressReader.initFile(MetaxpressReader.java:284)
	at loci.formats.FormatReader.setId(FormatReader.java:1091)
	at loci.formats.ImageReader.setId(ImageReader.java:682)
	at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:492)
	at loci.formats.ChannelFiller.setId(ChannelFiller.java:250)
	at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:492)
	at loci.formats.ChannelSeparator.setId(ChannelSeparator.java:261)
	at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:492)
	at ome.formats.importer.ImportLibrary.open(ImportLibrary.java:312)
	at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:488)
	at org.openmicroscopy.shoola.env.data.OMEROGateway.importImage(OMEROGateway.java:6402)
	at org.openmicroscopy.shoola.env.data.OmeroImageServiceImpl.importFile(OmeroImageServiceImpl.java:1228)
	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$1.doCall(ImagesImporter.java:111)
	at org.openmicroscopy.shoola.env.data.views.BatchCall.doStep(BatchCall.java:144)
	at org.openmicroscopy.shoola.util.concur.tasks.CompositeTask.doStep(CompositeTask.java:226)
	at org.openmicroscopy.shoola.env.data.views.CompositeBatchCall.doStep(CompositeBatchCall.java:126)
	at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.exec(ExecCommand.java:165)
	at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.run(ExecCommand.java:274)
	at org.openmicroscopy.shoola.util.concur.tasks.AsyncProcessor$Runner.run(AsyncProcessor.java:91)
	at java.lang.Thread.run(Thread.java:680)

References

Change History (6)

comment:1 Changed 12 years ago by jburel

Component changed from from QA to Bio-Formats
Milestone changed from Unscheduled to OMERO-Beta4.4
Priority changed from minor to major
Sprint set to 2012-07-03 (18)

comment:2 Changed 12 years ago by rleigh

Difficult to test, because there are no test images--the .metaxpress file is just the connection details for a local oracle database and fileserver, which we don't have access to.

Last edited 12 years ago by rleigh (previous) (diff)

comment:3 Changed 12 years ago by rleigh

Owner changed from rleigh to mlinkert-x

comment:4 Changed 12 years ago by jburel

Sprint changed from 2012-07-03 (18) to 2012-07-17 (19)

Moved from sprint 2012-07-03 (18)

comment:5 Changed 12 years ago by mlinkert

Milestone changed from OMERO-Beta4.4 to OMERO-Beta4.4.x
Sprint 2012-07-17 (19) deleted

Awaiting feedback.

comment:6 Changed 12 years ago by mlinkert

Resolution set to invalid
Status changed from new to closed

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