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Opened 17 months ago
Closed 17 months ago
#15279 closed defect (duplicate)
python_instances_of_class: 'Chain' object has no attribute '_c_pointer_ref'
| Reported by: | Owned by: | Eric Pettersen | |
|---|---|---|---|
| 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-11.7.10-x86_64-i386-64bit
ChimeraX Version: 1.8.dev202403290055 (2024-03-29 00:55:10 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
crashed on closing a session
Fatal Python error: Segmentation fault
Thread 0x0000700027678000 (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 0x0000700026675000 (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 0x0000700025672000 (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 0x000070002466f000 (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 0x000070002366c000 (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 0x0000700022669000 (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 0x0000700021666000 (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 0x0000700020663000 (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 0x000070001f660000 (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 0x000070001e65d000 (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 0x000070001d65a000 (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 0x000070001c657000 (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 0x000070001b654000 (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 0x000070001a651000 (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 0x000070001964e000 (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 0x0000000110d8fe00 (most recent call first):
Garbage-collecting
File "", line 241 in _call_with_frames_removed
File "", line 1241 in exec_module
File "", line 690 in _load_unlocked
File "", line 1147 in _find_and_load_unlocked
File "", line 1176 in _find_and_load
File "", line 241 in _call_with_frames_removed
File "", line 1232 in _handle_fromlist
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/lxml/html/__init__.py", line 49 in
File "", line 241 in _call_with_frames_removed
File "", line 940 in exec_module
File "", line 690 in _load_unlocked
File "", line 1147 in _find_and_load_unlocked
File "", line 1176 in _find_and_load
File "", line 241 in _call_with_frames_removed
File "", line 1232 in _handle_fromlist
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/log/tool.py", line 506 in set_state_from_snapshot
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/tools.py", line 130 in restore_snapshot
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/session.py", line 752 in restore
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/session.py", line 1022 in open
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core_formats/__init__.py", line 37 in open
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/open_command/cmd.py", line 484 in remember_data_format
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/open_command/cmd.py", line 514 in collated_open
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/open_command/cmd.py", line 213 in provider_open
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/commands/cli.py", line 2904 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/open_command/cmd.py", line 131 in cmd_open
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/commands/cli.py", line 2904 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/commands/run.py", line 49 in run
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/widgets/htmlview.py", line 464 in cxcmd
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/widgets/htmlview.py", line 446 in defer
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py", line 388 in thread_safe
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/widgets/htmlview.py", line 455 in chimerax_intercept
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/widgets/htmlview.py", line 353 in intercept
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/widgets/htmlview.py", line 93 in _intercept
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/widgets/htmlview.py", line 320 in interceptRequest
File "/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py", line 280 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 918 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 1069 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.QtNetwork, PyQt6.QtPrintSupport, PyQt6.QtWebChannel, PyQt6.QtWebEngineCore, PyQt6.QtWebEngineWidgets, chimerax.atomic_lib._load_libs, tinyarray, chimerax.atomic.cymol, chimerax.atomic.cytmpl, chimerax.pdb_lib._load_libs, chimerax.surface._surface, chimerax.map._map, charset_normalizer.md, PIL._imaging, matplotlib._c_internal_utils, matplotlib._path, kiwisolver._cext, matplotlib._image, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets, 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, PIL._imagingmath, chimerax.alignment_algs._sw, chimerax.dssp._dssp, chimerax.alignment_algs._nw, lz4._version, lz4.frame._frame, msgpack._cmsgpack, chimerax.core._serialize, chimerax.atom_search.ast, chimerax.chem_group._chem_group, chimerax.coulombic._esp, lxml.etree (total: 64)
Process: ChimeraX [50790]
Path: /Applications/ChimeraX_Daily.app/Contents/MacOS/ChimeraX
Identifier: edu.ucsf.cgl.ChimeraX
Version: 1.8.0 (1.8.0.0)
Code Type: X86-64 (Native)
Parent Process: ??? [1]
Responsible: ChimeraX [50790]
User ID: 1716968066
Date/Time: 2024-05-22 16:14:06.601 -0400
OS Version: macOS 11.7.10 (20G1427)
Report Version: 12
Bridge OS Version: 7.6 (20P6072)
Anonymous UUID: 6688C0D8-5B92-64B2-38BD-20C5F1917A1A
Time Awake Since Boot: 1000000 seconds
System Integrity Protection: enabled
Crashed Thread: 0 CrBrowserMain Dispatch queue: com.apple.main-thread
Exception Type: EXC_BAD_ACCESS (SIGSEGV)
Exception Codes: KERN_INVALID_ADDRESS at 0x00000000000000a9
Exception Note: EXC_CORPSE_NOTIFY
VM Regions Near 0xa9:
-->
__TEXT 10e424000-10e428000 [ 16K] r-x/r-x SM=COW /Applications/ChimeraX_Daily.app/Contents/MacOS/ChimeraX
Thread 0 Crashed:: CrBrowserMain Dispatch queue: com.apple.main-thread
0 libsystem_kernel.dylib 0x00007fff2051190e __pthread_kill + 10
1 libsystem_pthread.dylib 0x00007fff205405bd pthread_kill + 263
2 libsystem_c.dylib 0x00007fff20424bd5 raise + 26
3 org.python.python 0x000000010e6a1534 faulthandler_fatal_error + 388
4 libsystem_platform.dylib 0x00007fff20585d7d _sigtramp + 29
5 ??? 000000000000000000 0 + 0
6 org.python.python 0x000000010e4e5ef2 AttributeError_traverse + 82
7 org.python.python 0x000000010e69cf04 gc_collect_main + 292
8 org.python.python 0x000000010e69f062 _PyObject_GC_Link + 306
9 org.python.python 0x000000010e5636cd _PyType_AllocNoTrack + 125
10 org.python.python 0x000000010e556d3e PyType_GenericAlloc + 14
11 org.python.python 0x000000010e4e2fe5 BaseException_new + 21
12 org.python.python 0x000000010e5535a5 type_call + 69
13 org.python.python 0x000000010e4ceff1 _PyObject_MakeTpCall + 129
14 org.python.python 0x000000010e62f74a _PyErr_CreateException + 266
15 org.python.python 0x000000010e62fcba _PyErr_NormalizeException + 122
16 org.python.python 0x000000010e53aedc set_attribute_error_context + 124
17 org.python.python 0x000000010e53aade _PyObject_GenericGetAttrWithDict + 846
18 org.python.python 0x000000010e53829a _PyModuleSpec_IsInitializing + 74
19 org.python.python 0x000000010e641866 PyImport_ImportModuleLevelObject + 262
20 org.python.python 0x000000010e5e618f builtin___import__ + 191
21 org.python.python 0x000000010e534b34 cfunction_vectorcall_FASTCALL_KEYWORDS + 68
22 org.python.python 0x000000010e4d0728 _PyObject_CallFunctionVa + 168
23 org.python.python 0x000000010e4d065c PyObject_CallFunction + 156
24 org.python.python 0x000000010e64147f PyImport_Import + 335
25 org.python.python 0x000000010e643519 PyImport_ImportModule + 57
26 etree.cpython-311-darwin.so 0x000000015d0501f9 __pyx_pymod_exec_etree + 4521
27 org.python.python 0x000000010e5376e9 PyModule_ExecDef + 153
28 org.python.python 0x000000010e6477cc _imp_exec_dynamic + 60
29 org.python.python 0x000000010e534dbb cfunction_vectorcall_O + 91
30 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
31 org.python.python 0x000000010e603280 _PyEval_Vector + 128
32 org.python.python 0x000000010e4d1bdd object_vacall + 429
33 org.python.python 0x000000010e4d1993 PyObject_CallMethodObjArgs + 227
34 org.python.python 0x000000010e641b8d PyImport_ImportModuleLevelObject + 1069
35 org.python.python 0x000000010e5e618f builtin___import__ + 191
36 org.python.python 0x000000010e534b34 cfunction_vectorcall_FASTCALL_KEYWORDS + 68
37 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
38 org.python.python 0x000000010e603280 _PyEval_Vector + 128
39 org.python.python 0x000000010e4d1bdd object_vacall + 429
40 org.python.python 0x000000010e4d1993 PyObject_CallMethodObjArgs + 227
41 org.python.python 0x000000010e6419c6 PyImport_ImportModuleLevelObject + 614
42 org.python.python 0x000000010e5f8495 _PyEval_EvalFrameDefault + 41317
43 org.python.python 0x000000010e5ecfea PyEval_EvalCode + 282
44 org.python.python 0x000000010e5e7873 builtin_exec + 483
45 org.python.python 0x000000010e534b34 cfunction_vectorcall_FASTCALL_KEYWORDS + 68
46 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
47 org.python.python 0x000000010e603280 _PyEval_Vector + 128
48 org.python.python 0x000000010e4d1bdd object_vacall + 429
49 org.python.python 0x000000010e4d1993 PyObject_CallMethodObjArgs + 227
50 org.python.python 0x000000010e641b8d PyImport_ImportModuleLevelObject + 1069
51 org.python.python 0x000000010e5e618f builtin___import__ + 191
52 org.python.python 0x000000010e534b34 cfunction_vectorcall_FASTCALL_KEYWORDS + 68
53 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
54 org.python.python 0x000000010e603280 _PyEval_Vector + 128
55 org.python.python 0x000000010e4d1bdd object_vacall + 429
56 org.python.python 0x000000010e4d1993 PyObject_CallMethodObjArgs + 227
57 org.python.python 0x000000010e6419c6 PyImport_ImportModuleLevelObject + 614
58 org.python.python 0x000000010e5f8495 _PyEval_EvalFrameDefault + 41317
59 org.python.python 0x000000010e603280 _PyEval_Vector + 128
60 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
61 org.python.python 0x000000010e603280 _PyEval_Vector + 128
62 org.python.python 0x000000010e4d335f method_vectorcall + 207
63 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
64 org.python.python 0x000000010e603280 _PyEval_Vector + 128
65 org.python.python 0x000000010e4cfbb8 _PyVectorcall_Call + 120
66 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
67 org.python.python 0x000000010e603280 _PyEval_Vector + 128
68 org.python.python 0x000000010e4cfbb8 _PyVectorcall_Call + 120
69 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
70 org.python.python 0x000000010e603280 _PyEval_Vector + 128
71 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
72 org.python.python 0x000000010e603280 _PyEval_Vector + 128
73 org.python.python 0x000000010e4cfbb8 _PyVectorcall_Call + 120
74 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
75 org.python.python 0x000000010e603280 _PyEval_Vector + 128
76 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
77 org.python.python 0x000000010e603280 _PyEval_Vector + 128
78 org.python.python 0x000000010e4d335f method_vectorcall + 207
79 sip.cpython-311-darwin.so 0x0000000123d16877 sip_api_call_procedure_method + 199
80 QtWebEngineCore.abi3.so 0x0000000132478f8e sipQWebEngineUrlRequestInterceptor::interceptRequest(QWebEngineUrlRequestInfo&) + 110
81 QtWebEngineCore 0x0000000125989107 0x125902000 + 553223
82 QtWebEngineCore 0x0000000125988772 0x125902000 + 550770
83 QtWebEngineCore 0x0000000125989fa5 0x125902000 + 556965
84 QtWebEngineCore 0x00000001262fa1d0 0x125902000 + 10453456
85 QtWebEngineCore 0x000000012a9e5995 0x125902000 + 84818325
86 QtWebEngineCore 0x000000012a9ea9b6 0x125902000 + 84838838
87 QtWebEngineCore 0x000000012a9e7670 0x125902000 + 84825712
88 QtWebEngineCore 0x000000012a9ee1a5 0x125902000 + 84853157
89 QtWebEngineCore 0x000000012a9ed9d1 0x125902000 + 84851153
90 QtWebEngineCore 0x000000012a9ea9f2 0x125902000 + 84838898
91 QtWebEngineCore 0x000000012a9e250b 0x125902000 + 84804875
92 QtWebEngineCore 0x000000012a9e2fbf 0x125902000 + 84807615
93 QtWebEngineCore 0x00000001283ab15b 0x125902000 + 44732763
94 QtWebEngineCore 0x000000012aa036dc 0x125902000 + 84940508
95 QtWebEngineCore 0x000000012a0953a3 0x125902000 + 75051939
96 QtWebEngineCore 0x000000012a0b6f94 0x125902000 + 75190164
97 QtWebEngineCore 0x000000012a0b6a8e 0x125902000 + 75188878
98 QtWebEngineCore 0x000000012a0b76b5 0x125902000 + 75191989
99 QtWebEngineCore 0x0000000125943a59 0x125902000 + 268889
100 QtCore 0x00000001218697e5 QObject::event(QEvent*) + 101
101 QtWidgets 0x0000000124322ae7 QApplicationPrivate::notify_helper(QObject*, QEvent*) + 247
102 QtWidgets 0x00000001243238f2 QApplication::notify(QObject*, QEvent*) + 498
103 QtWidgets.abi3.so 0x0000000123e77535 sipQApplication::notify(QObject*, QEvent*) + 229
104 QtCore 0x0000000121822aba QCoreApplication::notifyInternal2(QObject*, QEvent*) + 170
105 QtCore 0x0000000121823c5a QCoreApplicationPrivate::sendPostedEvents(QObject*, int, QThreadData*) + 1482
106 libqcocoa.dylib 0x00000001325a31eb 0x13258b000 + 98795
107 libqcocoa.dylib 0x00000001325a419f 0x13258b000 + 102815
108 com.apple.CoreFoundation 0x00007fff20638cdc __CFRUNLOOP_IS_CALLING_OUT_TO_A_SOURCE0_PERFORM_FUNCTION__ + 17
109 com.apple.CoreFoundation 0x00007fff20638c44 __CFRunLoopDoSource0 + 180
110 com.apple.CoreFoundation 0x00007fff206389c4 __CFRunLoopDoSources0 + 242
111 com.apple.CoreFoundation 0x00007fff206373ec __CFRunLoopRun + 893
112 com.apple.CoreFoundation 0x00007fff206369ac CFRunLoopRunSpecific + 563
113 com.apple.HIToolbox 0x00007fff288811f3 RunCurrentEventLoopInMode + 292
114 com.apple.HIToolbox 0x00007fff28880f55 ReceiveNextEventCommon + 587
115 com.apple.HIToolbox 0x00007fff28880cf3 _BlockUntilNextEventMatchingListInModeWithFilter + 70
116 com.apple.AppKit 0x00007fff22e40ad2 _DPSNextEvent + 864
117 com.apple.AppKit 0x00007fff22e3f2a5 -[NSApplication(NSEvent) _nextEventMatchingEventMask:untilDate:inMode:dequeue:] + 1364
118 com.apple.AppKit 0x00007fff22e315c9 -[NSApplication run] + 586
119 libqcocoa.dylib 0x00000001325a1f1d 0x13258b000 + 93981
120 QtCore 0x000000012182c5a6 QEventLoop::exec(QFlags) + 486
121 QtCore 0x00000001218230a7 QCoreApplication::exec() + 119
122 QtWidgets.abi3.so 0x0000000123f6614c meth_QApplication_exec(_object*, _object*) + 92
123 org.python.python 0x000000010e5341da cfunction_call + 90
124 org.python.python 0x000000010e4ceff1 _PyObject_MakeTpCall + 129
125 org.python.python 0x000000010e5fd277 _PyEval_EvalFrameDefault + 61255
126 org.python.python 0x000000010e5ecfea PyEval_EvalCode + 282
127 org.python.python 0x000000010e5e7873 builtin_exec + 483
128 org.python.python 0x000000010e534b34 cfunction_vectorcall_FASTCALL_KEYWORDS + 68
129 org.python.python 0x000000010e5fd17f _PyEval_EvalFrameDefault + 61007
130 org.python.python 0x000000010e603280 _PyEval_Vector + 128
131 org.python.python 0x000000010e69a65d pymain_run_module + 253
132 org.python.python 0x000000010e69a121 Py_RunMain + 2225
133 org.python.python 0x000000010e69b0db pymain_main + 43
134 org.python.python 0x000000010e69b0aa Py_Main + 42
135 edu.ucsf.cgl.ChimeraX 0x000000010e427d9a main + 122
136 libdyld.dylib 0x00007fff2055bf3d start + 1
Thread 1:: ThreadPoolServiceThread
0 libsystem_kernel.dylib 0x00007fff205141b2 kevent64 + 10
1 QtWebEngineCore 0x000000012a119594 0x125902000 + 75593108
2 QtWebEngineCore 0x000000012a11937f 0x125902000 + 75592575
3 QtWebEngineCore 0x000000012a0b79d1 0x125902000 + 75192785
4 QtWebEngineCore 0x000000012a06a958 0x125902000 + 74877272
5 QtWebEngineCore 0x000000012a0de028 0x125902000 + 75350056
6 QtWebEngineCore 0x000000012a0c424d 0x125902000 + 75244109
7 QtWebEngineCore 0x000000012a0de1be 0x125902000 + 75350462
8 QtWebEngineCore 0x000000012a0f9ed8 0x125902000 + 75464408
9 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
10 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 2:: ThreadPoolForegroundWorker
0 libsystem_kernel.dylib 0x00007fff2050b29a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2050b60c mach_msg + 60
2 QtWebEngineCore 0x000000012a123556 0x125902000 + 75634006
3 QtWebEngineCore 0x000000012a091ac6 0x125902000 + 75037382
4 QtWebEngineCore 0x000000012a0cfe0a 0x125902000 + 75292170
5 QtWebEngineCore 0x000000012a0d0d4a 0x125902000 + 75296074
6 QtWebEngineCore 0x000000012a0d067d 0x125902000 + 75294333
7 QtWebEngineCore 0x000000012a0d056f 0x125902000 + 75294063
8 QtWebEngineCore 0x000000012a0f9ed8 0x125902000 + 75464408
9 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
10 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 3:: ThreadPoolBackgroundWorker
0 libsystem_kernel.dylib 0x00007fff2050b29a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2050b60c mach_msg + 60
2 QtWebEngineCore 0x000000012a123556 0x125902000 + 75634006
3 QtWebEngineCore 0x000000012a091ac6 0x125902000 + 75037382
4 QtWebEngineCore 0x000000012a0cfe0a 0x125902000 + 75292170
5 QtWebEngineCore 0x000000012a0d0d4a 0x125902000 + 75296074
6 QtWebEngineCore 0x000000012a0d05ed 0x125902000 + 75294189
7 QtWebEngineCore 0x000000012a0d0594 0x125902000 + 75294100
8 QtWebEngineCore 0x000000012a0f9ed8 0x125902000 + 75464408
9 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
10 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 4:: Chrome_IOThread
0 libsystem_kernel.dylib 0x00007fff205141b2 kevent64 + 10
1 QtWebEngineCore 0x000000012a119594 0x125902000 + 75593108
2 QtWebEngineCore 0x000000012a11937f 0x125902000 + 75592575
3 QtWebEngineCore 0x000000012a0b79d1 0x125902000 + 75192785
4 QtWebEngineCore 0x000000012a06a958 0x125902000 + 74877272
5 QtWebEngineCore 0x000000012a0de028 0x125902000 + 75350056
6 QtWebEngineCore 0x000000012871e902 0x125902000 + 48351490
7 QtWebEngineCore 0x000000012a0de1be 0x125902000 + 75350462
8 QtWebEngineCore 0x000000012a0f9ed8 0x125902000 + 75464408
9 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
10 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 5:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff2050b29a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2050b60c mach_msg + 60
2 QtWebEngineCore 0x000000012a123556 0x125902000 + 75634006
3 QtWebEngineCore 0x000000012a091ac6 0x125902000 + 75037382
4 QtWebEngineCore 0x000000012a091a33 0x125902000 + 75037235
5 QtWebEngineCore 0x000000012a036949 0x125902000 + 74664265
6 QtWebEngineCore 0x000000012a0b79d1 0x125902000 + 75192785
7 QtWebEngineCore 0x000000012a06a958 0x125902000 + 74877272
8 QtWebEngineCore 0x000000012a0de028 0x125902000 + 75350056
9 QtWebEngineCore 0x000000012a0de1be 0x125902000 + 75350462
10 QtWebEngineCore 0x000000012a0f9ed8 0x125902000 + 75464408
11 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
12 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 6:: Chrome_InProcGpuThread
0 libsystem_kernel.dylib 0x00007fff2050b29a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2050b60c mach_msg + 60
2 QtWebEngineCore 0x000000012a123556 0x125902000 + 75634006
3 QtWebEngineCore 0x000000012a091ac6 0x125902000 + 75037382
4 QtWebEngineCore 0x000000012a0368e2 0x125902000 + 74664162
5 QtWebEngineCore 0x000000012a0b79d1 0x125902000 + 75192785
6 QtWebEngineCore 0x000000012a06a958 0x125902000 + 74877272
7 QtWebEngineCore 0x000000012a0de028 0x125902000 + 75350056
8 QtWebEngineCore 0x000000012a0de1be 0x125902000 + 75350462
9 QtWebEngineCore 0x000000012a0f9ed8 0x125902000 + 75464408
10 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
11 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 7:: Chrome_ChildIOThread
0 libsystem_kernel.dylib 0x00007fff205141b2 kevent64 + 10
1 QtWebEngineCore 0x000000012a119594 0x125902000 + 75593108
2 QtWebEngineCore 0x000000012a11937f 0x125902000 + 75592575
3 QtWebEngineCore 0x000000012a0b79d1 0x125902000 + 75192785
4 QtWebEngineCore 0x000000012a06a958 0x125902000 + 74877272
5 QtWebEngineCore 0x000000012a0de028 0x125902000 + 75350056
6 QtWebEngineCore 0x000000012ce2ba32 0x125902000 + 122853938
7 QtWebEngineCore 0x000000012a0de1be 0x125902000 + 75350462
8 QtWebEngineCore 0x000000012a0f9ed8 0x125902000 + 75464408
9 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
10 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 8:: CompositorTileWorker1
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 QtWebEngineCore 0x000000012a0f92e4 0x125902000 + 75461348
3 QtWebEngineCore 0x000000012c526645 0x125902000 + 113395269
4 QtWebEngineCore 0x000000012a0f9ed8 0x125902000 + 75464408
5 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
6 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 9:: ThreadPoolSingleThreadSharedForeground0
0 libsystem_kernel.dylib 0x00007fff2050b29a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2050b60c mach_msg + 60
2 QtWebEngineCore 0x000000012a123556 0x125902000 + 75634006
3 QtWebEngineCore 0x000000012a091ac6 0x125902000 + 75037382
4 QtWebEngineCore 0x000000012a0cfe0a 0x125902000 + 75292170
5 QtWebEngineCore 0x000000012a0d07d7 0x125902000 + 75294679
6 QtWebEngineCore 0x000000012a0d06ad 0x125902000 + 75294381
7 QtWebEngineCore 0x000000012a0d05a8 0x125902000 + 75294120
8 QtWebEngineCore 0x000000012a0f9ed8 0x125902000 + 75464408
9 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
10 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 10:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff2050b29a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2050b60c mach_msg + 60
2 QtWebEngineCore 0x000000012a123556 0x125902000 + 75634006
3 QtWebEngineCore 0x000000012a091ac6 0x125902000 + 75037382
4 QtWebEngineCore 0x000000012a091a33 0x125902000 + 75037235
5 QtWebEngineCore 0x000000012a036949 0x125902000 + 74664265
6 QtWebEngineCore 0x000000012a0b79d1 0x125902000 + 75192785
7 QtWebEngineCore 0x000000012a06a958 0x125902000 + 74877272
8 QtWebEngineCore 0x000000012a0de028 0x125902000 + 75350056
9 QtWebEngineCore 0x000000012a0de1be 0x125902000 + 75350462
10 QtWebEngineCore 0x000000012a0f9ed8 0x125902000 + 75464408
11 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
12 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 11:: VizCompositorThread
0 libsystem_kernel.dylib 0x00007fff2050b29a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2050b60c mach_msg + 60
2 QtWebEngineCore 0x000000012a123556 0x125902000 + 75634006
3 QtWebEngineCore 0x000000012a091ac6 0x125902000 + 75037382
4 QtWebEngineCore 0x000000012a0368e2 0x125902000 + 74664162
5 QtWebEngineCore 0x000000012a0b79d1 0x125902000 + 75192785
6 QtWebEngineCore 0x000000012a06a958 0x125902000 + 74877272
7 QtWebEngineCore 0x000000012a0de028 0x125902000 + 75350056
8 QtWebEngineCore 0x000000012a0de1be 0x125902000 + 75350462
9 QtWebEngineCore 0x000000012a0f9ed8 0x125902000 + 75464408
10 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
11 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 12:: NetworkService
0 libsystem_kernel.dylib 0x00007fff205141b2 kevent64 + 10
1 QtWebEngineCore 0x000000012a119594 0x125902000 + 75593108
2 QtWebEngineCore 0x000000012a11937f 0x125902000 + 75592575
3 QtWebEngineCore 0x000000012a0b79d1 0x125902000 + 75192785
4 QtWebEngineCore 0x000000012a06a958 0x125902000 + 74877272
5 QtWebEngineCore 0x000000012a0de028 0x125902000 + 75350056
6 QtWebEngineCore 0x000000012a0de1be 0x125902000 + 75350462
7 QtWebEngineCore 0x000000012a0f9ed8 0x125902000 + 75464408
8 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
9 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 13:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff2050b29a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2050b60c mach_msg + 60
2 QtWebEngineCore 0x000000012a123556 0x125902000 + 75634006
3 QtWebEngineCore 0x000000012a091ac6 0x125902000 + 75037382
4 QtWebEngineCore 0x000000012a091a33 0x125902000 + 75037235
5 QtWebEngineCore 0x000000012a036949 0x125902000 + 74664265
6 QtWebEngineCore 0x000000012a0b79d1 0x125902000 + 75192785
7 QtWebEngineCore 0x000000012a06a958 0x125902000 + 74877272
8 QtWebEngineCore 0x000000012a0de028 0x125902000 + 75350056
9 QtWebEngineCore 0x000000012a0de1be 0x125902000 + 75350462
10 QtWebEngineCore 0x000000012a0f9ed8 0x125902000 + 75464408
11 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
12 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 14:: ThreadPoolSingleThreadForegroundBlocking1
0 libsystem_kernel.dylib 0x00007fff2050b29a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2050b60c mach_msg + 60
2 QtWebEngineCore 0x000000012a123556 0x125902000 + 75634006
3 QtWebEngineCore 0x000000012a091ac6 0x125902000 + 75037382
4 QtWebEngineCore 0x000000012a0cfe0a 0x125902000 + 75292170
5 QtWebEngineCore 0x000000012a0d0d4a 0x125902000 + 75296074
6 QtWebEngineCore 0x000000012a0d06dd 0x125902000 + 75294429
7 QtWebEngineCore 0x000000012a0d059e 0x125902000 + 75294110
8 QtWebEngineCore 0x000000012a0f9ed8 0x125902000 + 75464408
9 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
10 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 15:: NetworkConfigWatcher
0 libsystem_kernel.dylib 0x00007fff2050b29a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2050b60c mach_msg + 60
2 QtWebEngineCore 0x000000012a123556 0x125902000 + 75634006
3 QtWebEngineCore 0x000000012a091ac6 0x125902000 + 75037382
4 QtWebEngineCore 0x000000012a091a33 0x125902000 + 75037235
5 QtWebEngineCore 0x000000012a036949 0x125902000 + 74664265
6 QtWebEngineCore 0x000000012a0b79d1 0x125902000 + 75192785
7 QtWebEngineCore 0x000000012a06a958 0x125902000 + 74877272
8 QtWebEngineCore 0x000000012a0de028 0x125902000 + 75350056
9 QtWebEngineCore 0x000000012a0de1be 0x125902000 + 75350462
10 QtWebEngineCore 0x000000012a0f9ed8 0x125902000 + 75464408
11 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
12 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 16:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 org.python.python 0x000000010e687222 PyThread_acquire_lock_timed + 434
3 _queue.cpython-311-darwin.so 0x0000000134c0a4b3 _queue_SimpleQueue_get_impl + 211
4 _queue.cpython-311-darwin.so 0x0000000134c0a174 _queue_SimpleQueue_get + 196
5 org.python.python 0x000000010e534f55 cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD + 101
6 org.python.python 0x000000010e5fd17f _PyEval_EvalFrameDefault + 61007
7 org.python.python 0x000000010e603280 _PyEval_Vector + 128
8 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
9 org.python.python 0x000000010e603280 _PyEval_Vector + 128
10 org.python.python 0x000000010e4d3456 method_vectorcall + 454
11 org.python.python 0x000000010e70ba76 thread_run + 230
12 org.python.python 0x000000010e686e54 pythread_wrapper + 36
13 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
14 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 17:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 org.python.python 0x000000010e687222 PyThread_acquire_lock_timed + 434
3 _queue.cpython-311-darwin.so 0x0000000134c0a4b3 _queue_SimpleQueue_get_impl + 211
4 _queue.cpython-311-darwin.so 0x0000000134c0a174 _queue_SimpleQueue_get + 196
5 org.python.python 0x000000010e534f55 cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD + 101
6 org.python.python 0x000000010e5fd17f _PyEval_EvalFrameDefault + 61007
7 org.python.python 0x000000010e603280 _PyEval_Vector + 128
8 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
9 org.python.python 0x000000010e603280 _PyEval_Vector + 128
10 org.python.python 0x000000010e4d3456 method_vectorcall + 454
11 org.python.python 0x000000010e70ba76 thread_run + 230
12 org.python.python 0x000000010e686e54 pythread_wrapper + 36
13 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
14 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 18:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 org.python.python 0x000000010e687222 PyThread_acquire_lock_timed + 434
3 _queue.cpython-311-darwin.so 0x0000000134c0a4b3 _queue_SimpleQueue_get_impl + 211
4 _queue.cpython-311-darwin.so 0x0000000134c0a174 _queue_SimpleQueue_get + 196
5 org.python.python 0x000000010e534f55 cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD + 101
6 org.python.python 0x000000010e5fd17f _PyEval_EvalFrameDefault + 61007
7 org.python.python 0x000000010e603280 _PyEval_Vector + 128
8 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
9 org.python.python 0x000000010e603280 _PyEval_Vector + 128
10 org.python.python 0x000000010e4d3456 method_vectorcall + 454
11 org.python.python 0x000000010e70ba76 thread_run + 230
12 org.python.python 0x000000010e686e54 pythread_wrapper + 36
13 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
14 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 19:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 org.python.python 0x000000010e687222 PyThread_acquire_lock_timed + 434
3 _queue.cpython-311-darwin.so 0x0000000134c0a4b3 _queue_SimpleQueue_get_impl + 211
4 _queue.cpython-311-darwin.so 0x0000000134c0a174 _queue_SimpleQueue_get + 196
5 org.python.python 0x000000010e534f55 cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD + 101
6 org.python.python 0x000000010e5fd17f _PyEval_EvalFrameDefault + 61007
7 org.python.python 0x000000010e603280 _PyEval_Vector + 128
8 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
9 org.python.python 0x000000010e603280 _PyEval_Vector + 128
10 org.python.python 0x000000010e4d3456 method_vectorcall + 454
11 org.python.python 0x000000010e70ba76 thread_run + 230
12 org.python.python 0x000000010e686e54 pythread_wrapper + 36
13 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
14 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 20:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 org.python.python 0x000000010e687222 PyThread_acquire_lock_timed + 434
3 _queue.cpython-311-darwin.so 0x0000000134c0a4b3 _queue_SimpleQueue_get_impl + 211
4 _queue.cpython-311-darwin.so 0x0000000134c0a174 _queue_SimpleQueue_get + 196
5 org.python.python 0x000000010e534f55 cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD + 101
6 org.python.python 0x000000010e5fd17f _PyEval_EvalFrameDefault + 61007
7 org.python.python 0x000000010e603280 _PyEval_Vector + 128
8 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
9 org.python.python 0x000000010e603280 _PyEval_Vector + 128
10 org.python.python 0x000000010e4d3456 method_vectorcall + 454
11 org.python.python 0x000000010e70ba76 thread_run + 230
12 org.python.python 0x000000010e686e54 pythread_wrapper + 36
13 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
14 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 21:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 org.python.python 0x000000010e687222 PyThread_acquire_lock_timed + 434
3 _queue.cpython-311-darwin.so 0x0000000134c0a4b3 _queue_SimpleQueue_get_impl + 211
4 _queue.cpython-311-darwin.so 0x0000000134c0a174 _queue_SimpleQueue_get + 196
5 org.python.python 0x000000010e534f55 cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD + 101
6 org.python.python 0x000000010e5fd17f _PyEval_EvalFrameDefault + 61007
7 org.python.python 0x000000010e603280 _PyEval_Vector + 128
8 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
9 org.python.python 0x000000010e603280 _PyEval_Vector + 128
10 org.python.python 0x000000010e4d3456 method_vectorcall + 454
11 org.python.python 0x000000010e70ba76 thread_run + 230
12 org.python.python 0x000000010e686e54 pythread_wrapper + 36
13 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
14 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 22:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 org.python.python 0x000000010e687222 PyThread_acquire_lock_timed + 434
3 _queue.cpython-311-darwin.so 0x0000000134c0a4b3 _queue_SimpleQueue_get_impl + 211
4 _queue.cpython-311-darwin.so 0x0000000134c0a174 _queue_SimpleQueue_get + 196
5 org.python.python 0x000000010e534f55 cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD + 101
6 org.python.python 0x000000010e5fd17f _PyEval_EvalFrameDefault + 61007
7 org.python.python 0x000000010e603280 _PyEval_Vector + 128
8 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
9 org.python.python 0x000000010e603280 _PyEval_Vector + 128
10 org.python.python 0x000000010e4d3456 method_vectorcall + 454
11 org.python.python 0x000000010e70ba76 thread_run + 230
12 org.python.python 0x000000010e686e54 pythread_wrapper + 36
13 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
14 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 23:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 org.python.python 0x000000010e687222 PyThread_acquire_lock_timed + 434
3 _queue.cpython-311-darwin.so 0x0000000134c0a4b3 _queue_SimpleQueue_get_impl + 211
4 _queue.cpython-311-darwin.so 0x0000000134c0a174 _queue_SimpleQueue_get + 196
5 org.python.python 0x000000010e534f55 cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD + 101
6 org.python.python 0x000000010e5fd17f _PyEval_EvalFrameDefault + 61007
7 org.python.python 0x000000010e603280 _PyEval_Vector + 128
8 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
9 org.python.python 0x000000010e603280 _PyEval_Vector + 128
10 org.python.python 0x000000010e4d3456 method_vectorcall + 454
11 org.python.python 0x000000010e70ba76 thread_run + 230
12 org.python.python 0x000000010e686e54 pythread_wrapper + 36
13 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
14 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 24:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 org.python.python 0x000000010e687222 PyThread_acquire_lock_timed + 434
3 _queue.cpython-311-darwin.so 0x0000000134c0a4b3 _queue_SimpleQueue_get_impl + 211
4 _queue.cpython-311-darwin.so 0x0000000134c0a174 _queue_SimpleQueue_get + 196
5 org.python.python 0x000000010e534f55 cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD + 101
6 org.python.python 0x000000010e5fd17f _PyEval_EvalFrameDefault + 61007
7 org.python.python 0x000000010e603280 _PyEval_Vector + 128
8 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
9 org.python.python 0x000000010e603280 _PyEval_Vector + 128
10 org.python.python 0x000000010e4d3456 method_vectorcall + 454
11 org.python.python 0x000000010e70ba76 thread_run + 230
12 org.python.python 0x000000010e686e54 pythread_wrapper + 36
13 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
14 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 25:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 org.python.python 0x000000010e687222 PyThread_acquire_lock_timed + 434
3 _queue.cpython-311-darwin.so 0x0000000134c0a4b3 _queue_SimpleQueue_get_impl + 211
4 _queue.cpython-311-darwin.so 0x0000000134c0a174 _queue_SimpleQueue_get + 196
5 org.python.python 0x000000010e534f55 cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD + 101
6 org.python.python 0x000000010e5fd17f _PyEval_EvalFrameDefault + 61007
7 org.python.python 0x000000010e603280 _PyEval_Vector + 128
8 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
9 org.python.python 0x000000010e603280 _PyEval_Vector + 128
10 org.python.python 0x000000010e4d3456 method_vectorcall + 454
11 org.python.python 0x000000010e70ba76 thread_run + 230
12 org.python.python 0x000000010e686e54 pythread_wrapper + 36
13 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
14 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 26:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 org.python.python 0x000000010e687222 PyThread_acquire_lock_timed + 434
3 _queue.cpython-311-darwin.so 0x0000000134c0a4b3 _queue_SimpleQueue_get_impl + 211
4 _queue.cpython-311-darwin.so 0x0000000134c0a174 _queue_SimpleQueue_get + 196
5 org.python.python 0x000000010e534f55 cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD + 101
6 org.python.python 0x000000010e5fd17f _PyEval_EvalFrameDefault + 61007
7 org.python.python 0x000000010e603280 _PyEval_Vector + 128
8 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
9 org.python.python 0x000000010e603280 _PyEval_Vector + 128
10 org.python.python 0x000000010e4d3456 method_vectorcall + 454
11 org.python.python 0x000000010e70ba76 thread_run + 230
12 org.python.python 0x000000010e686e54 pythread_wrapper + 36
13 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
14 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 27:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 org.python.python 0x000000010e687222 PyThread_acquire_lock_timed + 434
3 _queue.cpython-311-darwin.so 0x0000000134c0a4b3 _queue_SimpleQueue_get_impl + 211
4 _queue.cpython-311-darwin.so 0x0000000134c0a174 _queue_SimpleQueue_get + 196
5 org.python.python 0x000000010e534f55 cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD + 101
6 org.python.python 0x000000010e5fd17f _PyEval_EvalFrameDefault + 61007
7 org.python.python 0x000000010e603280 _PyEval_Vector + 128
8 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
9 org.python.python 0x000000010e603280 _PyEval_Vector + 128
10 org.python.python 0x000000010e4d3456 method_vectorcall + 454
11 org.python.python 0x000000010e70ba76 thread_run + 230
12 org.python.python 0x000000010e686e54 pythread_wrapper + 36
13 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
14 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 28:
0 libsystem_kernel.dylib 0x00007fff205119aa poll + 10
1 select.cpython-311-darwin.so 0x000000010f1b16a5 select_poll_poll + 149
2 org.python.python 0x000000010e4e0a48 method_vectorcall_FASTCALL + 104
3 org.python.python 0x000000010e5fd17f _PyEval_EvalFrameDefault + 61007
4 org.python.python 0x000000010e603280 _PyEval_Vector + 128
5 org.python.python 0x000000010e4d335f method_vectorcall + 207
6 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
7 org.python.python 0x000000010e603280 _PyEval_Vector + 128
8 org.python.python 0x000000010e4d3456 method_vectorcall + 454
9 org.python.python 0x000000010e70ba76 thread_run + 230
10 org.python.python 0x000000010e686e54 pythread_wrapper + 36
11 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
12 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 29:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 org.python.python 0x000000010e687222 PyThread_acquire_lock_timed + 434
3 _queue.cpython-311-darwin.so 0x0000000134c0a4b3 _queue_SimpleQueue_get_impl + 211
4 _queue.cpython-311-darwin.so 0x0000000134c0a174 _queue_SimpleQueue_get + 196
5 org.python.python 0x000000010e534f55 cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD + 101
6 org.python.python 0x000000010e4fdd62 calliter_iternext + 82
7 org.python.python 0x000000010e5fb61d _PyEval_EvalFrameDefault + 53997
8 org.python.python 0x000000010e603280 _PyEval_Vector + 128
9 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
10 org.python.python 0x000000010e603280 _PyEval_Vector + 128
11 org.python.python 0x000000010e4d3456 method_vectorcall + 454
12 org.python.python 0x000000010e70ba76 thread_run + 230
13 org.python.python 0x000000010e686e54 pythread_wrapper + 36
14 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
15 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 30:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 org.python.python 0x000000010e687222 PyThread_acquire_lock_timed + 434
3 _queue.cpython-311-darwin.so 0x0000000134c0a4b3 _queue_SimpleQueue_get_impl + 211
4 _queue.cpython-311-darwin.so 0x0000000134c0a174 _queue_SimpleQueue_get + 196
5 org.python.python 0x000000010e534f55 cfunction_vectorcall_FASTCALL_KEYWORDS_METHOD + 101
6 org.python.python 0x000000010e5fd17f _PyEval_EvalFrameDefault + 61007
7 org.python.python 0x000000010e603280 _PyEval_Vector + 128
8 org.python.python 0x000000010e6003ca _PyEval_EvalFrameDefault + 73882
9 org.python.python 0x000000010e603280 _PyEval_Vector + 128
10 org.python.python 0x000000010e4d3456 method_vectorcall + 454
11 org.python.python 0x000000010e70ba76 thread_run + 230
12 org.python.python 0x000000010e686e54 pythread_wrapper + 36
13 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
14 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 31:: MemoryInfra
0 libsystem_kernel.dylib 0x00007fff2050b29a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2050b60c mach_msg + 60
2 QtWebEngineCore 0x000000012a123556 0x125902000 + 75634006
3 QtWebEngineCore 0x000000012a091ac6 0x125902000 + 75037382
4 QtWebEngineCore 0x000000012a091a33 0x125902000 + 75037235
5 QtWebEngineCore 0x000000012a036949 0x125902000 + 74664265
6 QtWebEngineCore 0x000000012a0b79d1 0x125902000 + 75192785
7 QtWebEngineCore 0x000000012a06a958 0x125902000 + 74877272
8 QtWebEngineCore 0x000000012a0de028 0x125902000 + 75350056
9 QtWebEngineCore 0x000000012a0de1be 0x125902000 + 75350462
10 QtWebEngineCore 0x000000012a0f9ed8 0x125902000 + 75464408
11 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
12 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 32:: ThreadPoolSingleThreadSharedBackgroundBlocking2
0 libsystem_kernel.dylib 0x00007fff2050b29a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2050b60c mach_msg + 60
2 QtWebEngineCore 0x000000012a123556 0x125902000 + 75634006
3 QtWebEngineCore 0x000000012a091ac6 0x125902000 + 75037382
4 QtWebEngineCore 0x000000012a0cfe0a 0x125902000 + 75292170
5 QtWebEngineCore 0x000000012a0d07d7 0x125902000 + 75294679
6 QtWebEngineCore 0x000000012a0d061d 0x125902000 + 75294237
7 QtWebEngineCore 0x000000012a0d05bc 0x125902000 + 75294140
8 QtWebEngineCore 0x000000012a0f9ed8 0x125902000 + 75464408
9 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
10 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 33:: com.apple.NSEventThread
0 libsystem_kernel.dylib 0x00007fff2050b29a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2050b60c mach_msg + 60
2 com.apple.CoreFoundation 0x00007fff20638ebf __CFRunLoopServiceMachPort + 316
3 com.apple.CoreFoundation 0x00007fff2063759f __CFRunLoopRun + 1328
4 com.apple.CoreFoundation 0x00007fff206369ac CFRunLoopRunSpecific + 563
5 com.apple.AppKit 0x00007fff22fc6b7a _NSEventThread + 124
6 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
7 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 34:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 libc++.1.dylib 0x00007fff204a9d72 std::__1::condition_variable::wait(std::__1::unique_lock&) + 18
3 QtWebEngineCore 0x000000012c041ca6 0x125902000 + 108264614
4 QtWebEngineCore 0x000000012c04333b 0x125902000 + 108270395
5 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
6 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 35:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 libc++.1.dylib 0x00007fff204a9d72 std::__1::condition_variable::wait(std::__1::unique_lock&) + 18
3 QtWebEngineCore 0x000000012c041ca6 0x125902000 + 108264614
4 QtWebEngineCore 0x000000012c04333b 0x125902000 + 108270395
5 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
6 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 36:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 libc++.1.dylib 0x00007fff204a9d72 std::__1::condition_variable::wait(std::__1::unique_lock&) + 18
3 QtWebEngineCore 0x000000012c041ca6 0x125902000 + 108264614
4 QtWebEngineCore 0x000000012c04333b 0x125902000 + 108270395
5 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
6 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 37:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 libc++.1.dylib 0x00007fff204a9d72 std::__1::condition_variable::wait(std::__1::unique_lock&) + 18
3 QtWebEngineCore 0x000000012c041ca6 0x125902000 + 108264614
4 QtWebEngineCore 0x000000012c04333b 0x125902000 + 108270395
5 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
6 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 38:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 libc++.1.dylib 0x00007fff204a9d72 std::__1::condition_variable::wait(std::__1::unique_lock&) + 18
3 QtWebEngineCore 0x000000012c041ca6 0x125902000 + 108264614
4 QtWebEngineCore 0x000000012c04333b 0x125902000 + 108270395
5 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
6 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 39:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 libc++.1.dylib 0x00007fff204a9d72 std::__1::condition_variable::wait(std::__1::unique_lock&) + 18
3 QtWebEngineCore 0x000000012c041ca6 0x125902000 + 108264614
4 QtWebEngineCore 0x000000012c04333b 0x125902000 + 108270395
5 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
6 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 40:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 libc++.1.dylib 0x00007fff204a9d72 std::__1::condition_variable::wait(std::__1::unique_lock&) + 18
3 QtWebEngineCore 0x000000012c041ca6 0x125902000 + 108264614
4 QtWebEngineCore 0x000000012c04333b 0x125902000 + 108270395
5 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
6 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 41:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 libc++.1.dylib 0x00007fff204a9d72 std::__1::condition_variable::wait(std::__1::unique_lock&) + 18
3 QtWebEngineCore 0x000000012c041ca6 0x125902000 + 108264614
4 QtWebEngineCore 0x000000012c04333b 0x125902000 + 108270395
5 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
6 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 42:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 libc++.1.dylib 0x00007fff204a9d72 std::__1::condition_variable::wait(std::__1::unique_lock&) + 18
3 QtWebEngineCore 0x000000012c041ca6 0x125902000 + 108264614
4 QtWebEngineCore 0x000000012c04333b 0x125902000 + 108270395
5 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
6 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 43:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 libc++.1.dylib 0x00007fff204a9d72 std::__1::condition_variable::wait(std::__1::unique_lock&) + 18
3 QtWebEngineCore 0x000000012c041ca6 0x125902000 + 108264614
4 QtWebEngineCore 0x000000012c04333b 0x125902000 + 108270395
5 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
6 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 44:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 libc++.1.dylib 0x00007fff204a9d72 std::__1::condition_variable::wait(std::__1::unique_lock&) + 18
3 QtWebEngineCore 0x000000012c041ca6 0x125902000 + 108264614
4 QtWebEngineCore 0x000000012c04333b 0x125902000 + 108270395
5 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
6 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 45:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 libc++.1.dylib 0x00007fff204a9d72 std::__1::condition_variable::wait(std::__1::unique_lock&) + 18
3 QtWebEngineCore 0x000000012c041ca6 0x125902000 + 108264614
4 QtWebEngineCore 0x000000012c04333b 0x125902000 + 108270395
5 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
6 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 46:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 libopenblas64_.0.dylib 0x000000011111f2df blas_thread_server + 207
3 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
4 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 47:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 libopenblas64_.0.dylib 0x000000011111f2df blas_thread_server + 207
3 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
4 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 48:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 libopenblas64_.0.dylib 0x000000011111f2df blas_thread_server + 207
3 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
4 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 49:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 libopenblas64_.0.dylib 0x000000011111f2df blas_thread_server + 207
3 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
4 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 50:
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 libopenblas64_.0.dylib 0x000000011111f2df blas_thread_server + 207
3 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
4 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 51:: ThreadPoolForegroundWorker
0 libsystem_kernel.dylib 0x00007fff2050b29a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2050b60c mach_msg + 60
2 QtWebEngineCore 0x000000012a123556 0x125902000 + 75634006
3 QtWebEngineCore 0x000000012a091ac6 0x125902000 + 75037382
4 QtWebEngineCore 0x000000012a0cfe0a 0x125902000 + 75292170
5 QtWebEngineCore 0x000000012a0d0d4a 0x125902000 + 75296074
6 QtWebEngineCore 0x000000012a0d067d 0x125902000 + 75294333
7 QtWebEngineCore 0x000000012a0d056f 0x125902000 + 75294063
8 QtWebEngineCore 0x000000012a0f9ed8 0x125902000 + 75464408
9 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
10 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 52:: ThreadPoolBackgroundWorker
0 libsystem_kernel.dylib 0x00007fff2050b29a mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff2050b60c mach_msg + 60
2 QtWebEngineCore 0x000000012a123556 0x125902000 + 75634006
3 QtWebEngineCore 0x000000012a091ac6 0x125902000 + 75037382
4 QtWebEngineCore 0x000000012a0cfe0a 0x125902000 + 75292170
5 QtWebEngineCore 0x000000012a0d0d4a 0x125902000 + 75296074
6 QtWebEngineCore 0x000000012a0d05ed 0x125902000 + 75294189
7 QtWebEngineCore 0x000000012a0d0594 0x125902000 + 75294100
8 QtWebEngineCore 0x000000012a0f9ed8 0x125902000 + 75464408
9 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
10 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 53:: QFileInfoGatherer
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 QtCore 0x00000001219bec3b 0x1217a0000 + 2223163
3 QtCore 0x00000001219beba5 QWaitCondition::wait(QMutex*, QDeadlineTimer) + 85
4 QtGui 0x0000000124dae832 QFileInfoGatherer::run() + 146
5 QtCore 0x00000001219b5049 0x1217a0000 + 2183241
6 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
7 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 54:: Thread (pooled)
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 QtCore 0x00000001219bece4 0x1217a0000 + 2223332
3 QtCore 0x00000001219beba5 QWaitCondition::wait(QMutex*, QDeadlineTimer) + 85
4 QtCore 0x00000001219b94ad 0x1217a0000 + 2200749
5 QtCore 0x00000001219b5049 0x1217a0000 + 2183241
6 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
7 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 55:: Thread (pooled)
0 libsystem_kernel.dylib 0x00007fff2050dcbe __psynch_cvwait + 10
1 libsystem_pthread.dylib 0x00007fff20540e49 _pthread_cond_wait + 1298
2 QtCore 0x00000001219bece4 0x1217a0000 + 2223332
3 QtCore 0x00000001219beba5 QWaitCondition::wait(QMutex*, QDeadlineTimer) + 85
4 QtCore 0x00000001219b94ad 0x1217a0000 + 2200749
5 QtCore 0x00000001219b5049 0x1217a0000 + 2183241
6 libsystem_pthread.dylib 0x00007fff205408fc _pthread_start + 224
7 libsystem_pthread.dylib 0x00007fff2053c443 thread_start + 15
Thread 56:
0 libsystem_pthread.dylib 0x00007fff2053c420 start_wqthread + 0
Thread 57:
0 libsystem_pthread.dylib 0x00007fff2053c420 start_wqthread + 0
Thread 58:
0 libsystem_pthread.dylib 0x00007fff2053c420 start_wqthread + 0
Thread 59:
0 libsystem_pthread.dylib 0x00007fff2053c420 start_wqthread + 0
Thread 60:
0 libsystem_pthread.dylib 0x00007fff2053c420 start_wqthread + 0
Thread 0 crashed with X86 Thread State (64-bit):
rax: 0x0000000000000000 rbx: 0x0000000110d8fe00 rcx: 0x00007ffb74ddd9e8 rdx: 0x0000000000000000
rdi: 0x0000000000000103 rsi: 0x000000000000000b rbp: 0x00007ffb74ddda10 rsp: 0x00007ffb74ddd9e8
r8: 0x0000000000000002 r9: 0xcccccccccccccccd r10: 0x0000000110d8fe00 r11: 0x0000000000000246
r12: 0x0000000000000103 r13: 0x000000010e841c01 r14: 0x000000000000000b r15: 0x0000000000000016
rip: 0x00007fff2051190e rfl: 0x0000000000000246 cr2: 0x000000010e66a5d0
Logical CPU: 0
Error Code: 0x02000148
Trap Number: 133
Thread 0 instruction stream:
ff ff ff ff 48 89 d8 48-8b 00 48 ff c2 48 39 c3 ....H..H..H..H9.
75 f5 48 8d 3d 5b 13 16-00 48 8d b5 70 ff ff ff u.H.=[...H..p...
31 c0 e8 0f 84 fe ff 48-8b 05 08 e8 16 00 48 8b 1......H......H.
00 48 3b 45 d8 75 0d 48-83 c4 70 5b 41 5c 41 5e .H;E.u.H..p[A\A^
41 5f 5d c3 e8 2d ae 0e-00 66 2e 0f 1f 84 00 00 A_]..-...f......
00 00 00 0f 1f 00 55 48-89 e5 53 50 48 8b 47 08 ......UH..SPH.G.
[f6]80 a9 00 00 00 40 75-09 31 c0 48 83 c4 08 5b ......@u.1.H...[ /Applications/ChimeraX_Daily.app/Contents/MacOS/ChimeraX
0x10e435000 - 0x10e80cfff +org.python.python (3.11.4, [c] 2001-2023 Python Software Foundation. - 3.11.4) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/Python
0x10ed70000 - 0x10ed7bfff +math.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/lib-dynload/math.cpython-311-darwin.so
0x10ee8c000 - 0x10ee9bfff +_datetime.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/lib-dynload/_datetime.cpython-311-darwin.so
0x10eeb0000 - 0x10eeb3fff +_typing.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/lib-dynload/_typing.cpython-311-darwin.so
0x10f0c0000 - 0x10f0c7fff +zlib.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/lib-dynload/zlib.cpython-311-darwin.so
0x10f0d8000 - 0x10f0dbfff +_bz2.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/lib-dynload/_bz2.cpython-311-darwin.so
0x10f0e8000 - 0x10f117fff +_lzma.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/lib-dynload/_lzma.cpython-311-darwin.so
0x10f12c000 - 0x10f12ffff +_bisect.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/lib-dynload/_bisect.cpython-311-darwin.so
0x10f13c000 - 0x10f13ffff +_random.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/lib-dynload/_random.cpython-311-darwin.so
0x10f14c000 - 0x10f153fff +_sha512.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/lib-dynload/_sha512.cpython-311-darwin.so
0x10f160000 - 0x10f167fff +binascii.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/lib-dynload/binascii.cpython-311-darwin.so
0x10f174000 - 0x10f17bfff +_struct.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/lib-dynload/_struct.cpython-311-darwin.so
0x10f18c000 - 0x10f18ffff +fcntl.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/lib-dynload/fcntl.cpython-311-darwin.so
0x10f19c000 - 0x10f19ffff +_posixsubprocess.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/lib-dynload/_posixsubprocess.cpython-311-darwin.so
0x10f1ac000 - 0x10f1b3fff +select.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/lib-dynload/select.cpython-311-darwin.so
0x10f2c0000 - 0x10f2c3fff +_arrays.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/arrays/_arrays.cpython-311-darwin.so
0x10f2d0000 - 0x10f3e3fff +libarrays.dylib (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/arrays/lib/libarrays.dylib
0x10f510000 - 0x10f9c7fff +_multiarray_umath.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/numpy/core/_multiarray_umath.cpython-311-darwin.so
0x10fa80000 - 0x1100c2fff +libgfortran.5.dylib (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/numpy/.dylibs/libgfortran.5.dylib
0x1100fd000 - 0x11014afff +libquadmath.0.dylib (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/numpy/.dylibs/libquadmath.0.dylib
0x110154000 - 0x110164fff +libgcc_s.1.1.dylib (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/numpy/.dylibs/libgcc_s.1.1.dylib
0x110276000 - 0x110291fff +_pickle.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/lib-dynload/_pickle.cpython-311-darwin.so
0x1102a6000 - 0x1102a9fff +_contextvars.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/lib-dynload/_contextvars.cpython-311-darwin.so
0x1102b6000 - 0x1102c9fff +_multiarray_tests.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/numpy/core/_multiarray_tests.cpython-311-darwin.so
0x1103da000 - 0x1103edfff +_ctypes.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/lib-dynload/_ctypes.cpython-311-darwin.so
0x110406000 - 0x11042dfff +_umath_linalg.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/numpy/linalg/_umath_linalg.cpython-311-darwin.so
0x11053e000 - 0x110551fff +_pocketfft_internal.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/numpy/fft/_pocketfft_internal.cpython-311-darwin.so
0x11055e000 - 0x1105fdfff +mtrand.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/numpy/random/mtrand.cpython-311-darwin.so
0x11061a000 - 0x110641fff +bit_generator.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/numpy/random/bit_generator.cpython-311-darwin.so
0x110656000 - 0x110685fff +_common.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/numpy/random/_common.cpython-311-darwin.so
0x11069a000 - 0x1106a1fff +_hashlib.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/lib-dynload/_hashlib.cpython-311-darwin.so
0x1106b2000 - 0x1108d9fff +libcrypto.1.1.dylib (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/libcrypto.1.1.dylib
0x11097a000 - 0x110981fff +_blake2.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/lib-dynload/_blake2.cpython-311-darwin.so
0x110a8e000 - 0x110addfff +_bounded_integers.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/numpy/random/_bounded_integers.cpython-311-darwin.so
0x110afa000 - 0x110b0dfff +_mt19937.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/numpy/random/_mt19937.cpython-311-darwin.so
0x110b1e000 - 0x110b2dfff +_philox.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/numpy/random/_philox.cpython-311-darwin.so
0x110b3e000 - 0x110b51fff +_pcg64.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/numpy/random/_pcg64.cpython-311-darwin.so
0x110b62000 - 0x110b6dfff +_sfc64.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/numpy/random/_sfc64.cpython-311-darwin.so
0x110b7e000 - 0x110c39fff +_generator.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/numpy/random/_generator.cpython-311-darwin.so
0x110c5a000 - 0x110c5dfff +_opcode.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/lib-dynload/_opcode.cpython-311-darwin.so
0x110c6a000 - 0x110c8dfff +_geometry.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/geometry/_geometry.cpython-311-darwin.so
0x110cb8000 - 0x110d53fff dyld (852.2) /usr/lib/dyld
0x110dd0000 - 0x114d23fff +libopenblas64_.0.dylib (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/numpy/.dylibs/libopenblas64_.0.dylib
0x121100000 - 0x121107fff +_json.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/lib-dynload/_json.cpython-311-darwin.so
0x121414000 - 0x1215b7fff +QtCore.abi3.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/PyQt6/QtCore.abi3.so
0x1217a0000 - 0x121cb7fff +QtCore (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/PyQt6/Qt6/lib/QtCore.framework/Versions/A/QtCore
0x123c81000 - 0x123c98fff com.apple.security.csparser (3.0 - 59754.141.1.702.3) /System/Library/Frameworks/Security.framework/PlugIns/csparser.bundle/Contents/MacOS/csparser
0x123d0e000 - 0x123d25fff +sip.cpython-311-darwin.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/PyQt6/sip.cpython-311-darwin.so
0x123d3e000 - 0x123ff9fff +QtWidgets.abi3.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/PyQt6/QtWidgets.abi3.so
0x124316000 - 0x1247c9fff +QtWidgets (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/PyQt6/Qt6/lib/QtWidgets.framework/Versions/A/QtWidgets
0x124932000 - 0x125021fff +QtGui (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/PyQt6/Qt6/lib/QtGui.framework/Versions/A/QtGui
0x12515e000 - 0x1251e1fff +QtDBus (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/PyQt6/Qt6/lib/QtDBus.framework/Versions/A/QtDBus
0x12520a000 - 0x12537dfff +QtGui.abi3.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/PyQt6/QtGui.abi3.so
0x12582a000 - 0x125839fff +QtWebEngineWidgets.abi3.so (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/PyQt6/QtWebEngineWidgets.abi3.so
0x125852000 - 0x125869fff +QtWebEngineWidgets (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/PyQt6/Qt6/lib/QtWebEngineWidgets.framework/Versions/A/QtWebEngineWidgets
0x12588a000 - 0x1258d1fff +QtPrintSupport (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/PyQt6/Qt6/lib/QtPrintSupport.framework/Versions/A/QtPrintSupport
0x125902000 - 0x130819fff +QtWebEngineCore (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/PyQt6/Qt6/lib/QtWebEngineCore.framework/Versions/A/QtWebEngineCore
0x1314c2000 - 0x1318c5fff +QtQuick (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/PyQt6/Qt6/lib/QtQuick.framework/Versions/A/QtQuick
0x131a3a000 - 0x131aa1fff +QtOpenGL (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/PyQt6/Qt6/lib/QtOpenGL.framework/Versions/A/QtOpenGL
0x131ad6000 - 0x131b5dfff +QtQmlModels (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/PyQt6/Qt6/lib/QtQmlModels.framework/Versions/A/QtQmlModels
0x131b8e000 - 0x131bb9fff +QtWebChannel (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/PyQt6/Qt6/lib/QtWebChannel.framework/Versions/A/QtWebChannel
0x131bd2000 - 0x131fe9fff +QtQml (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/PyQt6/Qt6/lib/QtQml.framework/Versions/A/QtQml
0x1320ba000 - 0x1321d1fff +QtNetwork (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/PyQt6/Qt6/lib/QtNetwork.framework/Versions/A/QtNetwork
0x13222a000 - 0x132299fff +QtPositioning (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/PyQt6/Qt6/lib/QtPositioning.framework/Versions/A/QtPositioning
0x1322c2000 - 0x1322d5fff +QtQuickWidgets (0) /Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/PyQt6/Qt6/lib/QtQuickWidgets.framework/Versions/A/QtQuickWidgets
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0x7fff3be27000 - 0x7fff3bebefff com.apple.AirPlaySync (1.0 - 2780.10.4.1.1) /System/Library/PrivateFrameworks/AirPlaySync.framework/Versions/A/AirPlaySync
0x7fff3ca4f000 - 0x7fff3cad2fff com.apple.CorePDF (4.0 - 529) /System/Library/PrivateFrameworks/CorePDF.framework/Versions/A/CorePDF
0x7fff3cad3000 - 0x7fff3cad6fff com.apple.print.framework.Print (15 - 271) /System/Library/Frameworks/Carbon.framework/Versions/A/Frameworks/Print.framework/Versions/A/Print
0x7fff3cad7000 - 0x7fff3cadafff com.apple.Carbon (160 - 164) /System/Library/Frameworks/Carbon.framework/Versions/A/Carbon
0x7fff3cbd3000 - 0x7fff3cbd3fff com.apple.avfoundation (2.0 - 2020.10) /System/Library/Frameworks/AVFoundation.framework/Versions/A/AVFoundation
0x7fff3cd8d000 - 0x7fff3cdacfff com.apple.private.SystemPolicy (1.0 - 1) /System/Library/PrivateFrameworks/SystemPolicy.framework/Versions/A/SystemPolicy
0x7fff3cef9000 - 0x7fff3cf4ffff com.apple.AccessibilitySharedSupport (1.0 - 1) /System/Library/PrivateFrameworks/AccessibilitySharedSupport.framework/Versions/A/AccessibilitySharedSupport
0x7fff3cf50000 - 0x7fff3cf6dfff com.apple.sidecar-core (1.0 - 231.0.3) /System/Library/PrivateFrameworks/SidecarCore.framework/Versions/A/SidecarCore
0x7fff3cf6e000 - 0x7fff3cf71fff com.apple.QuickLookNonBaseSystem (1.0 - 1) /System/Library/PrivateFrameworks/QuickLookNonBaseSystem.framework/Versions/A/QuickLookNonBaseSystem
0x7fff3d389000 - 0x7fff3d38ffff com.apple.FeatureFlagsSupport (1.0 - 28.60.1) /System/Library/PrivateFrameworks/FeatureFlagsSupport.framework/Versions/A/FeatureFlagsSupport
0x7fff3d500000 - 0x7fff3d517fff com.apple.SafariServices.framework (16611 - 16611.3.10.1.19) /System/Library/Frameworks/SafariServices.framework/Versions/A/SafariServices
0x7fff3d6ca000 - 0x7fff3d6d5fff com.apple.MallocStackLogging (1.0 - 1) /System/Library/PrivateFrameworks/MallocStackLogging.framework/Versions/A/MallocStackLogging
0x7fff3d6ea000 - 0x7fff3d6fcfff libmis.dylib (274.140.2) /usr/lib/libmis.dylib
0x7fff3d719000 - 0x7fff3d888fff com.apple.CoreHandwriting (161 - 1.2) /System/Library/PrivateFrameworks/CoreHandwriting.framework/Versions/A/CoreHandwriting
0x7fff3d889000 - 0x7fff3dae4fff com.apple.imageKit (3.0 - 1100) /System/Library/Frameworks/Quartz.framework/Versions/A/Frameworks/ImageKit.framework/Versions/A/ImageKit
0x7fff3dae5000 - 0x7fff3dbfbfff com.apple.PencilKit (1.0 - 1) /System/Library/Frameworks/PencilKit.framework/Versions/A/PencilKit
0x7fff3dbfc000 - 0x7fff3dc0dfff com.apple.sidecar-ui (1.0 - 231.0.3) /System/Library/PrivateFrameworks/SidecarUI.framework/Versions/A/SidecarUI
0x7fff3e230000 - 0x7fff3e292fff com.apple.ImageCaptureCore (1711.5.2.1 - 1711.5.2.1) /System/Library/Frameworks/ImageCaptureCore.framework/Versions/A/ImageCaptureCore
0x7fff3e293000 - 0x7fff3e2b8fff com.apple.quartzfilters (1.10.0 - 98) /System/Library/Frameworks/Quartz.framework/Versions/A/Frameworks/QuartzFilters.framework/Versions/A/QuartzFilters
0x7fff3e504000 - 0x7fff3e666fff com.apple.MediaPlayer (1.0 - 1.0) /System/Library/Frameworks/MediaPlayer.framework/Versions/A/MediaPlayer
0x7fff3e667000 - 0x7fff3e948fff com.apple.iTunesCloud (1.0 - 1) /System/Library/PrivateFrameworks/iTunesCloud.framework/Versions/A/iTunesCloud
0x7fff3e974000 - 0x7fff3ea9cfff com.apple.AnnotationKit (1.0 - 383.6.1) /System/Library/PrivateFrameworks/AnnotationKit.framework/Versions/A/AnnotationKit
0x7fff3ea9d000 - 0x7fff3ef3dfff com.apple.QuartzComposer (5.1 - 383) /System/Library/Frameworks/Quartz.framework/Versions/A/Frameworks/QuartzComposer.framework/Versions/A/QuartzComposer
0x7fff3ef3e000 - 0x7fff3f026fff com.apple.PDFKit (1.0 - 950.40.3) /System/Library/Frameworks/PDFKit.framework/Versions/A/PDFKit
0x7fff3fd6d000 - 0x7fff3fdeafff com.apple.TextInput (1.0 - 1.0) /System/Library/PrivateFrameworks/TextInput.framework/Versions/A/TextInput
0x7fff40f22000 - 0x7fff40f2bfff com.apple.IOAccelMemoryInfo (1.0 - 1) /System/Library/PrivateFrameworks/IOAccelMemoryInfo.framework/Versions/A/IOAccelMemoryInfo
0x7fff40f86000 - 0x7fff40f89fff com.apple.quartzframework (1.5 - 25) /System/Library/Frameworks/Quartz.framework/Versions/A/Quartz
0x7fff413ae000 - 0x7fff413ccfff libCGInterfaces.dylib (544.6) /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vImage.framework/Versions/A/Libraries/libCGInterfaces.dylib
0x7fff42a4c000 - 0x7fff437acfff libfaceCore.dylib (4.3.2) /System/Library/Frameworks/Vision.framework/libfaceCore.dylib
0x7fff437ad000 - 0x7fff438c0fff com.apple.TextRecognition (1.0 - 157) /System/Library/PrivateFrameworks/TextRecognition.framework/Versions/A/TextRecognition
0x7fff438c1000 - 0x7fff438d9fff com.apple.Futhark (1.0 - 1) /System/Library/PrivateFrameworks/Futhark.framework/Versions/A/Futhark
0x7fff4395b000 - 0x7fff43bcefff com.apple.RawCamera.bundle (9.10.0 - 1450.3.1) /System/Library/CoreServices/RawCamera.bundle/Contents/MacOS/RawCamera
0x7fff44437000 - 0x7fff4443bfff com.apple.DAAPKit (1.0 - 1) /System/Library/PrivateFrameworks/DAAPKit.framework/Versions/A/DAAPKit
0x7fff45db2000 - 0x7fff45db5fff libpmenergy.dylib (227.140.1) /usr/lib/libpmenergy.dylib
0x7fff464a1000 - 0x7fff464acfff libGPUSupportMercury.dylib (18.5.9) /System/Library/PrivateFrameworks/GPUSupport.framework/Versions/A/Libraries/libGPUSupportMercury.dylib
0x7fff47ad6000 - 0x7fff47b17fff com.apple.osanalytics.OSAnalytics (1.0 - 1) /System/Library/PrivateFrameworks/OSAnalytics.framework/Versions/A/OSAnalytics
0x7fff48365000 - 0x7fff48380fff com.apple.network.statistics.framework (1.2 - 1) /System/Library/PrivateFrameworks/NetworkStatistics.framework/Versions/A/NetworkStatistics
0x7fff51569000 - 0x7fff51596fff com.apple.HelpData (2.3 - 201.1) /System/Library/PrivateFrameworks/HelpData.framework/Versions/A/HelpData
0x7fff51597000 - 0x7fff515b1fff com.apple.shortcut (2.16 - 118) /System/Library/PrivateFrameworks/Shortcut.framework/Versions/A/Shortcut
0x7fff515b2000 - 0x7fff51651fff com.apple.Symbolication (12.5 - 64544.70.3) /System/Library/PrivateFrameworks/Symbolication.framework/Versions/A/Symbolication
0x7fff51841000 - 0x7fff51844fff libpmsample.dylib (227.140.1) /usr/lib/libpmsample.dylib
0x7fff53ed9000 - 0x7fff53f0ffff com.apple.ReplayKit (1.0 - 1) /System/Library/Frameworks/ReplayKit.framework/Versions/A/ReplayKit
0x7fff55509000 - 0x7fff5550cfff com.apple.ForceFeedback (1.0.6 - 1.0.6) /System/Library/Frameworks/ForceFeedback.framework/Versions/A/ForceFeedback
0x7fff5e0d0000 - 0x7fff5eb33fff libSC.dylib (4.6.21) /System/Library/Extensions/AMDShared.bundle/Contents/PlugIns/libSC.dylib
0x7fff69601000 - 0x7fff69605fff libmetal_timestamp.dylib (31001.192.1) /System/Library/PrivateFrameworks/GPUCompiler.framework/Versions/31001/Libraries/libmetal_timestamp.dylib
0x7fff6ba4c000 - 0x7fff6ba52fff libCoreFSCache.dylib (200.12) /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libCoreFSCache.dylib
0x7fff6ba53000 - 0x7fff6ba57fff libCoreVMClient.dylib (200.12) /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libCoreVMClient.dylib
0x7fff6ba58000 - 0x7fff6ba67fff com.apple.opengl (18.5.9 - 18.5.9) /System/Library/Frameworks/OpenGL.framework/Versions/A/OpenGL
0x7fff6ba68000 - 0x7fff6ba6afff libCVMSPluginSupport.dylib (18.5.9) /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libCVMSPluginSupport.dylib
0x7fff6ba6b000 - 0x7fff6ba73fff libGFXShared.dylib (18.5.9) /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libGFXShared.dylib
0x7fff6ba74000 - 0x7fff6baa7fff libGLImage.dylib (18.5.9) /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libGLImage.dylib
0x7fff6baa8000 - 0x7fff6bae4fff libGLU.dylib (18.5.9) /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libGLU.dylib
0x7fff6bae5000 - 0x7fff6bc78fff libGLProgrammability.dylib (18.5.9) /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libGLProgrammability.dylib
0x7fff6bc79000 - 0x7fff6bc83fff libGL.dylib (18.5.9) /System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libGL.dylib
0x7fff6bc84000 - 0x7fff6be01fff GLEngine (18.5.9) /System/Library/Frameworks/OpenGL.framework/Versions/A/Resources/GLEngine.bundle/GLEngine
0x7fff6be02000 - 0x7fff6be2afff GLRendererFloat (18.5.9) /System/Library/Frameworks/OpenGL.framework/Versions/A/Resources/GLRendererFloat.bundle/GLRendererFloat
0x7fff6d0c3000 - 0x7fff6d11bfff com.apple.opencl (4.6 - 4.6) /System/Library/Frameworks/OpenCL.framework/Versions/A/OpenCL
0x7fff6e065000 - 0x7fff6e0b4fff ATIRadeonX6000SCLib.dylib (4.6.21) /System/Library/Extensions/AMDRadeonX6000GLDriver.bundle/Contents/MacOS/ATIRadeonX6000SCLib.dylib
0x7fff6e1c5000 - 0x7fff6e1ccfff com.apple.agl (3.3.4 - AGL-3.3.3) /System/Library/Frameworks/AGL.framework/Versions/A/AGL
0x7fff6e1cd000 - 0x7fff6e2b4fff com.apple.audio.AVFAudio (1.0 - 477.88) /System/Library/Frameworks/AVFAudio.framework/Versions/A/AVFAudio
0x7fff6f83a000 - 0x7fff6f84cfff com.apple.CMImaging (1.0 - 82.6) /System/Library/PrivateFrameworks/CMImaging.framework/Versions/A/CMImaging
0x7fff73b6a000 - 0x7fff73b75fff com.apple.SymptomAnalytics (1.0 - 1431.140.1) /System/Library/PrivateFrameworks/Symptoms.framework/Frameworks/SymptomAnalytics.framework/Versions/A/SymptomAnalytics
0x7fff73d8b000 - 0x7fff73da3fff com.apple.SymptomPresentationFeed (1.0 - 1431.140.1) /System/Library/PrivateFrameworks/Symptoms.framework/Frameworks/SymptomPresentationFeed.framework/Versions/A/SymptomPresentationFeed
0x7fff776b2000 - 0x7fff776b9fff libRosetta.dylib (203.58) /usr/lib/libRosetta.dylib
External Modification Summary:
Calls made by other processes targeting this process:
task_for_pid: 0
thread_create: 0
thread_set_state: 0
Calls made by this process:
task_for_pid: 0
thread_create: 0
thread_set_state: 0
Calls made by all processes on this machine:
task_for_pid: 0
thread_create: 0
thread_set_state: 0
VM Region Summary:
ReadOnly portion of Libraries: Total=1.2G resident=0K(0%) swapped_out_or_unallocated=1.2G(100%)
Writable regions: Total=1.6G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=1.6G(100%)
VIRTUAL REGION
REGION TYPE SIZE COUNT (non-coalesced)
=========== ======= =======
Accelerate framework 640K 5
Activity Tracing 256K 1
CG backing stores 5760K 6
CG image 1324K 35
CG raster data 912K 2
CoreAnimation 2968K 29
CoreGraphics 12K 2
CoreServices 624K 2
CoreUI image data 3872K 30
Foundation 16K 1
IOKit 7940K 1
Kernel Alloc Once 8K 1
MALLOC 903.6M 597
MALLOC guard page 32K 8
MALLOC_LARGE (reserved) 384K 1 reserved VM address space (unallocated)
Mach message 16K 2
OpenGL GLSL 384K 4
STACK GUARD 240K 60
Stack 413.5M 61
Stack Guard 56.0M 1
VM_ALLOCATE 262.7M 201
VM_ALLOCATE (reserved) 32.0M 1 reserved VM address space (unallocated)
__DATA 42.9M 654
__DATA_CONST 33.6M 350
__DATA_DIRTY 1723K 212
__FONT_DATA 4K 1
__GLSLBUILTINS 5176K 1
__LINKEDIT 536.1M 286
__OBJC_RO 70.3M 1
__OBJC_RW 2496K 2
__TEXT 699.4M 639
__UNICODE 588K 1
mapped file 262.5M 53
shared memory 2952K 22
=========== ======= =======
TOTAL 3.3G 3273
TOTAL, minus reserved VM space 3.2G 3273
===== 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: 1.8.dev202403290055 (2024-03-29)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open "/Users/lbloom/UFL Dropbox/Linda Bloom/Active
> structures/AlphaFold3/fold_2024_05_22_yoaa_chi_t18/fold_2024_05_22_yoaa_chi_t18_model_0.cif"
Chain information for fold_2024_05_22_yoaa_chi_t18_model_0.cif #1
---
Chain | Description
A | .
B | .
C | .
> close session
> open "/Users/lbloom/UFL Dropbox/Linda Bloom/Active
> structures/AlphaFold3/fold_2024_05_22_yoaa_chi_t18/fold_2024_05_22_yoaa_chi_t18_summary_confidences_0.json"
fold_2024_05_22_yoaa_chi_t18_summary_confidences_0.json does not look like
Mole Online json file, does not contain Channels.
> open "/Users/lbloom/UFL Dropbox/Linda Bloom/Active
> structures/AlphaFold3/fold_2024_05_22_yoaa_chi_t18/fold_2024_05_22_yoaa_chi_t18_model_1.cif"
Chain information for fold_2024_05_22_yoaa_chi_t18_model_1.cif #1
---
Chain | Description
A | .
B | .
C | .
> close session
> open "/Users/lbloom/UFL Dropbox/Linda Bloom/Active
> structures/AlphaFold3/fold_2024_05_22_yoaa_chi_t18/fold_2024_05_22_yoaa_chi_t18_model_2.cif"
Chain information for fold_2024_05_22_yoaa_chi_t18_model_2.cif #1
---
Chain | Description
A | .
B | .
C | .
> close session
> open "/Users/lbloom/UFL Dropbox/Linda Bloom/Active
> structures/AlphaFold3/fold_2024_05_22_yoaa_chi_t18/fold_2024_05_22_yoaa_chi_t18_model_3.cif"
Chain information for fold_2024_05_22_yoaa_chi_t18_model_3.cif #1
---
Chain | Description
A | .
B | .
C | .
> close session
> open "/Users/lbloom/UFL Dropbox/Linda Bloom/Active
> structures/AlphaFold3/fold_2024_05_22_yoaa_chi_t18/fold_2024_05_22_yoaa_chi_t18_model_4.cif"
Chain information for fold_2024_05_22_yoaa_chi_t18_model_4.cif #1
---
Chain | Description
A | .
B | .
C | .
> close session
> open "/Users/lbloom/UFL Dropbox/Linda Bloom/Active
> structures/AlphaFold3/fold_2024_05_22_yoaa_chi_t18/fold_2024_05_22_yoaa_chi_t18_model_1.cif"
> format mmcif
Chain information for fold_2024_05_22_yoaa_chi_t18_model_1.cif #1
---
Chain | Description
A | .
B | .
C | .
> close session
> open "/Users/lbloom/UFL Dropbox/Linda Bloom/Active
> structures/AlphaFold3/fold_2024_05_22_yoaa_chi_t18/fold_2024_05_22_yoaa_chi_t18_model_0.cif"
> format mmcif
Chain information for fold_2024_05_22_yoaa_chi_t18_model_0.cif #1
---
Chain | Description
A | .
B | .
C | .
> open "/Users/lbloom/UFL Dropbox/Linda Bloom/Active
> structures/AlphaFold3/fold_2024_05_22_yoaa_chi_t18/fold_2024_05_22_yoaa_chi_t18_model_1.cif"
> format mmcif
Chain information for fold_2024_05_22_yoaa_chi_t18_model_1.cif #2
---
Chain | Description
A | .
B | .
C | .
> open "/Users/lbloom/UFL Dropbox/Linda Bloom/Active
> structures/AlphaFold3/fold_2024_05_22_yoaa_chi_t18/fold_2024_05_22_yoaa_chi_t18_model_2.cif"
> format mmcif
Chain information for fold_2024_05_22_yoaa_chi_t18_model_2.cif #3
---
Chain | Description
A | .
B | .
C | .
> open "/Users/lbloom/UFL Dropbox/Linda Bloom/Active
> structures/AlphaFold3/fold_2024_05_22_yoaa_chi_t18/fold_2024_05_22_yoaa_chi_t18_model_3.cif"
> format mmcif
Chain information for fold_2024_05_22_yoaa_chi_t18_model_3.cif #4
---
Chain | Description
A | .
B | .
C | .
> open "/Users/lbloom/UFL Dropbox/Linda Bloom/Active
> structures/AlphaFold3/fold_2024_05_22_yoaa_chi_t18/fold_2024_05_22_yoaa_chi_t18_model_4.cif"
> format mmcif
Chain information for fold_2024_05_22_yoaa_chi_t18_model_4.cif #5
---
Chain | Description
A | .
B | .
C | .
> ui tool show Matchmaker
> matchmaker #2-5 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker fold_2024_05_22_yoaa_chi_t18_model_0.cif, chain A (#1) with
fold_2024_05_22_yoaa_chi_t18_model_1.cif, chain A (#2), sequence alignment
score = 3275
RMSD between 569 pruned atom pairs is 0.781 angstroms; (across all 636 pairs:
1.224)
Matchmaker fold_2024_05_22_yoaa_chi_t18_model_0.cif, chain A (#1) with
fold_2024_05_22_yoaa_chi_t18_model_2.cif, chain A (#3), sequence alignment
score = 3268.4
RMSD between 581 pruned atom pairs is 0.881 angstroms; (across all 636 pairs:
1.125)
Matchmaker fold_2024_05_22_yoaa_chi_t18_model_0.cif, chain A (#1) with
fold_2024_05_22_yoaa_chi_t18_model_3.cif, chain A (#4), sequence alignment
score = 3278.6
RMSD between 632 pruned atom pairs is 0.591 angstroms; (across all 636 pairs:
0.612)
Matchmaker fold_2024_05_22_yoaa_chi_t18_model_0.cif, chain A (#1) with
fold_2024_05_22_yoaa_chi_t18_model_4.cif, chain A (#5), sequence alignment
score = 3267.8
RMSD between 510 pruned atom pairs is 0.709 angstroms; (across all 636 pairs:
4.462)
> matchmaker #2-5 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker fold_2024_05_22_yoaa_chi_t18_model_0.cif, chain A (#1) with
fold_2024_05_22_yoaa_chi_t18_model_1.cif, chain A (#2), sequence alignment
score = 3275
RMSD between 569 pruned atom pairs is 0.781 angstroms; (across all 636 pairs:
1.224)
Matchmaker fold_2024_05_22_yoaa_chi_t18_model_0.cif, chain A (#1) with
fold_2024_05_22_yoaa_chi_t18_model_2.cif, chain A (#3), sequence alignment
score = 3268.4
RMSD between 581 pruned atom pairs is 0.881 angstroms; (across all 636 pairs:
1.125)
Matchmaker fold_2024_05_22_yoaa_chi_t18_model_0.cif, chain A (#1) with
fold_2024_05_22_yoaa_chi_t18_model_3.cif, chain A (#4), sequence alignment
score = 3278.6
RMSD between 632 pruned atom pairs is 0.591 angstroms; (across all 636 pairs:
0.612)
Matchmaker fold_2024_05_22_yoaa_chi_t18_model_0.cif, chain A (#1) with
fold_2024_05_22_yoaa_chi_t18_model_4.cif, chain A (#5), sequence alignment
score = 3267.8
RMSD between 510 pruned atom pairs is 0.709 angstroms; (across all 636 pairs:
4.462)
> save "/Users/lbloom/UFL Dropbox/Linda Bloom/Active
> structures/AlphaFold3/fold_2024_05_22_yoaa_chi_t18/YoaA_chi_T18 overlay of 5
> models.cxs"
> close session
> open "/Users/lbloom/UFL Dropbox/Linda Bloom/Active
> structures/AlphaFold3/fold_2024_05_22_yoaa_chi_t18/fold_2024_05_22_yoaa_chi_t18_model_1.cif"
> format mmcif
Chain information for fold_2024_05_22_yoaa_chi_t18_model_1.cif #1
---
Chain | Description
A | .
B | .
C | .
> select /A
4941 atoms, 5029 bonds, 636 residues, 1 model selected
> select /A:1-636
4941 atoms, 5029 bonds, 636 residues, 1 model selected
> select /A
4941 atoms, 5029 bonds, 636 residues, 1 model selected
> ui tool show "Color Actions"
> color sel dodger blue
> select /B
1175 atoms, 1201 bonds, 147 residues, 1 model selected
> color sel gold
> color sel goldenrod
> select /C
361 atoms, 396 bonds, 18 residues, 1 model selected
> hide sel cartoons
> show sel atoms
> nucleotides sel atoms
> save "/Users/lbloom/UFL Dropbox/Linda Bloom/Active
> structures/AlphaFold3/fold_2024_05_22_yoaa_chi_t18/YoaA_chi_T18_model_1.cxs"
> select /A:565
11 atoms, 11 bonds, 1 residue, 1 model selected
> select /A:565
11 atoms, 11 bonds, 1 residue, 1 model selected
> select /A:565
11 atoms, 11 bonds, 1 residue, 1 model selected
> select /A:565
11 atoms, 11 bonds, 1 residue, 1 model selected
> show sel atoms
> color sel byhetero
> select /B:37
9 atoms, 8 bonds, 1 residue, 1 model selected
> show sel atoms
> hide sel atoms
> select /B:75
11 atoms, 10 bonds, 1 residue, 1 model selected
> show sel atoms
> color sel byhetero
> select /B:92
11 atoms, 10 bonds, 1 residue, 1 model selected
> show sel atoms
> color sel byhetero
> select /B:37
9 atoms, 8 bonds, 1 residue, 1 model selected
> show sel atoms
> color sel byhetero
> select /A:619
11 atoms, 10 bonds, 1 residue, 1 model selected
> show sel atoms
> select /A:620
7 atoms, 6 bonds, 1 residue, 1 model selected
> show sel atoms
> select /A:619
11 atoms, 10 bonds, 1 residue, 1 model selected
> color sel byhetero
> select /A:620
7 atoms, 6 bonds, 1 residue, 1 model selected
> color sel byhetero
> select /A:621
11 atoms, 10 bonds, 1 residue, 1 model selected
> color sel byhetero
> show sel atoms
> select /A
4941 atoms, 5029 bonds, 636 residues, 1 model selected
> show sel surfaces
> coulombic sel
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for fold_2024_05_22_yoaa_chi_t18_model_1.cif_A SES surface
#1.1: minimum, -24.83, mean -1.04, maximum 14.99
To also show corresponding color key, enter the above coulombic command and
add key true
> close session
> open "/Users/lbloom/UFL Dropbox/Linda Bloom/Active structures/DinG_DNA_ATP
> 6fws.py"
ChimeraX cannot open a regular Chimera session. An exporter from Chimera to
ChimeraX is available in the latest Chimera release. Use its File->Export
Scene
menu item, and change the resulting dialog's "File Type" to ChimeraX.
> open 6fws fromDatabase pdb format mmcif
Summary of feedback from opening 6fws fetched from pdb
---
notes | Fetching compressed mmCIF 6fws from http://files.rcsb.org/download/6fws.cif
Fetching CCD MG from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/G/MG/MG.cif
6fws title:
Structure of DinG in complex with ssDNA and ADPBeF [more info...]
Chain information for 6fws #1
---
Chain | Description | UniProt
A B | ATP-dependent DNA helicase DinG | A0A2H4TNL0_ECOLX 1-716
C | DNA (5'-D(*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*T)-3') |
D | DNA (5'-D(*TP*TP*TP*TP*TP*TP*TP*TP*TP*T)-3') |
Non-standard residues in 6fws #1
---
ADP — adenosine-5'-diphosphate
BEF — beryllium trifluoride ion
MG — magnesium ion
SF4 — iron/sulfur cluster
> close session
> open 6fwr fromDatabase pdb format mmcif
Summary of feedback from opening 6fwr fetched from pdb
---
note | Fetching compressed mmCIF 6fwr from http://files.rcsb.org/download/6fwr.cif
6fwr title:
Structure of DinG in complex with ssDNA [more info...]
Chain information for 6fwr #1
---
Chain | Description | UniProt
A | ATP-dependent DNA helicase DinG | A0A2H4TNL0_ECOLX 1-716
B | DNA (5'-D(*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*T)-3') |
Non-standard residues in 6fwr #1
---
SF4 — iron/sulfur cluster
> select /A
5669 atoms, 5675 bonds, 4 pseudobonds, 809 residues, 3 models selected
> color sel medium sea green
> color sel steel blue
> color sel teal
> color sel medium aquamarine
> color sel forest green
> color sel yellow green
> color sel plum
> color sel violet
> color sel wheat
> color sel beige
> color sel tan
> color sel burly wood
> color sel tan
> select /B
225 atoms, 237 bonds, 20 residues, 1 model selected
> hide sel cartoons
> show sel atoms
> nucleotides sel atoms
> select /A
5669 atoms, 5675 bonds, 4 pseudobonds, 809 residues, 3 models selected
> color sel light sky blue
> color sel light green
> color sel forest green
> color sel lime green
> show sel surfaces
> ui tool show "Side View"
> coulombic sel
The following residues are missing heavy (non-hydrogen) atoms, which may
result in inaccurate electrostatics:
/A PHE 25
/A GLU 144
/A GLU 151
/A ARG 185
/A ARG 197
/A LYS 532
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/toolbar/tool.py", line 205, in callback
bundle_info.run_provider(session, name, session.toolbar,
display_name=display_name)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/toolshed/info.py", line 397, in run_provider
return api._api_caller.run_provider(api, session, name, mgr, **kw)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/toolshed/__init__.py", line 1302, in run_provider
return cls._get_func(api, "run_provider")(session, name, mgr, **kw)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/__init__.py", line 66, in run_provider
shortcuts.run_provider(session, name)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 1387, in run_provider
keyboard_shortcuts(session).try_shortcut(name)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 402, in try_shortcut
self.run_shortcut(keys)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 420, in run_shortcut
sc.run(self.session, status = self._enabled)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 339, in run
f(s)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 72, in func_plus_tip
func(cmd + " %s")(session)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 593, in run_expanded_command
run(session, cmd)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 536, in run
run_command(session, command, **kw)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/run.py", line 49, in run
results = command.run(text, log=log, return_json=return_json)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/cli.py", line 2904, in run
result = ci.function(session, **kw_args)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/coulombic/cmd.py", line 102, in cmd_coulombic
assign_charges(session, needs_assignment, his_scheme, charge_method,
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/coulombic/coulombic.py", line 73, in assign_charges
charged_struct = struct.copy(name="copy of " + struct.name)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/structure.py", line 162, in copy
m._copy_custom_attrs(self)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/structure.py", line 176, in _copy_custom_attrs
py_objs = [py_obj for py_obj in python_instances_of_class(class_obj)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/molobject.py", line 61, in python_instances_of_class
return [x for x in instances if filt(x)]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/molobject.py", line 61, in
return [x for x in instances if filt(x)]
^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/molobject.py", line 50, in
filt = lambda x: (not x.structure) or open_structure(x.structure)
^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/molc.py", line 91, in get_prop
cget(self._c_pointer_ref, 1, v_ref)
^^^^^^^^^^^^^^^^^^^
AttributeError: 'Chain' object has no attribute '_c_pointer_ref'
AttributeError: 'Chain' object has no attribute '_c_pointer_ref'
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/molc.py", line 91, in get_prop
cget(self._c_pointer_ref, 1, v_ref)
^^^^^^^^^^^^^^^^^^^
See log for complete Python traceback.
> coulombic sel
The following residues are missing heavy (non-hydrogen) atoms, which may
result in inaccurate electrostatics:
/A PHE 25
/A GLU 144
/A GLU 151
/A ARG 185
/A ARG 197
/A LYS 532
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/toolbar/tool.py", line 205, in callback
bundle_info.run_provider(session, name, session.toolbar,
display_name=display_name)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/toolshed/info.py", line 397, in run_provider
return api._api_caller.run_provider(api, session, name, mgr, **kw)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/toolshed/__init__.py", line 1302, in run_provider
return cls._get_func(api, "run_provider")(session, name, mgr, **kw)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/__init__.py", line 66, in run_provider
shortcuts.run_provider(session, name)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 1387, in run_provider
keyboard_shortcuts(session).try_shortcut(name)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 402, in try_shortcut
self.run_shortcut(keys)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 420, in run_shortcut
sc.run(self.session, status = self._enabled)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 339, in run
f(s)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 72, in func_plus_tip
func(cmd + " %s")(session)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 593, in run_expanded_command
run(session, cmd)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 536, in run
run_command(session, command, **kw)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/run.py", line 49, in run
results = command.run(text, log=log, return_json=return_json)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/cli.py", line 2904, in run
result = ci.function(session, **kw_args)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/coulombic/cmd.py", line 102, in cmd_coulombic
assign_charges(session, needs_assignment, his_scheme, charge_method,
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/coulombic/coulombic.py", line 73, in assign_charges
charged_struct = struct.copy(name="copy of " + struct.name)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/structure.py", line 162, in copy
m._copy_custom_attrs(self)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/structure.py", line 176, in _copy_custom_attrs
py_objs = [py_obj for py_obj in python_instances_of_class(class_obj)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/molobject.py", line 61, in python_instances_of_class
return [x for x in instances if filt(x)]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/molobject.py", line 61, in
return [x for x in instances if filt(x)]
^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/molobject.py", line 50, in
filt = lambda x: (not x.structure) or open_structure(x.structure)
^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/molc.py", line 91, in get_prop
cget(self._c_pointer_ref, 1, v_ref)
^^^^^^^^^^^^^^^^^^^
AttributeError: 'Chain' object has no attribute '_c_pointer_ref'
AttributeError: 'Chain' object has no attribute '_c_pointer_ref'
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/molc.py", line 91, in get_prop
cget(self._c_pointer_ref, 1, v_ref)
^^^^^^^^^^^^^^^^^^^
See log for complete Python traceback.
> select /A
5669 atoms, 5675 bonds, 4 pseudobonds, 809 residues, 3 models selected
> coulombic sel
The following residues are missing heavy (non-hydrogen) atoms, which may
result in inaccurate electrostatics:
/A PHE 25
/A GLU 144
/A GLU 151
/A ARG 185
/A ARG 197
/A LYS 532
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/toolbar/tool.py", line 205, in callback
bundle_info.run_provider(session, name, session.toolbar,
display_name=display_name)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/toolshed/info.py", line 397, in run_provider
return api._api_caller.run_provider(api, session, name, mgr, **kw)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/toolshed/__init__.py", line 1302, in run_provider
return cls._get_func(api, "run_provider")(session, name, mgr, **kw)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/__init__.py", line 66, in run_provider
shortcuts.run_provider(session, name)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 1387, in run_provider
keyboard_shortcuts(session).try_shortcut(name)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 402, in try_shortcut
self.run_shortcut(keys)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 420, in run_shortcut
sc.run(self.session, status = self._enabled)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 339, in run
f(s)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 72, in func_plus_tip
func(cmd + " %s")(session)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 593, in run_expanded_command
run(session, cmd)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 536, in run
run_command(session, command, **kw)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/run.py", line 49, in run
results = command.run(text, log=log, return_json=return_json)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/cli.py", line 2904, in run
result = ci.function(session, **kw_args)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/coulombic/cmd.py", line 102, in cmd_coulombic
assign_charges(session, needs_assignment, his_scheme, charge_method,
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/coulombic/coulombic.py", line 73, in assign_charges
charged_struct = struct.copy(name="copy of " + struct.name)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/structure.py", line 162, in copy
m._copy_custom_attrs(self)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/structure.py", line 176, in _copy_custom_attrs
py_objs = [py_obj for py_obj in python_instances_of_class(class_obj)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/molobject.py", line 61, in python_instances_of_class
return [x for x in instances if filt(x)]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/molobject.py", line 61, in
return [x for x in instances if filt(x)]
^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/molobject.py", line 50, in
filt = lambda x: (not x.structure) or open_structure(x.structure)
^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/molc.py", line 91, in get_prop
cget(self._c_pointer_ref, 1, v_ref)
^^^^^^^^^^^^^^^^^^^
AttributeError: 'Chain' object has no attribute '_c_pointer_ref'
AttributeError: 'Chain' object has no attribute '_c_pointer_ref'
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/molc.py", line 91, in get_prop
cget(self._c_pointer_ref, 1, v_ref)
^^^^^^^^^^^^^^^^^^^
See log for complete Python traceback.
> close session
> open 6fwr format mmcif fromDatabase pdb
6fwr title:
Structure of DinG in complex with ssDNA [more info...]
Chain information for 6fwr #1
---
Chain | Description | UniProt
A | ATP-dependent DNA helicase DinG | A0A2H4TNL0_ECOLX 1-716
B | DNA (5'-D(*TP*TP*TP*TP*TP*TP*TP*TP*TP*TP*T)-3') |
Non-standard residues in 6fwr #1
---
SF4 — iron/sulfur cluster
> coulombic
The following residues are missing heavy (non-hydrogen) atoms, which may
result in inaccurate electrostatics:
/A PHE 25
/A GLU 144
/A GLU 151
/A ARG 185
/A ARG 197
/A LYS 532
/B DT 1
Traceback (most recent call last):
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/toolbar/tool.py", line 205, in callback
bundle_info.run_provider(session, name, session.toolbar,
display_name=display_name)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/toolshed/info.py", line 397, in run_provider
return api._api_caller.run_provider(api, session, name, mgr, **kw)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/toolshed/__init__.py", line 1302, in run_provider
return cls._get_func(api, "run_provider")(session, name, mgr, **kw)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/__init__.py", line 66, in run_provider
shortcuts.run_provider(session, name)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 1387, in run_provider
keyboard_shortcuts(session).try_shortcut(name)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 402, in try_shortcut
self.run_shortcut(keys)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 420, in run_shortcut
sc.run(self.session, status = self._enabled)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 339, in run
f(s)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 72, in func_plus_tip
func(cmd + " %s")(session)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 593, in run_expanded_command
run(session, cmd)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/shortcuts/shortcuts.py", line 536, in run
run_command(session, command, **kw)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/run.py", line 49, in run
results = command.run(text, log=log, return_json=return_json)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/commands/cli.py", line 2904, in run
result = ci.function(session, **kw_args)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/coulombic/cmd.py", line 102, in cmd_coulombic
assign_charges(session, needs_assignment, his_scheme, charge_method,
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/coulombic/coulombic.py", line 73, in assign_charges
charged_struct = struct.copy(name="copy of " + struct.name)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/structure.py", line 162, in copy
m._copy_custom_attrs(self)
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/structure.py", line 176, in _copy_custom_attrs
py_objs = [py_obj for py_obj in python_instances_of_class(class_obj)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/molobject.py", line 61, in python_instances_of_class
return [x for x in instances if filt(x)]
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/molobject.py", line 61, in
return [x for x in instances if filt(x)]
^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/molobject.py", line 50, in
filt = lambda x: (not x.structure) or open_structure(x.structure)
^^^^^^^^^^^
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/molc.py", line 91, in get_prop
cget(self._c_pointer_ref, 1, v_ref)
^^^^^^^^^^^^^^^^^^^
AttributeError: 'Chain' object has no attribute '_c_pointer_ref'
AttributeError: 'Chain' object has no attribute '_c_pointer_ref'
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/atomic/molc.py", line 91, in get_prop
cget(self._c_pointer_ref, 1, v_ref)
^^^^^^^^^^^^^^^^^^^
See log for complete Python traceback.
> select /A:636
12 atoms, 12 bonds, 1 residue, 1 model selected
> style sel stick
Changed 12 atom styles
> show sel atoms
> select /A:618
8 atoms, 7 bonds, 1 residue, 1 model selected
> show sel atoms
> select /B
225 atoms, 237 bonds, 20 residues, 1 model selected
> nucleotides sel atoms
> hide sel cartoons
> color sel dark gray
> color sel byhetero
> save "/Users/lbloom/UFL Dropbox/Linda Bloom/Active
> structures/DinG_DNA_6fwr.cxs"
> close session
> open "/Users/lbloom/UFL Dropbox/Linda Bloom/Active
> structures/AlphaFold3/fold_2024_05_22_yoaa_chi_t18/YoaA_chi_T18_model_1.cxs"
> format session
===== Log before crash end =====
Log:
UCSF ChimeraX version: 1.8.dev202403290055 (2024-03-29)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 ATI-4.6.21
OpenGL renderer: AMD Radeon Pro 5300 OpenGL Engine
OpenGL vendor: ATI Technologies Inc.
Python: 3.11.4
Locale: UTF-8
Qt version: PyQt6 6.6.1, Qt 6.6.1
Qt runtime version: 6.6.2
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: iMac
Model Identifier: iMac20,1
Processor Name: 6-Core Intel Core i5
Processor Speed: 3.3 GHz
Number of Processors: 1
Total Number of Cores: 6
L2 Cache (per Core): 256 KB
L3 Cache: 12 MB
Hyper-Threading Technology: Enabled
Memory: 16 GB
System Firmware Version: 1968.140.7.0.0 (iBridge: 20.16.6072.0.0,0)
Software:
System Software Overview:
System Version: macOS 11.7.10 (20G1427)
Kernel Version: Darwin 20.6.0
Time since boot: 12 days 7:07
Graphics/Displays:
AMD Radeon Pro 5300:
Chipset Model: AMD Radeon Pro 5300
Type: GPU
Bus: PCIe
PCIe Lane Width: x8
VRAM (Total): 4 GB
Vendor: AMD (0x1002)
Device ID: 0x7340
Revision ID: 0x0047
ROM Revision: 113-D3220I-231
VBIOS Version: 113-D322A1XL-012
Option ROM Version: 113-D322A1XL-012
EFI Driver Version: 01.01.231
Metal Family: Supported, Metal GPUFamily macOS 2
Displays:
iMac:
Display Type: Built-In Retina LCD
Resolution: Retina 5K (5120 x 2880)
Framebuffer Depth: 30-Bit Color (ARGB2101010)
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
Installed Packages:
alabaster: 0.7.16
appdirs: 1.4.4
appnope: 0.1.4
asttokens: 2.4.1
Babel: 2.14.0
beautifulsoup4: 4.12.3
blockdiag: 3.0.0
blosc2: 2.0.0
build: 1.1.1
certifi: 2023.11.17
cftime: 1.6.3
charset-normalizer: 3.3.2
ChimeraX-AddCharge: 1.5.16
ChimeraX-AddH: 2.2.5
ChimeraX-AlignmentAlgorithms: 2.0.1
ChimeraX-AlignmentHdrs: 3.4.3
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.12.5
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.1.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.56
ChimeraX-AtomicLibrary: 14.0.3
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
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: 2.12.1
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: 1.4
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.4
ChimeraX-ChemGroup: 2.0.1
ChimeraX-Clashes: 2.2.4
ChimeraX-ColorActions: 1.0.3
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.5
ChimeraX-CommandLine: 1.2.5
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.8.dev202403290055
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.3
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.3
ChimeraX-Dicom: 1.2
ChimeraX-DistMonitor: 1.4.2
ChimeraX-DockPrep: 1.1.3
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: 1.1.9
ChimeraX-ListInfo: 1.2.2
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: 2.1.3
ChimeraX-MCopy: 1.0
ChimeraX-MDcrds: 2.7
ChimeraX-MedicalToolbar: 1.0.2
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.14
ChimeraX-MMTF: 2.2
ChimeraX-Modeller: 1.5.15
ChimeraX-ModelPanel: 1.5
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-NMRSTAR: 1.0.2
ChimeraX-NRRD: 1.1
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.13.3
ChimeraX-PDB: 2.7.5
ChimeraX-PDBBio: 1.0.1
ChimeraX-PDBLibrary: 1.0.4
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1.1
ChimeraX-PubChem: 2.1
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.3
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: 2.0.2
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-Segmentations: 1.0
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.11.2
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.1.1
ChimeraX-ShowSequences: 1.0.3
ChimeraX-SideView: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.16.3
ChimeraX-STL: 1.0.1
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.2
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0.1
ChimeraX-SwapAA: 2.0.1
ChimeraX-SwapRes: 2.5
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: 1.37.1
ChimeraX-uniprot: 2.3
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.3.2
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: 1.1.3
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.2.2
contourpy: 1.2.0
cxservices: 1.2.2
cycler: 0.12.1
Cython: 3.0.9
debugpy: 1.8.1
decorator: 5.1.1
docutils: 0.20.1
executing: 2.0.1
filelock: 3.13.1
fonttools: 4.50.0
funcparserlib: 2.0.0a0
glfw: 2.7.0
grako: 3.16.5
h5py: 3.10.0
html2text: 2024.2.26
idna: 3.6
ihm: 0.43
imagecodecs: 2024.1.1
imagesize: 1.4.1
ipykernel: 6.29.2
ipython: 8.21.0
ipywidgets: 8.1.2
jedi: 0.19.1
Jinja2: 3.1.3
jupyter-client: 8.6.0
jupyter-core: 5.7.2
jupyterlab-widgets: 3.0.10
kiwisolver: 1.4.5
line-profiler: 4.1.2
lxml: 5.1.0
lz4: 4.3.3
MarkupSafe: 2.1.5
matplotlib: 3.8.3
matplotlib-inline: 0.1.6
msgpack: 1.0.8
ndindex: 1.8
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.2.1
nibabel: 5.0.1
nptyping: 2.5.0
numexpr: 2.9.0
numpy: 1.26.4
openvr: 1.26.701
packaging: 23.2
ParmEd: 4.2.2
parso: 0.8.3
pep517: 0.13.1
pexpect: 4.9.0
pillow: 10.2.0
pip: 24.0
pkginfo: 1.10.0
platformdirs: 4.2.0
prompt-toolkit: 3.0.43
psutil: 5.9.8
ptyprocess: 0.7.0
pure-eval: 0.2.2
py-cpuinfo: 9.0.0
pycollada: 0.8
pydicom: 2.3.0
pygments: 2.17.2
pynmrstar: 3.3.4
pynrrd: 1.0.0
PyOpenGL: 3.1.7
PyOpenGL-accelerate: 3.1.7
pyopenxr: 1.0.3302
pyparsing: 3.1.2
pyproject-hooks: 1.0.0
PyQt6-commercial: 6.6.1
PyQt6-Qt6: 6.6.2
PyQt6-sip: 13.6.0
PyQt6-WebEngine-commercial: 6.6.0
PyQt6-WebEngine-Qt6: 6.6.2
python-dateutil: 2.9.0.post0
pytz: 2024.1
pyzmq: 25.1.2
qtconsole: 5.5.1
QtPy: 2.4.1
RandomWords: 0.4.0
requests: 2.31.0
scipy: 1.12.0
setuptools: 69.2.0
setuptools-scm: 8.0.4
sfftk-rw: 0.8.1
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
soupsieve: 2.5
sphinx: 7.2.6
sphinx-autodoc-typehints: 2.0.0
sphinxcontrib-applehelp: 1.0.8
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 1.0.6
sphinxcontrib-htmlhelp: 2.0.5
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.7
sphinxcontrib-serializinghtml: 1.1.10
stack-data: 0.6.3
superqt: 0.6.1
tables: 3.8.0
tcia-utils: 1.5.1
tifffile: 2024.1.30
tinyarray: 1.2.4
tornado: 6.4
traitlets: 5.14.1
typing-extensions: 4.10.0
tzdata: 2024.1
urllib3: 2.2.1
wcwidth: 0.2.13
webcolors: 1.13
wheel: 0.43.0
wheel-filename: 1.4.1
widgetsnbextension: 4.0.10
Change History (2)
comment:1 by , 17 months ago
| Cc: | added |
|---|---|
| Component: | Unassigned → Core |
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → accepted |
| Summary: | ChimeraX bug report submission → python_instances_of_class: 'Chain' object has no attribute '_c_pointer_ref' |
comment:2 by , 17 months ago
| Resolution: | → duplicate |
|---|---|
| Status: | accepted → closed |
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Hi Linda,
--Eric