Bug: View during Big image import

[wmoore]

Importing this file from_skyking\leica-lif\chris\free edge 6.lif (16 images) with the Importer, tried browsing the dataset and thumbnails in web after the first image had 'stored pixels'.

Importer error

2011-05-30 09:37:52,695 838209     [2-thread-1] DEBUG        ome.formats.importer.ImportLibrary  - Plane:3 X:512 Y:1024 TileWidth:256 TileHeight:16 arrayBuf.length:4096
2011-05-30 09:37:52,755 838269     [2-thread-1] DEBUG        ome.formats.importer.ImportLibrary  - Plane:3 X:768 Y:1024 TileWidth:256 TileHeight:16 arrayBuf.length:4096
2011-05-30 09:37:52,830 838344     [2-thread-1] DEBUG        ome.formats.importer.ImportLibrary  - Plane:3 X:1024 Y:1024 TileWidth:256 TileHeight:16 arrayBuf.length:4096
2011-05-30 09:37:52,890 838404     [2-thread-1] DEBUG        ome.formats.importer.ImportLibrary  - Plane:3 X:1280 Y:1024 TileWidth:112 TileHeight:16 arrayBuf.length:1792
2011-05-30 09:37:52,982 838496     [2-thread-1] INFO   ormats.importer.gui.LoggingImportMonitor  - IMPORT_STEP Image: 4 Series: 3 Total Series: 16
2011-05-30 09:37:52,984 838498     [2-thread-1] INFO   ormats.importer.gui.LoggingImportMonitor  - DATA_STORED
2011-05-30 09:37:52,987 838501     [2-thread-1] INFO   ormats.importer.gui.LoggingImportMonitor  - DATASET_STORED
2011-05-30 09:37:54,043 839557     [2-thread-1] INFO   ormats.importer.gui.LoggingImportMonitor  - INTERNAL_EXCEPTION: /Users/will/Documents/biology-data/Test-Import-Images/Leica  LIF/chris/free edge 6.lif
omero.ResourceError
    serverStackTrace = "ome.conditions.ResourceError: FormatException: c:\OMERO\Pixels\795_pyramid
                        Invalid TIFF file
                        	at ome.io.bioformats.BfPixelBuffer.reader(BfPixelBuffer.java:72)
                        	at ome.io.bioformats.BfPixelBuffer.getTileSize(BfPixelBuffer.java:483)
                        	at ome.io.bioformats.BfPyramidPixelBuffer.getTileSize(BfPyramidPixelBuffer.java:1156)
                        	at ome.services.RawPixelsBean.getTileSize(RawPixelsBean.java:698)
                        	at sun.reflect.GeneratedMethodAccessor1253.invoke(Unknown Source)
                        	at sun.reflect.DelegatingMethodAccessorImpl.invoke(Unknown Source)
                        	at java.lang.reflect.Method.invoke(Unknown Source)
                        	at org.springframework.aop.support.AopUtils.invokeJoinpointUsingReflection(AopUtils.java:307)
                        	at org.springframework.aop.framework.ReflectiveMethodInvocation.invokeJoinpoint(ReflectiveMethodInvocation.java:183)
                        	at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:150)
                        	at ome.security.basic.EventHandler.invoke(EventHandler.java:150)
                        	at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
                        	at ome.tools.hibernate.SessionHandler.doStateful(SessionHandler.java:182)
                        	at ome.tools.hibernate.SessionHandler.invoke(SessionHandler.java:166)
                        	at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
                        	at org.springframework.transaction.interceptor.TransactionInterceptor.invoke(TransactionInterceptor.java:108)
                        	at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
                        	at ome.tools.hibernate.ProxyCleanupFilter$Interceptor.invoke(ProxyCleanupFilter.java:231)
                        	at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
                        	at ome.services.util.ServiceHandler.invoke(ServiceHandler.java:111)
                        	at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
                        	at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:202)
                        	at $Proxy85.getTileSize(Unknown Source)
                        	at sun.reflect.GeneratedMethodAccessor1253.invoke(Unknown Source)
                        	at sun.reflect.DelegatingMethodAccessorImpl.invoke(Unknown Source)
                        	at java.lang.reflect.Method.invoke(Unknown Source)
                        	at org.springframework.aop.support.AopUtils.invokeJoinpointUsingReflection(AopUtils.java:307)
                        	at org.springframework.aop.framework.ReflectiveMethodInvocation.invokeJoinpoint(ReflectiveMethodInvocation.java:183)
                        	at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:150)
                        	at ome.security.basic.BasicSecurityWiring.invoke(BasicSecurityWiring.java:83)
                        	at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
                        	at ome.services.blitz.fire.AopContextInitializer.invoke(AopContextInitializer.java:43)
                        	at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
                        	at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:202)
                        	at $Proxy85.getTileSize(Unknown Source)
                        	at sun.reflect.GeneratedMethodAccessor1297.invoke(Unknown Source)
                        	at sun.reflect.DelegatingMethodAccessorImpl.invoke(Unknown Source)
                        	at java.lang.reflect.Method.invoke(Unknown Source)
                        	at ome.services.blitz.util.IceMethodInvoker.invoke(IceMethodInvoker.java:179)
                        	at ome.services.throttling.Callback.run(Callback.java:56)
                        	at ome.services.throttling.InThreadThrottlingStrategy.callInvokerOnRawArgs(InThreadThrottlingStrategy.java:56)
                        	at ome.services.blitz.impl.AbstractAmdServant.callInvokerOnRawArgs(AbstractAmdServant.java:136)
                        	at ome.services.blitz.impl.AbstractPyramidServant.getTileSize_async(AbstractPyramidServant.java:53)
                        	at omero.api._RawPixelsStoreTie.getTileSize_async(_RawPixelsStoreTie.java:78)
                        	at omero.api._PyramidServiceDisp.___getTileSize(_PyramidServiceDisp.java:216)
                        	at omero.api._RawPixelsStoreDisp.__dispatch(_RawPixelsStoreDisp.java:1237)
                        	at IceInternal.Incoming.invoke(Incoming.java:159)
                        	at Ice.ConnectionI.invokeAll(ConnectionI.java:2037)
                        	at Ice.ConnectionI.message(ConnectionI.java:972)
                        	at IceInternal.ThreadPool.run(ThreadPool.java:577)
                        	at IceInternal.ThreadPool.access$100(ThreadPool.java:12)
                        	at IceInternal.ThreadPool$EventHandlerThread.run(ThreadPool.java:971)
                        "
    serverExceptionClass = "ome.conditions.ResourceError"
    message = "FormatException: c:\OMERO\Pixels\795_pyramid
               Invalid TIFF file"
	at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method)
	at sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:39)
	at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:27)
	at java.lang.reflect.Constructor.newInstance(Constructor.java:513)
	at java.lang.Class.newInstance0(Class.java:355)
	at java.lang.Class.newInstance(Class.java:308)
	at IceInternal.BasicStream$DynamicUserExceptionFactory.createAndThrow(BasicStream.java:2243)
	at IceInternal.BasicStream.throwException(BasicStream.java:1632)
	at IceInternal.Outgoing.throwUserException(Outgoing.java:442)
	at omero.api._RawPixelsStoreDelM.getTileSize(_RawPixelsStoreDelM.java:119)
	at omero.api.RawPixelsStorePrxHelper.getTileSize(RawPixelsStorePrxHelper.java:184)
	at omero.api.RawPixelsStorePrxHelper.getTileSize(RawPixelsStorePrxHelper.java:156)
	at ome.formats.OMEROMetadataStoreClient.getTileSize(OMEROMetadataStoreClient.java:2465)
	at ome.formats.importer.ImportLibrary.importData(ImportLibrary.java:700)
	at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:488)
	at ome.formats.importer.gui.ImportHandler.importImages(ImportHandler.java:216)
	at ome.formats.importer.gui.ImportHandler.access$100(ImportHandler.java:59)
	at ome.formats.importer.gui.ImportHandler$2.run(ImportHandler.java:134)
	at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:441)
	at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:303)
	at java.util.concurrent.FutureTask.run(FutureTask.java:138)
	at java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.access$301(ScheduledThreadPoolExecutor.java:98)
	at java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.run(ScheduledThreadPoolExecutor.java:207)
	at java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:886)
	at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:908)
	at java.lang.Thread.run(Thread.java:637)

2011-05-30 09:37:54,051 839565     [2-thread-1] ERROR      ome.formats.importer.gui.GuiImporter  - EXCEPTION_EVENT