Task #6621 (new)
Opened 13 years ago
Last modified 13 years ago
BUG: Trestle Images not displaying fully — at Version 2
| Reported by: | sylittlewood | Owned by: | mlinkert |
|---|---|---|---|
| Priority: | major | Milestone: | OMERO-Beta4.3.2 |
| Component: | General | 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 (last modified by mlinkert)
IN testing Trestle Image import the images are reported as being imported successfully but after processing has occurred on the server the images do not render properly.
This has been verified by running the import test for these images twice.
The images failing are as below with the following error in insight logs.
/Volumes/ome/data_repo/test_images_good/trestle/openslide
CMU-2.tif [Series 1]
CMU-3.tif [Series 1]
Series 2-8 of these images work okay.
Judging by the composition of CMU-1 images after import I believe that these are the highest resolution images of the series.
Change History (2)
comment:1 Changed 13 years ago by sylittlewood
- Summary changed from BUG: Trestle Images nto displaying fully to BUG: Trestle Images not displaying fully
comment:2 Changed 13 years ago by mlinkert
- Description modified (diff)
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Just moving the stack trace so that the ticket can be viewed in Firefox:
java.lang.Exception: org.openmicroscopy.shoola.env.rnd.RenderingServiceException: RenderImage at org.openmicroscopy.shoola.env.data.OmeroImageServiceImpl.renderImage(OmeroImageServiceImpl.java:466) at org.openmicroscopy.shoola.env.data.views.calls.ImageRenderer$1.doCall(ImageRenderer.java:83) at org.openmicroscopy.shoola.env.data.views.BatchCall.doStep(BatchCall.java:144) at org.openmicroscopy.shoola.util.concur.tasks.CompositeTask.doStep(CompositeTask.java:226) at org.openmicroscopy.shoola.env.data.views.CompositeBatchCall.doStep(CompositeBatchCall.java:126) at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.exec(ExecCommand.java:165) at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.run(ExecCommand.java:274) at org.openmicroscopy.shoola.util.concur.tasks.AsyncProcessor$Runner.run(AsyncProcessor.java:91) at java.lang.Thread.run(Thread.java:680) Caused by: org.openmicroscopy.shoola.env.rnd.RenderingServiceException: An error occurred while trying to set the cannot render the plane. omero.InternalException serverStackTrace = "ome.conditions.InternalException: Wrapped Exception: (java.lang.NegativeArraySizeException): null at omeis.providers.re.RGBIntBuffer.<init>(RGBIntBuffer.java:69) at omeis.providers.re.RenderingStrategy.getIntBuffer(RenderingStrategy.java:188) at omeis.providers.re.HSBStrategy.renderAsPackedInt(HSBStrategy.java:274) at omeis.providers.re.Renderer.renderAsPackedInt(Renderer.java:511) at ome.services.RenderingBean.renderAsPackedInt(RenderingBean.java:478) at sun.reflect.GeneratedMethodAccessor1039.invoke(Unknown Source) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25) at java.lang.reflect.Method.invoke(Method.java:597) 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.services.util.ServiceHandler.invoke(ServiceHandler.java:116) at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172) at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:202) at $Proxy86.renderAsPackedInt(Unknown Source) at sun.reflect.GeneratedMethodAccessor1039.invoke(Unknown Source) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25) at java.lang.reflect.Method.invoke(Method.java:597) 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 $Proxy86.renderAsPackedInt(Unknown Source) at sun.reflect.GeneratedMethodAccessor1040.invoke(Unknown Source) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25) at java.lang.reflect.Method.invoke(Method.java:597) 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.RenderingEngineI.renderAsPackedInt_async(RenderingEngineI.java:332) at omero.api._RenderingEngineTie.renderAsPackedInt_async(_RenderingEngineTie.java:288) at omero.api._RenderingEngineDisp.___renderAsPackedInt(_RenderingEngineDisp.java:502) at omero.api._RenderingEngineDisp.__dispatch(_RenderingEngineDisp.java:1680) 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.InternalException" message = " Wrapped Exception: (java.lang.NegativeArraySizeException): null" 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._RenderingEngineDelM.renderAsPackedInt(_RenderingEngineDelM.java:1582) at omero.api.RenderingEnginePrxHelper.renderAsPackedInt(RenderingEnginePrxHelper.java:2230) at omero.api.RenderingEnginePrxHelper.renderAsPackedInt(RenderingEnginePrxHelper.java:2202) at org.openmicroscopy.shoola.env.rnd.RenderingControlProxy.renderUncompressed(RenderingControlProxy.java:545) at org.openmicroscopy.shoola.env.rnd.RenderingControlProxy.render(RenderingControlProxy.java:1547) at org.openmicroscopy.shoola.env.rnd.RenderingControlProxy.render(RenderingControlProxy.java:1531) at org.openmicroscopy.shoola.env.rnd.PixelsServicesFactory.render(PixelsServicesFactory.java:483) at org.openmicroscopy.shoola.env.data.OmeroImageServiceImpl.renderImage(OmeroImageServiceImpl.java:445) at org.openmicroscopy.shoola.env.data.views.calls.ImageRenderer$1.doCall(ImageRenderer.java:83) at org.openmicroscopy.shoola.env.data.views.BatchCall.doStep(BatchCall.java:144) at org.openmicroscopy.shoola.util.concur.tasks.CompositeTask.doStep(CompositeTask.java:226) at org.openmicroscopy.shoola.env.data.views.CompositeBatchCall.doStep(CompositeBatchCall.java:126) at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.exec(ExecCommand.java:165) at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.run(ExecCommand.java:274) at org.openmicroscopy.shoola.util.concur.tasks.AsyncProcessor$Runner.run(AsyncProcessor.java:91) at java.lang.Thread.run(Thread.java:680) at org.openmicroscopy.shoola.env.rnd.RenderingControlProxy.handleException(RenderingControlProxy.java:222) at org.openmicroscopy.shoola.env.rnd.RenderingControlProxy.renderUncompressed(RenderingControlProxy.java:552) at org.openmicroscopy.shoola.env.rnd.RenderingControlProxy.render(RenderingControlProxy.java:1547) at org.openmicroscopy.shoola.env.rnd.RenderingControlProxy.render(RenderingControlProxy.java:1531) at org.openmicroscopy.shoola.env.rnd.PixelsServicesFactory.render(PixelsServicesFactory.java:483) at org.openmicroscopy.shoola.env.data.OmeroImageServiceImpl.renderImage(OmeroImageServiceImpl.java:445) ... 8 more Caused by: omero.InternalException serverStackTrace = "ome.conditions.InternalException: Wrapped Exception: (java.lang.NegativeArraySizeException): null at omeis.providers.re.RGBIntBuffer.<init>(RGBIntBuffer.java:69) at omeis.providers.re.RenderingStrategy.getIntBuffer(RenderingStrategy.java:188) at omeis.providers.re.HSBStrategy.renderAsPackedInt(HSBStrategy.java:274) at omeis.providers.re.Renderer.renderAsPackedInt(Renderer.java:511) at ome.services.RenderingBean.renderAsPackedInt(RenderingBean.java:478) at sun.reflect.GeneratedMethodAccessor1039.invoke(Unknown Source) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25) at java.lang.reflect.Method.invoke(Method.java:597) 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.services.util.ServiceHandler.invoke(ServiceHandler.java:116) at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172) at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:202) at $Proxy86.renderAsPackedInt(Unknown Source) at sun.reflect.GeneratedMethodAccessor1039.invoke(Unknown Source) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25) at java.lang.reflect.Method.invoke(Method.java:597) 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 $Proxy86.renderAsPackedInt(Unknown Source) at sun.reflect.GeneratedMethodAccessor1040.invoke(Unknown Source) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25) at java.lang.reflect.Method.invoke(Method.java:597) 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.RenderingEngineI.renderAsPackedInt_async(RenderingEngineI.java:332) at omero.api._RenderingEngineTie.renderAsPackedInt_async(_RenderingEngineTie.java:288) at omero.api._RenderingEngineDisp.___renderAsPackedInt(_RenderingEngineDisp.java:502) at omero.api._RenderingEngineDisp.__dispatch(_RenderingEngineDisp.java:1680) 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.InternalException" message = " Wrapped Exception: (java.lang.NegativeArraySizeException): null" 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._RenderingEngineDelM.renderAsPackedInt(_RenderingEngineDelM.java:1582) at omero.api.RenderingEnginePrxHelper.renderAsPackedInt(RenderingEnginePrxHelper.java:2230) at omero.api.RenderingEnginePrxHelper.renderAsPackedInt(RenderingEnginePrxHelper.java:2202) at org.openmicroscopy.shoola.env.rnd.RenderingControlProxy.renderUncompressed(RenderingControlProxy.java:545) ... 12 more at org.openmicroscopy.shoola.env.ui.UserNotifierImpl.showErrorDialog(UserNotifierImpl.java:183) at org.openmicroscopy.shoola.env.ui.UserNotifierImpl.notifyError(UserNotifierImpl.java:272) at org.openmicroscopy.shoola.env.ui.UserNotifierImpl.notifyError(UserNotifierImpl.java:242) at org.openmicroscopy.shoola.agents.imviewer.DataLoader.handleException(DataLoader.java:158) at org.openmicroscopy.shoola.env.data.events.DSCallAdapter.eventFired(DSCallAdapter.java:84) at org.openmicroscopy.shoola.env.data.views.BatchCallMonitor$1.run(BatchCallMonitor.java:124) at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209) at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:677) at java.awt.EventQueue.access$000(EventQueue.java:85) at java.awt.EventQueue$1.run(EventQueue.java:638) at java.awt.EventQueue$1.run(EventQueue.java:636) at java.security.AccessController.doPrivileged(Native Method) at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:87) at java.awt.EventQueue.dispatchEvent(EventQueue.java:647) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:211) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:205) at java.awt.Dialog$1.run(Dialog.java:1046) at java.awt.Dialog$3.run(Dialog.java:1098) at java.security.AccessController.doPrivileged(Native Method) at java.awt.Dialog.show(Dialog.java:1096) at java.awt.Component.show(Component.java:1584) at java.awt.Component.setVisible(Component.java:1536) at java.awt.Window.setVisible(Window.java:842) at java.awt.Dialog.setVisible(Dialog.java:986) at org.openmicroscopy.shoola.util.ui.UIUtilities.centerAndShow(UIUtilities.java:561) at org.openmicroscopy.shoola.agents.imviewer.view.ImViewerControl.stateChanged(ImViewerControl.java:895) at org.openmicroscopy.shoola.util.ui.component.AbstractComponent.fireStateChange(AbstractComponent.java:103) at org.openmicroscopy.shoola.agents.imviewer.view.ImViewerComponent.renderXYPlane(ImViewerComponent.java:1081) at org.openmicroscopy.shoola.agents.imviewer.view.ImViewerComponent.onRndLoaded(ImViewerComponent.java:2837) at org.openmicroscopy.shoola.agents.imviewer.view.ImViewerControl.propertyChange(ImViewerControl.java:968) at org.openmicroscopy.shoola.util.ui.component.AbstractComponent.firePropertyChange(AbstractComponent.java:147) at org.openmicroscopy.shoola.agents.metadata.view.MetadataViewerComponent.onRndLoaded(MetadataViewerComponent.java:846) at org.openmicroscopy.shoola.agents.metadata.editor.EditorModel.onRndLoaded(EditorModel.java:2243) at org.openmicroscopy.shoola.agents.metadata.editor.EditorComponent.setRenderingControl(EditorComponent.java:602) at org.openmicroscopy.shoola.agents.metadata.RenderingControlLoader.handleResult(RenderingControlLoader.java:163) at org.openmicroscopy.shoola.env.data.events.DSCallAdapter.eventFired(DSCallAdapter.java:90) at org.openmicroscopy.shoola.env.data.views.BatchCallMonitor$1.run(BatchCallMonitor.java:124) at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209) at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:677) at java.awt.EventQueue.access$000(EventQueue.java:85) at java.awt.EventQueue$1.run(EventQueue.java:638) at java.awt.EventQueue$1.run(EventQueue.java:636) at java.security.AccessController.doPrivileged(Native Method) at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:87) at java.awt.EventQueue.dispatchEvent(EventQueue.java:647) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:296) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:211) at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:201) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:196) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:188) at java.awt.EventDispatchThread.run(EventDispatchThread.java:122)