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Task #7286 (closed)

Opened 12 years ago

Closed 12 years ago

Bug: OOM on 400 setIds from CLI importer

Reported by: jamoore Owned by: cxallan
Priority: minor Milestone: OMERO-4.4
Component: Client Version: n.a.
Keywords: n.a. Cc: bhcho@…, mlinkert, jburel, cxallan
Resources: n.a. Referenced By: n.a.
References: n.a. Remaining Time: 0.0d
Sprint: 2012-01-17 (6)

Description

OOM thrown very early during import:

Created session 0a7a9e0a-c2fa-47ae-a428-18d803c41848 (performance@localhost). Idle timeout: 10.0 min. Current group: Researchers
2011-11-19 21:00:05,783 0          [     main] INFO          ome.formats.importer.ImportConfig  - OMERO Version: Beta4.2.1-r8614-Beta4.2-b41
2011-11-19 21:00:09,166 3383      [     main] WARN                    ome.system.UpgradeCheck  - UPGRADE AVAILABLE:Please upgrade to Beta-4.3.3 See http://trac.openmicrosc$
2011-11-19 21:00:09,175 3392      [     main] INFO          ome.formats.importer.ImportConfig  - Bioformats version: 4.2.1-DEV revision: 7178 date: 9 November 2010
2011-11-19 21:00:09,187 3404      [     main] INFO   formats.importer.cli.CommandLineImporter  - Log levels -- Bio-Formats: ERROR OMERO.importer: INFO
2011-11-19 21:00:09,571 3788      [     main] INFO     ome.formats.importer.ImportCandidates  - Depth: 4 Metadata Level: MINIMUM
2011-11-19 21:00:22,475 16692      [     main] INFO     ome.formats.importer.ImportCandidates  - 400 file(s) parsed into 400 group(s) with 400 call(s) to setId in 12311ms.$
2011-11-19 21:00:22,542 16759      [     main] INFO      ome.formats.OMEROMetadataStoreClient  - Attempting initial SSL connection to localhost:4064
2011-11-19 21:00:23,226 17443      [     main] INFO      ome.formats.OMEROMetadataStoreClient  - Insecure connection requested, falling back
2011-11-19 21:00:23,258 17475      [     main] ERROR  formats.importer.cli.CommandLineImporter  - Error during import process.
java.lang.OutOfMemoryError: unable to create new native thread
        at java.lang.Thread.start0(Native Method)
        at java.lang.Thread.start(Thread.java:597)
        at IceInternal.ThreadPool.<init>(ThreadPool.java:91)
        at Ice.ObjectAdapterI.<init>(ObjectAdapterI.java:823)
        at IceInternal.ObjectAdapterFactory.createObjectAdapter(ObjectAdapterFactory.java:183)
        at Ice.CommunicatorI.createObjectAdapter(CommunicatorI.java:71)

see: https://www.openmicroscopy.org/community/viewtopic.php?f=6&t=895

Change History (2)

comment:1 Changed 12 years ago by cxallan

  • Owner set to cxallan
  • Remaining Time set to 0.1
  • Sprint set to 2012-01-17 (6)
  • Status changed from new to accepted

comment:2 Changed 12 years ago by cxallan

  • Remaining Time changed from 0.1 to 0
  • Resolution set to wontfix
  • Status changed from accepted to closed

Closing this as wontfix as it is a very old version of OMERO (4.2.1), we do not have the files in question and the exception itself java.lang.OutOfMemoryError: unable to create new native thread implies a resource starvation on the system as well.

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