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Task #9096 (closed)

Opened 12 years ago

Closed 12 years ago

Bug: Import failures for sdt

Reported by: rleigh Owned by: jburel
Priority: major Milestone: OMERO-4.4
Component: Insight Version: n.a.
Keywords: n.a. Cc:
Resources: n.a. Referenced By: n.a.
References: n.a. Remaining Time: n.a.
Sprint: n.a.

Description

Files:
DCIS-01 at 780 nm.sdt
DCIS-01 at 890 nm.sdt

Images did in fact import OK despite the error.

java.lang.NullPointerException
	at ome.formats.OMEROMetadataStoreClient.resetDefaultsAndGenerateThumbnails(OMEROMetadataStoreClient.java:2669)
	at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:712)
	at org.openmicroscopy.shoola.env.data.OMEROGateway.importImage(OMEROGateway.java:6253)
	at org.openmicroscopy.shoola.env.data.OmeroImageServiceImpl.importCandidates(OmeroImageServiceImpl.java:200)
	at org.openmicroscopy.shoola.env.data.OmeroImageServiceImpl.importFile(OmeroImageServiceImpl.java:1395)
	at org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter.importFile(ImagesImporter.java:86)
	at org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter.access$000(ImagesImporter.java:55)
	at org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter$1.doCall(ImagesImporter.java:113)
	at org.openmicroscopy.shoola.env.data.views.BatchCall.doStep(BatchCall.java:144)
	at org.openmicroscopy.shoola.util.concur.tasks.CompositeTask.doStep(CompositeTask.java:226)
	at org.openmicroscopy.shoola.env.data.views.CompositeBatchCall.doStep(CompositeBatchCall.java:126)
	at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.exec(ExecCommand.java:165)
	at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.run(ExecCommand.java:276)
	at org.openmicroscopy.shoola.util.concur.tasks.AsyncProcessor$Runner.run(AsyncProcessor.java:91)
	at java.lang.Thread.run(Thread.java:679)

	at org.openmicroscopy.shoola.env.data.OMEROGateway.importImage(OMEROGateway.java:6301)
	at org.openmicroscopy.shoola.env.data.OmeroImageServiceImpl.importCandidates(OmeroImageServiceImpl.java:200)
	at org.openmicroscopy.shoola.env.data.OmeroImageServiceImpl.importFile(OmeroImageServiceImpl.java:1395)
	at org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter.importFile(ImagesImporter.java:86)
	at org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter.access$000(ImagesImporter.java:55)
	at org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter$1.doCall(ImagesImporter.java:113)
	at org.openmicroscopy.shoola.env.data.views.BatchCall.doStep(BatchCall.java:144)
	at org.openmicroscopy.shoola.util.concur.tasks.CompositeTask.doStep(CompositeTask.java:226)
	at org.openmicroscopy.shoola.env.data.views.CompositeBatchCall.doStep(CompositeBatchCall.java:126)
	at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.exec(ExecCommand.java:165)
	at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.run(ExecCommand.java:276)
	at org.openmicroscopy.shoola.util.concur.tasks.AsyncProcessor$Runner.run(AsyncProcessor.java:91)
	at java.lang.Thread.run(Thread.java:679)
Caused by: java.lang.NullPointerException
	at ome.formats.OMEROMetadataStoreClient.resetDefaultsAndGenerateThumbnails(OMEROMetadataStoreClient.java:2669)
	at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:712)
	at org.openmicroscopy.shoola.env.data.OMEROGateway.importImage(OMEROGateway.java:6253)
	... 12 more

and

Ice.ObjectNotExistException
    id.name = "86:24:41:e3:-1bca3469:137c12e6b08:-71e9omero.api.RawPixelsStore"
    id.category = "ce008439-b311-4fa5-9f67-e7c8f752b8a7"
    facet = ""
    operation = "setTile"
	at IceInternal.Outgoing.invoke(Outgoing.java:147)
	at omero.api._RawPixelsStoreDelM.setTile(_RawPixelsStoreDelM.java:1767)
	at omero.api.RawPixelsStorePrxHelper.setTile(RawPixelsStorePrxHelper.java:2435)
	at omero.api.RawPixelsStorePrxHelper.setTile(RawPixelsStorePrxHelper.java:2407)
	at ome.formats.OMEROMetadataStoreClient.setTile(OMEROMetadataStoreClient.java:2527)
	at ome.formats.importer.ImportLibrary.writeDataTileBased(ImportLibrary.java:885)
	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:6253)
	at org.openmicroscopy.shoola.env.data.OmeroImageServiceImpl.importCandidates(OmeroImageServiceImpl.java:200)
	at org.openmicroscopy.shoola.env.data.OmeroImageServiceImpl.importFile(OmeroImageServiceImpl.java:1395)
	at org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter.importFile(ImagesImporter.java:86)
	at org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter.access$000(ImagesImporter.java:55)
	at org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter$1.doCall(ImagesImporter.java:113)
	at org.openmicroscopy.shoola.env.data.views.BatchCall.doStep(BatchCall.java:144)
	at org.openmicroscopy.shoola.util.concur.tasks.CompositeTask.doStep(CompositeTask.java:226)
	at org.openmicroscopy.shoola.env.data.views.CompositeBatchCall.doStep(CompositeBatchCall.java:126)
	at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.exec(ExecCommand.java:165)
	at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.run(ExecCommand.java:276)
	at org.openmicroscopy.shoola.util.concur.tasks.AsyncProcessor$Runner.run(AsyncProcessor.java:91)
	at java.lang.Thread.run(Thread.java:679)

	at org.openmicroscopy.shoola.env.data.OMEROGateway.importImage(OMEROGateway.java:6301)
	at org.openmicroscopy.shoola.env.data.OmeroImageServiceImpl.importCandidates(OmeroImageServiceImpl.java:200)
	at org.openmicroscopy.shoola.env.data.OmeroImageServiceImpl.importFile(OmeroImageServiceImpl.java:1395)
	at org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter.importFile(ImagesImporter.java:86)
	at org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter.access$000(ImagesImporter.java:55)
	at org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter$1.doCall(ImagesImporter.java:113)
	at org.openmicroscopy.shoola.env.data.views.BatchCall.doStep(BatchCall.java:144)
	at org.openmicroscopy.shoola.util.concur.tasks.CompositeTask.doStep(CompositeTask.java:226)
	at org.openmicroscopy.shoola.env.data.views.CompositeBatchCall.doStep(CompositeBatchCall.java:126)
	at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.exec(ExecCommand.java:165)
	at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.run(ExecCommand.java:276)
	at org.openmicroscopy.shoola.util.concur.tasks.AsyncProcessor$Runner.run(AsyncProcessor.java:91)
	at java.lang.Thread.run(Thread.java:679)
Caused by: Ice.ObjectNotExistException
    id.name = "86:24:41:e3:-1bca3469:137c12e6b08:-71e9omero.api.RawPixelsStore"
    id.category = "ce008439-b311-4fa5-9f67-e7c8f752b8a7"
    facet = ""
    operation = "setTile"
	at IceInternal.Outgoing.invoke(Outgoing.java:147)
	at omero.api._RawPixelsStoreDelM.setTile(_RawPixelsStoreDelM.java:1767)
	at omero.api.RawPixelsStorePrxHelper.setTile(RawPixelsStorePrxHelper.java:2435)
	at omero.api.RawPixelsStorePrxHelper.setTile(RawPixelsStorePrxHelper.java:2407)
	at ome.formats.OMEROMetadataStoreClient.setTile(OMEROMetadataStoreClient.java:2527)
	at ome.formats.importer.ImportLibrary.writeDataTileBased(ImportLibrary.java:885)
	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:6253)
	... 12 more

Change History (4)

comment:1 Changed 12 years ago by rleigh

7/6/12 Imported without error.

comment:2 Changed 12 years ago by jburel

  • Resolution set to fixed
  • Status changed from new to closed

Fix problem in service see #9136, #9133. See also d2516a2

comment:3 Changed 12 years ago by sylittlewood

  • Resolution fixed deleted
  • Status changed from closed to reopened

comment:4 Changed 12 years ago by sylittlewood

  • Resolution set to fixed
  • Status changed from reopened to closed
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