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Opened 5 hours ago
Closed 5 hours ago
#19859 closed defect (can't reproduce)
Crash in event loop at startup
| Reported by: | Owned by: | Tom Goddard | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Window Toolkit | Version: | |
| Keywords: | Cc: | chimera-programmers | |
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-13.4-arm64-arm-64bit
ChimeraX Version: 1.12.dev202602162354 (2026-02-16 23:54:04 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault
Thread 0x00000002900c7000 (most recent call first):
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 579 in _handle_results
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x000000028f0bb000 (most recent call first):
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 531 in _handle_tasks
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x000000028e0af000 (most recent call first):
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/selectors.py", line 415 in select
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/connection.py", line 948 in wait
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 502 in _wait_for_updates
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 522 in _handle_workers
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x000000028d0a3000 (most recent call first):
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x000000028c097000 (most recent call first):
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x000000028b08b000 (most recent call first):
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x000000028a07f000 (most recent call first):
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x0000000289073000 (most recent call first):
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x0000000288067000 (most recent call first):
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x000000028705b000 (most recent call first):
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x000000028604f000 (most recent call first):
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x0000000285043000 (most recent call first):
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/ssl.py", line 1166 in read
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/ssl.py", line 1314 in recv_into
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/socket.py", line 706 in readinto
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/http/client.py", line 286 in _read_status
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/http/client.py", line 325 in begin
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/http/client.py", line 1395 in getresponse
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/urllib/request.py", line 1352 in do_open
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/urllib/request.py", line 1391 in https_open
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/urllib/request.py", line 496 in _call_chain
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/urllib/request.py", line 536 in _open
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/urllib/request.py", line 519 in open
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/urllib/request.py", line 216 in urlopen
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/toolshed/available.py", line 62 in load
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/toolshed/__init__.py", line 516 in reload_available
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x0000000284037000 (most recent call first):
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 331 in wait
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 629 in wait
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1399 in run
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/private/var/folders/nh/gjcnrlfd5756q3lt3bynq_500000gn/T/AppTranslocation/B5A841F9-415F-4164-BF75-48CACEAA932A/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Current thread 0x00000001ddcb9e00 (most recent call first):
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Activity Tracing 256K 1
CG backing stores 4096K 4
CG image 5152K 7
CG raster data 3280K 4
ColorSync 512K 26
CoreAnimation 144K 9
CoreGraphics 32K 2
CoreUI image data 2144K 13
Foundation 16K 1
Kernel Alloc Once 1504K 5
MALLOC 322.0M 68
MALLOC guard page 192K 10
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OpenGL GLSL 256K 3
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STACK GUARD 736K 46
Stack 406.1M 47
Stack Guard 56.0M 1
VM_ALLOCATE 152.4M 91
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__OBJC_RW 2011K 1
__TEXT 896.5M 765
dyld private memory 272K 2
mapped file 222.6M 46
shared memory 1216K 24
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TOTAL 4.4G 4056
TOTAL, minus reserved VM space 3.0G 4056
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===== Log before crash start =====
Startup Messages
---
note | available bundle cache has not been initialized yet
You can double click a model's Name or ID in the model panel to edit those
fields
UCSF ChimeraX version: 1.12.dev202602162354 (2026-02-16)
© 2016-2026 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
===== Log before crash end =====
Log:
Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.12.dev202602162354 (2026-02-16)
© 2016-2026 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
OpenGL vendor: Apple
Python: 3.11.9
Locale: UTF-8
Qt version: PySide6 6.10.1, Qt 6.10.1
Qt runtime version: 6.10.1
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Air
Model Identifier: Mac14,15
Model Number: MQKU3LL/A
Chip: Apple M2
Total Number of Cores: 8 (4 performance and 4 efficiency)
Memory: 8 GB
System Firmware Version: 8422.121.3
OS Loader Version: 8422.121.3
Software:
System Software Overview:
System Version: macOS 13.4 (22F2063)
Kernel Version: Darwin 22.5.0
Time since boot: 27 days, 13 hours, 26 minutes
Graphics/Displays:
Apple M2:
Chipset Model: Apple M2
Type: GPU
Bus: Built-In
Total Number of Cores: 10
Vendor: Apple (0x106b)
Metal Support: Metal 3
Displays:
Color LCD:
Display Type: Built-in Liquid Retina Display
Resolution: 2880 x 1864 Retina
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
Installed Packages:
accessible-pygments: 0.0.5
aiohappyeyeballs: 2.6.1
aiohttp: 3.13.1
aiosignal: 1.4.0
alabaster: 1.0.0
annotated-types: 0.7.0
anyio: 4.12.1
appdirs: 1.4.4
appnope: 0.1.4
asttokens: 3.0.1
attrs: 25.4.0
babel: 2.18.0
beautifulsoup4: 4.13.5
blockdiag: 3.0.0
blosc2: 4.0.0
build: 1.3.0
certifi: 2025.7.14
cftime: 1.6.5
charset-normalizer: 3.4.4
ChimeraX-AddCharge: 1.5.20
ChimeraX-AddH: 2.2.8
ChimeraX-AlignmentAlgorithms: 2.0.2
ChimeraX-AlignmentHdrs: 3.6.2
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 3.2
ChimeraX-AlphaFold: 1.0.1
ChimeraX-AltlocExplorer: 1.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Animations: 1.0
ChimeraX-Aniso: 1.3.2
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.63.0
ChimeraX-AtomicLibrary: 14.2.3
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.3
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 3.0.0
ChimeraX-Boltz: 1.1
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.2
ChimeraX-BuildStructure: 2.13.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.6.0
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.4.1
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.5
ChimeraX-ChemGroup: 2.0.2
ChimeraX-Clashes: 2.3
ChimeraX-ColorActions: 1.0.5
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.8
ChimeraX-CommandLine: 1.3.1
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.12.dev202602162354
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.5
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.4
ChimeraX-Dicom: 1.2.7
ChimeraX-DistMonitor: 1.4.2
ChimeraX-DockPrep: 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: 1.4.1
ChimeraX-Hbonds: 2.5.3
ChimeraX-Help: 1.3
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.4
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-KVFinder: 1.8.2
ChimeraX-Label: 1.3
ChimeraX-LightingGUI: 1.0
ChimeraX-ListInfo: 1.3.1
ChimeraX-Log: 1.2.2
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.2
ChimeraX-Map: 1.3
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: 2.2.2
ChimeraX-MCopy: 1.0
ChimeraX-MCPServer: 0.2.0
ChimeraX-MDcrds: 2.17.2
ChimeraX-MedicalToolbar: 1.1
ChimeraX-Meeting: 1.0.1
ChimeraX-Minimize: 1.3.5
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.16
ChimeraX-MMTF: 2.2
ChimeraX-ModelArchive: 1.0
ChimeraX-Modeller: 1.5.23
ChimeraX-ModelPanel: 1.6.1
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: 1.0.1
ChimeraX-MutationScores: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nifti: 1.2
ChimeraX-NMRSTAR: 1.0.2
ChimeraX-NRRD: 1.2
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.15.2
ChimeraX-OpenFold: 1.0
ChimeraX-OrthoPick: 1.0.1
ChimeraX-PDB: 2.7.12
ChimeraX-PDBBio: 1.0.1
ChimeraX-PDBLibrary: 1.0.5
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1.4
ChimeraX-ProfileGrids: 1.5.1
ChimeraX-PubChem: 2.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.8
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.3.3
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 4.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.2
ChimeraX-Scenes: 0.3.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.3
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-Segmentations: 3.5.12
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.17.5
ChimeraX-Shape: 1.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.2.1
ChimeraX-ShowSequences: 1.0.3
ChimeraX-SideView: 1.0.1
ChimeraX-SimilarStructures: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SNFG: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.19.3
ChimeraX-STL: 1.0.1
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.2.1
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0.1
ChimeraX-SwapAA: 2.0.1
ChimeraX-SwapRes: 2.5.2
ChimeraX-TapeMeasure: 1.0
ChimeraX-TaskManager: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.2.3
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.50.1
ChimeraX-Umap: 1.0
ChimeraX-uniprot: 2.3.2
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDock: 1.6
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0.1
ChimeraX-vrml: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0.2
ChimeraX-WebServices: 1.1.5
ChimeraX-Zone: 1.0.1
click: 8.3.1
colorama: 0.4.6
comm: 0.2.3
contourpy: 1.3.3
coverage: 7.13.4
cxservices: 1.2.3
cycler: 0.12.1
Cython: 3.1.4
debugpy: 1.8.20
decorator: 5.2.1
docutils: 0.21.2
executing: 2.2.1
filelock: 3.19.1
fonttools: 4.61.1
frozenlist: 1.8.0
funcparserlib: 2.0.0a0
glfw: 2.10.0
grako: 3.16.5
h11: 0.16.0
h5py: 3.15.1
html2text: 2025.4.15
httpcore: 1.0.9
httpx: 0.28.1
httpx-sse: 0.4.3
idna: 3.11
ihm: 2.2
imagecodecs: 2024.6.1
imagesize: 1.4.1
iniconfig: 2.3.0
ipykernel: 7.1.0
ipython: 9.9.0
ipython_pygments_lexers: 1.1.1
ipywidgets: 8.1.8
jedi: 0.19.2
Jinja2: 3.1.6
jsonschema: 4.26.0
jsonschema-specifications: 2025.9.1
jupyter_client: 8.8.0
jupyter_core: 5.9.1
jupyterlab_widgets: 3.0.16
kiwisolver: 1.4.9
line_profiler: 5.0.0
lxml: 6.0.2
lz4: 4.3.2
Markdown: 3.8.2
MarkupSafe: 3.0.3
matplotlib: 3.10.7
matplotlib-inline: 0.2.1
mcp: 1.18.0
msgpack: 1.1.1
multidict: 6.7.1
ndindex: 1.10.1
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.3
nibabel: 5.2.0
nptyping: 2.5.0
numexpr: 2.14.1
numpy: 1.26.4
OpenMM: 8.4.0
openvr: 1.26.701
packaging: 25.0
ParmEd: 4.2.2
parso: 0.8.6
pep517: 0.13.1
pexpect: 4.9.0
pickleshare: 0.7.5
pillow: 11.3.0
pip: 25.2
pkginfo: 1.12.1.2
platformdirs: 4.9.2
pluggy: 1.6.0
prompt_toolkit: 3.0.52
propcache: 0.4.1
psutil: 7.0.0
ptyprocess: 0.7.0
pure_eval: 0.2.3
py-cpuinfo: 9.0.0
pybind11: 3.0.1
pycollada: 0.8
pydantic: 2.12.5
pydantic-settings: 2.13.0
pydantic_core: 2.41.5
pydata-sphinx-theme: 0.16.1
pydicom: 2.4.4
Pygments: 2.18.0
pynmrstar: 3.5.0
pynrrd: 1.0.0
PyOpenGL: 3.1.10
PyOpenGL-accelerate: 3.1.10
pyopenxr: 1.1.4501
pyparsing: 3.3.2
pyproject_hooks: 1.2.0
PySide6: 6.10.1
PySide6_Addons: 6.10.1
PySide6_Essentials: 6.10.1
pytest: 9.0.2
pytest-cov: 7.0.0
python-dateutil: 2.9.0.post0
python-dotenv: 1.2.1
python-multipart: 0.0.22
pyzmq: 27.1.0
qtconsole: 5.7.0
QtPy: 2.4.3
qtshim: 1.2.1
RandomWords: 0.4.0
referencing: 0.37.0
requests: 2.32.5
roman-numerals: 4.1.0
rpds-py: 0.30.0
scipy: 1.14.0
setuptools: 80.9.0
sfftk-rw: 0.8.1
shiboken6: 6.10.1
six: 1.17.0
snowballstemmer: 3.0.1
sortedcontainers: 2.4.0
soupsieve: 2.8.3
Sphinx: 9.0.4
sphinx-autodoc-typehints: 3.6.1
sphinxcontrib-applehelp: 2.0.0
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 2.0.0
sphinxcontrib-htmlhelp: 2.1.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 2.0.0
sphinxcontrib-serializinghtml: 2.0.0
sse-starlette: 3.2.0
stack-data: 0.6.3
starlette: 0.52.1
superqt: 0.7.6
tables: 3.10.2
tcia_utils: 1.5.1
tifffile: 2025.3.13
tinyarray: 1.2.5
tornado: 6.5.4
traitlets: 5.14.3
typing-inspection: 0.4.2
typing_extensions: 4.15.0
urllib3: 2.6.3
uvicorn: 0.41.0
wcwidth: 0.6.0
webcolors: 24.11.1
wheel: 0.45.1
wheel-filename: 1.4.2
widgetsnbextension: 4.0.15
yarl: 1.22.0
Change History (3)
comment:1 by , 5 hours ago
| Cc: | added |
|---|---|
| Component: | Unassigned → Window Toolkit |
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Crash in event loop at startup |
comment:2 by , 5 hours ago
Much of the stack trace is missing so not much info about where it crashed in Qt. The computer has the oldest macOS version 13 that we support. Also has only 8 GB of memory.
This may be PySide related. We'll see if we get more reports.
comment:3 by , 5 hours ago
| Resolution: | → can't reproduce |
|---|---|
| Status: | assigned → closed |
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Nothing particularly indicative of PySide being involved that I can see, but hard to be sure.