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Opened 21 months ago
Closed 21 months ago
#14442 closed defect (can't reproduce)
Crash in garbage collection
| Reported by: | Owned by: | pett | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Core | Version: | |
| Keywords: | Cc: | Tom Goddard | |
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-13.5-arm64-arm-64bit
ChimeraX Version: 1.7.dev202309272145 (2023-09-27 21:45:56 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault
Thread 0x00000002b5713000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 579 in _handle_results
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000002b4707000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 531 in _handle_tasks
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000002b36fb000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/selectors.py", line 415 in select
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/connection.py", line 930 in wait
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 502 in _wait_for_updates
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 522 in _handle_workers
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000002b26ef000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000002b16e3000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000002b06d7000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000002af6cb000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000002ae6bf000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000002ad6b3000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000002ac6a7000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000002ab69b000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000002aa68f000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Thread 0x00000002a8283000 (most recent call first):
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Current thread 0x00000001e7f22080 (most recent call first):
Garbage-collecting
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/ctypes/__init__.py", line 512 in cast
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/numpy/core/_internal.py", line 282 in data_as
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/atomic/molc.py", line 322 in pointer
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/atomic/molc.py", line 197 in get_prop
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/atomic/structure.py", line 1876 in _update_graphics_if_needed
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/triggerset.py", line 138 in invoke
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/triggerset.py", line 237 in _activate
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/triggerset.py", line 206 in activate
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/triggerset.py", line 382 in activate_trigger
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/graphics/view.py", line 283 in check_for_drawing_change
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/updateloop.py", line 65 in draw_new_frame
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/updateloop.py", line 139 in _redraw_timer_callback
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py", line 275 in event_loop
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 912 in init
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1063 in
File "", line 88 in _run_code
File "", line 198 in _run_module_as_main
Extension modules: chimerax.arrays._arrays, numpy.core._multiarray_umath, numpy.core._multiarray_tests, numpy.linalg._umath_linalg, numpy.fft._pocketfft_internal, numpy.random._common, numpy.random.bit_generator, numpy.random._bounded_integers, numpy.random._mt19937, numpy.random.mtrand, numpy.random._philox, numpy.random._pcg64, numpy.random._sfc64, numpy.random._generator, chimerax.geometry._geometry, PyQt6.QtCore, PyQt6.QtGui, PyQt6.QtWidgets, PyQt6.QtWebChannel, PyQt6.QtNetwork, PyQt6.QtWebEngineCore, PyQt6.QtPrintSupport, PyQt6.QtWebEngineWidgets, chimerax.atomic_lib._load_libs, tinyarray, chimerax.atomic.cymol, chimerax.atomic.cytmpl, chimerax.map._map, charset_normalizer.md, PIL._imaging, matplotlib._c_internal_utils, matplotlib._path, kiwisolver._cext, matplotlib._image, chimerax.surface._surface, chimerax.pdb_lib._load_libs, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.core._mac_util, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, chimerax.atomic._ribbons, chimerax.graphics._graphics, chimerax.pdb._pdbio (total: 50)
{"app_name":"ChimeraX","timestamp":"2024-01-22 15:19:41.00 +0100","app_version":"1.7.0","slice_uuid":"17982d98-65bc-3327-8526-577ec996453c","build_version":"1.7.0.0","platform":1,"bundleID":"edu.ucsf.cgl.ChimeraX","share_with_app_devs":0,"is_first_party":0,"bug_type":"309","os_version":"macOS 13.5 (22G74)","roots_installed":0,"name":"ChimeraX","incident_id":"B62A4B69-8D1A-45D0-BE89-AE2ECAD64F99"}
{
"uptime" : 870000,
"procRole" : "Background",
"version" : 2,
"userID" : 501,
"deployVersion" : 210,
"modelCode" : "Mac14,9",
"coalitionID" : 3196,
"osVersion" : {
"train" : "macOS 13.5",
"build" : "22G74",
"releaseType" : "User"
},
"captureTime" : "2024-01-22 15:19:38.6084 +0100",
"incident" : "B62A4B69-8D1A-45D0-BE89-AE2ECAD64F99",
"pid" : 4266,
"translated" : false,
"cpuType" : "ARM-64",
"roots_installed" : 0,
"bug_type" : "309",
"procLaunch" : "2024-01-19 10:05:30.6666 +0100",
"procStartAbsTime" : 20081498095020,
"procExitAbsTime" : 20902409753335,
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX_Daily.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.7.0","CFBundleVersion":"1.7.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
"storeInfo" : {"deviceIdentifierForVendor":"F8B25DCD-1867-525A-8AED-E9C615C770A0","thirdParty":true},
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "6E2FB3A4-7BED-6918-BAE4-1DE37F15BA04",
"codeSigningID" : "edu.ucsf.cgl.ChimeraX",
"codeSigningTeamID" : "LWV8X224YF",
"codeSigningFlags" : 570491649,
"codeSigningValidationCategory" : 6,
"codeSigningTrustLevel" : 0,
"wakeTime" : 3530,
"sleepWakeUUID" : "CF9F2399-CD49-4F16-95FD-65EB04A1BC36",
"sip" : "enabled",
"vmRegionInfo" : "0xa9 is not in any region. Bytes before following region: 105554055790423\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n MALLOC_NANO 600038000000-600040000000 [128.0M] rw-\/rwx SM=PRV ",
"exception" : {"codes":"0x0000000000000001, 0x00000000000000a9","rawCodes":[1,169],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x00000000000000a9"},
"termination" : {"flags":0,"code":11,"namespace":"SIGNAL","indicator":"Segmentation fault: 11","byProc":"ChimeraX","byPid":4266},
"vmregioninfo" : "0xa9 is not in any region. Bytes before following region: 105554055790423\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n MALLOC_NANO 600038000000-600040000000 [128.0M] rw-\/rwx SM=PRV ",
"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" : [{"triggered":true,"id":10065872,"threadState":{"x":[{"value":0},{"value":0},{"value":1},{"value":5503351448},{"value":99},{"value":116},{"value":0},{"value":0},{"value":1486449388958359213},{"value":1486449380856151597},{"value":14757395258967641293},{"value":4294967286},{"value":5503351378},{"value":0},{"value":53},{"value":4294967280},{"value":328},{"value":8265167776},{"value":0},{"value":11},{"value":8186372224,"symbolLocation":0,"symbol":"_main_thread"},{"value":259},{"value":8186372448,"symbolLocation":224,"symbol":"_main_thread"},{"value":1},{"value":4320986672,"symbolLocation":0,"symbol":"faulthandler_handlers"},{"value":4319114520,"symbolLocation":0,"symbol":"visit_decref"},{"value":6164875472},{"value":24},{"value":6164875488}],"flavor":"ARM_THREAD_STATE64","lr":{"value":6659111976},"cpsr":{"value":1073745920},"fp":{"value":5503351520},"sp":{"value":5503351488},"esr":{"value":1442840704,"description":" Address size 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===== Log before crash start =====
You can double click a model's Name or ID in the model panel to edit those
fields
UCSF ChimeraX version: 1.7.dev202309272145 (2023-09-27)
© 2016-2023 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open
> /Users/svearikeoeverdieck/Documents/sanders_lab/HIV/mAbs/V1V2/germline/7t73_PCT64.LMCA_ApexGT2.2MUT_EM.cif
> format mmcif
7t73_PCT64.LMCA_ApexGT2.2MUT_EM.cif title:
HIV-1 Envelope ApexGT2.2MUT in complex with PCT64.LMCA Fab [more info...]
Chain information for 7t73_PCT64.LMCA_ApexGT2.2MUT_EM.cif #1
---
Chain | Description
A C E | HIV Envelope ApexGT2.2MUT gp120
B D F | HIV Envelope ApexGT2.2MUT gp41
H | PCT64.LMCA Fab Heavy Chain
L | PCT64.LMCA Fab Light Chain
Non-standard residues in 7t73_PCT64.LMCA_ApexGT2.2MUT_EM.cif #1
---
BMA — beta-D-mannopyranose (beta-D-mannose; D-mannose; mannose)
MAN — alpha-D-mannopyranose (alpha-D-mannose; D-mannose; mannose)
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)
> style stick
Changed 16010 atom styles
> show cartoons
> hide atoms
> ui tool show "Show Sequence Viewer"
> sequence chain /A /C /E
Alignment identifier is 1
> select /A,C,E:49
27 atoms, 24 bonds, 3 residues, 1 model selected
> select /A,C,E:49
27 atoms, 24 bonds, 3 residues, 1 model selected
> show sel atoms
> select sel @ show sel atoms
> select clear
> select /C:99
8 atoms, 7 bonds, 1 residue, 1 model selected
> show sel atoms
> color sel byhetero
> select /A,C,E:116
24 atoms, 21 bonds, 3 residues, 1 model selected
> select /A,C,E:116
24 atoms, 21 bonds, 3 residues, 1 model selected
> show sel atoms
> select sel @ select subtract /E:111
160 atoms, 139 bonds, 33 residues, 1 model selected
> select subtract /E:112
156 atoms, 137 bonds, 32 residues, 1 model selected
> select subtract /E:113
154 atoms, 135 bonds, 31 residues, 1 model selected
> select subtract /E:115
148 atoms, 128 bonds, 30 residues, 1 model selected
> select subtract /E:118
143 atoms, 122 bonds, 29 residues, 1 model selected
> select subtract /E:117
137 atoms, 116 bonds, 28 residues, 1 model selected
> select subtract /A:117
131 atoms, 109 bonds, 27 residues, 1 model selected
> select subtract /A:115
125 atoms, 102 bonds, 26 residues, 1 model selected
> select add /A:115
131 atoms, 107 bonds, 27 residues, 1 model selected
> select subtract /A:115
125 atoms, 102 bonds, 26 residues, 1 model selected
> select add /A:446
132 atoms, 108 bonds, 27 residues, 1 model selected
> select subtract /A:114
128 atoms, 104 bonds, 26 residues, 1 model selected
> select subtract /A:113
123 atoms, 100 bonds, 25 residues, 1 model selected
> select subtract /A:112
116 atoms, 95 bonds, 24 residues, 1 model selected
> select subtract /A:446
109 atoms, 89 bonds, 23 residues, 1 model selected
> select /E:116
8 atoms, 7 bonds, 1 residue, 1 model selected
> select sel @ select subtract /E:119
48 atoms, 39 bonds, 12 residues, 1 model selected
> select subtract /E:118
43 atoms, 34 bonds, 11 residues, 1 model selected
> select add /A:207
52 atoms, 42 bonds, 12 residues, 1 model selected
> select subtract /A:207
43 atoms, 34 bonds, 11 residues, 1 model selected
> select add /E:119
49 atoms, 39 bonds, 12 residues, 1 model selected
> select add /E:118
56 atoms, 46 bonds, 13 residues, 1 model selected
> select subtract /E:115
50 atoms, 39 bonds, 12 residues, 1 model selected
> select subtract /E:114
46 atoms, 35 bonds, 11 residues, 1 model selected
> select subtract /E:112
42 atoms, 33 bonds, 10 residues, 1 model selected
> select subtract /E:113
40 atoms, 32 bonds, 9 residues, 1 model selected
> select subtract /E:111
39 atoms, 32 bonds, 8 residues, 1 model selected
> show sel atoms
> select /E:434
8 atoms, 7 bonds, 1 residue, 1 model selected
> select add /E:202
15 atoms, 13 bonds, 2 residues, 1 model selected
> select add /E:119
21 atoms, 18 bonds, 3 residues, 1 model selected
> show sel atoms
> select /E:203@CD
1 atom, 1 residue, 1 model selected
> select /E:203
9 atoms, 8 bonds, 1 residue, 1 model selected
> show sel atoms
> select /E:116
8 atoms, 7 bonds, 1 residue, 1 model selected
> show sel atoms
> select /E:210
11 atoms, 11 bonds, 1 residue, 1 model selected
> show sel atoms
> select /E:203
9 atoms, 8 bonds, 1 residue, 1 model selected
> color sel byhetero
> select /E:116
8 atoms, 7 bonds, 1 residue, 1 model selected
> color sel byhetero
> select /E:121
9 atoms, 8 bonds, 1 residue, 1 model selected
> show sel atoms
> select /E:121@NZ
1 atom, 1 residue, 1 model selected
> select sel @ select
> /A,C,E:35-40,45-47,53-56,75-76,84-87,91-92,130-133,154-162,169-177,181-183,191-193,201-202,216-218,223-228,238-239,242-245,259-261,271-274,283-312,315-323,329-334,359-361,374-378,381-385,393-395,413-421,423-424,433-435,441-456,466-470,486-491,494-499
4386 atoms, 4422 bonds, 540 residues, 1 model selected
> select clear
> select /E:123
7 atoms, 6 bonds, 1 residue, 1 model selected
> show sel atoms
> select sel @ select /A:313
7 atoms, 7 bonds, 1 residue, 1 model selected
> show sel atoms
> select /A,C,E:128
21 atoms, 18 bonds, 3 residues, 1 model selected
> select /A,C,E:128
21 atoms, 18 bonds, 3 residues, 1 model selected
> show sel atoms
> select sel @ select subtract /A:168
141 atoms, 110 bonds, 41 residues, 1 model selected
> select /A:168
9 atoms, 8 bonds, 1 residue, 1 model selected
> select add /A:167
17 atoms, 15 bonds, 2 residues, 1 model selected
> select add /A:165
25 atoms, 22 bonds, 3 residues, 1 model selected
> show sel atoms
> select
> /A,C,E:35-40,45-47,53-56,75-76,84-87,91-92,130-133,154-162,169-177,181-183,191-193,201-202,216-218,223-228,238-239,242-245,259-261,271-274,283-312,315-323,329-334,359-361,374-378,381-385,393-395,413-421,423-424,433-435,441-456,466-470,486-491,494-499
4386 atoms, 4422 bonds, 540 residues, 1 model selected
> select /A,C,E:130
27 atoms, 24 bonds, 3 residues, 1 model selected
> select /A,C,E:130
27 atoms, 24 bonds, 3 residues, 1 model selected
> open 8e1p
Summary of feedback from opening 8e1p fetched from pdb
---
note | Fetching compressed mmCIF 8e1p from
http://files.rcsb.org/download/8e1p.cif
8e1p title:
Crystal structure of BG505 SOSIP.v4.1-GT1.2 trimer in complex with gl-PGV20
and PGT124 Fabs [more info...]
Chain information for 8e1p #2
---
Chain | Description | UniProt
A C J | PGT124 Fab Light Chain |
B D K | PGT124 Fab Heavy Chain |
E G M | BG505-SOSIP.v4.1-GT1.2gp120 |
F H N | germline PGV20 heavy chain |
I | germline PGV20 light chain |
L O | germline PGV20 light chain |
X Y Z | Envelope glycoprotein gp41 | Q2N0S6_9HIV1 512-664
Non-standard residues in 8e1p #2
---
BMA — beta-D-mannopyranose (beta-D-mannose; D-mannose; mannose)
MAN — alpha-D-mannopyranose (alpha-D-mannose; D-mannose; mannose)
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)
> hide #!1 models
> select add #1
16010 atoms, 16436 bonds, 9 pseudobonds, 1985 residues, 2 models selected
> select subtract #1
Nothing selected
> select add #2
34410 atoms, 35327 bonds, 22 pseudobonds, 4405 residues, 2 models selected
> show sel cartoons
> style sel stick
Changed 34410 atom styles
> show sel cartoons
> hide sel atoms
> ui tool show "Show Sequence Viewer"
> sequence chain #1/A #1/C #1/E
Alignment identifier is 1
> select clear
> select #1/A,C,E:476
33 atoms, 30 bonds, 3 residues, 1 model selected
> select #1/A,C,E:476
33 atoms, 30 bonds, 3 residues, 1 model selected
> select #2/G:475
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #2/G:476
11 atoms, 10 bonds, 1 residue, 1 model selected
> show sel atoms
> select sel @ ui tool show "Show Sequence Viewer"
> sequence chain #2/F #2/H #2/N
Alignment identifier is 2
> select #2/G:476
11 atoms, 10 bonds, 1 residue, 1 model selected
> color sel cyan
> ui tool show Rotamers
> swapaa interactive sel ARG rotLib Richardson.common
8e1p #2/G ARG 476: phi -65.1, psi -22.9 trans
Changed 272 bond radii
> select #1/A,C,E:469
33 atoms, 30 bonds, 3 residues, 1 model selected
> select #1/A,C,E:469
33 atoms, 30 bonds, 3 residues, 1 model selected
> ui tool show "Show Sequence Viewer"
> sequence chain #2/E #2/G #2/M
Alignment identifier is 1
> select #2/E,G,M:469
33 atoms, 30 bonds, 3 residues, 1 model selected
> select #2/E,G,M:469
33 atoms, 30 bonds, 3 residues, 1 model selected
> open 7t76
7t76 title:
HIV-1 Envelope ApexGT3 in complex with PG9.iGL Fab [more info...]
Chain information for 7t76 #3
---
Chain | Description
A C E | HIV Envelope ApexGT3 gp120
B D F | HIV Envelope ApexGT3 gp41
H | PG9.iGL Fab Heavy Chain
L | PG9.iGL Fab Light Chain
Non-standard residues in 7t76 #3
---
BMA — beta-D-mannopyranose (beta-D-mannose; D-mannose; mannose)
MAN — alpha-D-mannopyranose (alpha-D-mannose; D-mannose; mannose)
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)
> hide #!2 models
> show #!3 cartoons
> hide #!3 atoms
> ui tool show "Show Sequence Viewer"
> sequence chain #3/A #3/C #3/E
Alignment identifier is 1
> select #3/A,C,E:150
24 atoms, 21 bonds, 3 residues, 1 model selected
> select #3/A,C,E:150
24 atoms, 21 bonds, 3 residues, 1 model selected
> select #3/C:161
5 atoms, 4 bonds, 1 residue, 1 model selected
> select #3/E:168
9 atoms, 8 bonds, 1 residue, 1 model selected
> show sel atoms
> style sel stick
Changed 9 atom styles
> select #3/H:100F
8 atoms, 7 bonds, 1 residue, 1 model selected
> select up
52 atoms, 54 bonds, 4 residues, 1 model selected
> show sel atoms
> style sel stick
Changed 52 atom styles
> select #3/E:168
9 atoms, 8 bonds, 1 residue, 1 model selected
> ui tool show Rotamers
> swapaa interactive sel GLU rotLib Richardson.common
7t76 #3/E LYS 168: phi -106.4, psi 140.2 trans
Changed 48 bond radii
> swapaa #!3/E:168 GLU criteria 3 rotLib Richardson.common
Using Richardson.common library
7t76 #!3/E LYS 168: phi -106.4, psi 140.2 trans
Applying GLU rotamer (chi angles: -65.0 -65.0 -40.0) to 7t76 #!3/E GLU 168
> select #3/A,C,E:172
33 atoms, 30 bonds, 3 residues, 1 model selected
> select #3/A,C,E:172
33 atoms, 30 bonds, 3 residues, 1 model selected
> show sel atoms
> style sel stick
Changed 33 atom styles
> select #3/A,C,E:164
27 atoms, 24 bonds, 3 residues, 1 model selected
> select #3/A,C,E:164
27 atoms, 24 bonds, 3 residues, 1 model selected
> close #2
> close #3
> show #!1 models
> ui tool show "Show Sequence Viewer"
> sequence chain /A /C /E
Alignment identifier is 1
> select /A,C,E:159
33 atoms, 33 bonds, 3 residues, 1 model selected
> select /A,C,E:159
33 atoms, 33 bonds, 3 residues, 1 model selected
> select /A,C,E:176
33 atoms, 33 bonds, 3 residues, 1 model selected
> select /A,C,E:176
33 atoms, 33 bonds, 3 residues, 1 model selected
> show sel atoms
> select /H:100F
8 atoms, 7 bonds, 1 residue, 1 model selected
> select subtract /H:100F
Nothing selected
> select /H:100F
8 atoms, 7 bonds, 1 residue, 1 model selected
> select up
82 atoms, 86 bonds, 8 residues, 1 model selected
> show sel atoms
> select /A:167
8 atoms, 7 bonds, 1 residue, 1 model selected
> select add /E:128@CB
9 atoms, 7 bonds, 2 residues, 1 model selected
> select subtract /E:128
8 atoms, 7 bonds, 1 residue, 1 model selected
> select add /E:128
15 atoms, 13 bonds, 2 residues, 1 model selected
> select add /H:100G
23 atoms, 20 bonds, 3 residues, 1 model selected
> color sel byhetero
> ui tool show Distances
> select /A:167@ND2
1 atom, 1 residue, 1 model selected
> select add /H:100G@OD2
2 atoms, 2 residues, 1 model selected
> distance /A:167@ND2 /H:100G@OD2
Distance between /A ASN 167 ND2 and /H ASP 100G OD2: 3.302Å
> select /A:167@OD1
1 atom, 1 residue, 1 model selected
> select add /E:128@OG1
2 atoms, 2 residues, 1 model selected
> distance /A:167@OD1 /E:128@OG1
Distance between /A ASN 167 OD1 and /E THR 128 OG1: 3.364Å
> select /A:167
8 atoms, 7 bonds, 1 residue, 1 model selected
> ui tool show Rotamers
> swapaa interactive sel ASP rotLib Richardson.common
/A ASN 167: phi -86.6, psi 2.0 trans
Changed 25 bond radii
> select /A:169
11 atoms, 10 bonds, 1 residue, 1 model selected
> show sel atoms
===== Log before crash end =====
Log:
UCSF ChimeraX version: 1.7.dev202309272145 (2023-09-27)
© 2016-2023 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 Metal - 83.1
OpenGL renderer: Apple M2 Pro
OpenGL vendor: Apple
Python: 3.11.2
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: Mac14,9
Model Number: Z17G002THN/A
Chip: Apple M2 Pro
Total Number of Cores: 10 (6 performance and 4 efficiency)
Memory: 16 GB
System Firmware Version: 8422.141.2
OS Loader Version: 8422.141.2
Software:
System Software Overview:
System Version: macOS 13.5 (22G74)
Kernel Version: Darwin 22.6.0
Time since boot: 27 days, 5 hours, 30 minutes
Graphics/Displays:
Apple M2 Pro:
Chipset Model: Apple M2 Pro
Type: GPU
Bus: Built-In
Total Number of Cores: 16
Vendor: Apple (0x106b)
Metal Support: Metal 3
Displays:
Color LCD:
Display Type: Built-in Liquid Retina XDR Display
Resolution: 3024 x 1964 Retina
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
HP E24i G4:
Resolution: 1920 x 1200 (WUXGA - Widescreen Ultra eXtended Graphics Array)
UI Looks like: 1920 x 1200 @ 60.00Hz
Mirror: Off
Online: Yes
Rotation: Supported
Installed Packages:
alabaster: 0.7.13
appdirs: 1.4.4
appnope: 0.1.3
asttokens: 2.4.0
Babel: 2.12.1
backcall: 0.2.0
beautifulsoup4: 4.11.2
blockdiag: 3.0.0
blosc2: 2.0.0
build: 0.10.0
certifi: 2022.12.7
cftime: 1.6.2
charset-normalizer: 3.2.0
ChimeraX-AddCharge: 1.5.11
ChimeraX-AddH: 2.2.5
ChimeraX-AlignmentAlgorithms: 2.0.1
ChimeraX-AlignmentHdrs: 3.4.1
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.11.1
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.1.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.48
ChimeraX-AtomicLibrary: 10.1
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: 2.0.4
ChimeraX-BugReporter: 1.0.1
ChimeraX-BuildStructure: 2.10.5
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: 1.0.3
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: 1.5.4
ChimeraX-CommandLine: 1.2.5
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.7.dev202309272145
ChimeraX-CoreFormats: 1.2
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: 1.1.2
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: 1.2.2
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-IUPAC: 1.0
ChimeraX-Label: 1.1.8
ChimeraX-ListInfo: 1.2.1
ChimeraX-Log: 1.1.6
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.1
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: 2.1.2
ChimeraX-MCopy: 1.0
ChimeraX-MDcrds: 2.6
ChimeraX-MedicalToolbar: 1.0.2
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.12.1
ChimeraX-MMTF: 2.2
ChimeraX-Modeller: 1.5.12
ChimeraX-ModelPanel: 1.4
ChimeraX-ModelSeries: 1.0.1
ChimeraX-Mol2: 2.0.3
ChimeraX-Mole: 1.0
ChimeraX-Morph: 1.0.2
ChimeraX-MouseModes: 1.2
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nifti: 1.1
ChimeraX-NRRD: 1.1
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.11
ChimeraX-PDB: 2.7.2
ChimeraX-PDBBio: 1.0.1
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: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.1
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.2
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 4.0
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: 2.10
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.1.1
ChimeraX-ShowSequences: 1.0.2
ChimeraX-SideView: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.12.2
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: 2.2.2
ChimeraX-TapeMeasure: 1.0
ChimeraX-TaskManager: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1.2
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.32.2
ChimeraX-uniprot: 2.3
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.3.1
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: 1.1.2
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.1.4
contourpy: 1.1.1
cxservices: 1.2.2
cycler: 0.11.0
Cython: 0.29.33
debugpy: 1.8.0
decorator: 5.1.1
docutils: 0.19
executing: 1.2.0
filelock: 3.9.0
fonttools: 4.42.1
funcparserlib: 1.0.1
glfw: 2.6.2
grako: 3.16.5
h5py: 3.9.0
html2text: 2020.1.16
idna: 3.4
ihm: 0.38
imagecodecs: 2023.7.10
imagesize: 1.4.1
ipykernel: 6.23.2
ipython: 8.14.0
ipython-genutils: 0.2.0
ipywidgets: 8.1.1
jedi: 0.18.2
Jinja2: 3.1.2
jupyter-client: 8.2.0
jupyter-core: 5.3.2
jupyterlab-widgets: 3.0.9
kiwisolver: 1.4.5
line-profiler: 4.0.2
lxml: 4.9.2
lz4: 4.3.2
MarkupSafe: 2.1.3
matplotlib: 3.7.2
matplotlib-inline: 0.1.6
msgpack: 1.0.4
nest-asyncio: 1.5.8
netCDF4: 1.6.2
networkx: 3.1
nibabel: 5.0.1
nptyping: 2.5.0
numexpr: 2.8.7
numpy: 1.25.1
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: 10.0.0
pip: 23.0
pkginfo: 1.9.6
platformdirs: 3.10.0
prompt-toolkit: 3.0.39
psutil: 5.9.5
ptyprocess: 0.7.0
pure-eval: 0.2.2
py-cpuinfo: 9.0.0
pycollada: 0.7.2
pydicom: 2.3.0
Pygments: 2.16.1
pynrrd: 1.0.0
PyOpenGL: 3.1.7
PyOpenGL-accelerate: 3.1.7
pyopenxr: 1.0.2801
pyparsing: 3.0.9
pyproject-hooks: 1.0.0
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: 2023.3.post1
pyzmq: 25.1.1
qtconsole: 5.4.3
QtPy: 2.4.0
RandomWords: 0.4.0
requests: 2.31.0
scipy: 1.11.1
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: 2.5
sphinx: 6.1.3
sphinx-autodoc-typehints: 1.22
sphinxcontrib-applehelp: 1.0.7
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 1.0.5
sphinxcontrib-htmlhelp: 2.0.4
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.6
sphinxcontrib-serializinghtml: 1.1.9
stack-data: 0.6.2
superqt: 0.5.0
tables: 3.8.0
tcia-utils: 1.5.1
tifffile: 2023.7.18
tinyarray: 1.2.4
tomli: 2.0.1
tornado: 6.3.3
traitlets: 5.9.0
typing-extensions: 4.8.0
tzdata: 2023.3
urllib3: 2.0.5
wcwidth: 0.2.6
webcolors: 1.12
wheel: 0.38.4
wheel-filename: 1.4.1
widgetsnbextension: 4.0.9
Change History (2)
comment:1 by , 21 months ago
| Cc: | added |
|---|---|
| Component: | Unassigned → Core |
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → accepted |
| Summary: | ChimeraX bug report submission → Crash in garbage collection |
comment:2 by , 21 months ago
| Resolution: | → can't reproduce |
|---|---|
| Status: | accepted → closed |
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