Task #10180 (closed)
Opened 11 years ago
Closed 11 years ago
Freeze while importing Olympus ScanR
Reported by: | rkferguson | Owned by: | jburel |
---|---|---|---|
Priority: | major | Milestone: | OMERO-4.4.7 |
Component: | Insight | Version: | n.a. |
Keywords: | FS | Cc: | fs@… |
Resources: | n.a. | Referenced By: | n.a. |
References: | n.a. | Remaining Time: | n.a. |
Sprint: | 2013-02-12 (5) |
Description
User-8
Gretzky
OMERO.insight-4.4.4-823-b02a128-dirty-ice33-b116-mac
Affected: test_images_good /scanr
Importing screen by itself (other images already successfully imported).
From within CLS using images on local HD.
Import completed successfully in import window.
Clicked "View" - taken to Screen tab.
When initially selected screen - no thumbnails rendered - just showing as blank.
Double clicked on blank thumbnail about in the middle of row G1 (not exactly sure which one) - got viewer opening progress bar.
Stalled like that for about a minute, then rendered thumbnails down to first image in G1 row and showed 50% on progress bar at bottom of middle pane.
Clicked Cancel on the viewer opening window and tried double clicking on thumbnail that had rendered (first image in row A1).
Had a flash of a dialog warning but only for a fraction of a second before it disappeared - may have been connection interruption - too fast to read.
Insight froze and only action I could do was switch to Projects tab which then froze as well and I could do nothing.
Had to Force Quit Insight.
Error message from log below.
Restarted Insight and logged in again.
Behaving as normal - opened Screens tab - thumbnails still only 50% rendered (up to G1 first image) i.e. where it had crashed. Progress bar active.
Waited about 1 minute and rendering of rest of thumbnails completed.
Checks of all images show expected thumbnails, rendering and behaviour, so import and final rendering appears to be normal and unaffected.
2013-01-16 09:23:40,939 INFO [ ome.formats.importer.ImportConfig] (Thread-105) Bioformats version: 4.5-DEV revision: fb46c88 date: 16 January 2013 2013-01-16 09:36:37,803 DEBUG [copy.shoola.env.data.DataServicesFactory] (Thread-115) Connection ErrorIce.SocketException error = 0 at IceInternal.Selector.setInterrupt(Selector.java:347) at IceInternal.Selector.remove(Selector.java:107) at IceInternal.ThreadPool.finish(ThreadPool.java:183) at Ice.ConnectionI.setState(ConnectionI.java:1454) at Ice.ConnectionI.setState(ConnectionI.java:1351) at Ice.ConnectionI.sendRequest(ConnectionI.java:383) at IceInternal.ConnectionRequestHandler.sendRequest(ConnectionRequestHandler.java:36) at IceInternal.Outgoing.invoke(Outgoing.java:66) at omero.api._IMetadataDelM.loadAnnotations(_IMetadataDelM.java:260) at omero.api.IMetadataPrxHelper.loadAnnotations(IMetadataPrxHelper.java:320) at omero.api.IMetadataPrxHelper.loadAnnotations(IMetadataPrxHelper.java:292) at org.openmicroscopy.shoola.env.data.OMEROGateway.loadAnnotations(OMEROGateway.java:2739) at org.openmicroscopy.shoola.env.data.OmeroMetadataServiceImpl.loadStructuredAnnotations(OmeroMetadataServiceImpl.java:1022) at org.openmicroscopy.shoola.env.data.OmeroMetadataServiceImpl.loadStructuredData(OmeroMetadataServiceImpl.java:707) at org.openmicroscopy.shoola.env.data.OmeroMetadataServiceImpl.loadStructuredData(OmeroMetadataServiceImpl.java:811) at org.openmicroscopy.shoola.env.data.views.calls.StructuredAnnotationLoader$6.doCall(StructuredAnnotationLoader.java:211) at org.openmicroscopy.shoola.env.data.views.BatchCall.doStep(BatchCall.java:144) at org.openmicroscopy.shoola.util.concur.tasks.CompositeTask.doStep(CompositeTask.java:226) at org.openmicroscopy.shoola.env.data.views.CompositeBatchCall.doStep(CompositeBatchCall.java:126) at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.exec(ExecCommand.java:165) at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.run(ExecCommand.java:276) at org.openmicroscopy.shoola.util.concur.tasks.AsyncProcessor$Runner.run(AsyncProcessor.java:91) at java.lang.Thread.run(Thread.java:680) Caused by: java.nio.channels.ClosedByInterruptException at java.nio.channels.spi.AbstractInterruptibleChannel.end(AbstractInterruptibleChannel.java:184) at sun.nio.ch.SinkChannelImpl.write(SinkChannelImpl.java:153) at IceInternal.Selector.setInterrupt(Selector.java:343) ... 22 more Connection ErrorIce.SocketException error = 0 at IceInternal.Selector.setInterrupt(Selector.java:347) at IceInternal.Selector.remove(Selector.java:107) at IceInternal.ThreadPool.finish(ThreadPool.java:183) at Ice.ConnectionI.setState(ConnectionI.java:1454) at Ice.ConnectionI.setState(ConnectionI.java:1351) at Ice.ConnectionI.sendRequest(ConnectionI.java:383) at IceInternal.ConnectionRequestHandler.sendRequest(ConnectionRequestHandler.java:36) at IceInternal.Outgoing.invoke(Outgoing.java:66) at omero.api._IMetadataDelM.loadAnnotations(_IMetadataDelM.java:260) at omero.api.IMetadataPrxHelper.loadAnnotations(IMetadataPrxHelper.java:320) at omero.api.IMetadataPrxHelper.loadAnnotations(IMetadataPrxHelper.java:292) at org.openmicroscopy.shoola.env.data.OMEROGateway.loadAnnotations(OMEROGateway.java:2739) at org.openmicroscopy.shoola.env.data.OmeroMetadataServiceImpl.loadStructuredAnnotations(OmeroMetadataServiceImpl.java:1022) at org.openmicroscopy.shoola.env.data.OmeroMetadataServiceImpl.loadStructuredData(OmeroMetadataServiceImpl.java:707) at org.openmicroscopy.shoola.env.data.OmeroMetadataServiceImpl.loadStructuredData(OmeroMetadataServiceImpl.java:811) at org.openmicroscopy.shoola.env.data.views.calls.StructuredAnnotationLoader$6.doCall(StructuredAnnotationLoader.java:211) at org.openmicroscopy.shoola.env.data.views.BatchCall.doStep(BatchCall.java:144) at org.openmicroscopy.shoola.util.concur.tasks.CompositeTask.doStep(CompositeTask.java:226) at org.openmicroscopy.shoola.env.data.views.CompositeBatchCall.doStep(CompositeBatchCall.java:126) at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.exec(ExecCommand.java:165) at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.run(ExecCommand.java:276) at org.openmicroscopy.shoola.util.concur.tasks.AsyncProcessor$Runner.run(AsyncProcessor.java:91) at java.lang.Thread.run(Thread.java:680) Caused by: java.nio.channels.ClosedByInterruptException at java.nio.channels.spi.AbstractInterruptibleChannel.end(AbstractInterruptibleChannel.java:184) at sun.nio.ch.SinkChannelImpl.write(SinkChannelImpl.java:153) at IceInternal.Selector.setInterrupt(Selector.java:343) ... 22 more Exception in thread "Thread-115"
Change History (2)
comment:1 Changed 11 years ago by jmoore
comment:2 Changed 11 years ago by jmoore
- Resolution set to fixed
- Status changed from new to closed
Closing in favor of #10116
This is the same error message in Petr's log for #10116. Linking this there.