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Opened 29 hours ago
Closed 28 hours ago
#20302 closed defect (duplicate)
Crash in swap_buffers when status line exposed Mac Qt 6.9.2
| Reported by: | Owned by: | Tom Goddard | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Graphics | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-26.3.1-arm64-arm-64bit
ChimeraX Version: 1.11.1 (2026-01-23 05:51:34 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Bus error
Thread 0x0000000306043000 (most recent call first):
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 579 in _handle_results
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x0000000305037000 (most recent call first):
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 531 in _handle_tasks
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x000000030402b000 (most recent call first):
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/selectors.py", line 415 in select
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/connection.py", line 948 in wait
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 502 in _wait_for_updates
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 522 in _handle_workers
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x000000030301f000 (most recent call first):
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x0000000302013000 (most recent call first):
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x0000000301007000 (most recent call first):
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x000000017f99b000 (most recent call first):
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x000000017e98f000 (most recent call first):
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x000000017d983000 (most recent call first):
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x000000017c977000 (most recent call first):
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x000000017b96b000 (most recent call first):
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x000000017a95f000 (most recent call first):
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x0000000179953000 (most recent call first):
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/multiprocessing/pool.py", line 114 in worker
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 982 in run
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Current thread 0x00000001f05ef100 (most recent call first):
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/graphics/opengl.py", line 248 in swap_buffers
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/graphics/opengl.py", line 561 in swap_buffers
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/statusbar.py", line 166 in status
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/statusbar.py", line 98 in _expose_event
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/graphics/opengl.py", line 122 in make_current
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/graphics/opengl.py", line 555 in make_current
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/graphics/opengl.py", line 584 in use_shared_context
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/sideview/tool.py", line 146 in render
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/sideview/tool.py", line 115 in _redraw
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/triggerset.py", line 149 in invoke
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/triggerset.py", line 248 in _activate
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/triggerset.py", line 217 in activate
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/triggerset.py", line 393 in activate_trigger
File "/Applications/ChimeraX-1.11.1.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 "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/updateloop.py", line 169 in update_graphics_now
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/graphics.py", line 153 in resizeEvent
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/graphics.py", line 61 in event
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py", line 414 in event_loop
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1064 in init
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1229 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, psutil._psutil_osx, psutil._psutil_posix, chimerax.atomic_lib._load_libs, tinyarray, chimerax.atomic.cymol, chimerax.atomic.cytmpl, chimerax.pdb_lib._load_libs, chimerax.map._map, chimerax.surface._surface, PIL._imaging, 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, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets, lz4._version, lz4.frame._frame, msgpack._cmsgpack, chimerax.core._serialize (total: 54)
{"app_name":"ChimeraX","timestamp":"2026-05-11 11:05:13.00 -0400","app_version":"1.11.1","slice_uuid":"c20e09a8-923e-3fb3-856b-3e765bcb267b","build_version":"1.11.1.0","platform":1,"bundleID":"edu.ucsf.cgl.ChimeraX","share_with_app_devs":1,"is_first_party":0,"bug_type":"309","os_version":"macOS 26.3.1 (25D2128)","roots_installed":0,"name":"ChimeraX","incident_id":"BC0019A5-CD75-4BAF-A008-734E1EE042AB"}
{
"uptime" : 2100000,
"procRole" : "Background",
"version" : 2,
"userID" : 501,
"deployVersion" : 210,
"modelCode" : "Mac16,10",
"coalitionID" : 205024,
"osVersion" : {
"train" : "macOS 26.3.1",
"build" : "25D2128",
"releaseType" : "User"
},
"captureTime" : "2026-05-11 11:05:01.8943 -0400",
"codeSigningMonitor" : 2,
"incident" : "BC0019A5-CD75-4BAF-A008-734E1EE042AB",
"pid" : 34348,
"translated" : false,
"cpuType" : "ARM-64",
"procLaunch" : "2026-05-10 12:55:15.9415 -0400",
"procStartAbsTime" : 50405781391898,
"procExitAbsTime" : 51036127057896,
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX-1.11.1.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.11.1","CFBundleVersion":"1.11.1.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
"storeInfo" : {"deviceIdentifierForVendor":"C80F9357-4296-5CBE-996A-5F12375F901E","thirdParty":true},
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "869C4393-65A3-C33E-929F-AE7C6A88BE41",
"appleIntelligenceStatus" : {"state":"available"},
"developerMode" : 1,
"codeSigningID" : "edu.ucsf.cgl.ChimeraX",
"codeSigningTeamID" : "LWV8X224YF",
"codeSigningFlags" : 570491649,
"codeSigningValidationCategory" : 6,
"codeSigningTrustLevel" : 4294967295,
"codeSigningAuxiliaryInfo" : 0,
"instructionByteStream" : {"beforePC":"fyMD1f17v6n9AwCRFOD\/l78DAJH9e8Go\/w9f1sADX9YQKYDSARAA1A==","atPC":"AwEAVH8jA9X9e7+p\/QMAkQng\/5e\/AwCR\/XvBqP8PX9bAA1\/WcAqA0g=="},
"bootSessionUUID" : "6006EEEA-D740-4BCE-8F84-3596A269DBAF",
"wakeTime" : 27,
"sleepWakeUUID" : "77550541-A12F-460B-8300-5259D28886E3",
"sip" : "enabled",
"vmRegionInfo" : "0x700002ec0 is in 0x468000000-0x728c00000; bytes after start: 11140083392 bytes before end: 683659583
REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL
MALLOC_LARGE 462c00000-463078000 [ 4576K] rw-\/rwx SM=PRV
GAP OF 0x4f88000 BYTES
---> commpage (reserved) 468000000-728c00000 [ 11.0G] ---\/--- SM=NUL reserved VM address space (unallocated)
MALLOC_SMALL 728c00000-729000000 [ 4096K] rw-\/rwx SM=PRV ",
"exception" : {"codes":"0x0000000000000002, 0x0000000700002ec0","rawCodes":[2,30064783040],"type":"EXC_BAD_ACCESS","signal":"SIGBUS","subtype":"KERN_PROTECTION_FAILURE at 0x0000000700002ec0"},
"termination" : {"flags":0,"code":10,"namespace":"SIGNAL","indicator":"Bus error: 10","byProc":"ChimeraX","byPid":34348},
"vmregioninfo" : "0x700002ec0 is in 0x468000000-0x728c00000; bytes after start: 11140083392 bytes before end: 683659583
REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL
MALLOC_LARGE 462c00000-463078000 [ 4576K] rw-\/rwx SM=PRV
GAP OF 0x4f88000 BYTES
---> commpage (reserved) 468000000-728c00000 [ 11.0G] ---\/--- SM=NUL reserved VM address space (unallocated)
MALLOC_SMALL 728c00000-729000000 [ 4096K] rw-\/rwx SM=PRV ",
"extMods" : {"caller":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"system":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"targeted":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"warnings":0},
"faultingThread" : 0,
"threads" : [{
"threadState":{"x":[{"value":0},{"value":0},{"value":1},{"value":31818824344},{"value":99},{"value":97},{"value":0},{"value":0},{"value":17362740248728773849},{"value":17362740242549167577},{"value":14757395258967641293},{"value":4294967286},{"value":31818824274},{"value":0},{"value":53},{"value":4294967280},{"value":328},{"value":8350535616},{"value":0},{"value":10},{"value":259},{"value":8327721440 ,"symbolLocation":224,"symbol": "_main_thread"},{"value":0},{"value":1},{"value":4368500280 ,"symbolLocation":0,"symbol": "faulthandler_handlers"},{"value":1},{"value":4349399272},{"value":4365187896 ,"symbolLocation":0,"symbol": "cfunction_call"},{"value":4361785352}],"flavor":"ARM_THREAD_STATE64","lr":{"value":6512883848},"cpsr":{"value":1073741824},"fp":{"value":31818824416},"sp":{"value":31818824384},"esr":{"value":1442840704,"description":"(Syscall)"},"pc":{"value":6512645552,"matchesCrashFrame":1},"far":{"value":0}},"id":27837626,"triggered":true,"name":"CrBrowserMain","queue":"com.apple.main-thread","frames":[
{"imageOffset":38320,"symbol": "__pthread_kill" ,"symbolLocation":8,"imageIndex":136},
{"imageOffset":26760,"symbol": "pthread_kill" ,"symbolLocation":296,"imageIndex":137},
{"imageOffset":269616,"symbol": "raise" ,"symbolLocation":32,"imageIndex":138},
{"imageOffset":2447420,"symbol": "faulthandler_fatal_error" ,"symbolLocation":392,"imageIndex":1},
{"imageOffset":14180,"symbol": "_sigtramp" ,"symbolLocation":56,"imageIndex":139},
{"imageOffset":16143540,"symbol": "-[NSSoftwareSurface frontBuffer]" ,"symbolLocation":576,"imageIndex":140},
{"imageOffset":16138044,"symbol": "-[NSCGLSurface flushRect:]" ,"symbolLocation":512,"imageIndex":140},
{"imageOffset":16137356,"symbol": "NSCGLSurfaceFlush" ,"symbolLocation":132,"imageIndex":140},
{"imageOffset":106048,"symbol": "glSwap_Exec" ,"symbolLocation":256,"imageIndex":141},
{"imageOffset":55032,"symbol": "CGLFlushDrawable" ,"symbolLocation":64,"imageIndex":142},
{"imageOffset":1393212,"symbol": "-[NSOpenGLContext flushBuffer]" ,"symbolLocation":28,"imageIndex":140},
{"imageOffset":512676,"imageIndex":71},
{"imageOffset":3679112,"symbol": "QOpenGLContext::swapBuffers(QSurface*)" ,"symbolLocation":236,"imageIndex":50},
{"imageOffset":977256,"symbol": "meth_QOpenGLContext_swapBuffers(_object*, _object*)" ,"symbolLocation":104,"imageIndex":52},
{"imageOffset":998296,"symbol": "cfunction_call" ,"symbolLocation":96,"imageIndex":1},
{"imageOffset":586556,"symbol": "_PyObject_MakeTpCall" ,"symbolLocation":128,"imageIndex":1},
{"imageOffset":1798332,"symbol": "_PyEval_EvalFrameDefault" ,"symbolLocation":54032,"imageIndex":1},
{"imageOffset":1820600,"symbol": "_PyEval_Vector" ,"symbolLocation":156,"imageIndex":1},
{"imageOffset":603732,"symbol": "method_vectorcall" ,"symbolLocation":164,"imageIndex":1},
{"imageOffset":22896,"symbol": "sip_api_call_procedure_method" ,"symbolLocation":100,"imageIndex":46},
{"imageOffset":245080,"symbol": "sipQWindow::exposeEvent(QExposeEvent*)" ,"symbolLocation":132,"imageIndex":52},
{"imageOffset":944160,"symbol": "QWindow::event(QEvent*)" ,"symbolLocation":676,"imageIndex":50},
{"imageOffset":246736,"symbol": "sipQWindow::event(QEvent*)" ,"symbolLocation":224,"imageIndex":52},
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},
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"path" : "\/Applications\/ChimeraX-1.11.1.app\/Contents\/Library\/Frameworks\/Python.framework\/Versions\/3.11\/lib\/python3.11\/site-packages\/msgpack\/_cmsgpack.cpython-311-darwin.so",
"name" : "_cmsgpack.cpython-311-darwin.so"
},
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"path" : "\/usr\/lib\/system\/libsystem_kernel.dylib",
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"path" : "\/usr\/lib\/system\/libsystem_pthread.dylib",
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"path" : "\/usr\/lib\/system\/libsystem_c.dylib",
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"uuid" : "62c9cd37-272d-3d2d-9a1c-6f4ef24f7ec7",
"path" : "\/usr\/lib\/system\/libsystem_platform.dylib",
"name" : "libsystem_platform.dylib"
},
{
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"base" : 6584811520,
"CFBundleShortVersionString" : "6.9",
"CFBundleIdentifier" : "com.apple.AppKit",
"size" : 24299264,
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"path" : "\/System\/Library\/Frameworks\/AppKit.framework\/Versions\/C\/AppKit",
"name" : "AppKit",
"CFBundleVersion" : "2685.40.108"
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"uuid" : "e19f743b-3dc8-3781-9605-088255f2d9f3",
"path" : "\/System\/Library\/Frameworks\/OpenGL.framework\/Versions\/A\/Resources\/GLEngine.bundle\/GLEngine",
"name" : "GLEngine"
},
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"uuid" : "200fc998-40d9-3b8f-9fb3-0b46276595fb",
"path" : "\/System\/Library\/Frameworks\/OpenGL.framework\/Versions\/A\/OpenGL",
"name" : "OpenGL",
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===== Log before crash start =====
You can double click a model's Name or ID in the model panel to edit those
fields
UCSF ChimeraX version: 1.11.1 (2026-01-23)
© 2016-2025 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open 9gbc fromDatabase pdb format mmcif
Summary of feedback from opening 9gbc fetched from pdb
---
note | Fetching compressed mmCIF 9gbc from http://files.rcsb.org/download/9gbc.cif
9gbc title:
Bacteroides thetaiotaomicron siderophore transporter XusA in complex with
surface-exposed lipoprotein XusB [more info...]
Chain information for 9gbc #1
---
Chain | Description | UniProt
A | TonB-linked outer membrane receptor | Q8A621_BACTN 1-796
B | DUF4374 domain-containing protein | Q8A622_BACTN 1-464
> close session
> open 9bgc fromDatabase pdb format mmcif
Summary of feedback from opening 9bgc fetched from pdb
---
notes | Fetching compressed mmCIF 9bgc from http://files.rcsb.org/download/9bgc.cif
Fetching CCD A1AHB from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/B/A1AHB/A1AHB.cif
Fetching CCD GNP from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/P/GNP/GNP.cif
Fetching CCD MG from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/G/MG/MG.cif
9bgc title:
Tri-complex of Daraxonrasib (RMC-6236), KRAS G12R, and CypA [more info...]
Chain information for 9bgc #1
---
Chain | Description | UniProt
A B | GTPase KRas | RASK_HUMAN 1-169
C D | Peptidyl-prolyl cis-trans isomerase A | PPIA_HUMAN 1-165
Non-standard residues in 9bgc #1
---
A1AHB —
(1R,2S)-N-[(1P,7S,9S,13R,20M)-21-ethyl-20-{2-[(1R)-1-methoxyethyl]-5-(4-methylpiperazin-1-yl)pyridin-3-yl}-17,17-dimethyl-8,14-dioxo-15-oxa-4-thia-9,21,27,28-tetraazapentacyclo[17.5.2.1~2,5~.1~9,13~.0~22,26~]octacosa-1(24),2,5(28),19,22,25-hexaen-7-yl]-2-methylcyclopropane-1-carboxamide
GNP — phosphoaminophosphonic acid-guanylate ester
MG — magnesium ion
9bgc mmCIF Assemblies
---
1| author_defined_assembly
2| author_defined_assembly
9 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.
> select /B
1467 atoms, 1409 bonds, 6 pseudobonds, 251 residues, 2 models selected
> hide sel cartoons
> style sel ball
Changed 1467 atom styles
> style sel ball
Changed 1467 atom styles
> style sel stick
Changed 1467 atom styles
> hide sel atoms
> select /C
1403 atoms, 1351 bonds, 252 residues, 1 model selected
> hide sel cartoons
> hide sel atoms
> select /A:395@O
1 atom, 1 residue, 1 model selected
> select clear
> select /A:395@O
1 atom, 1 residue, 1 model selected
> hide sel cartoons
> hide sel atoms
> select /A:355@O
1 atom, 1 residue, 1 model selected
> hide sel atoms
> select ::name="HOH"
418 atoms, 418 residues, 1 model selected
> hide sel atoms
> select up
2 atoms, 1 bond, 1 residue, 1 model selected
> select up
58 atoms, 65 bonds, 1 residue, 1 model selected
> view sel
> set bgColor white
> select clear
> view
> select /A
1498 atoms, 1409 bonds, 6 pseudobonds, 282 residues, 2 models selected
> color (#!1 & sel) cornflower blue
> select clear
> surface
> select up
2 atoms, 1 bond, 1 residue, 1 model selected
> select up
58 atoms, 65 bonds, 1 residue, 1 model selected
> surface sel
> color (#!1 & sel) magenta
> select clear
> hide #1.5 models
> show #1.5 models
> hide #1.4 models
> show #1.4 models
> hide #1.5 models
> show #1.5 models
> hide #1.3 models
> hide #1.4 models
> view
> save /Users/mrdc/Documents/Structures/daraxonrasib_kras.cxs
> select add #1.5
1248 atoms, 163 residues, 1 model selected
> transparency (#!1 & sel) 70
> hide sel cartoons
> hide sel atoms
> select clear
> select up
2 atoms, 1 bond, 1 residue, 1 model selected
> select up
32 atoms, 34 bonds, 1 residue, 1 model selected
> color sel byhetero
> select clear
> lighting full
> lighting soft
> lighting simple
> lighting full
> select add #1.3
1354 atoms, 169 residues, 1 model selected
> select subtract #1.3
1 model selected
> select add #1.5
1248 atoms, 163 residues, 1 model selected
> transparency (#!1 & sel) 60
> select clear
> save /Users/mrdc/Documents/Structures/daraxonrasib_kras.cxs
> lighting full
> save /Users/mrdc/Documents/Structures/daraxonrasib_kras.png width 734 height
> 1073 supersample 4 transparentBackground true
> close session
> open 6ud7 fromDatabase pdb format mmcif
6ud7 title:
Crystal structure of full-length human DCAF15-DDB1(deltaBPB)-DDA1-RBM39 in
complex with indisulam [more info...]
Chain information for 6ud7 #1
---
Chain | Description | UniProt
A | DDB1- and CUL4-associated factor 15 | DCA15_HUMAN 2-600
B | DNA damage-binding protein 1,DNA damage-binding protein 1 | DDB1_HUMAN 1-395 706-1140
C | RNA-binding motif protein 39 | Q7Z3L0_HUMAN 248-328
D | DET1- and DDB1-associated protein 1 | DDA1_HUMAN 2-102
Non-standard residues in 6ud7 #1
---
EF6 — N~1~-(3-chloro-1H-indol-7-yl)benzene-1,4-disulfonamide (Indisulam)
GOL — glycerol (glycerin; propane-1,2,3-triol)
47 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.
10844 atoms have anisotropic B-factors. Depict anisotropic information with
Thermal Ellipsoids [start tool...] or the aniso command.
> select /C
674 atoms, 638 bonds, 129 residues, 1 model selected
> select /C,A
4279 atoms, 4127 bonds, 3 pseudobonds, 756 residues, 2 models selected
> select ~sel & ##selected
7309 atoms, 6938 bonds, 3 pseudobonds, 1377 residues, 2 models selected
> hide sel cartoons
> hide sel atoms
> select ::name="HOH"
744 atoms, 744 residues, 1 model selected
> hide sel atoms
> ~label /missing
> hide #!1.1 models
> hide #1.1.1 models
> select /C
674 atoms, 638 bonds, 129 residues, 1 model selected
> show sel surfaces
> color (#!1 & sel) cornflower blue
> select clear
> select /A
3605 atoms, 3489 bonds, 3 pseudobonds, 627 residues, 2 models selected
> show sel surfaces
> select clear\
Expected an objects specifier or a keyword
> select clear
> select up
2 atoms, 1 bond, 1 residue, 1 model selected
> select up
24 atoms, 26 bonds, 1 residue, 1 model selected
> show sel surfaces
> color (#!1 & sel) magenta
> select clear
> view
> select add #1.3
3376 atoms, 426 residues, 1 model selected
> transparency (#!1 & sel) 60
> select /C
674 atoms, 638 bonds, 129 residues, 1 model selected
> select clear
> select /A
3605 atoms, 3489 bonds, 3 pseudobonds, 627 residues, 2 models selected
> hide sel cartoons
> hide sel atoms
> select clear
> save /Users/mrdc/Documents/Projects/RIPTAC/indisulam_mg.png width 734 height
> 1073 supersample 4 transparentBackground true
> save /Users/mrdc/Documents/Projects/RIPTAC/indisulam_mg.cxs
> close session
> open 7s5g fromDatabase pdb format mmcif
Summary of feedback from opening 7s5g fetched from pdb
---
notes | Fetching compressed mmCIF 7s5g from http://files.rcsb.org/download/7s5g.cif
Fetching CCD 0A1 from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/1/0A1/0A1.cif
Fetching CCD 3WX from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/X/3WX/3WX.cif
Fetching CCD 89N from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/N/89N/89N.cif
Fetching CCD DAL from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/L/DAL/DAL.cif
Fetching CCD FTR from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/R/FTR/FTR.cif
Fetching CCD Z9J from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/J/Z9J/Z9J.cif
7s5g title:
PCSK9 in complex with compound 19 [more info...]
Chain information for 7s5g #1
---
Chain | Description | UniProt
A | Propeptide of Proprotein convertase subtilisin/kexin type 9 | PCSK9_HUMAN 31-152
B | Proprotein convertase subtilisin/kexin type 9 | PCSK9_HUMAN 153-452
C | Z9J-ALA-DAL-PHE-FTR-PRO-THR-0A1-3WX |
Non-standard residues in 7s5g #1
---
89N — (2E)-but-2-ene-1,4-diol
GOL — glycerol (glycerin; propane-1,2,3-triol)
Z9J — 3-{[(3-{[(2-aminoethyl)sulfanyl]methyl}phenyl)methyl]sulfanyl}propanoic
acid (3-[[3-(2-azanylethylsulfanylmethyl)phenyl]methylsulfanyl]propanoic acid)
> ~label /missing
> select ::name="GOL"
6 atoms, 5 bonds, 1 residue, 1 model selected
> hide sel atoms
> select ::name="HOH"
126 atoms, 126 residues, 1 model selected
> hide sel atoms
> hide #!1.1 models
> select /C
98 atoms, 101 bonds, 15 residues, 1 model selected
> show sel atoms
> surface sel
> color (#!1 & sel) magenta
> select /B
2178 atoms, 2146 bonds, 1 pseudobond, 360 residues, 2 models selected
> surface (#!1 & sel)
> color (#!1 & sel) cornflower blue
> select /A
790 atoms, 758 bonds, 141 residues, 1 model selected
> hide sel cartoons
> hide sel atoms
> select /C
98 atoms, 101 bonds, 15 residues, 1 model selected
> hide sel atoms
> select clear
> hide cartoons
> lighting full
> view
> lighting full
> lighting simple
> lighting soft
> lighting full
> save /Users/mrdc/Documents/Structures/pcsk9_7s5g.cxs
> save /Users/mrdc/Documents/Structures/pcsk9_7s5g.png width 734 height 1073
> supersample 3
> close session
> open 7uwi fromDatabase pdb format mmcif
Summary of feedback from opening 7uwi fetched from pdb
---
notes | Fetching compressed mmCIF 7uwi from http://files.rcsb.org/download/7uwi.cif
Fetching CCD PO4 from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/4/PO4/PO4.cif
Fetching CCD WHL from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/L/WHL/WHL.cif
7uwi title:
Structure of beta-catenin in complex with FP01567, a Helicon Polypeptide [more
info...]
Chain information for 7uwi #1
---
Chain | Description | UniProt
A | Catenin beta-1 | CTNB1_HUMAN 143-663
F | Helicon Polypeptide FP01567 |
Non-standard residues in 7uwi #1
---
GOL — glycerol (glycerin; propane-1,2,3-triol)
NH2 — amino group
PO4 — phosphate ion
WHL — N,N'-(1,4-phenylene)diacetamide
5 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.
3952 atoms have anisotropic B-factors. Depict anisotropic information with
Thermal Ellipsoids [start tool...] or the aniso command.
> select ::name="HOH"
60 atoms, 60 residues, 1 model selected
> hide sel atoms
> select ::name="GOL"
36 atoms, 30 bonds, 6 residues, 1 model selected
> hide sel atoms
> select ::name="PO4"
5 atoms, 4 bonds, 1 residue, 1 model selected
> hide sel atoms
> select ::name="NH2"
1 atom, 1 residue, 1 model selected
> hide sel atoms
> select /A
3944 atoms, 3931 bonds, 1 pseudobond, 571 residues, 2 models selected
> show sel surfaces
> color (#!1 & sel) cornflower blue
> select /F
124 atoms, 128 bonds, 16 residues, 1 model selected
> show sel surfaces
> hide sel surfaces
> select /F:101@CB
1 atom, 1 residue, 1 model selected
> select up
14 atoms, 14 bonds, 1 residue, 1 model selected
> select up
123 atoms, 128 bonds, 15 residues, 1 model selected
> show sel surfaces
> hide sel surfaces
> select ::name="WHL"
14 atoms, 14 bonds, 1 residue, 1 model selected
> show sel surfaces
> select /F
124 atoms, 128 bonds, 16 residues, 1 model selected
> show sel surfaces
> hide sel surfaces
> select /F
124 atoms, 128 bonds, 16 residues, 1 model selected
> select /F,FWHL
124 atoms, 128 bonds, 16 residues, 1 model selected
> show sel surfaces
> color (#!1 & sel) magenta
> select clear
> view
> ~label /missing
> hide cartoons
> save /Users/mrdc/Documents/Structures/bcat_7uwi.png width 734 height 1073
> supersample 4 transparentBackground true
> save /Users/mrdc/Documents/Structures/bcat_7uwi.cxs
> close session
> open /Users/mrdc/Documents/Projects/TernaryComplex/protacModelAll.pdb
Summary of feedback from opening
/Users/mrdc/Documents/Projects/TernaryComplex/protacModelAll.pdb
---
warnings | Ignored bad PDB record found on line 74
SITE 1 AC10 5 ILE A 100 ILE A 101 LYS A 102 THR A 103
Ignored bad PDB record found on line 75
SITE 2 AC10 5 ASN A 135
Ignored bad PDB record found on line 76
SITE 1 AC11 3 PRO A 142 VAL A 147 GLU A 151
Ignored bad PDB record found on line 77
SITE 1 AC12 5 TYR A 137 ASN A 140 LYS A 141 PRO A 142
Ignored bad PDB record found on line 78
SITE 2 AC12 5 LYS A 160
2 messages similar to the above omitted
Cannot find LINK/SSBOND atom VT1 in residue SER /A:42
Chain information for protacModelAll.pdb #1
---
Chain | Description
A | No description available
B | No description available
> select /B
6021 atoms, 6095 bonds, 1 pseudobond, 370 residues, 2 models selected
> show sel surfaces
> color (#!1 & sel) cornflower blue
> select /A
2121 atoms, 2151 bonds, 127 residues, 1 model selected
> show sel surfaces
> hide sel cartoons
> select /P
107 atoms, 113 bonds, 1 residue, 1 model selected
> show sel surfaces
> color (#!1 & sel) magenta
> select clear
> hide cartoons
> view
> lighting full
> transparency 60
> select /A,B
8142 atoms, 8246 bonds, 1 pseudobond, 497 residues, 2 models selected
> hide sel atoms
> select clear
> hide #1.2 models
> hide #1.3 models
> hide atoms
> show #1.2 models
> show #1.3 models
> view
> ui tool show "Side View"
> transparency 100
> transparency 0
> select add #1.2
6021 atoms, 370 residues, 2 models selected
> select add #1.3
8142 atoms, 497 residues, 4 models selected
> transparency (#!1 & sel) 60
> select clear
> save /Users/mrdc/Documents/Projects/RIPTAC/brd4_riptac_concept.cxs
> save /Users/mrdc/Documents/Projects/RIPTAC/brd4_riptac_concept.png width 734
> height 1073 supersample 4 transparentBackground true
===== Log before crash end =====
Log:
UCSF ChimeraX version: 1.11.1 (2026-01-23)
© 2016-2025 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 Metal - 90.5
OpenGL renderer: Apple M4
OpenGL vendor: Apple
Python: 3.11.9
Locale: en_US.UTF-8
Qt version: PyQt6 6.9.1, Qt 6.9.0
Qt runtime version: 6.9.2
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: Mac mini
Model Identifier: Mac16,10
Model Number: MU9D3LL/A
Chip: Apple M4
Total Number of Cores: 10 (4 Performance and 6 Efficiency)
Memory: 16 GB
System Firmware Version: 13822.81.10
OS Loader Version: 13822.81.10
Software:
System Software Overview:
System Version: macOS 26.3.1 (25D2128)
Kernel Version: Darwin 25.3.0
Time since boot: 51 days, 16 hours, 39 minutes
Graphics/Displays:
Apple M4:
Chipset Model: Apple M4
Type: GPU
Bus: Built-In
Total Number of Cores: 10
Vendor: Apple (0x106b)
Metal Support: Metal 4
Displays:
Studio Display:
Display Type: Retina LCD
Resolution: 5120 x 2880 Retina
Display Serial Number: KDP2R6KQTD
Display Firmware Version: Version 26.2 (Build 23C8051)
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Installed Packages:
aiohappyeyeballs: 2.6.1
aiohttp: 3.13.1
aiosignal: 1.4.0
alabaster: 1.0.0
annotated-types: 0.7.0
anyio: 4.12.1
appdirs: 1.4.4
appnope: 0.1.4
asttokens: 3.0.1
attrs: 25.4.0
babel: 2.17.0
beautifulsoup4: 4.13.5
blockdiag: 3.0.0
blosc2: 3.12.2
build: 1.3.0
certifi: 2025.7.14
cftime: 1.6.5
charset-normalizer: 3.4.4
ChimeraX-AddCharge: 1.5.20
ChimeraX-AddH: 2.2.8
ChimeraX-AlignmentAlgorithms: 2.0.2
ChimeraX-AlignmentHdrs: 3.6.1
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 3.1.1
ChimeraX-AlphaFold: 1.0.1
ChimeraX-AltlocExplorer: 1.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Animations: 1.0
ChimeraX-Aniso: 1.3.2
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.61.4
ChimeraX-AtomicLibrary: 14.2.1
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.3
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 3.0.0
ChimeraX-Boltz: 1.1
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.2
ChimeraX-BuildStructure: 2.13.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.6.0
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.4
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.5
ChimeraX-ChemGroup: 2.0.2
ChimeraX-Clashes: 2.3
ChimeraX-ColorActions: 1.0.5
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.8
ChimeraX-CommandLine: 1.3.0
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.11.1
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.5
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.4
ChimeraX-Dicom: 1.2.7
ChimeraX-DistMonitor: 1.4.2
ChimeraX-DockPrep: 1.1.4
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ESMFold: 1.0
ChimeraX-FileHistory: 1.0.1
ChimeraX-FunctionKey: 1.0.1
ChimeraX-Geometry: 1.3
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.4.1
ChimeraX-Hbonds: 2.5.3
ChimeraX-Help: 1.3
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.4
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-KVFinder: 1.7.3
ChimeraX-Label: 1.2
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.2.2
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.2
ChimeraX-Map: 1.3
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0.1
ChimeraX-MapFilter: 2.0.1
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1.1
ChimeraX-Markers: 1.0.1
ChimeraX-Mask: 1.0.2
ChimeraX-MatchMaker: 2.2.2
ChimeraX-MCopy: 1.0
ChimeraX-MCPServer: 0.1.0
ChimeraX-MDcrds: 2.17.2
ChimeraX-MedicalToolbar: 1.1
ChimeraX-Meeting: 1.0.1
ChimeraX-Minimize: 1.3.2
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.16
ChimeraX-MMTF: 2.2
ChimeraX-ModelArchive: 1.0
ChimeraX-Modeller: 1.5.22
ChimeraX-ModelPanel: 1.6
ChimeraX-ModelSeries: 1.0.1
ChimeraX-Mol2: 2.0.3
ChimeraX-Mole: 1.0
ChimeraX-Morph: 1.0.2
ChimeraX-MouseModes: 1.2
ChimeraX-Movie: 1.0.1
ChimeraX-MutationScores: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nifti: 1.2
ChimeraX-NMRSTAR: 1.0.2
ChimeraX-NRRD: 1.2
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.15.2
ChimeraX-OrthoPick: 1.0.1
ChimeraX-PDB: 2.7.12
ChimeraX-PDBBio: 1.0.1
ChimeraX-PDBLibrary: 1.0.5
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1.4
ChimeraX-ProfileGrids: 1.4.2
ChimeraX-PubChem: 2.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.6.5
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.3.3
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 4.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.2
ChimeraX-Scenes: 0.3.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.3
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-Segmentations: 3.5.10
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.17.3
ChimeraX-Shape: 1.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.2.1
ChimeraX-ShowSequences: 1.0.3
ChimeraX-SideView: 1.0.1
ChimeraX-SimilarStructures: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.19.1
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: 2.5.2
ChimeraX-TapeMeasure: 1.0
ChimeraX-TaskManager: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.2.3
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.49.1
ChimeraX-Umap: 1.0
ChimeraX-uniprot: 2.3.2
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDock: 1.5.2
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: 1.1.5
ChimeraX-Zone: 1.0.1
click: 8.3.1
colorama: 0.4.6
comm: 0.2.3
contourpy: 1.3.3
coverage: 7.13.1
cxservices: 1.2.3
cycler: 0.12.1
Cython: 3.1.4
debugpy: 1.8.19
decorator: 5.2.1
docutils: 0.21.2
executing: 2.2.1
filelock: 3.19.1
fonttools: 4.61.1
frozenlist: 1.8.0
funcparserlib: 2.0.0a0
glfw: 2.10.0
grako: 3.16.5
h11: 0.16.0
h5py: 3.15.1
html2text: 2025.4.15
httpcore: 1.0.9
httpx: 0.28.1
httpx-sse: 0.4.3
idna: 3.11
ihm: 2.2
imagecodecs: 2024.6.1
imagesize: 1.4.1
iniconfig: 2.3.0
ipykernel: 6.30.1
ipython: 9.5.0
ipython_pygments_lexers: 1.1.1
ipywidgets: 8.1.8
jedi: 0.19.2
Jinja2: 3.1.6
jsonschema: 4.26.0
jsonschema-specifications: 2025.9.1
jupyter_client: 8.6.3
jupyter_core: 5.9.1
jupyterlab_widgets: 3.0.16
kiwisolver: 1.4.9
line_profiler: 5.0.0
lxml: 6.0.2
lz4: 4.3.2
Markdown: 3.8.2
MarkupSafe: 3.0.3
matplotlib: 3.10.7
matplotlib-inline: 0.2.1
mcp: 1.18.0
msgpack: 1.1.1
multidict: 6.7.0
ndindex: 1.10.1
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.3
nibabel: 5.2.0
nptyping: 2.5.0
numexpr: 2.14.1
numpy: 1.26.4
OpenMM: 8.2.0
openvr: 1.26.701
packaging: 25.0
ParmEd: 4.2.2
parso: 0.8.5
pep517: 0.13.1
pexpect: 4.9.0
pickleshare: 0.7.5
pillow: 11.3.0
pip: 25.2
pkginfo: 1.12.1.2
platformdirs: 4.5.1
pluggy: 1.6.0
prompt_toolkit: 3.0.52
propcache: 0.4.1
psutil: 7.0.0
ptyprocess: 0.7.0
pure_eval: 0.2.3
py-cpuinfo: 9.0.0
pybind11: 3.0.1
pycollada: 0.8
pydantic: 2.12.5
pydantic-settings: 2.12.0
pydantic_core: 2.41.5
pydicom: 2.4.4
Pygments: 2.18.0
pynmrstar: 3.3.6
pynrrd: 1.0.0
PyOpenGL: 3.1.10
PyOpenGL-accelerate: 3.1.10
pyopenxr: 1.1.4501
pyparsing: 3.3.2
pyproject_hooks: 1.2.0
PyQt6-commercial: 6.9.1
PyQt6-Qt6: 6.9.2
PyQt6-WebEngine-commercial: 6.9.0
PyQt6-WebEngine-Qt6: 6.9.2
PyQt6_sip: 13.10.2
pytest: 9.0.2
pytest-cov: 7.0.0
python-dateutil: 2.9.0.post0
python-dotenv: 1.2.1
python-multipart: 0.0.21
pyzmq: 27.1.0
qtconsole: 5.7.0
QtPy: 2.4.3
qtshim: 1.2
RandomWords: 0.4.0
referencing: 0.37.0
requests: 2.32.5
roman-numerals: 4.1.0
roman-numerals-py: 4.1.0
rpds-py: 0.30.0
scipy: 1.14.0
setuptools: 80.9.0
sfftk-rw: 0.8.1
six: 1.17.0
snowballstemmer: 3.0.1
sortedcontainers: 2.4.0
soupsieve: 2.8.3
Sphinx: 8.2.3
sphinx-autodoc-typehints: 3.2.0
sphinxcontrib-applehelp: 2.0.0
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 2.0.0
sphinxcontrib-htmlhelp: 2.1.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 2.0.0
sphinxcontrib-serializinghtml: 2.0.0
sse-starlette: 3.2.0
stack-data: 0.6.3
starlette: 0.52.1
superqt: 0.7.6
tables: 3.10.2
tcia_utils: 1.5.1
tifffile: 2025.3.13
tinyarray: 1.2.5
tornado: 6.5.4
traitlets: 5.14.3
typing-inspection: 0.4.2
typing_extensions: 4.15.0
urllib3: 2.6.3
uvicorn: 0.40.0
wcwidth: 0.3.2
webcolors: 24.11.1
wheel: 0.45.1
wheel-filename: 1.4.2
widgetsnbextension: 4.0.15
yarl: 1.22.0
Change History (2)
comment:1 by , 28 hours ago
| Component: | Unassigned → Graphics |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Crash in śwap_buffers when status line exposed Mac Qt 6.9.2 |
comment:2 by , 28 hours ago
| Resolution: | → duplicate |
|---|---|
| Status: | assigned → closed |
| Summary: | Crash in śwap_buffers when status line exposed Mac Qt 6.9.2 → Crash in swap_buffers when status line exposed Mac Qt 6.9.2 |
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Side view QOpenGLContext.makeCurrent() dispatches expose event on status line. We now ignore status line expose events on Mac to work around this crash.