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Task #5573 (closed)

Opened 13 years ago

Closed 13 years ago

Bug: Confirmation required on failed status for velocity

Reported by: saloynton Owned by: mlinkert
Priority: minor Milestone: OMERO-Beta4.3
Component: General Version: n.a.
Keywords: n.a. Cc: saloynton
Resources: n.a. Referenced By: n.a.
References: n.a. Remaining Time: n.a.
Sprint: n.a.

Description (last modified by jmoore)

I just need to confirm this fails for the right reason, the import has used 4 .mvd2 file from test images good for velocity and I get the following error message. I assume this is correct but just want to be sure.

  • Could not find data directory

The debug text is below

Change History (2)

comment:1 Changed 13 years ago by jmoore

  • Cc changed from saloynton, to saloynton
  • Description modified (diff)
  • Owner set to mlinkert-x 
2011-05-25 14:33:40,187 7653       [  Thread-6] INFO       ome.formats.OMEROMetadataStoreClient  - Attempting initial SSL connection to gretzky.openmicroscopy.org.uk:4064
2011-05-25 14:33:41,401 8867       [  Thread-6] INFO       ome.formats.OMEROMetadataStoreClient  - Insecure connection requested, falling back
2011-05-25 14:33:41,453 8919       [  Thread-6] DEBUG      ome.formats.OMEROMetadataStoreClient  - closing client session.
2011-05-25 14:33:41,467 8933       [  Thread-6] DEBUG      ome.formats.OMEROMetadataStoreClient  - client closed.
2011-05-25 14:33:41,641 9107       [ Thread-14] WARN   e.formats.importer.gui.HistoryTableStore  - History tables service Disabled.
2011-05-25 14:33:41,891 9357       [  Thread-6] DEBUG                   ome.system.UpgradeCheck  - Attempting to connect to http://upgrade.openmicroscopy.org.uk?version=4.3.0-DEV-cec267b7;os.name=Mac+OS+X;os.arch=x86_64;os.version=10.6.6;java.runtime.version=1.6.0_22-b04-307-10M3261;java.vm.vendor=Apple+Inc.
2011-05-25 14:33:44,500 11966      [  Thread-6] INFO                    ome.system.UpgradeCheck  - no update needed
2011-05-25 14:33:44,509 11975      [  Thread-6] INFO      ome.formats.importer.gui.LoginHandler  - Login successful!
2011-05-25 14:33:47,353 14819      [entQueue-0] INFO   me.formats.importer.gui.FileQueueHandler  - Scheduling candidate calculations(1)=[/Users/scott/Desktop/Tickets/OMERO folder/ascb_images/Test set of file formats/velocity/chris/25_02_08 dicty plus 1 yeast.mvd2, /Users/scott/Desktop/Tickets/OMERO folder/ascb_images/Test set of file formats/velocity/chris/25_03_08 test 2.mvd2, /Users/scott/Desktop/Tickets/OMERO folder/ascb_images/Test set of file formats/velocity/chris/25_03_08 test.mvd2, /Users/scott/Desktop/Tickets/OMERO folder/ascb_images/Test set of file formats/velocity/chris/26_03_08.mvd2]
2011-05-25 14:33:47,367 14833      [entQueue-0] INFO   me.formats.importer.gui.FileQueueHandler  - Handling import containers(1)=[/Users/scott/Desktop/Tickets/OMERO folder/ascb_images/Test set of file formats/velocity/chris/25_02_08 dicty plus 1 yeast.mvd2, /Users/scott/Desktop/Tickets/OMERO folder/ascb_images/Test set of file formats/velocity/chris/25_03_08 test 2.mvd2, /Users/scott/Desktop/Tickets/OMERO folder/ascb_images/Test set of file formats/velocity/chris/25_03_08 test.mvd2, /Users/scott/Desktop/Tickets/OMERO folder/ascb_images/Test set of file formats/velocity/chris/26_03_08.mvd2]
2011-05-25 14:34:02,316 29782      [2-thread-1] INFO     ome.formats.importer.gui.ImportHandler  - Background: Importing images
2011-05-25 14:34:02,375 29841      [2-thread-1] INFO   ormats.importer.gui.LoggingImportMonitor  - LOADING_IMAGE: 25_02_08 dicty plus 1 yeast.mvd2
2011-05-25 14:34:02,411 29877      [2-thread-1] DEBUG      ome.formats.OMEROMetadataStoreClient  - Creating root!
2011-05-25 14:34:02,415 29881      [2-thread-1] INFO   ormats.importer.gui.LoggingImportMonitor  - FILE_EXCEPTION: /Users/scott/Desktop/Tickets/OMERO folder/ascb_images/Test set of file formats/velocity/chris/25_02_08 dicty plus 1 yeast.mvd2
2011-05-25 14:34:02,425 29891      [2-thread-1] ERROR  importer.gui.ErrorHandler$MyErrorHandler  - FILE_EXCEPTION: /Users/scott/Desktop/Tickets/OMERO folder/ascb_images/Test set of file formats/velocity/chris/25_02_08 dicty plus 1 yeast.mvd2
2011-05-25 14:34:02,442 29908      [2-thread-1] DEBUG      ome.formats.OMEROMetadataStoreClient  - Creating root!
2011-05-25 14:34:02,445 29911      [2-thread-1] ERROR    ome.formats.importer.gui.ImportHandler  - Format exception while importing image.
2011-05-25 14:34:02,447 29913      [2-thread-1] INFO   ormats.importer.gui.LoggingImportMonitor  - LOADING_IMAGE: 25_03_08 test 2.mvd2
2011-05-25 14:34:02,517 29983      [2-thread-1] DEBUG      ome.formats.OMEROMetadataStoreClient  - Creating root!
2011-05-25 14:34:02,521 29987      [2-thread-1] INFO   ormats.importer.gui.LoggingImportMonitor  - FILE_EXCEPTION: /Users/scott/Desktop/Tickets/OMERO folder/ascb_images/Test set of file formats/velocity/chris/25_03_08 test 2.mvd2
2011-05-25 14:34:02,522 29988      [2-thread-1] ERROR  importer.gui.ErrorHandler$MyErrorHandler  - FILE_EXCEPTION: /Users/scott/Desktop/Tickets/OMERO folder/ascb_images/Test set of file formats/velocity/chris/25_03_08 test 2.mvd2
2011-05-25 14:34:02,523 29989      [2-thread-1] DEBUG      ome.formats.OMEROMetadataStoreClient  - Creating root!
2011-05-25 14:34:02,530 29996      [2-thread-1] ERROR    ome.formats.importer.gui.ImportHandler  - Format exception while importing image.
2011-05-25 14:34:02,532 29998      [2-thread-1] INFO   ormats.importer.gui.LoggingImportMonitor  - LOADING_IMAGE: 25_03_08 test.mvd2
2011-05-25 14:34:02,577 30043      [2-thread-1] DEBUG      ome.formats.OMEROMetadataStoreClient  - Creating root!
2011-05-25 14:34:02,588 30054      [2-thread-1] INFO   ormats.importer.gui.LoggingImportMonitor  - FILE_EXCEPTION: /Users/scott/Desktop/Tickets/OMERO folder/ascb_images/Test set of file formats/velocity/chris/25_03_08 test.mvd2
2011-05-25 14:34:02,589 30055      [2-thread-1] ERROR  importer.gui.ErrorHandler$MyErrorHandler  - FILE_EXCEPTION: /Users/scott/Desktop/Tickets/OMERO folder/ascb_images/Test set of file formats/velocity/chris/25_03_08 test.mvd2
2011-05-25 14:34:02,591 30057      [2-thread-1] DEBUG      ome.formats.OMEROMetadataStoreClient  - Creating root!
2011-05-25 14:34:02,593 30059      [2-thread-1] ERROR    ome.formats.importer.gui.ImportHandler  - Format exception while importing image.
2011-05-25 14:34:02,597 30063      [2-thread-1] INFO   ormats.importer.gui.LoggingImportMonitor  - LOADING_IMAGE: 26_03_08.mvd2
2011-05-25 14:34:02,631 30097      [2-thread-1] DEBUG      ome.formats.OMEROMetadataStoreClient  - Creating root!
2011-05-25 14:34:02,634 30100      [2-thread-1] INFO   ormats.importer.gui.LoggingImportMonitor  - FILE_EXCEPTION: /Users/scott/Desktop/Tickets/OMERO folder/ascb_images/Test set of file formats/velocity/chris/26_03_08.mvd2
2011-05-25 14:34:02,636 30102      [2-thread-1] ERROR  importer.gui.ErrorHandler$MyErrorHandler  - FILE_EXCEPTION: /Users/scott/Desktop/Tickets/OMERO folder/ascb_images/Test set of file formats/velocity/chris/26_03_08.mvd2
2011-05-25 14:34:02,637 30103      [2-thread-1] DEBUG      ome.formats.OMEROMetadataStoreClient  - Creating root!
2011-05-25 14:34:02,648 30114      [2-thread-1] ERROR    ome.formats.importer.gui.ImportHandler  - Format exception while importing image.
2011-05-25 14:34:41,691 69157      [3-thread-1] DEBUG      ome.formats.OMEROMetadataStoreClient  - KeepAlive ping.
2011-05-25 14:35:41,732 129198     [3-thread-1] DEBUG      ome.formats.OMEROMetadataStoreClient  - KeepAlive ping.
2011-05-25 14:36:41,773 189239     [3-thread-1] DEBUG      ome.formats.OMEROMetadataStoreClient  - KeepAlive ping.
2011-05-25 14:37:41,831 249297     [3-thread-1] DEBUG      ome.formats.OMEROMetadataStoreClient  - KeepAlive ping.
2011-05-25 14:38:41,890 309356     [3-thread-1] DEBUG      ome.formats.OMEROMetadataStoreClient  - KeepAlive ping.
2011-05-25 14:39:41,931 369397     [3-thread-1] DEBUG      ome.formats.OMEROMetadataStoreClient  - KeepAlive ping.

comment:2 Changed 13 years ago by mlinkert

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

Yes, it's expected that those four files will fail to import - RFE filed to have them removed: #5380.

You should be able to import the ones in test_images_good/velocity/chris/Fig 4/ and test_images_good/velocity/chris/Fig 5/, though. If those don't import, it's definitely a problem.

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