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  1. 2018-08-18T16:50:16.723857 tid5408 [IFO,LogManager] Enabled primary log file C:\Program Files\Micro-Manager-2.0gamma\CoreLogs\CoreLog20180818T165016_pid1028.txt
  2. 2018-08-18T16:50:16.723857 tid5408 [IFO,App] User: peter
  3. 2018-08-18T16:50:16.723857 tid5408 [IFO,App] Host: Neptune
  4. 2018-08-18T16:50:16.723857 tid5408 [IFO,App] MM Studio version: 2.0.0-gamma1 20180803
  5. 2018-08-18T16:50:16.723857 tid5408 [IFO,App] MMCore version 8.7.1
  6. 2018-08-18T16:50:16.723857 tid5408 [IFO,App] Device API version 69, Module API version 10
  7. 2018-08-18T16:50:16.723857 tid5408 [IFO,App] Operating System: Windows 10 (amd64) 10.0
  8. 2018-08-18T16:50:16.723857 tid5408 [IFO,App] JVM: Java HotSpot(TM) 64-Bit Server VM, version 1.8.0_152, 64-bit
  9. 2018-08-18T16:50:16.726856 tid5408 [IFO,App] EDTHangLogger: Started monitoring of EDT hangs
  10. [ ] [heartbeat timeout = 4500 ms, hang check interval = 1000 ms]
  11. 2018-08-18T16:50:16.743846 tid6132 [IFO,App] Searching for plugins in C:\Program Files\Micro-Manager-2.0gamma/mmplugins
  12. 2018-08-18T16:50:16.895759 tid6132 [IFO,App] Found plugin org.micromanager.acquiremultipleregions.AcquireMultipleRegions@33841c7c
  13. 2018-08-18T16:50:16.898757 tid6132 [IFO,App] Found plugin org.micromanager.asidispim.ASIdiSPIM@323e4af
  14. 2018-08-18T16:50:16.899757 tid6132 [IFO,App] Found plugin ch.epfl.leb.autolase.AutoLasePlugin@605dd817
  15. 2018-08-18T16:50:16.899757 tid6132 [IFO,App] Found plugin org.micromanager.CRISP.CRISP@1bdf5f80
  16. 2018-08-18T16:50:16.900756 tid6132 [IFO,App] Found plugin com.asiimaging.CRISPv2.ASI_CRISP_V2@6e327f1
  17. 2018-08-18T16:50:16.900756 tid6132 [IFO,App] Found plugin org.micromanager.duplicator.DuplicatorPlugin@67214bf2
  18. 2018-08-18T16:50:16.901756 tid6132 [IFO,App] Found plugin org.micromanager.plugins.framecombiner.FrameCombinerPlugin@23600cba
  19. 2018-08-18T16:50:16.901756 tid6132 [IFO,App] Found plugin GaussianTrack_@2c07464d
  20. 2018-08-18T16:50:16.901756 tid6132 [IFO,App] Found plugin org.micromanager.hcs.HCSPlugin@6996db1f
  21. 2018-08-18T16:50:16.902755 tid6132 [IFO,App] Found plugin org.micromanager.imageflipper.FlipperPlugin@6aa4d983
  22. 2018-08-18T16:50:16.902755 tid6132 [IFO,App] Found plugin org.micromanager.intelligentacquisition.IntelligentAcquisition@3bbc92c2
  23. 2018-08-18T16:50:16.902755 tid6132 [IFO,App] Found plugin edu.ucsf.valelab.mmclearvolumeplugin.CVPlugin@642df889
  24. 2018-08-18T16:50:16.902755 tid6132 [IFO,App] Found plugin edu.ucsf.valelab.mmclearvolumeplugin.CVInspectorPanelPlugin@1fc6ff08
  25. 2018-08-18T16:50:16.903754 tid6132 [IFO,App] Found plugin com.imaging100x.tracker.TrackerPlugin@14a4b5c9
  26. 2018-08-18T16:50:16.903754 tid6132 [IFO,App] Found plugin org.micromanager.multicamera.MultiCamera@273c0bd4
  27. 2018-08-18T16:50:16.903754 tid6132 [IFO,App] Found plugin org.micromanager.multichannelshading.MultiChannelShading@7d2fe952
  28. 2018-08-18T16:50:16.904753 tid6132 [IFO,App] Found plugin edu.umassmed.pgfocus.pgFocus@23274f2c
  29. 2018-08-18T16:50:16.904753 tid6132 [IFO,App] Found plugin org.micromanager.pipelinesaver.SaverPlugin@21c04763
  30. 2018-08-18T16:50:16.904753 tid6132 [IFO,App] Found plugin org.micromanager.projector.ProjectorPlugin@3f5d376c
  31. 2018-08-18T16:50:16.904753 tid6132 [IFO,App] Found plugin org.micromanager.ptctools.PtcTools@4ff966d6
  32. 2018-08-18T16:50:16.904753 tid6132 [IFO,App] Found plugin org.micromanager.ratioimaging.RatioImaging@563e0e2a
  33. 2018-08-18T16:50:16.906752 tid6132 [IFO,App] Found plugin org.micromanager.recall.RecallPlugin@1da8b02c
  34. 2018-08-18T16:50:16.906752 tid6132 [IFO,App] Found plugin org.micromanager.plugins.sequencebuffermonitor.SequenceBufferMonitor@3c40a5ed
  35. 2018-08-18T16:50:16.906752 tid6132 [IFO,App] Found plugin org.micromanager.slideexplorer.SlideExplorerPlugin@5b88b2a6
  36. 2018-08-18T16:50:16.906752 tid6132 [IFO,App] Found plugin org.micromanager.plugins.snaponmove.SnapOnMovePlugin@57ca4bd4
  37. 2018-08-18T16:50:16.906752 tid6132 [IFO,App] Found plugin org.micromanager.splitview.SplitView@f3ba8d1
  38. 2018-08-18T16:50:16.906752 tid6132 [IFO,App] Found plugin PMQI.AutoWB@36ed0b16
  39. 2018-08-18T16:50:16.906752 tid6132 [IFO,App] Found plugin org.micromanager.zprojector.ZProjectorPlugin@286e82ef
  40. 2018-08-18T16:50:16.906752 tid6132 [IFO,App] Searching for plugins in C:\Program Files\Micro-Manager-2.0gamma/mmautofocus
  41. 2018-08-18T16:50:16.924742 tid6132 [IFO,App] Found plugin org.micromanager.autofocus.HardwareFocusExtender@edab02b
  42. 2018-08-18T16:50:16.927740 tid6132 [IFO,App] Found plugin org.micromanager.autofocus.Autofocus@43a0368f
  43. 2018-08-18T16:50:16.927740 tid6132 [IFO,App] Found plugin org.micromanager.autofocus.AutofocusDuo@5a9763a2
  44. 2018-08-18T16:50:16.929739 tid6132 [IFO,App] Found plugin org.micromanager.autofocus.AutofocusTB@3af56995
  45. 2018-08-18T16:50:16.932738 tid6132 [IFO,App] Found plugin org.micromanager.autofocus.OughtaFocus@6f76e5ad
  46. 2018-08-18T16:50:16.933737 tid6132 [IFO,App] Searching for plugins in class loader
  47. 2018-08-18T16:50:17.371486 tid6132 [IFO,App] Found plugin org.micromanager.display.inspector.internal.panels.intensity.IntensityInspectorPanelPlugin@48cb3231
  48. 2018-08-18T16:50:17.371486 tid6132 [IFO,App] Found plugin org.micromanager.display.inspector.internal.panels.metadata.SummaryMetadataInspectorPanelPlugin@75fa5a28
  49. 2018-08-18T16:50:17.371486 tid6132 [IFO,App] Found plugin org.micromanager.display.inspector.internal.panels.metadata.PlaneMetadataInspectorPanelPlugin@46eaeecf
  50. 2018-08-18T16:50:17.371486 tid6132 [IFO,App] Found plugin org.micromanager.display.inspector.internal.panels.comments.CommentsInspectorPanelPlugin@3731e2a7
  51. 2018-08-18T16:50:17.372486 tid6132 [IFO,App] Found plugin org.micromanager.display.overlay.internal.overlays.PatternOverlayPlugin@107b3b40
  52. 2018-08-18T16:50:17.372486 tid6132 [IFO,App] Found plugin org.micromanager.display.inspector.internal.panels.overlays.OverlaysInspectorPanelPlugin@28e7d732
  53. 2018-08-18T16:50:17.372486 tid6132 [IFO,App] Found plugin org.micromanager.display.overlay.internal.overlays.ScaleBarPlugin@5e4d5ab0
  54. 2018-08-18T16:50:17.372486 tid6132 [IFO,App] Found plugin org.micromanager.display.overlay.internal.overlays.TimestampPlugin@6e82b747
  55. 2018-08-18T16:50:17.372486 tid6132 [IFO,App] Found plugin org.micromanager.acquisition.internal.DefaultMDAPlugin@276a20ec
  56. 2018-08-18T16:50:17.372486 tid6132 [IFO,App] Found plugin org.micromanager.display.internal.gearmenu.ExportImagesItem@31223d74
  57. 2018-08-18T16:50:17.373485 tid6132 [IFO,App] Found plugin org.micromanager.display.internal.gearmenu.LineProfileItem@58e793a
  58. 2018-08-18T16:50:17.374485 tid6132 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.AutofocusButtons@4ea13005
  59. 2018-08-18T16:50:17.374485 tid6132 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.CloseAllButton@71a9d2bb
  60. 2018-08-18T16:50:17.375484 tid6132 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.ExposureTime@4f5bd6da
  61. 2018-08-18T16:50:17.376483 tid6132 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.LiveButton@5ed6d23c
  62. 2018-08-18T16:50:17.377482 tid6132 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.MDAButtons@64120bd1
  63. 2018-08-18T16:50:17.377482 tid6132 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.PresetButton@451a5d22
  64. 2018-08-18T16:50:17.377482 tid6132 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.RefreshButton@31228ad3
  65. 2018-08-18T16:50:17.378482 tid6132 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.SavedMDAButton@eb6c945
  66. 2018-08-18T16:50:17.378482 tid6132 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.ScriptButton@352030a1
  67. 2018-08-18T16:50:17.379481 tid6132 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.ShutterControl@d642ba1
  68. 2018-08-18T16:50:17.379481 tid6132 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.SnapButton@555d83d2
  69. 2018-08-18T16:50:17.379481 tid6132 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.TextLabel@79c893fb
  70. 2018-08-18T16:50:17.379481 tid6132 [IFO,App] Plugin loading took 636ms
  71. 2018-08-18T16:50:17.379481 tid5408 [IFO,App] Finished waiting for plugins to load
  72. 2018-08-18T16:50:19.277393 tid5408 [IFO,Core] Did unload all devices
  73. 2018-08-18T16:50:19.277393 tid5408 [IFO,Core] Did unload all devices
  74. 2018-08-18T16:50:19.509260 tid5408 [IFO,Core] Did load device Grasshopper3 GS3-U3-41C6C_15307349 from PointGrey; label = Grasshopper3 GS3-U3-41C6C_15307349
  75. 2018-08-18T16:50:19.509260 tid5408 [IFO,Core] Will initialize 1 devices
  76. 2018-08-18T16:50:19.509260 tid5408 [IFO,Core] Will initialize device Grasshopper3 GS3-U3-41C6C_15307349
  77. 2018-08-18T16:50:19.509260 tid5408 [IFO,dev:Grasshopper3 GS3-U3-41C6C_15307349] FlyCapture2_v100.dll version number is 2.10.3.266
  78. 2018-08-18T16:50:19.842069 tid5408 [IFO,dev:Grasshopper3 GS3-U3-41C6C_15307349] Format 7 mode 0 is available
  79. 2018-08-18T16:50:19.843069 tid5408 [IFO,dev:Grasshopper3 GS3-U3-41C6C_15307349] Format 7 mode 1 is available
  80. 2018-08-18T16:50:19.844068 tid5408 [IFO,dev:Grasshopper3 GS3-U3-41C6C_15307349] Format 7 mode 2 is available
  81. 2018-08-18T16:50:19.969996 tid5408 [IFO,Core] Did initialize device Grasshopper3 GS3-U3-41C6C_15307349
  82. 2018-08-18T16:50:19.969996 tid5408 [IFO,Core] Default camera set to Grasshopper3 GS3-U3-41C6C_15307349
  83. 2018-08-18T16:50:19.969996 tid5408 [IFO,Core] Finished initializing 1 devices
  84. 2018-08-18T16:50:19.969996 tid5408 [IFO,Core] Default camera set to Grasshopper3 GS3-U3-41C6C_15307349
  85. 2018-08-18T16:50:19.974993 tid5408 [IFO,Core] Did update system state cache
  86. 2018-08-18T16:50:20.839498 tid5408 [IFO,App] Rebuilding config group table
  87. 2018-08-18T16:50:20.839498 tid5408 [IFO,App] Finished rebuilding config group table
  88. 2018-08-18T16:50:20.847494 tid5408 [IFO,App] Startup script (C:\Program Files\Micro-Manager-2.0gamma\MMStartup.bsh) not present
  89. 2018-08-18T16:50:20.847494 tid5408 [IFO,App] Updating GUI; config pad = true; from cache = false
  90. 2018-08-18T16:50:20.851491 tid5408 [IFO,App] Rebuilding config group table
  91. 2018-08-18T16:50:20.851491 tid5408 [IFO,App] Finished rebuilding config group table
  92. 2018-08-18T16:50:20.856488 tid5408 [IFO,Core] Did update system state cache
  93. 2018-08-18T16:50:20.856488 tid5408 [IFO,App] Finished updating GUI
  94. 2018-08-18T16:50:26.156450 tid5408 [IFO,App] Setting value RGB32 at row 18
  95. 2018-08-18T16:50:26.156450 tid5408 [IFO,App] Grasshopper3 GS3-U3-41C6C_15307349/PixelType:RGB32
  96. 2018-08-18T16:50:26.296369 tid5408 [IFO,Core] Did update system state cache
  97. 2018-08-18T16:50:26.297369 tid5408 [IFO,App] Updating GUI; config pad = true; from cache = true
  98. 2018-08-18T16:50:26.298369 tid5408 [IFO,App] Rebuilding config group table
  99. 2018-08-18T16:50:26.298369 tid5408 [IFO,App] Finished rebuilding config group table
  100. 2018-08-18T16:50:26.304365 tid5408 [IFO,App] Finished updating GUI
  101. 2018-08-18T16:50:33.727109 tid5408 [IFO,App] Class: class org.micromanager.display.internal.displaywindow.DisplayController
  102. 2018-08-18T16:50:33.727109 tid5408 [IFO,App] Classloader: ij.io.PluginClassLoader@23a5fd2
  103. 2018-08-18T16:50:33.766087 tid5408 [IFO,App] Failed to find affine transform
  104. [ ] java.lang.Exception: "": Configuration group not defined in Thread[AWT-EventQueue-0,6,main]
  105. [ ] at mmcorej.MMCoreJJNI.CMMCore_getPixelSizeAffine__SWIG_1(Native Method)
  106. [ ] at mmcorej.CMMCore.getPixelSizeAffine(CMMCore.java:794)
  107. [ ] at org.micromanager.internal.navigation.CenterAndDragListener.getOrientation(CenterAndDragListener.java:116)
  108. [ ] at org.micromanager.internal.navigation.CenterAndDragListener.<init>(CenterAndDragListener.java:62)
  109. [ ] at org.micromanager.internal.navigation.UiMovesStageManager.activate(UiMovesStageManager.java:63)
  110. [ ] at org.micromanager.internal.SnapLiveManager.createDisplay(SnapLiveManager.java:500)
  111. [ ] at org.micromanager.internal.SnapLiveManager.createOrResetDatastoreAndDisplay(SnapLiveManager.java:759)
  112. [ ] at org.micromanager.internal.SnapLiveManager.displayImage(SnapLiveManager.java:669)
  113. [ ] at org.micromanager.internal.SnapLiveManager$2.run(SnapLiveManager.java:429)
  114. [ ] at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:301)
  115. [ ] at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:756)
  116. [ ] at java.awt.EventQueue.access$500(EventQueue.java:97)
  117. [ ] at java.awt.EventQueue$3.run(EventQueue.java:709)
  118. [ ] at java.awt.EventQueue$3.run(EventQueue.java:703)
  119. [ ] at java.security.AccessController.doPrivileged(Native Method)
  120. [ ] at java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:80)
  121. [ ] at java.awt.EventQueue.dispatchEvent(EventQueue.java:726)
  122. [ ] at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:201)
  123. [ ] at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:116)
  124. [ ] at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:105)
  125. [ ] at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
  126. [ ] at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:93)
  127. [ ] at java.awt.EventDispatchThread.run(EventDispatchThread.java:82)
  128. 2018-08-18T16:50:36.933272 tid5408 [IFO,App] Class: class org.micromanager.display.internal.displaywindow.DisplayController
  129. 2018-08-18T16:50:36.933272 tid5408 [IFO,App] Classloader: ij.io.PluginClassLoader@23a5fd2
  130. 2018-08-18T16:50:37.493950 tid5408 [IFO,App] Thread 15 (AWT-EventQueue-0) terminated with uncaught exception
  131. 2018-08-18T16:50:37.493950 tid5408 [IFO,App] java.lang.IllegalArgumentException
  132. 2018-08-18T16:50:37.493950 tid5408 [IFO,App] at com.google.common.base.Preconditions.checkArgument(Preconditions.java:111)
  133. 2018-08-18T16:50:37.493950 tid5408 [IFO,App] at org.micromanager.display.internal.displaywindow.imagej.RGBColorModeStrategy.applyScaling(RGBColorModeStrategy.java:96)
  134. 2018-08-18T16:50:37.493950 tid5408 [IFO,App] at org.micromanager.display.internal.displaywindow.imagej.ImageJBridge.mm2ijSetIntensityScaling(ImageJBridge.java:453)
  135. 2018-08-18T16:50:37.493950 tid5408 [IFO,App] at org.micromanager.display.internal.displaywindow.DisplayUIController.applyDisplaySettings(DisplayUIController.java:983)
  136. 2018-08-18T16:50:37.493950 tid5408 [IFO,App] at org.micromanager.display.internal.displaywindow.DisplayUIController.displayImages(DisplayUIController.java:811)
  137. 2018-08-18T16:50:37.493950 tid5408 [IFO,App] at org.micromanager.display.internal.displaywindow.DisplayController$2.run(DisplayController.java:413)
  138. 2018-08-18T16:50:37.493950 tid5408 [IFO,App] at org.micromanager.internal.utils.CoalescentEDTRunnablePool$2.run(CoalescentEDTRunnablePool.java:132)
  139. 2018-08-18T16:50:37.493950 tid5408 [IFO,App] at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:311)
  140. 2018-08-18T16:50:37.493950 tid5408 [IFO,App] at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:756)
  141. 2018-08-18T16:50:37.493950 tid5408 [IFO,App] at java.awt.EventQueue.access$500(EventQueue.java:97)
  142. 2018-08-18T16:50:37.493950 tid5408 [IFO,App] at java.awt.EventQueue$3.run(EventQueue.java:709)
  143. 2018-08-18T16:50:37.493950 tid5408 [IFO,App] at java.awt.EventQueue$3.run(EventQueue.java:703)
  144. 2018-08-18T16:50:37.493950 tid5408 [IFO,App] at java.security.AccessController.doPrivileged(Native Method)
  145. 2018-08-18T16:50:37.493950 tid5408 [IFO,App] at java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:80)
  146. 2018-08-18T16:50:37.493950 tid5408 [IFO,App] at java.awt.EventQueue.dispatchEvent(EventQueue.java:726)
  147. 2018-08-18T16:50:37.493950 tid5408 [IFO,App] at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:201)
  148. 2018-08-18T16:50:37.493950 tid5408 [IFO,App] at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:116)
  149. 2018-08-18T16:50:37.493950 tid5408 [IFO,App] at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:105)
  150. 2018-08-18T16:50:37.493950 tid5408 [IFO,App] at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
  151. 2018-08-18T16:50:37.493950 tid5408 [IFO,App] at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:93)
  152. 2018-08-18T16:50:37.493950 tid5408 [IFO,App] at java.awt.EventDispatchThread.run(EventDispatchThread.java:82)
  153. 2018-08-18T16:50:50.930248 tid5408 [IFO,App] EDTHangLogger: Stopping monitoring of EDT hangs
  154. 2018-08-18T16:50:50.969225 tid5408 [IFO,Core] Did unload all devices
  155. 2018-08-18T16:50:50.969225 tid5408 [IFO,Core] System reset
  156. 2018-08-18T16:50:50.996209 tid5408 [IFO,Core] Core session ended
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