Graphics crash, macOS 12.2.1, Intel HD Graphics 6000

[chimerax-bug-report@…]

The following bug report has been submitted:
Platform:        macOS-12.2.1-x86_64-i386-64bit
ChimeraX Version: 1.9 (2024-12-11 19:11:19 UTC)
Description
PrograLast time you used ChimeraX it crashed.
This is a known crash that we are unable to fix. Here is information that may help you avoid this crash. This is an Apple Intel or AMD graphics driver crash that may be related to showing a scene that is complex and uses too much graphics memory. Apple is unlikely to ever fix this since they no longer make computers with Intel or AMD graphics. The crash does not happen with Apple M1,M2,M3... graphics.
Fatal Python error: Aborted

Thread 0x000070001aa9e000 (most recent call first):
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 579 in _handle_results
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap

Thread 0x0000700019a9b000 (most recent call first):
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 531 in _handle_tasks
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap

Thread 0x0000700018a98000 (most recent call first):
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/selectors.py", line 415 in select
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/connection.py", line 930 in wait
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 502 in _wait_for_updates
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 522 in _handle_workers
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap

Thread 0x0000700017a95000 (most recent call first):
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap

Thread 0x0000700016a92000 (most recent call first):
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap

Thread 0x0000700015a8f000 (most recent call first):
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap

Thread 0x0000700014a8c000 (most recent call first):
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 975 in run
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap

Current thread 0x000000011848e600 (most recent call first):
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/graphics/opengl.py", line 2859 in draw_elements
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/graphics/drawing.py", line 1749 in draw
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/graphics/drawing.py", line 852 in _draw_geometry
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/graphics/drawing.py", line 794 in draw_self
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/graphics/drawing.py", line 780 in draw
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/graphics/drawing.py", line 1567 in _draw_multiple
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/graphics/drawing.py", line 1624 in draw_highlight_outline
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/graphics/view.py", line 273 in _draw_scene
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/graphics/view.py", line 188 in draw
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/sideview/tool.py", line 288 in render
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/sideview/tool.py", line 113 in _redraw
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/triggerset.py", line 149 in invoke
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/triggerset.py", line 248 in _activate
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/triggerset.py", line 217 in activate
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/triggerset.py", line 393 in activate_trigger
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/updateloop.py", line 100 in draw_new_frame
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/updateloop.py", line 150 in _redraw_timer_callback
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py", line 330 in event_loop
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1054 in init
  File "/private/var/folders/67/n3yz466x0hn7c3dmd6bbrmmm0000gn/T/AppTranslocation/7F55DE4E-6A78-41B5-B790-AAF0DA0B094A/d/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1217 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.map._map, chimerax.surface._surface, charset_normalizer.md, requests.packages.charset_normalizer.md, requests.packages.chardet.md, PIL._imaging, kiwisolver._cext, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.pdb_lib._load_libs, chimerax.core._mac_util, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler, chimerax.pdb._pdbio, chimerax.atomic._ribbons, chimerax.graphics._graphics, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, PIL._imagingmath, chimerax.atom_search.ast, chimerax.chem_group._chem_group, chimerax.coulombic._esp, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets (total: 55)


{"app_name":"ChimeraX","timestamp":"2025-03-10 11:44:07.00 +0100","app_version":"1.9.0","slice_uuid":"079d39d3-a489-3e56-92d8-c781f5a4bb98","build_version":"1.9.0.0","platform":1,"bundleID":"edu.ucsf.cgl.ChimeraX","share_with_app_devs":0,"is_first_party":0,"bug_type":"309","os_version":"macOS 12.2.1 (21D62)","incident_id":"9A600435-3A3E-4EA5-8149-6D6D5257B208","name":"ChimeraX"}
{
  "uptime" : 60000,
  "procLaunch" : "2025-03-07 15:26:21.5158 +0100",
  "procRole" : "Background",
  "version" : 2,
  "userID" : 501,
  "deployVersion" : 210,
  "modelCode" : "MacBookAir7,2",
  "procStartAbsTime" : 45865405010555,
  "coalitionID" : 1900,
  "osVersion" : {
    "train" : "macOS 12.2.1",
    "build" : "21D62",
    "releaseType" : "User"
  },
  "captureTime" : "2025-03-10 11:43:24.5563 +0100",
  "incident" : "9A600435-3A3E-4EA5-8149-6D6D5257B208",
  "bug_type" : "309",
  "pid" : 29278,
  "procExitAbsTime" : 60509112091078,
  "cpuType" : "X86-64",
  "procName" : "ChimeraX",
  "procPath" : "\/Volumes\/VOLUME\/*\/ChimeraX-1.9.app\/Contents\/MacOS\/ChimeraX",
  "bundleInfo" : {"CFBundleShortVersionString":"1.9.0","CFBundleVersion":"1.9.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
  "storeInfo" : {"deviceIdentifierForVendor":"ECA6C10F-E34C-5D12-ACB4-1F9BDA58DC61","thirdParty":true},
  "parentProc" : "launchd",
  "parentPid" : 1,
  "coalitionName" : "edu.ucsf.cgl.ChimeraX",
  "crashReporterKey" : "D7FCC4A3-6638-2D06-78DD-E112F1456DD6",
  "wakeTime" : 558,
  "sleepWakeUUID" : "0B56C141-1B50-41A2-87CC-F995586C1BC1",
  "sip" : "enabled",
  "isCorpse" : 1,
  "exception" : {"codes":"0x0000000000000000, 0x0000000000000000","rawCodes":[0,0],"type":"EXC_CRASH","signal":"SIGABRT"},
  "ktriageinfo" : "VM - Compressor failed a blocking pager_get\nVM - Compressor failed a blocking pager_get\nVM - Compressor failed a blocking pager_get\nVM - Compressor failed a blocking pager_get\nVM - Compressor failed a blocking pager_get\n",
  "asi" : {"libsystem_c.dylib":["abort() called"]},
  "asiSignatures" : ["Graphics hardware encountered an error and was reset: 0x00000002\n"],
  "extMods" : {"caller":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"system":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"targeted":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"warnings":0},
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  "vmSummary" : "ReadOnly portion of Libraries: Total=1.5G resident=0K(0%) swapped_out_or_unallocated=1.5G(100%)\nWritable regions: Total=1.1G written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=1.1G(100%)\n\n                                VIRTUAL   REGION \nREGION TYPE                        SIZE    COUNT (non-coalesced) \n===========                     =======  ======= \nAccelerate framework               512K        4 \nActivity Tracing                   256K        1 \nCG backing stores                  544K        4 \nCG image                           272K       43 \nColorSync                          240K       28 \nCoreAnimation                      200K       27 \nCoreGraphics                        12K        2 \nCoreUI image data                 2056K       29 \nFoundation                          48K        2 \nIOKit                             7940K        1 \nKernel Alloc Once                  404K        4 \nMALLOC                           318.5M      390 \nMALLOC guard page                   32K        8 \nMALLOC_LARGE (reserved)            256K        1         reserved VM address space (unallocated)\nMALLOC_NANO (reserved)           384.0M        1         reserved VM address space (unallocated)\nMach message                        16K        3 \nOpenGL GLSL                        384K        4 \nSTACK GUARD                        132K       33 \nStack                            298.3M       34 \nStack Guard                       56.0M        1 \nVM_ALLOCATE                      140.5M      191 \n__CTF                               759        1 \n__DATA                            38.7M      709 \n__DATA_CONST                      40.7M      434 \n__DATA_DIRTY                      1784K      238 \n__FONT_DATA                          4K        1 \n__GLSLBUILTINS                    5176K        1 \n__LINKEDIT                       672.5M      159 \n__OBJC_RO                         81.8M        1 \n__OBJC_RW                         3136K        2 \n__TEXT                           828.1M      715 \n__UNICODE                          588K        1 \ndyld private memory               1064K        3 \nmapped file                      199.5M       45 \nshared memory                     3100K       28 \n===========                     =======  ======= \nTOTAL                              3.0G     3149 \nTOTAL, minus reserved VM space     2.6G     3149 \n",
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}
===== Log before crash start =====
Startup Messages  
---  
warning | QCoreApplication::postEvent: Unexpected null receiver  
note | available bundle cache has not been initialized yet  
  
You can double click a model's Name or ID in the model panel to edit those
fields  
UCSF ChimeraX version: 1.9 (2024-12-11)  
© 2016-2024 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open /Users/clara/Downloads/3g2a.pdb

3g2a.pdb title:  
Crystal structure of D(cacgcg).D(cgcgtg) grown In presence of 1MM MNCL2 [more
info...]  
  
Chain information for 3g2a.pdb #1  
---  
Chain | Description  
A | 5'-D(*CP*ap*CP*GP*CP*G)-3'  
B | 5'-D(*CP*GP*CP*GP*TP*G)-3'  
  
Computing secondary structure  

> sequence chain #1/A

Alignment identifier is 1/A  

> style stick

Changed 264 atom styles  

> style sphere

Changed 264 atom styles  

> style sphere

Changed 264 atom styles  

> style ball

Changed 264 atom styles  

> nucleotides atoms

> style nucleic stick

Changed 240 atom styles  

> color byhetero

> color bychain

> color bypolymer

> rainbow

> coulombic

Using Amber 20 recommended default charges and atom types for standard
residues  
Coulombic values for 3g2a.pdb_A SES surface #1.1: minimum, -18.90, mean -7.58,
maximum -0.39  
Coulombic values for 3g2a.pdb_B SES surface #1.2: minimum, -17.46, mean -7.35,
maximum -0.04  
To also show corresponding color key, enter the above coulombic command and
add key true  

> mlp

mlp: no amino acids specified  

> show atoms

> hide atoms

> show atoms

> hide atoms

> show atoms

> hide atoms

> show atoms

> show cartoons

> hide cartoons

> hide atoms

> hide cartoons

> hide surfaces

> show surfaces

> hide surfaces

> show cartoons

> hide cartoons

> show atoms

> ui tool show "Side View"

> undo

> redo

> open /Users/clara/Downloads/3g2a.pdb

3g2a.pdb title:  
Crystal structure of D(cacgcg).D(cgcgtg) grown In presence of 1MM MNCL2 [more
info...]  
  
Chain information for 3g2a.pdb #2  
---  
Chain | Description  
A | 5'-D(*CP*ap*CP*GP*CP*G)-3'  
B | 5'-D(*CP*GP*CP*GP*TP*G)-3'  
  
Computing secondary structure  

> hide atoms

> show atoms

> show cartoons

> hide cartoons

> show cartoons

> hide cartoons

> show cartoons

> hide #!1 models

> hide #2 models

> show #!1 models

> show #2 models

> hide #!1 models

> hide #2 models

> show #!1 models

> close #1

> close

> open /Users/clara/Downloads/3g2a.pdb format pdb

3g2a.pdb title:  
Crystal structure of D(cacgcg).D(cgcgtg) grown In presence of 1MM MNCL2 [more
info...]  
  
Chain information for 3g2a.pdb #1  
---  
Chain | Description  
A | 5'-D(*CP*ap*CP*GP*CP*G)-3'  
B | 5'-D(*CP*GP*CP*GP*TP*G)-3'  
  
Computing secondary structure  

> log metadata #1

Metadata for 3g2a.pdb #1  
---  
Title | Crystal structure of D(cacgcg).D(cgcgtg) grown In presence of 1MM MNCL2  
Citation | Crystal structures of D(cacgcg).D(cgcgtg) cocrystallizedwith MNCL2  
Experimental method | X-ray diffraction  
Resolution | 2.00Å  
  
> log chains #1

Chain information for 3g2a.pdb #1  
---  
Chain | Description  
A | 5'-D(*CP*ap*CP*GP*CP*G)-3'  
B | 5'-D(*CP*GP*CP*GP*TP*G)-3'  
  

> nucleotides atoms

> style nucleic stick

Changed 240 atom styles  

> hide (protein|nucleic) target a

> cartoon hide

> show backbone target ab

> show sidechain target ab

> ui tool show Distances

> ui mousemode right select

Exactly two atoms must be selected!  

> ui mousemode right zoom

> ui mousemode right translate

> ui mousemode right "move picked models"

> ui mousemode right zoom

> open /Users/clara/Downloads/3g2a.pdb

3g2a.pdb title:  
Crystal structure of D(cacgcg).D(cgcgtg) grown In presence of 1MM MNCL2 [more
info...]  
  
Chain information for 3g2a.pdb #2  
---  
Chain | Description  
A | 5'-D(*CP*ap*CP*GP*CP*G)-3'  
B | 5'-D(*CP*GP*CP*GP*TP*G)-3'  
  
Computing secondary structure  

> close session

> open /Users/clara/Downloads/3g2a.pdb format pdb

3g2a.pdb title:  
Crystal structure of D(cacgcg).D(cgcgtg) grown In presence of 1MM MNCL2 [more
info...]  
  
Chain information for 3g2a.pdb #1  
---  
Chain | Description  
A | 5'-D(*CP*ap*CP*GP*CP*G)-3'  
B | 5'-D(*CP*GP*CP*GP*TP*G)-3'  
  
Computing secondary structure  

> nucleotides atoms

> style nucleic stick

Changed 240 atom styles  

> hide (protein|nucleic) target a

> cartoon hide

> show backbone target ab

> show sidechain target ab

> ui tool show Distances

> ui mousemode right select

> select /A:2@P

1 atom, 1 residue, 1 model selected  

> select /A:2@P

1 atom, 1 residue, 1 model selected  
Drag select of 25 atoms, 28 bonds  
Drag select of 20 atoms, 25 bonds  
Drag select of 1 atoms, 1 bonds  

> ui tool show Distances

> select add /A:1@O5'

2 atoms, 1 bond, 2 residues, 1 model selected  

> select add /A:6@O3'

3 atoms, 1 bond, 3 residues, 1 model selected  
Exactly two atoms must be selected!  
No distances to delete!  

> close session

> open /Users/clara/Downloads/3g2a.pdb format pdb

3g2a.pdb title:  
Crystal structure of D(cacgcg).D(cgcgtg) grown In presence of 1MM MNCL2 [more
info...]  
  
Chain information for 3g2a.pdb #1  
---  
Chain | Description  
A | 5'-D(*CP*ap*CP*GP*CP*G)-3'  
B | 5'-D(*CP*GP*CP*GP*TP*G)-3'  
  
Computing secondary structure  

> nucleotides atoms

> style nucleic stick

Changed 240 atom styles  
Drag select of 2 residues, 1 bonds  

> undo

> select clear

> show sidechain target ab

> hide (protein|nucleic) target a

> cartoon hide

> show backbone target ab

> show sidechain target ab

> ui tool show Distances

> select /A:2@P

1 atom, 1 residue, 1 model selected  

> select subtract /A:2@P

Nothing selected  

> ui mousemode right select

> select add /A:2@P

1 atom, 1 residue, 1 model selected  

> select subtract /A:2@P

Nothing selected  

> select /A:2@P

1 atom, 1 residue, 1 model selected  

> select /A:2@P

1 atom, 1 residue, 1 model selected  

> select add /A:2@OP1

2 atoms, 1 residue, 1 model selected  

> select add /A:6@O3'

3 atoms, 2 residues, 1 model selected  
Exactly two atoms must be selected!  

> select ::name="DA"::name="DC"::name="DG"::name="DT"

240 atoms, 268 bonds, 12 residues, 1 model selected  

> select ::name="DA"

21 atoms, 23 bonds, 1 residue, 1 model selected  

> select ::name="DC"

89 atoms, 94 bonds, 5 residues, 1 model selected  

> select ::name="DG"

110 atoms, 120 bonds, 5 residues, 1 model selected  

> select ::name="DT"

20 atoms, 21 bonds, 1 residue, 1 model selected  

> select ::name="HOH"

24 atoms, 24 residues, 1 model selected  

> select ::name="HOH"

24 atoms, 24 residues, 1 model selected  

> select ::name="DA"

21 atoms, 23 bonds, 1 residue, 1 model selected  

> hide sel target a

> show sel target ab

> style sel stick

Changed 21 atom styles  

> style sel ball

Changed 21 atom styles  

> style sel sphere

Changed 21 atom styles  
Drag select of 3 atoms, 3 bonds  

> select clear

Drag select of 5 atoms, 5 bonds  
Drag select of 6 atoms, 4 bonds  

> select ::name="DC"

89 atoms, 94 bonds, 5 residues, 1 model selected  

> select ::name="DG"

110 atoms, 120 bonds, 5 residues, 1 model selected  

> select ::name="DT"

20 atoms, 21 bonds, 1 residue, 1 model selected  

> ui tool show "Side View"


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

Log:
Startup Messages  
---  
note | available bundle cache has not been initialized yet  
  
UCSF ChimeraX version: 1.9 (2024-12-11)  
© 2016-2024 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  




OpenGL version: 4.1 INTEL-18.4.6
OpenGL renderer: Intel(R) HD Graphics 6000
OpenGL vendor: Intel Inc.

Python: 3.11.4
Locale: UTF-8
Qt version: PyQt6 6.7.1, Qt 6.7.1
Qt runtime version: 6.7.3
Qt platform: cocoa
Hardware:

    Hardware Overview:

      Model Name: MacBook Air
      Model Identifier: MacBookAir7,2
      Processor Name: Dual-Core Intel Core i5
      Processor Speed: 1,8 GHz
      Number of Processors: 1
      Total Number of Cores: 2
      L2 Cache (per Core): 256 KB
      L3 Cache: 3 MB
      Hyper-Threading Technology: Enabled
      Memory: 8 GB
      System Firmware Version: 428.60.3.0.0
      OS Loader Version: 540.80.2~11
      SMC Version (system): 2.27f2

Software:

    System Software Overview:

      System Version: macOS 12.2.1 (21D62)
      Kernel Version: Darwin 21.3.0
      Time since boot: 6 days 1:53

Graphics/Displays:

    Intel HD Graphics 6000:

      Chipset Model: Intel HD Graphics 6000
      Type: GPU
      Bus: Built-In
      VRAM (Dynamic, Max): 1536 MB
      Vendor: Intel
      Device ID: 0x1626
      Revision ID: 0x0009
      Metal Family: Supported, Metal GPUFamily macOS 1
      Displays:
        Color LCD:
          Display Type: LCD
          Resolution: 1440 x 900 (Widescreen eXtended Graphics Array Plus)
          UI Looks like: 1440 x 900
          Framebuffer Depth: 24-Bit Color (ARGB8888)
          Main Display: Yes
          Mirror: Off
          Online: Yes
          Automatically Adjust Brightness: Yes
          Connection Type: Internal


Installed Packages:
    alabaster: 1.0.0
    anyio: 4.7.0
    appdirs: 1.4.4
    appnope: 0.1.4
    asttokens: 3.0.0
    auditwheel: 6.1.0
    babel: 2.16.0
    beautifulsoup4: 4.12.3
    blockdiag: 3.0.0
    blosc2: 3.0.0
    build: 1.2.1
    certifi: 2023.11.17
    cftime: 1.6.4.post1
    charset-normalizer: 3.4.0
    ChimeraX-AddCharge: 1.5.18
    ChimeraX-AddH: 2.2.6
    ChimeraX-AlignmentAlgorithms: 2.0.2
    ChimeraX-AlignmentHdrs: 3.5
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 2.16.1
    ChimeraX-AlphaFold: 1.0.1
    ChimeraX-AltlocExplorer: 1.1.2
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.1
    ChimeraX-Atomic: 1.58.8
    ChimeraX-AtomicLibrary: 14.1.11
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.4
    ChimeraX-BasicActions: 1.1.2
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 3.0.0
    ChimeraX-BondRot: 2.0.4
    ChimeraX-BugReporter: 1.0.1
    ChimeraX-BuildStructure: 2.13.1
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.4.0
    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: 2.3
    ChimeraX-ColorActions: 1.0.5
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.6
    ChimeraX-CommandLine: 1.2.5
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.9
    ChimeraX-CoreFormats: 1.2
    ChimeraX-coulombic: 1.4.4
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DataFormats: 1.2.3
    ChimeraX-Dicom: 1.2.6
    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: 1.4.1
    ChimeraX-Hbonds: 2.5
    ChimeraX-Help: 1.3
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
    ChimeraX-ImageFormats: 1.2
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.3
    ChimeraX-ItemsInspection: 1.0.1
    ChimeraX-IUPAC: 1.0
    ChimeraX-KVFinder: 1.2.1
    ChimeraX-Label: 1.1.14
    ChimeraX-ListInfo: 1.2.2
    ChimeraX-Log: 1.2
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.9.1
    ChimeraX-Map: 1.3
    ChimeraX-MapData: 2.0
    ChimeraX-MapEraser: 1.0.1
    ChimeraX-MapFilter: 2.0.1
    ChimeraX-MapFit: 2.0
    ChimeraX-MapSeries: 2.1.1
    ChimeraX-Markers: 1.0.1
    ChimeraX-Mask: 1.0.2
    ChimeraX-MatchMaker: 2.1.6
    ChimeraX-MCopy: 1.0
    ChimeraX-MDcrds: 2.7.2
    ChimeraX-MedicalToolbar: 1.1
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.14.2
    ChimeraX-MMTF: 2.2
    ChimeraX-ModelArchive: 1.0
    ChimeraX-Modeller: 1.5.18
    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-MutationScores: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nifti: 1.2
    ChimeraX-NMRSTAR: 1.0.2
    ChimeraX-NRRD: 1.2
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.14
    ChimeraX-OrthoPick: 1.0.1
    ChimeraX-PDB: 2.7.6
    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: 1.1.2
    ChimeraX-PubChem: 2.2
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.2
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.6.2
    ChimeraX-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    ChimeraX-RestServer: 1.3.1
    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: 3.5.6
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.14
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0.1
    ChimeraX-Shortcuts: 1.2.0
    ChimeraX-ShowSequences: 1.0.3
    ChimeraX-SideView: 1.0.1
    ChimeraX-SimilarStructures: 1.0.1
    ChimeraX-Smiles: 2.1.2
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.18.1
    ChimeraX-STL: 1.0.1
    ChimeraX-Storm: 1.0
    ChimeraX-StructMeasure: 1.2.1
    ChimeraX-Struts: 1.0.1
    ChimeraX-Surface: 1.0.1
    ChimeraX-SwapAA: 2.0.1
    ChimeraX-SwapRes: 2.5
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-TaskManager: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.2.3
    ChimeraX-ToolshedUtils: 1.2.4
    ChimeraX-Topography: 1.0
    ChimeraX-ToQuest: 1.0
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.41
    ChimeraX-Umap: 1.0
    ChimeraX-uniprot: 2.3.1
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.4.4
    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: 1.1.4
    ChimeraX-Zone: 1.0.1
    colorama: 0.4.6
    comm: 0.2.2
    contourpy: 1.3.1
    cxservices: 1.2.3
    cycler: 0.12.1
    Cython: 3.0.10
    debugpy: 1.8.9
    decorator: 5.1.1
    docutils: 0.21.2
    executing: 2.1.0
    filelock: 3.15.4
    fonttools: 4.55.3
    funcparserlib: 2.0.0a0
    glfw: 2.8.0
    grako: 3.16.5
    h11: 0.14.0
    h5py: 3.12.1
    html2text: 2024.2.26
    httpcore: 1.0.7
    httpx: 0.28.1
    idna: 3.10
    ihm: 1.3
    imagecodecs: 2024.6.1
    imagesize: 1.4.1
    ipykernel: 6.29.5
    ipython: 8.26.0
    ipywidgets: 8.1.5
    jedi: 0.19.1
    Jinja2: 3.1.4
    jupyter_client: 8.6.2
    jupyter_core: 5.7.2
    jupyterlab_widgets: 3.0.13
    kiwisolver: 1.4.7
    line_profiler: 4.1.3
    lxml: 5.2.2
    lz4: 4.3.3
    MarkupSafe: 3.0.2
    matplotlib: 3.9.2
    matplotlib-inline: 0.1.7
    msgpack: 1.0.8
    ndindex: 1.9.2
    nest-asyncio: 1.6.0
    netCDF4: 1.6.5
    networkx: 3.3
    nibabel: 5.2.0
    nptyping: 2.5.0
    numexpr: 2.10.2
    numpy: 1.26.4
    openvr: 1.26.701
    packaging: 23.2
    ParmEd: 4.2.2
    parso: 0.8.4
    pep517: 0.13.1
    pexpect: 4.9.0
    pillow: 10.4.0
    pip: 24.2
    pkginfo: 1.11.1
    platformdirs: 4.3.6
    prompt_toolkit: 3.0.48
    psutil: 6.0.0
    ptyprocess: 0.7.0
    pure_eval: 0.2.3
    py-cpuinfo: 9.0.0
    pycollada: 0.8
    pydicom: 2.4.4
    pyelftools: 0.31
    Pygments: 2.18.0
    pynmrstar: 3.3.4
    pynrrd: 1.0.0
    PyOpenGL: 3.1.7
    PyOpenGL-accelerate: 3.1.7
    pyopenxr: 1.0.3401
    pyparsing: 3.2.0
    pyproject_hooks: 1.2.0
    PyQt6-commercial: 6.7.1
    PyQt6-Qt6: 6.7.3
    PyQt6-WebEngine-commercial: 6.7.0
    PyQt6-WebEngine-Qt6: 6.7.3
    PyQt6-WebEngineSubwheel-Qt6: 6.7.3
    PyQt6_sip: 13.8.0
    python-dateutil: 2.9.0.post0
    pytz: 2024.2
    pyzmq: 26.2.0
    qtconsole: 5.5.2
    QtPy: 2.4.2
    qtshim: 1.0
    RandomWords: 0.4.0
    requests: 2.32.3
    scipy: 1.14.0
    setuptools: 72.1.0
    sfftk-rw: 0.8.1
    six: 1.16.0
    sniffio: 1.3.1
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    soupsieve: 2.6
    Sphinx: 8.0.2
    sphinx-autodoc-typehints: 2.2.3
    sphinxcontrib-applehelp: 2.0.0
    sphinxcontrib-blockdiag: 3.0.0
    sphinxcontrib-devhelp: 2.0.0
    sphinxcontrib-htmlhelp: 2.1.0
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 2.0.0
    sphinxcontrib-serializinghtml: 2.0.0
    stack-data: 0.6.3
    superqt: 0.6.3
    tables: 3.10.1
    tcia_utils: 1.5.1
    tifffile: 2024.7.24
    tinyarray: 1.2.4
    tornado: 6.4.2
    traitlets: 5.14.3
    typing_extensions: 4.12.2
    tzdata: 2024.2
    urllib3: 2.2.3
    wcwidth: 0.2.13
    webcolors: 24.6.0
    wheel: 0.43.0
    wheel-filename: 1.4.1
    widgetsnbextension: 4.0.13

[Tom Goddard]

Apple Intel graphics driver crash.