Opened 3 years ago

Closed 3 years ago

#8600 closed defect (duplicate)

Crash closing window while XMAS in use

Reported by: chimerax-bug-report@… Owned by: Richard Scheltema
Priority: normal Milestone:
Component: Third Party Version:
Keywords: Cc:
Blocked By: Blocking:
Notify when closed: Platform: all
Project: ChimeraX

Description 

The following bug report has been submitted:
Platform:        macOS-10.16-x86_64-i386-64bit
ChimeraX Version: 1.5 (2022-11-24 00:03:27 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault

Current thread 0x0000000112ece600 (most recent call first):
  File "/opt/sbgrid/i386-mac/chimerax/1.5/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/ui/gui.py", line 283 in event_loop
  File "/opt/sbgrid/i386-mac/chimerax/1.5/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/__main__.py", line 884 in init
  File "/opt/sbgrid/i386-mac/chimerax/1.5/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/__main__.py", line 1035 in 
  File "/opt/sbgrid/i386-mac/chimerax/1.5/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py", line 87 in _run_code
  File "/opt/sbgrid/i386-mac/chimerax/1.5/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py", line 197 in _run_module_as_main


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{
  "uptime" : 19000,
  "procLaunch" : "2023-03-04 12:32:29.0112 +0100",
  "procRole" : "Foreground",
  "version" : 2,
  "userID" : 501,
  "deployVersion" : 210,
  "modelCode" : "MacBookPro16,1",
  "procStartAbsTime" : 15468268898929,
  "coalitionID" : 1691,
  "osVersion" : {
    "train" : "macOS 12.6.2",
    "build" : "21G320",
    "releaseType" : "User"
  },
  "captureTime" : "2023-03-05 21:12:12.6917 +0100",
  "incident" : "78E1243D-0D37-4501-9CF5-324E36528C5C",
  "bug_type" : "309",
  "pid" : 2837,
  "procExitAbsTime" : 19654248139251,
  "cpuType" : "X86-64",
  "procName" : "ChimeraX",
  "procPath" : "\/opt\/sbgrid\/*\/ChimeraX.app\/Contents\/MacOS\/ChimeraX",
  "bundleInfo" : {"CFBundleShortVersionString":"1.5.0","CFBundleVersion":"1.5.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
  "storeInfo" : {"deviceIdentifierForVendor":"C1084B94-4A07-53B5-9A85-2355AD82ABA3","thirdParty":true},
  "parentProc" : "launchd",
  "parentPid" : 1,
  "coalitionName" : "edu.ucsf.cgl.ChimeraX",
  "crashReporterKey" : "19CCC37A-33D6-4584-2DD0-78BED36A390F",
  "wakeTime" : 2305,
  "bridgeVersion" : {"build":"20P2059","train":"7.1"},
  "sleepWakeUUID" : "0D5870FC-1335-4DBA-9DAF-A7075815CBE9",
  "sip" : "enabled",
  "vmRegionInfo" : "0 is not in any region.  Bytes before following region: 4513939456\n      REGION TYPE                    START - END         [ VSIZE] PRT\/MAX SHRMOD  REGION DETAIL\n      UNUSED SPACE AT START\n--->  \n      __TEXT                      10d0d4000-10d0d5000    [    4K] r-x\/r-x SM=COW  ...acOS\/ChimeraX",
  "isCorpse" : 1,
  "exception" : {"codes":"0x000000000000000d, 0x0000000000000000","rawCodes":[13,0],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"UNKNOWN_0xD at 0x0000000000000000"},
  "ktriageinfo" : "VM - Compressor failed a blocking pager_get\nVM - Compressor failed a blocking pager_get\nVM - Compressor failed a blocking pager_get\nVM - Compressor failed a blocking pager_get\nVM - Compressor failed a blocking pager_get\n",
  "vmregioninfo" : "0 is not in any region.  Bytes before following region: 4513939456\n      REGION TYPE                    START - END         [ VSIZE] PRT\/MAX SHRMOD  REGION DETAIL\n      UNUSED SPACE AT START\n--->  \n      __TEXT                      10d0d4000-10d0d5000    [    4K] r-x\/r-x SM=COW  ...acOS\/ChimeraX",
  "extMods" : {"caller":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"system":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"targeted":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"warnings":0},
  "faultingThread" : 0,
  "threads" : 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    "name" : "Python",
    "CFBundleVersion" : "3.9.11"
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    "path" : "\/usr\/lib\/dyld",
    "name" : "dyld"
  },
  {
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    "size" : 64028672,
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    "path" : "\/opt\/sbgrid\/*\/ChimeraX.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.9\/lib\/python3.9\/site-packages\/numpy\/.dylibs\/libopenblas64_.0.dylib",
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===== Log before crash start =====
UCSF ChimeraX version: 1.5 (2022-11-24)  
© 2016-2022 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open /Users/laura/Documents/RSC/Analyse_structurale/20220112_J622_head.mrc

Opened 20220112_J622_head.mrc as #1, grid size 450,450,450, pixel 0.84, shown
at level 0.0471, step 2, values float32  

> volume #1 step 1

> volume #1 level 0.1816

> open /Users/laura/Documents/RSC/Analyse_structurale/mask42_Carlo.pdb

Chain information for mask42_Carlo.pdb #2  
---  
Chain | Description  
1 | No description available  
2 | No description available  
A | No description available  
B | No description available  
D | No description available  
F | No description available  
G | No description available  
H | No description available  
K | No description available  
W | No description available  
X | No description available  
  

> ui tool show XMAS

  
Peptide pair mapping of Xi evidence file:
/Users/laura/Downloads/RSC_BS3_msconvert_Xi1.7.6.7_PeptidePairs_xiFDR2.1.5.5.csv  
Unique peptide pairs: 1198 out of 1211  
Unique peptide pairs with pseudobonds: 21  
Pseudobonds are stored in
/Users/laura/Downloads/RSC_BS3_msconvert_Xi1.7.6.7_PeptidePairs_xiFDR2.1.5.5_2.pb  
Mapping information is stored in
/Users/laura/Downloads/RSC_BS3_msconvert_Xi1.7.6.7_PeptidePairs_xiFDR2.1.5.5_2.tsv  

> hide #!2 models

> hide #!1 models

> show #!2 models

> show #!1 models

> hide #!1 models

> style stick

Changed 8496 atom styles  

> open
> /Users/laura/Documents/RSC/Science4/CaRSC_Structure/model_CA_core_wofoot_3.pdb

Chain information for model_CA_core_wofoot_3.pdb #4  
---  
Chain | Description  
A | No description available  
E | No description available  
J | No description available  
  
  
Peptide pair mapping of Xi evidence file:
/Users/laura/Downloads/RSC_BS3_msconvert_Xi1.7.6.7_PeptidePairs_xiFDR2.1.5.5.csv  
Unique peptide pairs: 1198 out of 1211  
Unique peptide pairs with pseudobonds: 51  
Pseudobonds are stored in
/Users/laura/Downloads/RSC_BS3_msconvert_Xi1.7.6.7_PeptidePairs_xiFDR2.1.5.5_2,4.pb  
Mapping information is stored in
/Users/laura/Downloads/RSC_BS3_msconvert_Xi1.7.6.7_PeptidePairs_xiFDR2.1.5.5_2,4.tsv  

> open
> /Users/laura/Documents/RSC/Analyse_structurale/cryosparc_P197_J456_006_volume_map_sharp.mrc

Opened cryosparc_P197_J456_006_volume_map_sharp.mrc as #6, grid size
450,450,450, pixel 0.84, shown at level 0.102, step 2, values float32  

> show #!1 models

> hide #!1 models

> hide #3 models

> select subtract #3

Nothing selected  

> hide #5 models

> volume #6 step 1

> surface dust #6 size 8.4

> volume #6 level 0.2521

> hide #!2 models

> fitmap #4 inMap #6

Fit molecule model_CA_core_wofoot_3.pdb (#4) to map
cryosparc_P197_J456_006_volume_map_sharp.mrc (#6) using 5169 atoms  
average map value = 0.03277, steps = 220  
shifted from previous position = 9.96  
rotated from previous position = 14 degrees  
atoms outside contour = 5168, contour level = 0.25211  
  
Position of model_CA_core_wofoot_3.pdb (#4) relative to
cryosparc_P197_J456_006_volume_map_sharp.mrc (#6) coordinates:  
Matrix rotation and translation  
0.97040927 0.22668597 0.08318250 -66.40857136  
-0.22835857 0.97351438 0.01105071 48.30755244  
-0.07847432 -0.02971915 0.99647306 21.75662245  
Axis -0.08412676 0.33357147 -0.93896366  
Axis point 173.14021730 315.08303197 0.00000000  
Rotation angle (degrees) 14.02304332  
Shift along axis 1.27208137  
  

> volume #6 color #ffffb299

> select add #4

5169 atoms, 5254 bonds, 20 pseudobonds, 634 residues, 3 models selected  

> select add #5

5169 atoms, 5254 bonds, 41 pseudobonds, 634 residues, 3 models selected  

> select subtract #5

5169 atoms, 5254 bonds, 4 pseudobonds, 634 residues, 2 models selected  

> ui mousemode right "rotate selected models"

> ui mousemode right "translate selected models"

> view matrix models
> #4,0.97041,0.22669,0.083182,-63.886,-0.22836,0.97351,0.011051,73.451,-0.078474,-0.029719,0.99647,19.145

> view matrix models
> #4,-0.032113,0.71419,0.69922,-123.56,-0.49492,-0.61915,0.60968,340.54,0.86834,-0.32648,0.37335,48.613

> view matrix models
> #4,-0.35828,0.70096,0.61667,-50.124,-0.31795,-0.71265,0.62533,328.04,0.8778,0.027971,0.4782,-49.671

> view matrix models
> #4,-0.17179,0.070969,0.98257,-18.597,-0.18783,-0.98147,0.03805,480.27,0.96706,-0.17802,0.18194,38.278

> view matrix models
> #4,-0.17179,0.070969,0.98257,-28.128,-0.18783,-0.98147,0.03805,458.48,0.96706,-0.17802,0.18194,33.723

> fitmap #4 inMap #6

Fit molecule model_CA_core_wofoot_3.pdb (#4) to map
cryosparc_P197_J456_006_volume_map_sharp.mrc (#6) using 5169 atoms  
average map value = 0.04199, steps = 80  
shifted from previous position = 5.15  
rotated from previous position = 4.85 degrees  
atoms outside contour = 4983, contour level = 0.25211  
  
Position of model_CA_core_wofoot_3.pdb (#4) relative to
cryosparc_P197_J456_006_volume_map_sharp.mrc (#6) coordinates:  
Matrix rotation and translation  
-0.24013779 0.02887201 0.97030936 -0.71513498  
-0.15411908 -0.98801359 -0.00874348 465.21482550  
0.95842639 -0.15164283 0.24170913 15.79636696  
Axis -0.61467249 0.05111382 -0.78712458  
Axis point 10.68615808 232.87844790 0.00000000  
Rotation angle (degrees) 173.32483498  
Shift along axis 11.78477194  
  

> view matrix models
> #4,-0.24014,0.028872,0.97031,-26.948,-0.15412,-0.98801,-0.0087435,405.9,0.95843,-0.15164,0.24171,-16.78

> view matrix models
> #4,-0.056898,0.47313,0.87916,-134.57,-0.82474,-0.51853,0.22568,370.44,0.56264,-0.71224,0.41971,133.94

> view matrix models
> #4,-0.056898,0.47313,0.87916,-117.1,-0.82474,-0.51853,0.22568,414.82,0.56264,-0.71224,0.41971,155.84

> view matrix models
> #4,-0.056898,0.47313,0.87916,-113.82,-0.82474,-0.51853,0.22568,403.75,0.56264,-0.71224,0.41971,139.92

> view matrix models
> #4,-0.048394,0.59881,0.79943,-107.71,-0.86536,-0.42483,0.26583,395.23,0.49881,-0.67893,0.53874,127.02

> view matrix models
> #4,0.054234,-0.39041,0.91904,63.361,-0.26476,-0.89307,-0.36376,520.45,0.96279,-0.2236,-0.1518,88.694

> view matrix models
> #4,0.054234,-0.39041,0.91904,69.502,-0.26476,-0.89307,-0.36376,511.71,0.96279,-0.2236,-0.1518,79.616

> view matrix models
> #4,0.054234,-0.39041,0.91904,74.714,-0.26476,-0.89307,-0.36376,522.49,0.96279,-0.2236,-0.1518,79.773

> view matrix models
> #4,0.054234,-0.39041,0.91904,76.995,-0.26476,-0.89307,-0.36376,524.66,0.96279,-0.2236,-0.1518,80.537

> fitmap #4 inMap #6

Fit molecule model_CA_core_wofoot_3.pdb (#4) to map
cryosparc_P197_J456_006_volume_map_sharp.mrc (#6) using 5169 atoms  
average map value = 0.1533, steps = 152  
shifted from previous position = 4.4  
rotated from previous position = 14.2 degrees  
atoms outside contour = 3650, contour level = 0.25211  
  
Position of model_CA_core_wofoot_3.pdb (#4) relative to
cryosparc_P197_J456_006_volume_map_sharp.mrc (#6) coordinates:  
Matrix rotation and translation  
0.04090101 -0.18184759 0.98247573 19.43869326  
-0.36638736 -0.91753314 -0.15457438 500.42607919  
0.92956302 -0.35364444 -0.10415469 104.06348707  
Axis -0.71981662 0.19132685 -0.66727661  
Axis point -0.00000000 258.21477003 18.98628349  
Rotation angle (degrees) 172.05176798  
Shift along axis 12.31352141  
  

> hide #!6 models

> show #!2 models

> show #3 models

> show #5 models

> style sel stick

Changed 5169 atom styles  

> show sel atoms

> hide sel cartoons

> color sel bychain

> set bgColor white

> color #3 black models

> color #5 black models

> select subtract #4

Nothing selected  

> open
> /Users/laura/Documents/RSC/Analyse_structurale/J456_J622_6v8o_adjusted2.cxs

Opened cryosparc_P197_J622_007_volume_map(2).mrc copy as #7, grid size
450,450,450, pixel 0.84, shown at level 0.18, step 1, values float32  
Opened cryosparc_P197_J456_006_volume_map.mrc copy as #6, grid size
450,450,450, pixel 0.84, shown at level 0.15, step 1, values float32  
Opened J700_labilehead_arm.mrc as #1, grid size 450,450,450, pixel 0.84, shown
at level 0.2, step 1, values float32  
Opened cryosparc_P197_J610_006_volume_map_sharp.mrc as #8, grid size
450,450,450, pixel 0.84, shown at level 0.206, step 1, values float32  

> set bgColor transparent

opened ChimeraX session  

> open
> /Users/laura/Documents/RSC/Science4/CaRSC_Structure/refinement/20230203_DB_compilation.pdb

Chain information for 20230203_DB_compilation.pdb #10  
---  
Chain | Description  
E | No description available  
J | No description available  
K | No description available  
M | No description available  
  

> open
> /Users/laura/Documents/RSC/Science4/CaRSC_Structure/refinement/20230208_HBLobe_job121.pdb

Chain information for 20230208_HBLobe_job121.pdb #11  
---  
Chain | Description  
A | No description available  
D | No description available  
F | No description available  
G | No description available  
H | No description available  
U | No description available  
  

> show #!9 models

> style #!9-11 stick

Changed 18250 atom styles  

> hide #!9-11 atoms

> show #!9-11 cartoons

> hide #!6 models

> hide #!7 models

> hide #!10 models

> show #!10 models

> hide #!1 models

> hide #!9-11 cartoons

> style #!9-11 stick

Changed 18250 atom styles  

> style #!9-11 stick

Changed 18250 atom styles  

> show #!9-11 atoms

> color #!9-11 bychain

  
Peptide pair mapping of Xi evidence file:
/Users/laura/Downloads/RSC_BS3_msconvert_Xi1.7.6.7_PeptidePairs_xiFDR2.1.5.5.csv  
Unique peptide pairs: 1198 out of 1211  
Unique peptide pairs with pseudobonds: 109  
Pseudobonds are stored in
/Users/laura/Downloads/RSC_BS3_msconvert_Xi1.7.6.7_PeptidePairs_xiFDR2.1.5.5_3,4,5,2,9,10,11.pb  
Mapping information is stored in
/Users/laura/Downloads/RSC_BS3_msconvert_Xi1.7.6.7_PeptidePairs_xiFDR2.1.5.5_3,4,5,2,9,10,11.tsv  

> select subtract #12

Nothing selected  

> color #11 #919191ff

> color #9 #797979ff

> color #10 #797979ff

> color #9 #fffb00ff

> undo

> set bgColor white

> set bgColor #ffffff00

> color #9 #424242ff

> color #11 #424242ff

> color #10 #424242ff

> ui mousemode right "tape measure"

> ui mousemode right distance

> distance #10/J:474@N #10/J:465@CA

Distance between 20230203_DB_compilation.pdb #10/J LYS 474 N and TYR 465 CA:
13.941Å  

> ui mousemode right translate

> undo

> hide #12 models

> show #12 models

> color #11 #424242ff

> color #10 #424242ff

> color #9 #424242ff

> hide #13 models

> show #13 models

> hide #!14 models

> show #!14 models

> close #12

  
Peptide pair mapping of Xi evidence file:
/Users/laura/Downloads/RSC_BS3_msconvert_Xi1.7.6.7_PeptidePairs_xiFDR2.1.5.5.csv  
Unique peptide pairs: 1198 out of 1211  
Unique peptide pairs with pseudobonds: 109  
Pseudobonds are stored in
/Users/laura/Downloads/RSC_BS3_msconvert_Xi1.7.6.7_PeptidePairs_xiFDR2.1.5.5_3,4,5,2,9,10,11.pb  
Mapping information is stored in
/Users/laura/Downloads/RSC_BS3_msconvert_Xi1.7.6.7_PeptidePairs_xiFDR2.1.5.5_3,4,5,2,9,10,11.tsv  


===== Log before crash end =====

Log:
UCSF ChimeraX version: 1.5 (2022-11-24)  
© 2016-2022 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  




OpenGL version: 4.1 ATI-4.8.101
OpenGL renderer: AMD Radeon Pro 5500M OpenGL Engine
OpenGL vendor: ATI Technologies Inc.

Python: 3.9.11
Locale: UTF-8
Qt version: PyQt6 6.3.1, Qt 6.3.1
Qt runtime version: 6.3.2
Qt platform: cocoa
Hardware:

    Hardware Overview:

      Model Name: MacBook Pro
      Model Identifier: MacBookPro16,1
      Processor Name: 8-Core Intel Core i9
      Processor Speed: 2,3 GHz
      Number of Processors: 1
      Total Number of Cores: 8
      L2 Cache (per Core): 256 KB
      L3 Cache: 16 MB
      Hyper-Threading Technology: Enabled
      Memory: 32 GB
      System Firmware Version: 1916.60.2.0.0 (iBridge: 20.16.2059.0.0,0)
      OS Loader Version: 540.120.3~22

Software:

    System Software Overview:

      System Version: macOS 12.6.2 (21G320)
      Kernel Version: Darwin 21.6.0
      Time since boot: 1 day 12:58

Graphics/Displays:

    Intel UHD Graphics 630:

      Chipset Model: Intel UHD Graphics 630
      Type: GPU
      Bus: Built-In
      VRAM (Dynamic, Max): 1536 MB
      Vendor: Intel
      Device ID: 0x3e9b
      Revision ID: 0x0002
      Automatic Graphics Switching: Supported
      gMux Version: 5.0.0
      Metal Family: Supported, Metal GPUFamily macOS 2

    AMD Radeon Pro 5500M:

      Chipset Model: AMD Radeon Pro 5500M
      Type: GPU
      Bus: PCIe
      PCIe Lane Width: x16
      VRAM (Total): 8 GB
      Vendor: AMD (0x1002)
      Device ID: 0x7340
      Revision ID: 0x0040
      ROM Revision: 113-D3220E-190
      VBIOS Version: 113-D32206U1-019
      Option ROM Version: 113-D32206U1-019
      EFI Driver Version: 01.A1.190
      Automatic Graphics Switching: Supported
      gMux Version: 5.0.0
      Metal Family: Supported, Metal GPUFamily macOS 2
      Displays:
        Color LCD:
          Display Type: Built-In Retina LCD
          Resolution: 3072 x 1920 Retina
          Framebuffer Depth: 24-Bit Color (ARGB8888)
          Main Display: Yes
          Mirror: Off
          Online: Yes
          Automatically Adjust Brightness: Yes
          Connection Type: Internal


Installed Packages:
    alabaster: 0.7.12
    appdirs: 1.4.4
    appnope: 0.1.3
    asttokens: 2.1.0
    Babel: 2.11.0
    backcall: 0.2.0
    blockdiag: 3.0.0
    build: 0.8.0
    certifi: 2021.10.8
    cftime: 1.6.2
    charset-normalizer: 2.1.1
    ChimeraX-AddCharge: 1.4
    ChimeraX-AddH: 2.2.1
    ChimeraX-AlignmentAlgorithms: 2.0
    ChimeraX-AlignmentHdrs: 3.2.1
    ChimeraX-AlignmentMatrices: 2.0
    ChimeraX-Alignments: 2.6
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.0.3
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.0
    ChimeraX-Atomic: 1.41.5
    ChimeraX-AtomicLibrary: 8.0.3
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.3
    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: 2.7.1
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.2
    ChimeraX-ButtonPanel: 1.0.1
    ChimeraX-CageBuilder: 1.0.1
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.3.1
    ChimeraX-ChangeChains: 1.0.2
    ChimeraX-CheckWaters: 1.3
    ChimeraX-ChemGroup: 2.0
    ChimeraX-Clashes: 2.2.4
    ChimeraX-ColorActions: 1.0.3
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.2
    ChimeraX-CommandLine: 1.2.4
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.5
    ChimeraX-CoreFormats: 1.1
    ChimeraX-coulombic: 1.3.2
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DataFormats: 1.2.2
    ChimeraX-Dicom: 1.1
    ChimeraX-DistMonitor: 1.3
    ChimeraX-DockPrep: 1.0
    ChimeraX-Dssp: 2.0
    ChimeraX-EMDB-SFF: 1.0
    ChimeraX-ExperimentalCommands: 1.0
    ChimeraX-FileHistory: 1.0.1
    ChimeraX-FunctionKey: 1.0.1
    ChimeraX-Geometry: 1.2
    ChimeraX-gltf: 1.0
    ChimeraX-Graphics: 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: 1.1.2
    ChimeraX-MapData: 2.0
    ChimeraX-MapEraser: 1.0.1
    ChimeraX-MapFilter: 2.0
    ChimeraX-MapFit: 2.0
    ChimeraX-MapSeries: 2.1.1
    ChimeraX-Markers: 1.0.1
    ChimeraX-Mask: 1.0.1
    ChimeraX-MatchMaker: 2.0.9
    ChimeraX-MDcrds: 2.6
    ChimeraX-MedicalToolbar: 1.0.2
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1
    ChimeraX-mmCIF: 2.8
    ChimeraX-MMTF: 2.2
    ChimeraX-Modeller: 1.5.6
    ChimeraX-ModelPanel: 1.3.6
    ChimeraX-ModelSeries: 1.0.1
    ChimeraX-Mol2: 2.0
    ChimeraX-Mole: 1.0
    ChimeraX-Morph: 1.0.1
    ChimeraX-MouseModes: 1.1.1
    ChimeraX-Movie: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.9.1
    ChimeraX-PDB: 2.6.8
    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-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    ChimeraX-RestServer: 1.1
    ChimeraX-RNALayout: 1.0
    ChimeraX-RotamerLibMgr: 2.0.1
    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
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.7.2
    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
    ChimeraX-STL: 1.0
    ChimeraX-Storm: 1.0
    ChimeraX-StructMeasure: 1.1
    ChimeraX-Struts: 1.0.1
    ChimeraX-Surface: 1.0
    ChimeraX-SwapAA: 2.0.1
    ChimeraX-SwapRes: 2.1.3
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.1.2
    ChimeraX-ToolshedUtils: 1.2.1
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.24.3
    ChimeraX-uniprot: 2.2.1
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.1.4
    ChimeraX-VIPERdb: 1.0
    ChimeraX-Vive: 1.1
    ChimeraX-VolumeMenu: 1.0.1
    ChimeraX-VTK: 1.0
    ChimeraX-WavefrontOBJ: 1.0
    ChimeraX-WebCam: 1.0.1
    ChimeraX-WebServices: 1.1.0
    ChimeraX-XMAS: 1.1.2
    ChimeraX-Zone: 1.0.1
    colorama: 0.4.5
    cxservices: 1.2
    cycler: 0.11.0
    Cython: 0.29.32
    debugpy: 1.6.4
    decorator: 5.1.1
    docutils: 0.19
    entrypoints: 0.4
    et-xmlfile: 1.1.0
    executing: 1.2.0
    filelock: 3.7.1
    fonttools: 4.38.0
    funcparserlib: 1.0.1
    grako: 3.16.5
    h5py: 3.7.0
    html2text: 2020.1.16
    idna: 3.4
    ihm: 0.33
    imagecodecs: 2022.7.31
    imagesize: 1.4.1
    importlib-metadata: 5.1.0
    ipykernel: 6.15.3
    ipython: 8.4.0
    ipython-genutils: 0.2.0
    jedi: 0.18.1
    Jinja2: 3.1.2
    jupyter-client: 7.3.4
    jupyter-core: 5.1.0
    kiwisolver: 1.4.4
    line-profiler: 3.5.1
    lxml: 4.9.1
    lz4: 4.0.2
    MarkupSafe: 2.1.1
    matplotlib: 3.5.2
    matplotlib-inline: 0.1.6
    msgpack: 1.0.4
    nest-asyncio: 1.5.6
    netCDF4: 1.6.0
    networkx: 2.8.5
    numexpr: 2.8.4
    numpy: 1.23.1
    openpyxl: 3.1.0
    openvr: 1.23.701
    packaging: 21.3
    pandas: 1.5.3
    ParmEd: 3.4.3
    parso: 0.8.3
    pep517: 0.13.0
    pexpect: 4.8.0
    pickleshare: 0.7.5
    Pillow: 9.2.0
    pip: 22.2.2
    pkginfo: 1.8.3
    platformdirs: 2.5.4
    prompt-toolkit: 3.0.33
    psutil: 5.9.1
    ptyprocess: 0.7.0
    pure-eval: 0.2.2
    pycollada: 0.7.2
    pydicom: 2.3.0
    Pygments: 2.12.0
    PyOpenGL: 3.1.5
    PyOpenGL-accelerate: 3.1.5
    pyparsing: 3.0.9
    PyQt6-commercial: 6.3.1
    PyQt6-Qt6: 6.3.2
    PyQt6-sip: 13.4.0
    PyQt6-WebEngine-commercial: 6.3.1
    PyQt6-WebEngine-Qt6: 6.3.2
    python-dateutil: 2.8.2
    pytz: 2022.6
    pyzmq: 24.0.1
    qtconsole: 5.3.1
    QtPy: 2.3.0
    QtRangeSlider: 0.1.5
    RandomWords: 0.4.0
    requests: 2.28.1
    scipy: 1.9.0
    seaborn: 0.12.2
    setuptools: 65.1.1
    setuptools-scm: 7.0.5
    sfftk-rw: 0.7.2
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    Sphinx: 5.1.1
    sphinx-autodoc-typehints: 1.19.1
    sphinxcontrib-applehelp: 1.0.2
    sphinxcontrib-blockdiag: 3.0.0
    sphinxcontrib-devhelp: 1.0.2
    sphinxcontrib-htmlhelp: 2.0.0
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 1.0.3
    sphinxcontrib-serializinghtml: 1.1.5
    stack-data: 0.6.2
    tables: 3.7.0
    tifffile: 2022.7.31
    tinyarray: 1.2.4
    tomli: 2.0.1
    tornado: 6.2
    traitlets: 5.3.0
    typing-extensions: 4.4.0
    urllib3: 1.26.13
    wcwidth: 0.2.5
    webcolors: 1.12
    wheel: 0.37.1
    wheel-filename: 1.4.1
    zipp: 3.11.0

Change History (2)

comment:1 by pett, 3 years ago

Component: Unassigned → Third Party
Owner: set to Richard Scheltema
Platform: → all
Project: → ChimeraX
Status: new → assigned
Summary: ChimeraX bug report submission → Crash closing window while XMAS in use

comment:2 by pett, 3 years ago

Resolution: → duplicate
Status: assigned → closed

Duplicate of #8575

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