id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 17329 Graphics hardware encountered an error and was reset martakubanska@… Tom Goddard "{{{ The following bug report has been submitted: Platform: macOS-10.16-x86_64-i386-64bit ChimeraX Version: 1.6rc202305021906 (2023-05-02 19:06:00 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. 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resident=0K(0%) swapped_out_or_unallocated=1.2G(100%)\nWritable regions: Total=6.1G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=6.1G(100%)\n\n VIRTUAL REGION \nREGION TYPE SIZE COUNT (non-coalesced) \n=========== ======= ======= \nAccelerate framework 256K 2 \nActivity Tracing 256K 1 \nCG backing stores 2880K 8 \nCG image 332K 61 \nColorSync 248K 29 \nCoreAnimation 960K 96 \nCoreGraphics 24K 4 \nCoreServices 624K 2 \nCoreUI image data 5196K 62 \nFoundation 16K 1 \nIOKit 15.5M 2 \nKernel Alloc Once 8K 1 \nMALLOC 3.9G 417 \nMALLOC guard page 48K 11 \nMALLOC_MEDIUM (reserved) 584.0M 8 reserved VM address space (unallocated)\nMALLOC_NANO (reserved) 256.0M 1 reserved VM address space (unallocated)\nMach message 24K 4 \nOpenGL GLSL 384K 4 \nSTACK GUARD 152K 38 \nStack 169.8M 39 \nStack Guard 56.0M 1 \nVM_ALLOCATE 1.1G 152 \nVM_ALLOCATE (reserved) 96.0M 2 reserved VM address space (unallocated)\n__CTF 756 1 \n__DATA 50.7M 851 \n__DATA_CONST 40.7M 382 \n__DATA_DIRTY 1819K 224 \n__FONT_DATA 2352 1 \n__GLSLBUILTINS 5174K 1 \n__LINKEDIT 223.1M 237 \n__OBJC_RO 65.5M 1 \n__OBJC_RW 1989K 2 \n__TEXT 1.0G 839 \ndyld private memory 544K 4 \nmapped file 235.0M 67 \nshared memory 3416K 38 \n=========== ======= ======= \nTOTAL 7.7G 3594 \nTOTAL, minus reserved VM space 6.8G 3594 \n"", ""legacyInfo"" : { ""threadTriggered"" : { ""name"" : ""CrBrowserMain"", ""queue"" : ""com.apple.main-thread"" } }, ""trialInfo"" : { ""rollouts"" : [ { ""rolloutId"" : ""6410af69ed1e1e7ab93ed169"", ""factorPackIds"" : { }, ""deploymentId"" : 240000011 }, { ""rolloutId"" : ""61675b89201f677a9a4cbd65"", ""factorPackIds"" : { ""HEALTH_FEATURE_AVAILABILITY"" : ""65a855f5f087695cfac03d1f"" }, ""deploymentId"" : 240000183 } ], ""experiments"" : [ ] } } ===== Log before crash start ===== UCSF ChimeraX version: 1.6rc202305021906 (2023-05-02) © 2016-2023 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > open > /Users/makubanska/figures_thesis/tomsa_reali_wangles_all_bin2_r4_tightmask_ref_b2_all_3_trimmed_inv.mrc > format mrc Opened tomsa_reali_wangles_all_bin2_r4_tightmask_ref_b2_all_3_trimmed_inv.mrc as #1, grid size 220,220,220, pixel 3.94, shown at level 0.0861, step 1, values float32 > artiax start Using preset: ArtiaX / Artiax Default Preset expands to these ChimeraX commands: set bgColor black lighting depthCue false camera ortho > open /Users/makubanska/motl_test_arrays_204_fix_clnd.em format motl Summary of feedback from opening /Users/makubanska/motl_test_arrays_204_fix_clnd.em --- notes | 15 ['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0'] Opened Particle list motl_test_arrays_204_fix_clnd.em with 418 particles. > artiax view xy > open > /Volumes/msdata/makubans/algae_light/mem_seg_bin8/204_px10_prediction_MemBrain_seg_v10_alpha_session.cxs Opened 204_px10_MemBrain_seg_v10_alpha.ckpt_segmented.mrc as #1, grid size 808,808,434, pixel 10, shown at level 0.422, step 4, values int8 Opened 204_px10_MemBrain_seg_v10_alpha.ckpt_segmented.mrc copy as #3, grid size 808,808,434, pixel 10, shown at level 0.422, step 1, values int8 opened ChimeraX session > open > /Users/makubanska/figures_thesis/tomsa_reali_wangles_all_bin2_r4_tightmask_ref_b2_all_3_trimmed_inv.mrc > format mrc Opened tomsa_reali_wangles_all_bin2_r4_tightmask_ref_b2_all_3_trimmed_inv.mrc as #2, grid size 220,220,220, pixel 3.94, shown at level 0.0861, step 1, values float32 > artiax start Using preset: ArtiaX / Artiax Default Preset expands to these ChimeraX commands: set bgColor black lighting depthCue false camera ortho > open /Users/makubanska/motl_test_arrays_204_fix_clnd.em format motl Summary of feedback from opening /Users/makubanska/motl_test_arrays_204_fix_clnd.em --- notes | 15 ['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0'] Opened Particle list motl_test_arrays_204_fix_clnd.em with 418 particles. > ui tool show ""Map Coordinates"" > ui mousemode right select > ui tool show ""Map Coordinates"" > artiax view xy > close session > open /Users/makubanska/figures_thesis/204_stairs_segmentation_cleaned.mrc Opened 204_stairs_segmentation_cleaned.mrc as #1, grid size 1020,827,550, pixel 1, shown at step 1, values int8 > volume #1 region 0,0,0,1019,826,549 step 4 > volume #1 change image level 0,0 level 0.1,0.8 level 1,1 > volume #1 level 0.8435 > volume #1 step 1 > artiax start Using preset: ArtiaX / Artiax Default Preset expands to these ChimeraX commands: set bgColor black lighting depthCue false camera ortho > open /Users/makubanska/motl_test_arrays_204_fix_clnd.em format motl Summary of feedback from opening /Users/makubanska/motl_test_arrays_204_fix_clnd.em --- notes | 15 ['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0'] Opened Particle list motl_test_arrays_204_fix_clnd.em with 418 particles. > ui tool show ""Map Coordinates"" > artiax view xy > open > /Users/makubanska/figures_thesis/tomsa_reali_wangles_all_bin2_r4_tightmask_ref_b2_all_3_trimmed_inv.mrc > format mrc Opened tomsa_reali_wangles_all_bin2_r4_tightmask_ref_b2_all_3_trimmed_inv.mrc as #3, grid size 220,220,220, pixel 3.94, shown at level 0.0861, step 1, values float32 > select #3 2 models selected > ui mousemode right ""rotate selected models"" > view matrix models > #3,0.98958,0.1413,0.027572,1.0863,-0.1418,0.98975,0.016948,-3.7226,-0.024895,-0.020681,0.99948,-0.83431 > view matrix models > #3,0.99052,-0.13528,-0.023812,-1.5373,0.13483,0.99067,-0.01965,3.3572,0.026248,0.016253,0.99952,0.82652 > view matrix models > #3,0.96801,0.24591,0.049828,1.5363,-0.24744,0.96853,0.027056,-6.6261,-0.041606,-0.03852,0.99839,-1.4322 > view matrix models > #3,0.99983,0.018187,0.0033934,0.16972,-0.018195,0.99983,0.0023873,-0.4667,-0.0033494,-0.0024486,0.99999,-0.10905 > view matrix models > #3,0.99249,0.12008,0.023253,0.95757,-0.12044,0.99261,0.01464,-3.1494,-0.021324,-0.017331,0.99962,-0.71095 > view matrix models > #3,-0.31346,0.88704,0.33898,-25.082,-0.9496,-0.29228,-0.11328,-36.643,-0.0014079,-0.3574,0.93395,-3.4572 set axis size 12.21515 12.21515 ['.arrow', '0', '0', '0', '12.21515', '0', '0', '0.8143433333333333', '3.2573733333333332'] set axis size 9.94356 9.94356 ['.arrow', '0', '0', '0', '9.94356', '0', '0', '0.6629039999999999', '2.6516159999999998'] set axis size 9.18636 9.18636 ['.arrow', '0', '0', '0', '9.18636', '0', '0', '0.6124240000000001', '2.4496960000000003'] set axis size 8.42917 8.42917 ['.arrow', '0', '0', '0', '8.42917', '0', '0', '0.5619446666666666', '2.2477786666666666'] set axis size 7.67197 7.67197 ['.arrow', '0', '0', '0', '7.67197', '0', '0', '0.5114646666666667', '2.0458586666666667'] set axis size 4.64318 4.64318 ['.arrow', '0', '0', '0', '4.64318', '0', '0', '0.30954533333333334', '1.2381813333333334'] set axis size 1.61439 1.61439 ['.arrow', '0', '0', '0', '1.61439', '0', '0', '0.107626', '0.430504'] set axis size 0.1 0.1 ['.arrow', '0', '0', '0', '0.1', '0', '0', '0.006666666666666667', '0.02666666666666667'] set axis size 0.1 0.1 ['.arrow', '0', '0', '0', '0.1', '0', '0', '0.006666666666666667', '0.02666666666666667'] > artiax particles #2.2.1 axesSize 0.1 > artiax particles #2.2.1 radius 0.1 > artiax attach #3 toParticleList #2.2.1 Opened tomsa_reali_wangles_all_bin2_r4_tightmask_ref_b2_all_3_trimmed_inv.mrc as #2.2.1.1.1, grid size 220,220,220, pixel 1, shown at level 0.0861, step 1, values float32 > volume #2.2.1.1.1 capFaces false > hide #!2.2.1 models > ui mousemode right select > select #1 3 models selected > ui mousemode right ""translate selected models"" > show #!2.2.1 models > view matrix models #1,1,0,0,118.8,0,1,0,-17.044,0,0,1,-10.122 > artiax view xz > artiax view yz > artiax view xz > artiax view xy > hide #!2.2.1 models > ui mousemode right select > select clear > show #!2.2.1 models > artiax particles #2.2.1 surfaceLevel 0.01 > hide #!2.2.1 models > select #1 3 models selected > ui mousemode right ""translate selected models"" > show #!2.2.1 models > view matrix models #1,1,0,0,126.63,0,1,0,22.084,0,0,1,-1.9573 > hide #!2.2.1 models > artiax view xz > show #!2.2.1 models > hide #!2.2.1 models > open /Users/makubanska/motl_test_arrays_204_fix_clnd.em format motl Summary of feedback from opening /Users/makubanska/motl_test_arrays_204_fix_clnd.em --- notes | 15 ['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0'] Opened Particle list motl_test_arrays_204_fix_clnd.em with 418 particles. > artiax view xy > view matrix models #1,1,0,0,104.71,0,1,0,18.424,0,0,1,-1.9573 > view matrix models #1,1,0,0,116.5,0,1,0,17.412,0,0,1,-1.2459 > select add #1 3 models selected > ui mousemode right select > select clear > hide #!2.2.2 models > show #!2.2.1 models > hide #!2.2.1 models > show #!2.2.2 models > select #1 3 models selected > ui mousemode right ""translate selected models"" > view matrix models #1,1,0,0,112.56,0,1,0,16.414,0,0,1,-1.1469 > ui mousemode right select > select clear > show #!2.2.1 models > hide #!2.2.2 models > artiax particles #2.2.2 color 0,46,86,100 > artiax particles #2.2.2 color 13,33,35,100 > artiax particles #2.2.1 color 94,64,100,100 > artiax particles #2.2.1 color 13,33,35,100 > hide #!2.2.1 models > show #!2.2.1 models > hide #!2.2.1 models > ui mousemode right ""map eraser"" Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""add models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""add models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""add models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""add models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. > volume copy #1 subregion 0,104,0,696,826,549 Opened 204_stairs_segmentation_cleaned.mrc copy as #4, grid size 697,723,550, pixel 1.97, shown at step 1, values int8 Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""add models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""add models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""add models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""add models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""add models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""add models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""add models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""add models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""remove models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""remove models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""remove models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""remove models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. > show #!2.2.1 models Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""add models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""add models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""add models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""add models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""remove models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""remove models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""remove models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. Traceback (most recent call last): File ""/Applications/ChimeraX-1.6-rc2023.05.02.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site- packages/chimerax/core/triggerset.py"", line 138, in invoke return self._func(self._name, data) File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 60, in _update_models self._populate() File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() RuntimeError: wrapped C/C++ object of type QComboBox has been deleted Error processing trigger ""remove models"": RuntimeError: wrapped C/C++ object of type QComboBox has been deleted File ""/Users/makubanska/Library/Application Support/ChimeraX/1.6/site- packages/chimerax/artiax/widgets/ModelChooserWidget.py"", line 63, in _populate self.combo.clear() See log for complete Python traceback. > ui mousemode right select Drag select of axes, 220 of 418 instances, surfaces, 223 of 418 instances, 220 atoms, 4 204_stairs_segmentation_cleaned.mrc copy > select clear Drag select of axes, 185 of 418 instances, surfaces, 186 of 418 instances, 185 atoms fine > artiax particles #2.2.1 surfaceLevel 0.008 > artiax particles #2.2.1 surfaceLevel 0.006 > artiax particles #2.2.1 surfaceLevel 0.004 > artiax particles #2.2.1 surfaceLevel 0.008 > artiax particles #2.2.1 surfaceLevel 0.013 > artiax particles #2.2.1 surfaceLevel 0.016 > set bgColor white > save /Users/makubanska/Desktop/image5.png supersample 3 > hide #!2.2.1 models > show #!2.2.1 models > hide #!2.2.1 models > show #!2.2.1 models > hide #!2.2.1 models > show #!2.2.1 models > hide #!2.2.1 models > show #!2.2.1 models > hide #!2.2.1 models > show #!2.2.1 models > hide #!2.2.1 models > show #!2.2.1 models > save /Users/makubanska/Desktop/image6.png supersample 3 > save /Users/makubanska/Desktop/image7.png supersample 3 > lighting soft > save /Users/makubanska/Desktop/image8.png supersample 3 > hide #!2.2.1 models > ui tool show ""Side View"" > lighting shadows true intensity 0.5 > lighting shadows false > show #!2.2.1 models > save /Users/makubanska/Desktop/image9.png supersample 3 > hide #!2.2.1 models > lighting soft > graphics silhouettes true > graphics silhouettes false > lighting shadows true intensity 0.5 > lighting soft > lighting shadows true intensity 0.5 > lighting shadows false > lighting shadows true > lighting shadows false > lighting soft > lighting shadows true intensity 0.5 > lighting shadows false > ui tool show ""Side View"" > lighting flat > lighting soft > graphics silhouettes false > show #!2.2.1 models > hide #!2.2.1 models > show #!2.2.1 models > hide #!2.2.1 models > lighting soft ===== Log before crash end ===== Log: UCSF ChimeraX version: 1.6rc202305021906 (2023-05-02) © 2016-2023 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX > artiax start Using preset: ArtiaX / Artiax Default Preset expands to these ChimeraX commands: set bgColor black lighting depthCue false camera ortho > open /Users/makubanska/figures_thesis/motl_only_1_in_radius_404.em > /Users/makubanska/figures_thesis/motl_only_1_in_radius_204.em format motl Summary of feedback from opening /Users/makubanska/figures_thesis/motl_only_1_in_radius_404.em --- notes | 15 ['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0'] Summary of feedback from opening /Users/makubanska/figures_thesis/motl_only_1_in_radius_204.em --- notes | 15 ['.arrow', '0', '0', '0', '15', '0', '0', '1.0', '4.0'] Opened Particle list motl_only_1_in_radius_404.em with 1307 particles. Opened Particle list motl_only_1_in_radius_204.em with 259 particles. > hide #!1.2.1 models Opened 204_bin8.rec as #1.1.1, grid size 512,512,275, pixel 1, shown at level 1.69e+15, step 1, values float32 > artiax tomo #1.1.1 sliceDirection 0,0,1 > artiax view xy Opened 404_bin8.rec as #1.1.2, grid size 512,512,275, pixel 1, shown at level 1.52e+15, step 1, values float32 > artiax tomo #1.1.2 sliceDirection 0,0,1 > artiax view xy > volume #1.1.2 region 0,0,136,511,511,136 step 1 showOutlineBox true > imageMode ""full region"" > show #!1.2.1 models > hide #!1.2.2 models > artiax particles #1.2.1 radius 9.94356 set axis size 11.45795 11.45795 ['.arrow', '0', '0', '0', '11.45795', '0', '0', '0.7638633333333333', '3.0554533333333334'] set axis size 9.94356 9.94356 ['.arrow', '0', '0', '0', '9.94356', '0', '0', '0.6629039999999999', '2.6516159999999998'] set axis size 10.70076 10.70076 ['.arrow', '0', '0', '0', '10.70076', '0', '0', '0.713384', '2.853536'] set axis size 11.45795 11.45795 ['.arrow', '0', '0', '0', '11.45795', '0', '0', '0.7638633333333333', '3.0554533333333334'] set axis size 12.97235 12.97235 ['.arrow', '0', '0', '0', '12.97235', '0', '0', '0.8648233333333334', '3.4592933333333336'] set axis size 13.72955 13.72955 ['.arrow', '0', '0', '0', '13.72955', '0', '0', '0.9153033333333334', '3.6612133333333334'] set axis size 14.48674 14.48674 ['.arrow', '0', '0', '0', '14.48674', '0', '0', '0.9657826666666666', '3.8631306666666663'] set axis size 15.24394 15.24394 ['.arrow', '0', '0', '0', '15.24394', '0', '0', '1.0162626666666668', '4.065050666666667'] set axis size 16.00114 16.00114 ['.arrow', '0', '0', '0', '16.00114', '0', '0', '1.0667426666666666', '4.2669706666666665'] set axis size 16.75833 16.75833 ['.arrow', '0', '0', '0', '16.75833', '0', '0', '1.1172220000000002', '4.468888000000001'] set axis size 17.51553 17.51553 ['.arrow', '0', '0', '0', '17.51553', '0', '0', '1.1677019999999998', '4.670807999999999'] set axis size 18.27273 18.27273 ['.arrow', '0', '0', '0', '18.27273', '0', '0', '1.2181819999999999', '4.8727279999999995'] set axis size 17.51553 17.51553 ['.arrow', '0', '0', '0', '17.51553', '0', '0', '1.1677019999999998', '4.670807999999999'] set axis size 16.75833 16.75833 ['.arrow', '0', '0', '0', '16.75833', '0', '0', '1.1172220000000002', '4.468888000000001'] set axis size 16.00114 16.00114 ['.arrow', '0', '0', '0', '16.00114', '0', '0', '1.0667426666666666', '4.2669706666666665'] set axis size 15.24394 15.24394 ['.arrow', '0', '0', '0', '15.24394', '0', '0', '1.0162626666666668', '4.065050666666667'] set axis size 14.48674 14.48674 ['.arrow', '0', '0', '0', '14.48674', '0', '0', '0.9657826666666666', '3.8631306666666663'] set axis size 14.48674 14.48674 ['.arrow', '0', '0', '0', '14.48674', '0', '0', '0.9657826666666666', '3.8631306666666663'] > artiax particles #1.2.1 axesSize 14.48674 > artiax view xy > show #!1.2.2 models > hide #!1.2.1 models > artiax particles #1.2.2 radius 10.70076 > volume #1.1.1 region 0,0,136,511,511,136 step 1 showOutlineBox true > imageMode ""full region"" OpenGL version: 4.1 INTEL-20.2.50 OpenGL renderer: Intel(R) Iris(TM) Plus Graphics OpenGL Engine OpenGL vendor: Intel Inc. Python: 3.9.11 Locale: UTF-8 Qt version: PyQt6 6.4.2, Qt 6.4.2 Qt runtime version: 6.4.3 Qt platform: cocoa Hardware: Hardware Overview: Model Name: MacBook Pro Model Identifier: MacBookPro16,2 Processor Name: Quad-Core Intel Core i7 Processor Speed: 2.3 GHz Number of Processors: 1 Total Number of Cores: 4 L2 Cache (per Core): 512 KB L3 Cache: 8 MB Hyper-Threading Technology: Enabled Memory: 32 GB System Firmware Version: 1916.80.2.0.0 (iBridge: 20.16.3045.0.0,0) OS Loader Version: 564.40.4~66 Software: System Software Overview: System Version: macOS 13.2.1 (22D68) Kernel Version: Darwin 22.3.0 Time since boot: 5 days, 4 hours, 55 minutes Graphics/Displays: Intel Iris Plus Graphics: Chipset Model: Intel Iris Plus Graphics Type: GPU Bus: Built-In VRAM (Dynamic, Max): 1536 MB Vendor: Intel Device ID: 0x8a53 Revision ID: 0x0007 Metal Support: Metal 3 Displays: Color LCD: Display Type: Built-In Retina LCD Resolution: 2560 x 1600 Retina Framebuffer Depth: 30-Bit Color (ARGB2101010) Main Display: Yes Mirror: Off Online: Yes Automatically Adjust Brightness: Yes Connection Type: Internal EV2795: Resolution: 1920 x 1080 (1080p FHD - Full High Definition) UI Looks like: 1920 x 1080 @ 60.00Hz Framebuffer Depth: 30-Bit Color (ARGB2101010) Display Serial Number: 50045042 Mirror: Off Online: Yes Rotation: Supported Connection Type: Thunderbolt/DisplayPort Installed Packages: alabaster: 0.7.13 appdirs: 1.4.4 appnope: 0.1.3 asttokens: 2.2.1 Babel: 2.12.1 backcall: 0.2.0 beautifulsoup4: 4.11.2 blockdiag: 3.0.0 build: 0.10.0 certifi: 2021.10.8 cftime: 1.6.2 charset-normalizer: 3.1.0 ChimeraX-AddCharge: 1.5.9.1 ChimeraX-AddH: 2.2.5 ChimeraX-AlignmentAlgorithms: 2.0.1 ChimeraX-AlignmentHdrs: 3.3.1 ChimeraX-AlignmentMatrices: 2.1 ChimeraX-Alignments: 2.9.3 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.0.3 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.1 ChimeraX-ArtiaX: 0.3 ChimeraX-Atomic: 1.43.10 ChimeraX-AtomicLibrary: 10.0.6 ChimeraX-AtomSearch: 2.0.1 ChimeraX-AxesPlanes: 2.3.2 ChimeraX-BasicActions: 1.1.2 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 2.1.2 ChimeraX-BondRot: 2.0.1 ChimeraX-BugReporter: 1.0.1 ChimeraX-BuildStructure: 2.8 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.2.2 ChimeraX-ButtonPanel: 1.0.1 ChimeraX-CageBuilder: 1.0.1 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.3.2 ChimeraX-ChangeChains: 1.0.2 ChimeraX-CheckWaters: 1.3.1 ChimeraX-ChemGroup: 2.0.1 ChimeraX-Clashes: 2.2.4 ChimeraX-ColorActions: 1.0.3 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5.3 ChimeraX-CommandLine: 1.2.5 ChimeraX-ConnectStructure: 2.0.1 ChimeraX-Contacts: 1.0.1 ChimeraX-Core: 1.6rc202305021906 ChimeraX-CoreFormats: 1.1 ChimeraX-coulombic: 1.4.2 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0.1 ChimeraX-DataFormats: 1.2.3 ChimeraX-Dicom: 1.2 ChimeraX-DistMonitor: 1.4 ChimeraX-DockPrep: 1.1.1 ChimeraX-Dssp: 2.0 ChimeraX-EMDB-SFF: 1.0 ChimeraX-ESMFold: 1.0 ChimeraX-FileHistory: 1.0.1 ChimeraX-FunctionKey: 1.0.1 ChimeraX-Geometry: 1.3 ChimeraX-gltf: 1.0 ChimeraX-Graphics: 1.1.1 ChimeraX-Hbonds: 2.4 ChimeraX-Help: 1.2.1 ChimeraX-HKCage: 1.3 ChimeraX-IHM: 1.1 ChimeraX-ImageFormats: 1.2 ChimeraX-IMOD: 1.0 ChimeraX-IO: 1.0.1 ChimeraX-ItemsInspection: 1.0.1 ChimeraX-Label: 1.1.7 ChimeraX-ListInfo: 1.1.1 ChimeraX-Log: 1.1.5 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.8.2 ChimeraX-Map: 1.1.4 ChimeraX-MapData: 2.0 ChimeraX-MapEraser: 1.0.1 ChimeraX-MapFilter: 2.0.1 ChimeraX-MapFit: 2.0 ChimeraX-MapSeries: 2.1.1 ChimeraX-Markers: 1.0.1 ChimeraX-Mask: 1.0.2 ChimeraX-MatchMaker: 2.0.12 ChimeraX-MDcrds: 2.6 ChimeraX-MedicalToolbar: 1.0.2 ChimeraX-Meeting: 1.0.1 ChimeraX-MLP: 1.1.1 ChimeraX-mmCIF: 2.12 ChimeraX-MMTF: 2.2 ChimeraX-Modeller: 1.5.9 ChimeraX-ModelPanel: 1.3.7 ChimeraX-ModelSeries: 1.0.1 ChimeraX-Mol2: 2.0 ChimeraX-Mole: 1.0 ChimeraX-Morph: 1.0.2 ChimeraX-MouseModes: 1.2 ChimeraX-Movie: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nifti: 1.0 ChimeraX-NRRD: 1.0 ChimeraX-Nucleotides: 2.0.3 ChimeraX-OpenCommand: 1.10.1 ChimeraX-PDB: 2.7.2 ChimeraX-PDBBio: 1.0 ChimeraX-PDBLibrary: 1.0.2 ChimeraX-PDBMatrices: 1.0 ChimeraX-PickBlobs: 1.0.1 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.1 ChimeraX-PubChem: 2.1 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1.1 ChimeraX-RemoteControl: 1.0 ChimeraX-RenderByAttr: 1.1 ChimeraX-RenumberResidues: 1.1 ChimeraX-ResidueFit: 1.0.1 ChimeraX-RestServer: 1.1 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 3.0 ChimeraX-RotamerLibsDunbrack: 2.0 ChimeraX-RotamerLibsDynameomics: 2.0 ChimeraX-RotamerLibsRichardson: 2.0 ChimeraX-SaveCommand: 1.5.1 ChimeraX-SchemeMgr: 1.0 ChimeraX-SDF: 2.0.1 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0.1 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.8.3 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0.1 ChimeraX-Shortcuts: 1.1.1 ChimeraX-ShowSequences: 1.0.1 ChimeraX-SideView: 1.0.1 ChimeraX-Smiles: 2.1 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.10.3 ChimeraX-STL: 1.0.1 ChimeraX-Storm: 1.0 ChimeraX-StructMeasure: 1.1.2 ChimeraX-Struts: 1.0.1 ChimeraX-Surface: 1.0.1 ChimeraX-SwapAA: 2.0.1 ChimeraX-SwapRes: 2.2.1 ChimeraX-TapeMeasure: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.1.2 ChimeraX-ToolshedUtils: 1.2.1 ChimeraX-Topography: 1.0 ChimeraX-Tug: 1.0.1 ChimeraX-UI: 1.28.4 ChimeraX-uniprot: 2.2.2 ChimeraX-UnitCell: 1.0.1 ChimeraX-ViewDockX: 1.2 ChimeraX-VIPERdb: 1.0 ChimeraX-Vive: 1.1 ChimeraX-VolumeMenu: 1.0.1 ChimeraX-VTK: 1.0 ChimeraX-WavefrontOBJ: 1.0 ChimeraX-WebCam: 1.0.2 ChimeraX-WebServices: 1.1.1 ChimeraX-Zone: 1.0.1 colorama: 0.4.6 comm: 0.1.3 contourpy: 1.0.7 cxservices: 1.2.2 cycler: 0.11.0 Cython: 0.29.33 debugpy: 1.6.7 decorator: 5.1.1 docutils: 0.19 executing: 1.2.0 filelock: 3.9.0 fonttools: 4.39.3 funcparserlib: 1.0.1 geomdl: 5.3.1 grako: 3.16.5 h5py: 3.8.0 html2text: 2020.1.16 idna: 3.4 ihm: 0.35 imagecodecs: 2022.2.22 imagesize: 1.4.1 importlib-metadata: 6.6.0 ipykernel: 6.21.1 ipython: 8.10.0 ipython-genutils: 0.2.0 ipywidgets: 8.0.6 jedi: 0.18.2 Jinja2: 3.1.2 jupyter-client: 8.0.2 jupyter-core: 5.3.0 jupyterlab-widgets: 3.0.7 kiwisolver: 1.4.4 line-profiler: 4.0.2 lxml: 4.9.2 lz4: 4.3.2 MarkupSafe: 2.1.2 matplotlib: 3.6.3 matplotlib-inline: 0.1.6 msgpack: 1.0.4 nest-asyncio: 1.5.6 netCDF4: 1.6.2 networkx: 2.8.8 nibabel: 5.0.1 nptyping: 2.5.0 numexpr: 2.8.4 numpy: 1.23.5 openvr: 1.23.701 packaging: 21.3 pandas: 2.0.3 ParmEd: 3.4.3 parso: 0.8.3 pep517: 0.13.0 pexpect: 4.8.0 pickleshare: 0.7.5 Pillow: 9.3.0 pip: 23.0 pkginfo: 1.9.6 platformdirs: 3.5.0 prompt-toolkit: 3.0.38 psutil: 5.9.4 ptyprocess: 0.7.0 pure-eval: 0.2.2 pycollada: 0.7.2 pydicom: 2.3.0 Pygments: 2.14.0 pynrrd: 1.0.0 PyOpenGL: 3.1.5 PyOpenGL-accelerate: 3.1.5 pyparsing: 3.0.9 pyproject-hooks: 1.0.0 PyQt6-commercial: 6.4.2 PyQt6-Qt6: 6.4.3 PyQt6-sip: 13.4.1 PyQt6-WebEngine-commercial: 6.4.0 PyQt6-WebEngine-Qt6: 6.4.3 python-dateutil: 2.8.2 pytz: 2023.3 pyzmq: 25.0.2 qtconsole: 5.4.0 QtPy: 2.3.1 RandomWords: 0.4.0 requests: 2.28.2 scipy: 1.9.3 setuptools: 67.4.0 setuptools-scm: 7.0.5 sfftk-rw: 0.7.3 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 soupsieve: 2.4.1 sphinx: 6.1.3 sphinx-autodoc-typehints: 1.22 sphinxcontrib-applehelp: 1.0.4 sphinxcontrib-blockdiag: 3.0.0 sphinxcontrib-devhelp: 1.0.2 sphinxcontrib-htmlhelp: 2.0.1 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.3 sphinxcontrib-serializinghtml: 1.1.5 stack-data: 0.6.2 starfile: 0.4.12 superqt: 0.4.1 tables: 3.7.0 tcia-utils: 1.2.0 tifffile: 2022.10.10 tinyarray: 1.2.4 tomli: 2.0.1 tornado: 6.3.1 traitlets: 5.9.0 typing-extensions: 4.5.0 tzdata: 2023.3 urllib3: 1.26.15 wcwidth: 0.2.6 webcolors: 1.12 wheel: 0.38.4 wheel-filename: 1.4.1 widgetsnbextension: 4.0.7 zipp: 3.15.0 }}} " defect closed normal Graphics nonchimerax all ChimeraX