[ome-users] Fiji error - opening certain .czi files
Domínguez Conde Cecilia
Cecilia.DominguezConde at rud.lbg.ac.at
Wed Aug 31 09:29:58 BST 2016
Dear all,
I want to report an error in Fiji when trying to open certain .czi files (I tried uploading a 62MB file to your QA system but did not succeed, let me know if I should send it via FTP server, although from the size QA should have worked).
Error message below.
Looking forward to your feedback and thank you in advance,
Cecilia
ERROR MESSAGE:
[ERROR] Exception during event handling:
[Event] org.scijava.platform.event.AppOpenFilesEvent
context = org.scijava.Context at 4a0de467
consumed = false
[Subscriber] net.imagej.legacy.IJ1Helper$LegacyEventDelegator at 7ba63fe5
[Method] private void net.imagej.legacy.IJ1Helper$LegacyEventDelegator.onEvent(org.scijava.platform.event.AppOpenFilesEvent)
java.lang.IllegalArgumentException: Invalid C index: 1/1
at loci.formats.FormatTools.getIndex(FormatTools.java:413)
at loci.formats.FormatTools.getIndex(FormatTools.java:340)
at loci.formats.FormatReader.getIndex(FormatReader.java:1113)
at loci.formats.in.ZeissCZIReader.assignPlaneIndices(ZeissCZIReader.java:1296)
at loci.formats.in.ZeissCZIReader.initFile(ZeissCZIReader.java:773)
at loci.formats.FormatReader.setId(FormatReader.java:1426)
at loci.plugins.in.ImportProcess.initializeFile(ImportProcess.java:505)
at loci.plugins.in.ImportProcess.execute(ImportProcess.java:143)
at loci.plugins.in.Importer.showDialogs(Importer.java:140)
at loci.plugins.in.Importer.run(Importer.java:76)
at loci.plugins.LociImporter.run(LociImporter.java:78)
at ij.IJ.runUserPlugIn(IJ.java:217)
at ij.IJ.runPlugIn(IJ.java:181)
at ij.IJ.runPlugIn(IJ.java:170)
at HandleExtraFileTypes.openImage(HandleExtraFileTypes.java:499)
at HandleExtraFileTypes.run(HandleExtraFileTypes.java:72)
at ij.IJ.runUserPlugIn(IJ.java:217)
at ij.IJ.runPlugIn(IJ.java:181)
at ij.IJ.runPlugIn(IJ.java:170)
at ij.io.Opener.openWithHandleExtraFileTypes(Opener.java:515)
at ij.io.Opener.openImage(Opener.java:369)
at ij.io.Opener.openImage(Opener.java:243)
at ij.io.Opener.open(Opener.java:110)
at ij.io.Opener.openAndAddToRecent(Opener.java:292)
at net.imagej.legacy.IJ1Helper.openAndAddToRecent(IJ1Helper.java:465)
at net.imagej.legacy.IJ1Helper$LegacyEventDelegator.onEvent(IJ1Helper.java:591)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:498)
at org.scijava.event.DefaultEventService$ProxySubscriber.onEvent(DefaultEventService.java:302)
at org.scijava.event.DefaultEventService$ProxySubscriber.onEvent(DefaultEventService.java:276)
at org.bushe.swing.event.ThreadSafeEventService.publish(ThreadSafeEventService.java:971)
at org.scijava.event.DefaultEventBus.access$101(DefaultEventBus.java:56)
at org.scijava.event.DefaultEventBus$1.run(DefaultEventBus.java:190)
at org.scijava.thread.DefaultThreadService.invoke(DefaultThreadService.java:107)
at org.scijava.event.DefaultEventBus.publishNow(DefaultEventBus.java:184)
at org.scijava.event.DefaultEventBus.publishNow(DefaultEventBus.java:75)
at org.scijava.event.DefaultEventService.publish(DefaultEventService.java:104)
at org.scijava.plugins.platforms.osx.OSXAppEventDispatcher.openFiles(OSXAppEventDispatcher.java:205)
at com.apple.eawt._AppEventHandler$_OpenFileDispatcher.performUsing(_AppEventHandler.java:361)
at com.apple.eawt._AppEventHandler$_OpenFileDispatcher.performUsing(_AppEventHandler.java:352)
at com.apple.eawt._AppEventHandler$_AppEventDispatcher$1.run(_AppEventHandler.java:516)
at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:311)
at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:756)
at java.awt.EventQueue.access$500(EventQueue.java:97)
at java.awt.EventQueue$3.run(EventQueue.java:709)
at java.awt.EventQueue$3.run(EventQueue.java:703)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:76)
at java.awt.EventQueue.dispatchEvent(EventQueue.java:726)
at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:201)
at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:116)
at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:105)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:93)
at java.awt.EventDispatchThread.run(EventDispatchThread.java:82)
[ERROR] Exception during event handling:
[Event] org.scijava.platform.event.AppOpenFilesEvent
context = org.scijava.Context at 4a0de467
consumed = false
[Subscriber] net.imagej.legacy.IJ1Helper$LegacyEventDelegator at 7ba63fe5
[Method] private void net.imagej.legacy.IJ1Helper$LegacyEventDelegator.onEvent(org.scijava.platform.event.AppOpenFilesEvent)
java.lang.IllegalArgumentException: Invalid C index: 1/1
at loci.formats.FormatTools.getIndex(FormatTools.java:413)
at loci.formats.FormatTools.getIndex(FormatTools.java:340)
at loci.formats.FormatReader.getIndex(FormatReader.java:1113)
at loci.formats.in.ZeissCZIReader.assignPlaneIndices(ZeissCZIReader.java:1296)
at loci.formats.in.ZeissCZIReader.initFile(ZeissCZIReader.java:773)
at loci.formats.FormatReader.setId(FormatReader.java:1426)
at loci.plugins.in.ImportProcess.initializeFile(ImportProcess.java:505)
at loci.plugins.in.ImportProcess.execute(ImportProcess.java:143)
at loci.plugins.in.Importer.showDialogs(Importer.java:140)
at loci.plugins.in.Importer.run(Importer.java:76)
at loci.plugins.LociImporter.run(LociImporter.java:78)
at ij.IJ.runUserPlugIn(IJ.java:217)
at ij.IJ.runPlugIn(IJ.java:181)
at ij.IJ.runPlugIn(IJ.java:170)
at HandleExtraFileTypes.openImage(HandleExtraFileTypes.java:499)
at HandleExtraFileTypes.run(HandleExtraFileTypes.java:72)
at ij.IJ.runUserPlugIn(IJ.java:217)
at ij.IJ.runPlugIn(IJ.java:181)
at ij.IJ.runPlugIn(IJ.java:170)
at ij.io.Opener.openWithHandleExtraFileTypes(Opener.java:515)
at ij.io.Opener.openImage(Opener.java:369)
at ij.io.Opener.openImage(Opener.java:243)
at ij.io.Opener.open(Opener.java:110)
at ij.io.Opener.openAndAddToRecent(Opener.java:292)
at net.imagej.legacy.IJ1Helper.openAndAddToRecent(IJ1Helper.java:465)
at net.imagej.legacy.IJ1Helper$LegacyEventDelegator.onEvent(IJ1Helper.java:591)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:498)
at org.scijava.event.DefaultEventService$ProxySubscriber.onEvent(DefaultEventService.java:302)
at org.scijava.event.DefaultEventService$ProxySubscriber.onEvent(DefaultEventService.java:276)
at org.bushe.swing.event.ThreadSafeEventService.publish(ThreadSafeEventService.java:971)
at org.scijava.event.DefaultEventBus.access$101(DefaultEventBus.java:56)
at org.scijava.event.DefaultEventBus$1.run(DefaultEventBus.java:190)
at org.scijava.thread.DefaultThreadService.invoke(DefaultThreadService.java:107)
at org.scijava.event.DefaultEventBus.publishNow(DefaultEventBus.java:184)
at org.scijava.event.DefaultEventBus.publishNow(DefaultEventBus.java:75)
at org.scijava.event.DefaultEventService.publish(DefaultEventService.java:104)
at org.scijava.plugins.platforms.osx.OSXAppEventDispatcher.openFiles(OSXAppEventDispatcher.java:205)
at com.apple.eawt._AppEventHandler$_OpenFileDispatcher.performUsing(_AppEventHandler.java:361)
at com.apple.eawt._AppEventHandler$_OpenFileDispatcher.performUsing(_AppEventHandler.java:352)
at com.apple.eawt._AppEventHandler$_AppEventDispatcher$1.run(_AppEventHandler.java:516)
at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:311)
at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:756)
at java.awt.EventQueue.access$500(EventQueue.java:97)
at java.awt.EventQueue$3.run(EventQueue.java:709)
at java.awt.EventQueue$3.run(EventQueue.java:703)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:76)
at java.awt.EventQueue.dispatchEvent(EventQueue.java:726)
at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:201)
at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:116)
at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:105)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:93)
at java.awt.EventDispatchThread.run(EventDispatchThread.java:82)
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