Opened 5 months ago

Closed 5 months ago

#17697 closed defect (duplicate)

Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device returned engine == 0

Reported by: chimerax-bug-report@… Owned by: Eric Pettersen
Priority: normal Milestone:
Component: Window Toolkit Version:
Keywords: Cc:
Blocked By: Blocking:
Notify when closed: Platform: all
Project: ChimeraX

Description 

The following bug report has been submitted:
Platform:        macOS-15.4.1-arm64-arm-64bit
ChimeraX Version: 1.6.1 (2023-05-09 17:57:07 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault

Thread 0x000000034bda3000 (most recent call first):
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 576 in _handle_results
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x000000034ad97000 (most recent call first):
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 528 in _handle_tasks
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x0000000349d8b000 (most recent call first):
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/selectors.py", line 416 in select
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/connection.py", line 936 in wait
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 499 in _wait_for_updates
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 519 in _handle_workers
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x0000000348d7f000 (most recent call first):
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x0000000347d73000 (most recent call first):
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x0000000346d67000 (most recent call first):
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x0000000345d5b000 (most recent call first):
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x0000000344d4f000 (most recent call first):
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x0000000343d43000 (most recent call first):
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x0000000342d37000 (most recent call first):
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x0000000341d2b000 (most recent call first):
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x0000000340d1f000 (most recent call first):
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x000000033fd13000 (most recent call first):
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 910 in run
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/threading.py", line 930 in _bootstrap

Current thread 0x000000020768cc80 (most recent call first):
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/ui/gui.py", line 275 in event_loop
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/__main__.py", line 892 in init
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-packages/chimerax/core/__main__.py", line 1043 in 
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py", line 87 in _run_code
  File "/Applications/ChimeraX-1.6.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/runpy.py", line 197 in _run_module_as_main


{"app_name":"ChimeraX","timestamp":"2025-05-16 08:59:56.00 +0200","app_version":"1.6.1","slice_uuid":"a5992708-d5b4-36ec-ac0a-e525f6105b56","build_version":"1.6.1.0","platform":1,"bundleID":"edu.ucsf.cgl.ChimeraX","share_with_app_devs":0,"is_first_party":0,"bug_type":"309","os_version":"macOS 15.4.1 (24E263)","roots_installed":0,"name":"ChimeraX","incident_id":"9D9D8AA1-9C8F-49D8-AE37-2314991C35AF"}
{
  "uptime" : 520000,
  "procRole" : "Background",
  "version" : 2,
  "userID" : 501,
  "deployVersion" : 210,
  "modelCode" : "MacBookPro18,2",
  "coalitionID" : 55758,
  "osVersion" : {
    "train" : "macOS 15.4.1",
    "build" : "24E263",
    "releaseType" : "User"
  },
  "captureTime" : "2025-05-16 08:59:24.3967 +0200",
  "codeSigningMonitor" : 1,
  "incident" : "9D9D8AA1-9C8F-49D8-AE37-2314991C35AF",
  "pid" : 46215,
  "translated" : false,
  "cpuType" : "ARM-64",
  "roots_installed" : 0,
  "bug_type" : "309",
  "procLaunch" : "2025-05-15 11:19:16.0903 +0200",
  "procStartAbsTime" : 11880516200605,
  "procExitAbsTime" : 12481588449299,
  "procName" : "ChimeraX",
  "procPath" : "\/Applications\/ChimeraX-1.6.1.app\/Contents\/MacOS\/ChimeraX",
  "bundleInfo" : {"CFBundleShortVersionString":"1.6.1","CFBundleVersion":"1.6.1.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
  "storeInfo" : {"deviceIdentifierForVendor":"6B960448-CE3F-59C7-9F4B-4A688BB3DBC6","thirdParty":true},
  "parentProc" : "launchd",
  "parentPid" : 1,
  "coalitionName" : "edu.ucsf.cgl.ChimeraX",
  "crashReporterKey" : "00676DF6-615F-3E8F-4E81-80128E8B8F44",
  "appleIntelligenceStatus" : {"state":"available"},
  "codeSigningID" : "edu.ucsf.cgl.ChimeraX",
  "codeSigningTeamID" : "LWV8X224YF",
  "codeSigningFlags" : 570491649,
  "codeSigningValidationCategory" : 6,
  "codeSigningTrustLevel" : 4294967295,
  "codeSigningAuxiliaryInfo" : 0,
  "instructionByteStream" : {"beforePC":"fyMD1f17v6n9AwCRm+D\/l78DAJH9e8Go\/w9f1sADX9YQKYDSARAA1A==","atPC":"AwEAVH8jA9X9e7+p\/QMAkZDg\/5e\/AwCR\/XvBqP8PX9bAA1\/WcAqA0g=="},
  "bootSessionUUID" : "DB478FE6-4999-4CF6-8DF9-1D22E0FFDD31",
  "sleepWakeUUID" : "48B0EE49-FE1D-4590-B2D2-088D85E8975A",
  "sip" : "enabled",
  "vmRegionInfo" : "0x18 is not in any region.  Bytes before following region: 4309647336\n      REGION TYPE                    START - END         [ VSIZE] PRT\/MAX SHRMOD  REGION DETAIL\n      UNUSED SPACE AT START\n--->  \n      __TEXT                      100e00000-100e04000    [   16K] r-x\/r-x SM=COW  \/Applications\/ChimeraX-1.6.1.app\/Contents\/MacOS\/ChimeraX",
  "exception" : {"codes":"0x0000000000000001, 0x0000000000000018","rawCodes":[1,24],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x0000000000000018"},
  "termination" : {"flags":0,"code":11,"namespace":"SIGNAL","indicator":"Segmentation fault: 11","byProc":"ChimeraX","byPid":46215},
  "vmregioninfo" : "0x18 is not in any region.  Bytes before following region: 4309647336\n      REGION TYPE                    START - END         [ VSIZE] PRT\/MAX SHRMOD  REGION DETAIL\n      UNUSED SPACE AT START\n--->  \n      __TEXT                      100e00000-100e04000    [   16K] r-x\/r-x SM=COW  \/Applications\/ChimeraX-1.6.1.app\/Contents\/MacOS\/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" : [{"threadState":{"x":[{"value":0},{"value":0},{"value":1},{"value":6853429549},{"value":4832295960},{"value":12145432660636229614},{"value":0},{"value":6157197384},{"value":4231623894812470083},{"value":4231623886303848387},{"value":78},{"value":0},{"value":49},{"value":4309864480},{"value":4332732544},{"value":750736},{"value":328},{"value":8731478720},{"value":0},{"value":11},{"value":259},{"value":8714243424,"symbolLocation":224,"symbol":"_main_thread"},{"value":4437155888},{"value":4437155888},{"value":1},{"value":32769},{"value":32768},{"value":8714249672,"symbolLocation":0,"symbol":"_NSConcreteStackBlock"},{"value":0}],"flavor":"ARM_THREAD_STATE64","lr":{"value":6853204108},"cpsr":{"value":1073745920},"fp":{"value":4832295760},"sp":{"value":4832295728},"esr":{"value":1442840704,"description":" Address size 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      "factorPackIds" : {

      },
      "deploymentId" : 240000001
    },
    {
      "rolloutId" : "644114de41e7236e6177f9bd",
      "factorPackIds" : {

      },
      "deploymentId" : 240000013
    }
  ],
  "experiments" : [
    {
      "treatmentId" : "928dfbce-0cc0-4f29-866f-5542e51ad72e",
      "experimentId" : "67f46e2984eaf455d73c609a",
      "deploymentId" : 400000001
    }
  ]
}
}
===== Log before crash start =====
Startup Messages  
---  
warning | Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR
bundle with that from NMRSTAR bundle  
  
UCSF ChimeraX version: 1.6.1 (2023-05-09)  
© 2016-2023 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open /Users/shj152/Downloads/cryosparc_P214_J1044_volume_map.mrc

Opened cryosparc_P214_J1044_volume_map.mrc as #1, grid size 720,720,720, pixel
2.67, shown at step 1, values float32  

> volume #1 region 0,0,0,719,719,719 step 4

> volume #1 step 1

> volume #1 level 0.1

> volume #1 change image level -0.06503,0 level 0.1364,0.8 level 0.3851,1

> turn axis x

> surface dust #1 size 26.7

> flip vol #1

Unknown command: flip vol #1  

> volume flip #1

Opened cryosparc_P214_J1044_volume_map.mrc z flip as #2, grid size
720,720,720, pixel 2.67, shown at step 1, values float32  

> surface dust #2 size 26.7

> volume #2 level 0.2

> clip front -10

> clip front 10

> clip front -10

> clip back -10

clip back plane is in front of front plane  

> clip back -10

clip back plane is in front of front plane  

> clip back 10

clip back plane is in front of front plane  

> clip back 10

clip back plane is in front of front plane  

> clip back 10

> ui mousemode right zoom

> clip front -10

> clip front 5

> clip front -2

> volume #2 level 0.4

> clip front -2

> clip front 2

> volume #2 level 0.3

> volume #2 level 0.25

> volume #2 level 0.2

> open /Users/shj152/Downloads/cryosparc_P214_J971_005_volume_map.mrc

Opened cryosparc_P214_J971_005_volume_map.mrc as #3, grid size 720,720,720,
pixel 2.24, shown at step 1, values float32  

> hide #!2 models

> volume flip #3

Opened cryosparc_P214_J971_005_volume_map.mrc z flip as #4, grid size
720,720,720, pixel 2.24, shown at step 1, values float32  

> hide #!4 models

> show #!4 models

> volume #4

> surface dust #4 size 22.4

> volume #4 level 0.137

> ~clip

> surface dust #4 size 22.4

> volume #4 level 0.237

> surface dust #4 size 22.4

> clip front 2

> clip front -2

> clip front 2

> close #1-3

> clip front 10

> clip front -15

> clip front -3

> color #4 silver models

> preset publication 1

Using preset: Overall Look / Publication 1 (Silhouettes)  
Preset expands to these ChimeraX commands:

    
    
    set bg white
    graphics silhouettes t
    lighting depthCue f

  

> volume #4 level 0.337

> clip back -3

> clip back 3

> volume #4 level 0.437

> volume #4 level 0.537

> volume #4 level 0.637

> volume #4 level 0.5

> close session

> open 8FXR

Summary of feedback from opening 8FXR fetched from pdb  
---  
note | Fetching compressed mmCIF 8fxr from
http://files.rcsb.org/download/8fxr.cif  
  
8fxr title:  
Structure of neck with portal vertex of capsid of Agrobacterium phage Milano
[more info...]  
  
Chain information for 8fxr #1  
---  
Chain | Description | UniProt  
03 13 23 33 43 53 63 73 83 93 A3 B3 C3 D3 E3 F3 G3 J3 K3 L3 M3 N3 O3 P3 Q3 R3
S3 T3 U3 V3 W3 X3 Y3 Z3 a3 b3 c3 d3 e3 f3 g3 h3 i3 j3 k3 l3 m3 n3 o3 p3 q3 r3
s3 t3 u3 v3 w3 x3 y3 z3 | Collar sheath protein, gp13 | A0A482MGH3_9CAUD 1-230  
AA AB AC AD AE AF AG AH AI AJ AK AL | Portal protein, gp7 | A0A482MFW7_9CAUD
1-420  
AM AN AO AP H I | Neck 2 protein, gp15 | A0A482MFQ3_9CAUD 1-141  
AQ AR AS AT AW AX | Tail-terminator protein, gp18 | A0A482MF73_9CAUD 1-178  
AU AV AY AZ Aa Ab | Tail-tube, gp21 | A0A482MHE7_9CAUD 1-136  
a b h i j k l m n o p q | Neck 1 protein, gp14 | A0A482MHL8_9CAUD 1-202  
a1 a2 a5 a6 a7 b1 b2 b5 b6 b7 c d d1 d2 d5 d6 d7 e e1 e2 e5 e6 e7 f g |
Linking protein 2, gp128 |  
f1 f2 f5 f6 f7 | Linking protein 1, gp16 | A0A482MFR0_9CAUD 1-217  
g1 g2 g5 g6 g7 h1 h2 h5 h6 h7 k1 k2 k5 k6 k7 n1 n2 n5 n6 n7 o1 o2 o5 o6 o7 r1
r2 r5 r6 r7 | Major capsid protein, gp9 | A0A482MFS6_9CAUD 1-465  
l1 l2 l5 l6 l7 m1 m2 m5 m6 m7 p1 p2 p5 p6 p7 q1 q2 q5 q6 q7 s1 s2 s5 s6 s7 t1
t2 t5 t6 t7 u1 u2 u5 u6 u7 v1 v2 v5 v6 v7 | Minor capsid protein, gp10 |
A0A482MFS0_9CAUD 1-137  
  

> hide atoms

> show cartoons

> ui mousemode right select

> select /AW:100

7 atoms, 7 bonds, 1 residue, 1 model selected  

> sequence chain #1/AQ#1/AR#1/AS#1/AT#1/AW#1/AX

Alignment identifier is 1  

> select /AQ:5-159

1251 atoms, 1281 bonds, 155 residues, 1 model selected  

> open 8XQB

Summary of feedback from opening 8XQB fetched from pdb  
---  
note | Fetching compressed mmCIF 8xqb from
http://files.rcsb.org/download/8xqb.cif  
  
8xqb title:  
Mature virion portal vertex of bacteriophage λ [more info...]  
  
Chain information for 8xqb #2  
---  
Chain | Description | UniProt  
A0 A1 A2 A3 A4 C0 C1 C2 C3 C4 G0 G1 G2 G3 G4 | Major capsid protein |
CAPSD_LAMBD 1-341  
B B1 B2 B3 B4 B5 b b1 b2 b3 b4 b5 | Portal protein B | PORTL_LAMBD 1-533  
H0 H1 H2 H3 H4 I0 I1 I2 I3 I4 J0 J1 J2 J3 J4 N0 N1 N2 N3 N4 | Capsid
decoration protein | DECO_LAMBD 1-110  
U U1 U2 U3 U4 U5 | Tail tube terminator protein | TTTP_LAMBD 4-134  
W W1 W2 W3 W4 W5 w w1 w2 w3 w4 w5 | Head completion protein | HCP_LAMBD 1-68  
f f1 f2 f3 f4 f5 | Head-tail connector protein FII | FII_LAMBD 1-117  
  

> close #1

> sequence chain #2/U#2/U1#2/U2#2/U3#2/U4#2/U5

Alignment identifier is 1  

> select #2/U:4-134

1032 atoms, 1058 bonds, 131 residues, 1 model selected  

> select #2/U:4-134

1032 atoms, 1058 bonds, 131 residues, 1 model selected  

> select #2/W1:2-68

524 atoms, 529 bonds, 67 residues, 1 model selected  

> select clear

Drag select of 5079 atoms  

> select up

6040 atoms, 6081 bonds, 794 residues, 1 model selected  

> select up

9594 atoms, 9770 bonds, 1243 residues, 1 model selected  

> select up

21178 atoms, 21623 bonds, 2736 residues, 1 model selected  

> select up

21205 atoms, 21650 bonds, 2741 residues, 1 model selected  

> delete sel

> select /W2:7@CD2

1 atom, 1 residue, 1 model selected  

> select up

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select up

135 atoms, 135 bonds, 18 residues, 1 model selected  

> select up

524 atoms, 529 bonds, 67 residues, 1 model selected  

> hide sel atoms

> show sel cartoons

> select /f2:26@CB

1 atom, 1 residue, 1 model selected  

> select up

6 atoms, 5 bonds, 1 residue, 1 model selected  

> select up

33 atoms, 32 bonds, 5 residues, 1 model selected  

> select up

872 atoms, 888 bonds, 114 residues, 1 model selected  

> select up

97249 atoms, 99284 bonds, 12481 residues, 1 model selected  

> select down

872 atoms, 888 bonds, 114 residues, 1 model selected  

> hide sel atoms

> show sel cartoons

> select clear

> select #2/U:4-134

1032 atoms, 1058 bonds, 131 residues, 1 model selected  

> hide sel atoms

> show sel cartoons

> select /U2:76@CG

1 atom, 1 residue, 1 model selected  

> select up

7 atoms, 7 bonds, 1 residue, 1 model selected  

> select up

107 atoms, 109 bonds, 13 residues, 1 model selected  

> select up

1032 atoms, 1058 bonds, 131 residues, 1 model selected  

> select /U3:41@N

1 atom, 1 residue, 1 model selected  

> select /U3:25@CA

1 atom, 1 residue, 1 model selected  

> select up

7 atoms, 6 bonds, 1 residue, 1 model selected  

> select up

105 atoms, 108 bonds, 14 residues, 1 model selected  

> select up

1032 atoms, 1058 bonds, 131 residues, 1 model selected  

> hide sel atoms

> show sel cartoons

> select clear

> ui mousemode right translate

> ui mousemode right zoom

> select #2/f:3-116

872 atoms, 888 bonds, 114 residues, 1 model selected  

> select #2/W1:2-68

524 atoms, 529 bonds, 67 residues, 1 model selected  

> select #2/U:4-134

1032 atoms, 1058 bonds, 131 residues, 1 model selected  

> select #2/J1:3-110

799 atoms, 817 bonds, 108 residues, 1 model selected  

> open 6UZC

Summary of feedback from opening 6UZC fetched from pdb  
---  
note | Fetching compressed mmCIF 6uzc from
http://files.rcsb.org/download/6uzc.cif  
  
6uzc title:  
Portal vertex structure of bacteriophage T4 [more info...]  
  
Chain information for 6uzc #1  
---  
Chain | Description | UniProt  
A B C D a b c d e f g h i j k l m n o p q r s t u v w x y z | Major capsid
protein | CAPSH_BPT4 1-521  
E F G H I J K L M N O P | Portal protein | PORTL_BPT4 1-524  
  

> hide #!2 models

> select add #2

97249 atoms, 99284 bonds, 11 pseudobonds, 12481 residues, 2 models selected  

> select subtract #2

Nothing selected  

> view

> open 3JA7

Summary of feedback from opening 3JA7 fetched from pdb  
---  
note | Fetching compressed mmCIF 3ja7 from
http://files.rcsb.org/download/3ja7.cif  
  
3ja7 title:  
Cryo-EM structure of the bacteriophage T4 portal protein assembly at near-
atomic resolution [more info...]  
  
Chain information for 3ja7 #3  
---  
Chain | Description | UniProt  
A B C D E F G H I J K L | Portal protein gp20 | PORTL_BPT4 74-524  
  

> hide #!1 models

> view

> open 6tba

6tba title:  
Virion of native gene transfer agent (GTA) particle [more info...]  
  
Chain information for 6tba #4  
---  
Chain | Description | UniProt  
1A 1B 1C 1D 1E 1F 1G 1H 1I 1J 1K 1L | Portal protein Rcc01684 | D5ATZ0_RHOCB
1-396  
2A 2B 2C 2D 2E 2F 2G 2H 2I 2J 2K 2L | Uncharacterized protein | D5ATZ4_RHOCB
1-197  
3A 3B 3C 3D 3E 3F | Uncharacterized protein | D5ATZ5_RHOCB 1-112  
4A 4B 4C 4D 4E 4F | Uncharacterized protein | D5ATZ6_RHOCB 1-135  
50 51 52 53 5A 5B 5C 5D 5E 5F 5G 5H 5I 5J 5K 5L 5M 5N 5O 5P 5Q 5R 5S 5T 5U 5V
5W 5X 5Y 5Z | Phage major tail protein, TP901-1 family | D5ATZ7_RHOCB 1-137  
6A 6B 6C 6D 6E 6F | Uncharacterized protein | D5AU01_RHOCB 1-210  
7A 7B 7C | Uncharacterized protein | D5AU02_RHOCB 1-296  
8A 8B 8C | Uncharacterized protein | D5AU04_RHOCB 1-1304  
A1 A2 A3 A6 A7 A8 AB AC AD AG AH AI AL AM AN B2 B3 B7 B8 BC BD BH BI BM BN C2
C3 C7 C8 CC CD CH CI CM CN D2 D3 D7 D8 DC DD DH DI DM DN E2 E3 E7 E8 EC ED EH
EI EM EN | Uncharacterized protein | D5AR33_RHOCB 1-84  
A4 A5 A9 AA AE AF AJ AK AO AP B4 B5 B9 BA BE BF BJ BK BO BP C4 C5 C9 CA CE CF
CJ CK CO CP D4 D9 DE DJ DO E4 E9 EE EJ EO F4 F9 FE FJ FO G4 G9 GE GJ GO H4 H9
HE HJ HO I4 I9 IE IJ IO J4 J9 JE JJ JO K4 K9 KE KJ KO L4 L9 LE LJ LO M4 M9 ME
MJ MO N4 N9 NE NJ NO O4 O9 OE OJ OO P4 P9 PE PJ PO Q4 Q9 QE QJ QO R4 R9 RE RJ
RO S4 S9 SE SJ SO T4 T9 TE TJ TO U4 U9 UE UJ UO V4 V9 VE VJ VO W4 W9 WE WJ WO
X4 X9 XE XJ XO Y4 Y9 YE YJ YO Z4 Z9 ZE ZJ ZO | Phage major capsid protein,
HK97 family | D5ATZ3_RHOCB 1-385  
F2 F3 F7 F8 FC FD FH FI FM FN | Uncharacterized protein | D5AR34_RHOCB 1-325  
  
Non-standard residues in 6tba #4  
---  
SF4 — iron/sulfur cluster  
  

> close #1-3

> view

> hide atoms

> show cartoons

> ui mousemode right select

> select /2A:44

11 atoms, 10 bonds, 1 residue, 1 model selected  

> select up

152 atoms, 152 bonds, 21 residues, 1 model selected  

> select up

1268 atoms, 1296 bonds, 171 residues, 1 model selected  

> select /1A:244

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select up

122 atoms, 124 bonds, 14 residues, 1 model selected  

> select up

2331 atoms, 2395 bonds, 305 residues, 1 model selected  

> open 8flq

Summary of feedback from opening 8flq fetched from pdb  
---  
note | Fetching compressed mmCIF 8flq from
http://files.rcsb.org/download/8flq.cif  
  
8flq title:  
Human PTH1R in complex with PTH(1-34) and Gs [more info...]  
  
Chain information for 8flq #1  
---  
Chain | Description | UniProt  
A | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short |
GNAS2_HUMAN 1-394  
B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 |
GBB1_HUMAN 2-340  
G | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 |
GBG2_HUMAN 5-62  
N | Nanobody35 |  
P | Parathyroid hormone | PTHY_HUMAN 1-34  
R | Parathyroid hormone/parathyroid hormone-related peptide receptor |
PTH1R_HUMAN 28-593  
  

> close #4

> view

> show atoms

> hide atoms

> show cartoons

> open 8fql

8fql title:  
Portal vertex of HK97 phage [more info...]  
  
Chain information for 8fql #2  
---  
Chain | Description | UniProt  
A B C D E F G H I J K L | Portal protein | PORTL_BPHK7 1-424  
  

> close #1

Drag select of 113 atoms  

> select /K:219@C

1 atom, 1 residue, 1 model selected  

> hide sel atoms

> show sel cartoons

> close session

> open /Users/shj152/Downloads/8uul.cif

8uul.cif title:  
Prototypic SARS-CoV-2 spike (containing K417) in the closed conformation [more
info...]  
  
Chain information for 8uul.cif #1  
---  
Chain | Description | UniProt  
A B C | Spike glycoprotein | SPIKE_SARS2 1-1211  
  
Non-standard residues in 8uul.cif #1  
---  
NAG — 2-acetamido-2-deoxy-beta-D-glucopyranose (N-acetyl-beta-D-glucosamine;
2-acetamido-2-deoxy-beta-D-glucose; 2-acetamido-2-deoxy-D-glucose;
2-acetamido-2-deoxy-glucose; N-ACETYL-D-GLUCOSAMINE)  
  

> close

Unsupported scale factor (0.000000) detected on Display0  

QPainter::begin: Paint device returned engine == 0, type: 3  


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

Log:
Startup Messages  
---  
warning | Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR
bundle with that from NMRSTAR bundle  
  
UCSF ChimeraX version: 1.6.1 (2023-05-09)  
© 2016-2023 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open /Users/shj152/Downloads/network_visualization_contacts.tsv

Install the ArtiaX bundle to open "Generic Particle List" format files.  

Failed opening file
/Users/shj152/Downloads/network_visualization_contacts.tsv:  
Opener for format 'Generic Particle List' is not installed; see log for more
info  

> open /Users/shj152/Downloads/8uul.cif

8uul.cif title:  
Prototypic SARS-CoV-2 spike (containing K417) in the closed conformation [more
info...]  
  
Chain information for 8uul.cif #1  
---  
Chain | Description | UniProt  
A B C | Spike glycoprotein | SPIKE_SARS2 1-1211  
  
Non-standard residues in 8uul.cif #1  
---  
NAG — 2-acetamido-2-deoxy-beta-D-glucopyranose (N-acetyl-beta-D-glucosamine;
2-acetamido-2-deoxy-beta-D-glucose; 2-acetamido-2-deoxy-D-glucose;
2-acetamido-2-deoxy-glucose; N-ACETYL-D-GLUCOSAMINE)  
  




OpenGL version: 4.1 Metal - 89.4
OpenGL renderer: Apple M1 Max
OpenGL vendor: Apple

Python: 3.9.11
Locale: en_US.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: MacBookPro18,2
      Model Number: Z14V0004GDK/A
      Chip: Apple M1 Max
      Total Number of Cores: 10 (8 performance and 2 efficiency)
      Memory: 32 GB
      System Firmware Version: 11881.101.1
      OS Loader Version: 11881.101.1

Software:

    System Software Overview:

      System Version: macOS 15.4.1 (24E263)
      Kernel Version: Darwin 24.4.0
      Time since boot: 22 days, 19 minutes

Graphics/Displays:

    Apple M1 Max:

      Chipset Model: Apple M1 Max
      Type: GPU
      Bus: Built-In
      Total Number of Cores: 32
      Vendor: Apple (0x106b)
      Metal Support: Metal 3
      Displays:
        Color LCD:
          Display Type: Built-in Liquid Retina XDR Display
          Resolution: 3456 x 2234 Retina
          Main Display: Yes
          Mirror: Off
          Online: Yes
          Automatically Adjust Brightness: Yes
          Connection Type: Internal
        DELL U2719D:
          Resolution: 1440 x 2560
          UI Looks like: 1440 x 2560 @ 60.00Hz
          Mirror: Off
          Online: Yes
          Rotation: 90
        P27q-20:
          Resolution: 2560 x 1440 (QHD/WQHD - Wide Quad High Definition)
          UI Looks like: 2560 x 1440 @ 60.00Hz
          Mirror: Off
          Online: Yes
          Rotation: Supported


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-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-Clipper: 0.21.0
    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: 1.6.1
    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-ISOLDE: 1.6.0
    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-PhenixUI: 1.2.2
    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
    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
    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
    Send2Trash: 1.8.3
    SEQCROW: 1.8.8
    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
    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

Change History (2)

comment:1 by Eric Pettersen, 5 months ago

Component: Unassigned → Window Toolkit
Owner: set to Eric Pettersen
Platform: → all
Project: → ChimeraX
Status: new → accepted
Summary: ChimeraX bug report submission → Crashed in QTabBar::paintEvent(), QPainter::begin: Paint device returned engine == 0

comment:2 by Eric Pettersen, 5 months ago

Resolution: → duplicate
Status: accepted → closed
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