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  1. 2018-08-18T16:48:40.829831 tid484 [IFO,LogManager] Enabled primary log file C:\Program Files\Micro-Manager-2.0gamma\CoreLogs\CoreLog20180818T164840_pid11400.txt
  2. 2018-08-18T16:48:40.829831 tid484 [IFO,App] User: peter
  3. 2018-08-18T16:48:40.829831 tid484 [IFO,App] Host: Neptune
  4. 2018-08-18T16:48:40.829831 tid484 [IFO,App] MM Studio version: 2.0.0-gamma1 20180803
  5. 2018-08-18T16:48:40.829831 tid484 [IFO,App] MMCore version 8.7.1
  6. 2018-08-18T16:48:40.829831 tid484 [IFO,App] Device API version 69, Module API version 10
  7. 2018-08-18T16:48:40.829831 tid484 [IFO,App] Operating System: Windows 10 (amd64) 10.0
  8. 2018-08-18T16:48:40.829831 tid484 [IFO,App] JVM: Java HotSpot(TM) 64-Bit Server VM, version 1.8.0_152, 64-bit
  9. 2018-08-18T16:48:40.832830 tid484 [IFO,App] EDTHangLogger: Started monitoring of EDT hangs
  10. [ ] [heartbeat timeout = 4500 ms, hang check interval = 1000 ms]
  11. 2018-08-18T16:48:40.849821 tid3856 [IFO,App] Searching for plugins in C:\Program Files\Micro-Manager-2.0gamma/mmplugins
  12. 2018-08-18T16:48:40.999734 tid3856 [IFO,App] Found plugin org.micromanager.acquiremultipleregions.AcquireMultipleRegions@21deec00
  13. 2018-08-18T16:48:41.002732 tid3856 [IFO,App] Found plugin org.micromanager.asidispim.ASIdiSPIM@3cd248bb
  14. 2018-08-18T16:48:41.003732 tid3856 [IFO,App] Found plugin ch.epfl.leb.autolase.AutoLasePlugin@9c93f8c
  15. 2018-08-18T16:48:41.003732 tid3856 [IFO,App] Found plugin org.micromanager.CRISP.CRISP@b1e32c3
  16. 2018-08-18T16:48:41.004731 tid3856 [IFO,App] Found plugin com.asiimaging.CRISPv2.ASI_CRISP_V2@50125ea6
  17. 2018-08-18T16:48:41.004731 tid3856 [IFO,App] Found plugin org.micromanager.duplicator.DuplicatorPlugin@2ae0f64d
  18. 2018-08-18T16:48:41.005731 tid3856 [IFO,App] Found plugin org.micromanager.plugins.framecombiner.FrameCombinerPlugin@1b6d1df6
  19. 2018-08-18T16:48:41.005731 tid3856 [IFO,App] Found plugin GaussianTrack_@4e34fa0
  20. 2018-08-18T16:48:41.005731 tid3856 [IFO,App] Found plugin org.micromanager.hcs.HCSPlugin@3a35fc0a
  21. 2018-08-18T16:48:41.006730 tid3856 [IFO,App] Found plugin org.micromanager.imageflipper.FlipperPlugin@2dd2796
  22. 2018-08-18T16:48:41.006730 tid3856 [IFO,App] Found plugin org.micromanager.intelligentacquisition.IntelligentAcquisition@faee81f
  23. 2018-08-18T16:48:41.006730 tid3856 [IFO,App] Found plugin edu.ucsf.valelab.mmclearvolumeplugin.CVPlugin@1a6e804c
  24. 2018-08-18T16:48:41.006730 tid3856 [IFO,App] Found plugin edu.ucsf.valelab.mmclearvolumeplugin.CVInspectorPanelPlugin@3cf0fe5a
  25. 2018-08-18T16:48:41.006730 tid3856 [IFO,App] Found plugin com.imaging100x.tracker.TrackerPlugin@52727568
  26. 2018-08-18T16:48:41.006730 tid3856 [IFO,App] Found plugin org.micromanager.multicamera.MultiCamera@1e0b8950
  27. 2018-08-18T16:48:41.007730 tid3856 [IFO,App] Found plugin org.micromanager.multichannelshading.MultiChannelShading@6adffa08
  28. 2018-08-18T16:48:41.008729 tid3856 [IFO,App] Found plugin edu.umassmed.pgfocus.pgFocus@52fd6710
  29. 2018-08-18T16:48:41.008729 tid3856 [IFO,App] Found plugin org.micromanager.pipelinesaver.SaverPlugin@47e7d8fd
  30. 2018-08-18T16:48:41.008729 tid3856 [IFO,App] Found plugin org.micromanager.projector.ProjectorPlugin@20bf1cd5
  31. 2018-08-18T16:48:41.008729 tid3856 [IFO,App] Found plugin org.micromanager.ptctools.PtcTools@41ca1109
  32. 2018-08-18T16:48:41.008729 tid3856 [IFO,App] Found plugin org.micromanager.ratioimaging.RatioImaging@78b62bc7
  33. 2018-08-18T16:48:41.009729 tid3856 [IFO,App] Found plugin org.micromanager.recall.RecallPlugin@70728d71
  34. 2018-08-18T16:48:41.010728 tid3856 [IFO,App] Found plugin org.micromanager.plugins.sequencebuffermonitor.SequenceBufferMonitor@10d18b5a
  35. 2018-08-18T16:48:41.010728 tid3856 [IFO,App] Found plugin org.micromanager.slideexplorer.SlideExplorerPlugin@34debacd
  36. 2018-08-18T16:48:41.010728 tid3856 [IFO,App] Found plugin org.micromanager.plugins.snaponmove.SnapOnMovePlugin@643b8375
  37. 2018-08-18T16:48:41.010728 tid3856 [IFO,App] Found plugin org.micromanager.splitview.SplitView@469386
  38. 2018-08-18T16:48:41.010728 tid3856 [IFO,App] Found plugin PMQI.AutoWB@1cd1438f
  39. 2018-08-18T16:48:41.010728 tid3856 [IFO,App] Found plugin org.micromanager.zprojector.ZProjectorPlugin@5d189a0a
  40. 2018-08-18T16:48:41.010728 tid3856 [IFO,App] Searching for plugins in C:\Program Files\Micro-Manager-2.0gamma/mmautofocus
  41. 2018-08-18T16:48:41.028718 tid3856 [IFO,App] Found plugin org.micromanager.autofocus.HardwareFocusExtender@2d3a3755
  42. 2018-08-18T16:48:41.032716 tid3856 [IFO,App] Found plugin org.micromanager.autofocus.Autofocus@6fac27df
  43. 2018-08-18T16:48:41.032716 tid3856 [IFO,App] Found plugin org.micromanager.autofocus.AutofocusDuo@4305e44f
  44. 2018-08-18T16:48:41.033715 tid3856 [IFO,App] Found plugin org.micromanager.autofocus.AutofocusTB@1e78dec4
  45. 2018-08-18T16:48:41.035714 tid3856 [IFO,App] Found plugin org.micromanager.autofocus.OughtaFocus@223d16d4
  46. 2018-08-18T16:48:41.036713 tid3856 [IFO,App] Searching for plugins in class loader
  47. 2018-08-18T16:48:41.477461 tid3856 [IFO,App] Found plugin org.micromanager.display.inspector.internal.panels.intensity.IntensityInspectorPanelPlugin@1959efe7
  48. 2018-08-18T16:48:41.477461 tid3856 [IFO,App] Found plugin org.micromanager.display.inspector.internal.panels.metadata.SummaryMetadataInspectorPanelPlugin@5ba2d30
  49. 2018-08-18T16:48:41.477461 tid3856 [IFO,App] Found plugin org.micromanager.display.inspector.internal.panels.metadata.PlaneMetadataInspectorPanelPlugin@5bea9cb7
  50. 2018-08-18T16:48:41.477461 tid3856 [IFO,App] Found plugin org.micromanager.display.inspector.internal.panels.comments.CommentsInspectorPanelPlugin@dabea79
  51. 2018-08-18T16:48:41.478460 tid3856 [IFO,App] Found plugin org.micromanager.display.overlay.internal.overlays.PatternOverlayPlugin@5c5562
  52. 2018-08-18T16:48:41.478460 tid3856 [IFO,App] Found plugin org.micromanager.display.inspector.internal.panels.overlays.OverlaysInspectorPanelPlugin@52769f32
  53. 2018-08-18T16:48:41.478460 tid3856 [IFO,App] Found plugin org.micromanager.display.overlay.internal.overlays.ScaleBarPlugin@51f9f36a
  54. 2018-08-18T16:48:41.478460 tid3856 [IFO,App] Found plugin org.micromanager.display.overlay.internal.overlays.TimestampPlugin@3db162f0
  55. 2018-08-18T16:48:41.478460 tid3856 [IFO,App] Found plugin org.micromanager.acquisition.internal.DefaultMDAPlugin@5f24d761
  56. 2018-08-18T16:48:41.478460 tid3856 [IFO,App] Found plugin org.micromanager.display.internal.gearmenu.ExportImagesItem@394d5cb8
  57. 2018-08-18T16:48:41.478460 tid3856 [IFO,App] Found plugin org.micromanager.display.internal.gearmenu.LineProfileItem@27b18a58
  58. 2018-08-18T16:48:41.479460 tid3856 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.AutofocusButtons@f1fd3f7
  59. 2018-08-18T16:48:41.479460 tid3856 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.CloseAllButton@5b4d7c0a
  60. 2018-08-18T16:48:41.480459 tid3856 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.ExposureTime@44e9b79b
  61. 2018-08-18T16:48:41.481459 tid3856 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.LiveButton@3bc15b15
  62. 2018-08-18T16:48:41.482458 tid3856 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.MDAButtons@1c533c58
  63. 2018-08-18T16:48:41.483458 tid3856 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.PresetButton@63340515
  64. 2018-08-18T16:48:41.483458 tid3856 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.RefreshButton@660044d7
  65. 2018-08-18T16:48:41.484457 tid3856 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.SavedMDAButton@6b9069b2
  66. 2018-08-18T16:48:41.484457 tid3856 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.ScriptButton@28517c7b
  67. 2018-08-18T16:48:41.484457 tid3856 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.ShutterControl@40e45d3a
  68. 2018-08-18T16:48:41.485456 tid3856 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.SnapButton@71fed1e
  69. 2018-08-18T16:48:41.485456 tid3856 [IFO,App] Found plugin org.micromanager.quickaccess.internal.controls.TextLabel@65706d4a
  70. 2018-08-18T16:48:41.485456 tid3856 [IFO,App] Plugin loading took 636ms
  71. 2018-08-18T16:48:41.485456 tid484 [IFO,App] Finished waiting for plugins to load
  72. 2018-08-18T16:48:43.531283 tid484 [IFO,Core] Did unload all devices
  73. 2018-08-18T16:48:43.531283 tid484 [IFO,Core] Did unload all devices
  74. 2018-08-18T16:48:43.764150 tid484 [IFO,Core] Did load device Grasshopper3 GS3-U3-41C6C_15307349 from PointGrey; label = Grasshopper3 GS3-U3-41C6C_15307349
  75. 2018-08-18T16:48:43.764150 tid484 [IFO,Core] Will initialize 1 devices
  76. 2018-08-18T16:48:43.764150 tid484 [IFO,Core] Will initialize device Grasshopper3 GS3-U3-41C6C_15307349
  77. 2018-08-18T16:48:43.764150 tid484 [IFO,dev:Grasshopper3 GS3-U3-41C6C_15307349] FlyCapture2_v100.dll version number is 2.10.3.266
  78. 2018-08-18T16:48:44.095959 tid484 [IFO,dev:Grasshopper3 GS3-U3-41C6C_15307349] Format 7 mode 0 is available
  79. 2018-08-18T16:48:44.096959 tid484 [IFO,dev:Grasshopper3 GS3-U3-41C6C_15307349] Format 7 mode 1 is available
  80. 2018-08-18T16:48:44.097958 tid484 [IFO,dev:Grasshopper3 GS3-U3-41C6C_15307349] Format 7 mode 2 is available
  81. 2018-08-18T16:48:44.224885 tid484 [IFO,Core] Did initialize device Grasshopper3 GS3-U3-41C6C_15307349
  82. 2018-08-18T16:48:44.224885 tid484 [IFO,Core] Default camera set to Grasshopper3 GS3-U3-41C6C_15307349
  83. 2018-08-18T16:48:44.224885 tid484 [IFO,Core] Finished initializing 1 devices
  84. 2018-08-18T16:48:44.224885 tid484 [IFO,Core] Default camera set to Grasshopper3 GS3-U3-41C6C_15307349
  85. 2018-08-18T16:48:44.229883 tid484 [IFO,Core] Did update system state cache
  86. 2018-08-18T16:48:45.080395 tid484 [IFO,App] Rebuilding config group table
  87. 2018-08-18T16:48:45.080395 tid484 [IFO,App] Finished rebuilding config group table
  88. 2018-08-18T16:48:45.088391 tid484 [IFO,App] Startup script (C:\Program Files\Micro-Manager-2.0gamma\MMStartup.bsh) not present
  89. 2018-08-18T16:48:45.088391 tid484 [IFO,App] Updating GUI; config pad = true; from cache = false
  90. 2018-08-18T16:48:45.092388 tid484 [IFO,App] Rebuilding config group table
  91. 2018-08-18T16:48:45.092388 tid484 [IFO,App] Finished rebuilding config group table
  92. 2018-08-18T16:48:45.097385 tid484 [IFO,Core] Did update system state cache
  93. 2018-08-18T16:48:45.097385 tid484 [IFO,App] Finished updating GUI
  94. 2018-08-18T16:48:53.814388 tid484 [IFO,App] Setting value RGB32 at row 18
  95. 2018-08-18T16:48:53.814388 tid484 [IFO,App] Grasshopper3 GS3-U3-41C6C_15307349/PixelType:RGB32
  96. 2018-08-18T16:48:53.952309 tid484 [IFO,Core] Did update system state cache
  97. 2018-08-18T16:48:53.953308 tid484 [IFO,App] Updating GUI; config pad = true; from cache = true
  98. 2018-08-18T16:48:53.954307 tid484 [IFO,App] Rebuilding config group table
  99. 2018-08-18T16:48:53.954307 tid484 [IFO,App] Finished rebuilding config group table
  100. 2018-08-18T16:48:53.960304 tid484 [IFO,App] Finished updating GUI
  101. 2018-08-18T16:48:58.140907 tid484 [IFO,App] Class: class org.micromanager.display.internal.displaywindow.DisplayController
  102. 2018-08-18T16:48:58.140907 tid484 [IFO,App] Classloader: ij.io.PluginClassLoader@23a5fd2
  103. 2018-08-18T16:48:58.179886 tid484 [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. 2018-08-18T16:48:58.914464 tid484 [IFO,App] Error: DisplayUICOntroller: Received request to autostretch image for which no statistics are available
  129. 2018-08-18T16:49:10.971553 tid484 [IFO,App] Class: class org.micromanager.display.internal.displaywindow.DisplayController
  130. 2018-08-18T16:49:10.971553 tid484 [IFO,App] Classloader: ij.io.PluginClassLoader@23a5fd2
  131. 2018-08-18T16:49:11.416297 tid484 [IFO,App] Thread 15 (AWT-EventQueue-0) terminated with uncaught exception
  132. 2018-08-18T16:49:11.416297 tid484 [IFO,App] java.lang.IllegalArgumentException
  133. 2018-08-18T16:49:11.416297 tid484 [IFO,App] at com.google.common.base.Preconditions.checkArgument(Preconditions.java:111)
  134. 2018-08-18T16:49:11.416297 tid484 [IFO,App] at org.micromanager.display.internal.displaywindow.imagej.RGBColorModeStrategy.applyScaling(RGBColorModeStrategy.java:96)
  135. 2018-08-18T16:49:11.416297 tid484 [IFO,App] at org.micromanager.display.internal.displaywindow.imagej.ImageJBridge.mm2ijSetIntensityScaling(ImageJBridge.java:453)
  136. 2018-08-18T16:49:11.416297 tid484 [IFO,App] at org.micromanager.display.internal.displaywindow.DisplayUIController.applyDisplaySettings(DisplayUIController.java:983)
  137. 2018-08-18T16:49:11.416297 tid484 [IFO,App] at org.micromanager.display.internal.displaywindow.DisplayUIController.displayImages(DisplayUIController.java:811)
  138. 2018-08-18T16:49:11.416297 tid484 [IFO,App] at org.micromanager.display.internal.displaywindow.DisplayController$2.run(DisplayController.java:413)
  139. 2018-08-18T16:49:11.416297 tid484 [IFO,App] at org.micromanager.internal.utils.CoalescentEDTRunnablePool$2.run(CoalescentEDTRunnablePool.java:132)
  140. 2018-08-18T16:49:11.416297 tid484 [IFO,App] at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:311)
  141. 2018-08-18T16:49:11.416297 tid484 [IFO,App] at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:756)
  142. 2018-08-18T16:49:11.416297 tid484 [IFO,App] at java.awt.EventQueue.access$500(EventQueue.java:97)
  143. 2018-08-18T16:49:11.416297 tid484 [IFO,App] at java.awt.EventQueue$3.run(EventQueue.java:709)
  144. 2018-08-18T16:49:11.416297 tid484 [IFO,App] at java.awt.EventQueue$3.run(EventQueue.java:703)
  145. 2018-08-18T16:49:11.416297 tid484 [IFO,App] at java.security.AccessController.doPrivileged(Native Method)
  146. 2018-08-18T16:49:11.416297 tid484 [IFO,App] at java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:80)
  147. 2018-08-18T16:49:11.416297 tid484 [IFO,App] at java.awt.EventQueue.dispatchEvent(EventQueue.java:726)
  148. 2018-08-18T16:49:11.416297 tid484 [IFO,App] at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:201)
  149. 2018-08-18T16:49:11.416297 tid484 [IFO,App] at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:116)
  150. 2018-08-18T16:49:11.416297 tid484 [IFO,App] at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:105)
  151. 2018-08-18T16:49:11.416297 tid484 [IFO,App] at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101)
  152. 2018-08-18T16:49:11.416297 tid484 [IFO,App] at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:93)
  153. 2018-08-18T16:49:11.416297 tid484 [IFO,App] at java.awt.EventDispatchThread.run(EventDispatchThread.java:82)
  154. 2018-08-18T16:49:21.006799 tid484 [IFO,App] EDTHangLogger: Stopping monitoring of EDT hangs
  155. 2018-08-18T16:49:21.038781 tid484 [IFO,Core] Did unload all devices
  156. 2018-08-18T16:49:21.038781 tid484 [IFO,Core] System reset
  157. 2018-08-18T16:49:21.064766 tid484 [IFO,Core] Core session ended
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