Opened 11 months ago

Closed 11 months ago

#16305 closed defect (nonchimerax)

Crash with XCB errors

Reported by: chimerax-bug-report@… Owned by: Tom Goddard
Priority: normal Milestone:
Component: Platform Version:
Keywords: Cc: Greg Couch
Blocked By: Blocking:
Notify when closed: Platform: all
Project: ChimeraX

Description 

The following bug report has been submitted:
Platform:        Linux-4.18.0-553.8.1.el8_10.x86_64-x86_64-with-glibc2.28
ChimeraX Version: 1.7.1 (2024-01-23 01:58:08 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault

Thread 0x00007f44f3fff700 (most recent call first):
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/socket.py", line 962 in getaddrinfo
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/socket.py", line 827 in create_connection
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/http/client.py", line 941 in connect
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/http/client.py", line 1447 in connect
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/http/client.py", line 975 in send
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/http/client.py", line 1037 in _send_output
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/http/client.py", line 1277 in endheaders
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/http/client.py", line 1328 in _send_request
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/http/client.py", line 1282 in request
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/urllib/request.py", line 1348 in do_open
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/urllib/request.py", line 1391 in https_open
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/urllib/request.py", line 496 in _call_chain
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/urllib/request.py", line 536 in _open
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/urllib/request.py", line 519 in open
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/urllib/request.py", line 216 in urlopen
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/site-packages/chimerax/core/toolshed/available.py", line 62 in load
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/site-packages/chimerax/core/toolshed/__init__.py", line 467 in reload_available
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/threading.py", line 975 in run
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/threading.py", line 995 in _bootstrap

Current thread 0x00007f458b5a2740 (most recent call first):
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/site-packages/chimerax/graphics/opengl.py", line 248 in swap_buffers
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/site-packages/chimerax/graphics/opengl.py", line 556 in swap_buffers
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/site-packages/chimerax/ui/statusbar.py", line 152 in status
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/site-packages/chimerax/ui/statusbar.py", line 84 in _expose_event
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/site-packages/chimerax/ui/gui.py", line 275 in event_loop
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/lib/python3.11/site-packages/chimerax/core/__main__.py", line 918 in init
  File "/apps/applications/chimerax/1.7.1/1/default/usr/libexec/UCSF-ChimeraX/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.QtWebChannel, PyQt6.QtNetwork, PyQt6.QtWebEngineCore, PyQt6.QtPrintSupport, PyQt6.QtWebEngineWidgets, chimerax.atomic_lib._load_libs, tinyarray, chimerax.atomic.cymol, chimerax.atomic.cytmpl, chimerax.map._map, charset_normalizer.md, PIL._imaging, matplotlib._c_internal_utils, matplotlib._path, kiwisolver._cext, matplotlib._image, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.surface._surface, chimerax.pdb_lib._load_libs, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler (total: 46)


Log:
Startup Messages  
---  
note | available bundle cache has not been initialized yet  
  
UCSF ChimeraX version: 1.7.1 (2024-01-23)  
© 2016-2023 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

QXcbConnection: XCB error: 3 (BadWindow), sequence: 462, resource id: 0, major
code: 148 (Unknown), minor code: 3  

QXcbConnection: XCB error: 9 (BadDrawable), sequence: 464, resource id: 0,
major code: 55 (CreateGC), minor code: 0  

QXcbConnection: XCB error: 9 (BadDrawable), sequence: 466, resource id: 0,
major code: 55 (CreateGC), minor code: 0  

QXcbConnection: XCB error: 13 (BadGC), sequence: 475, resource id: 67108884,
major code: 60 (FreeGC), minor code: 0  

QXcbConnection: XCB error: 13 (BadGC), sequence: 476, resource id: 67108883,
major code: 60 (FreeGC), minor code: 0  

QXcbConnection: XCB error: 3 (BadWindow), sequence: 492, resource id: 0, major
code: 148 (Unknown), minor code: 3  

QXcbConnection: XCB error: 9 (BadDrawable), sequence: 494, resource id: 0,
major code: 55 (CreateGC), minor code: 0  

QXcbConnection: XCB error: 9 (BadDrawable), sequence: 496, resource id: 0,
major code: 55 (CreateGC), minor code: 0  

QXcbConnection: XCB error: 13 (BadGC), sequence: 503, resource id: 67108889,
major code: 60 (FreeGC), minor code: 0  

QXcbConnection: XCB error: 13 (BadGC), sequence: 504, resource id: 67108888,
major code: 60 (FreeGC), minor code: 0  

QXcbConnection: XCB error: 3 (BadWindow), sequence: 552, resource id: 0, major
code: 148 (Unknown), minor code: 3  

QXcbConnection: XCB error: 9 (BadDrawable), sequence: 556, resource id: 0,
major code: 55 (CreateGC), minor code: 0  

QXcbConnection: XCB error: 9 (BadDrawable), sequence: 558, resource id: 0,
major code: 55 (CreateGC), minor code: 0  

QXcbConnection: XCB error: 13 (BadGC), sequence: 588, resource id: 67108899,
major code: 60 (FreeGC), minor code: 0  

QXcbConnection: XCB error: 13 (BadGC), sequence: 589, resource id: 67108898,
major code: 60 (FreeGC), minor code: 0  

QXcbConnection: XCB error: 3 (BadWindow), sequence: 606, resource id: 0, major
code: 148 (Unknown), minor code: 3  

QXcbConnection: XCB error: 9 (BadDrawable), sequence: 608, resource id: 0,
major code: 55 (CreateGC), minor code: 0  

QXcbConnection: XCB error: 9 (BadDrawable), sequence: 610, resource id: 0,
major code: 55 (CreateGC), minor code: 0  

QXcbConnection: XCB error: 3 (BadWindow), sequence: 712, resource id: 0, major
code: 148 (Unknown), minor code: 3  

QXcbConnection: XCB error: 9 (BadDrawable), sequence: 714, resource id: 0,
major code: 55 (CreateGC), minor code: 0  

QXcbConnection: XCB error: 9 (BadDrawable), sequence: 716, resource id: 0,
major code: 55 (CreateGC), minor code: 0  

QXcbConnection: XCB error: 3 (BadWindow), sequence: 748, resource id: 0, major
code: 148 (Unknown), minor code: 3  

QXcbConnection: XCB error: 9 (BadDrawable), sequence: 750, resource id: 0,
major code: 55 (CreateGC), minor code: 0  

QXcbConnection: XCB error: 9 (BadDrawable), sequence: 752, resource id: 0,
major code: 55 (CreateGC), minor code: 0  

QXcbConnection: XCB error: 3 (BadWindow), sequence: 803, resource id: 0, major
code: 148 (Unknown), minor code: 3  

QXcbConnection: XCB error: 9 (BadDrawable), sequence: 805, resource id: 0,
major code: 55 (CreateGC), minor code: 0  

QXcbConnection: XCB error: 9 (BadDrawable), sequence: 807, resource id: 0,
major code: 55 (CreateGC), minor code: 0  

QXcbConnection: XCB error: 3 (BadWindow), sequence: 839, resource id: 0, major
code: 148 (Unknown), minor code: 3  

QXcbConnection: XCB error: 9 (BadDrawable), sequence: 841, resource id: 0,
major code: 55 (CreateGC), minor code: 0  

QXcbConnection: XCB error: 9 (BadDrawable), sequence: 843, resource id: 0,
major code: 55 (CreateGC), minor code: 0  

QXcbConnection: XCB error: 3 (BadWindow), sequence: 1068, resource id: 0,
major code: 148 (Unknown), minor code: 3  

QXcbConnection: XCB error: 9 (BadDrawable), sequence: 1070, resource id: 0,
major code: 55 (CreateGC), minor code: 0  

QXcbConnection: XCB error: 9 (BadDrawable), sequence: 1073, resource id: 0,
major code: 55 (CreateGC), minor code: 0  

QXcbConnection: XCB error: 3 (BadWindow), sequence: 1094, resource id: 0,
major code: 148 (Unknown), minor code: 3  

QXcbConnection: XCB error: 9 (BadDrawable), sequence: 1096, resource id: 0,
major code: 55 (CreateGC), minor code: 0  

QXcbConnection: XCB error: 9 (BadDrawable), sequence: 1098, resource id: 0,
major code: 55 (CreateGC), minor code: 0  




OpenGL version: 3.3.0 NVIDIA 555.42.06
OpenGL renderer: NVIDIA A40/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation

Python: 3.11.2
Locale: en_GB.UTF-8
Qt version: PyQt6 6.3.1, Qt 6.3.1
Qt runtime version: 6.3.2
Qt platform: xcb

XDG_SESSION_TYPE=
DESKTOP_SESSION=
XDG_SESSION_DESKTOP=
XDG_CURRENT_DESKTOP=
DISPLAY=localhost:11.0
Manufacturer: Dell Inc.
Model: PowerEdge R7525
OS: Rocky Linux 8.10 Green Obsidian
Architecture: 64bit ELF
Virtual Machine: none
CPU: 32 AMD EPYC 7313 16-Core Processor
Cache Size: 512 KB
Memory:
	              total        used        free      shared  buff/cache   available
	Mem:          251Gi       9.2Gi       8.3Gi       3.4Gi       233Gi       236Gi
	Swap:          31Gi       5.6Gi        26Gi

Graphics:
	62:00.0 VGA compatible controller [0300]: Matrox Electronics Systems Ltd. Integrated Matrox G200eW3 Graphics Controller [102b:0536] (rev 04)	
	DeviceName: Embedded Video	
	Kernel driver in use: mgag200

Installed Packages:
    alabaster: 0.7.16
    appdirs: 1.4.4
    asttokens: 2.4.1
    Babel: 2.14.0
    backcall: 0.2.0
    beautifulsoup4: 4.11.2
    blockdiag: 3.0.0
    blosc2: 2.0.0
    build: 0.10.0
    certifi: 2023.11.17
    cftime: 1.6.3
    charset-normalizer: 3.3.2
    ChimeraX-AddCharge: 1.5.13
    ChimeraX-AddH: 2.2.5
    ChimeraX-AlignmentAlgorithms: 2.0.1
    ChimeraX-AlignmentHdrs: 3.4.1
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 2.12.2
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.1.1
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.1
    ChimeraX-Atomic: 1.49.1
    ChimeraX-AtomicLibrary: 12.1.5
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.3.2
    ChimeraX-BasicActions: 1.1.2
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 2.1.2
    ChimeraX-BondRot: 2.0.4
    ChimeraX-BugReporter: 1.0.1
    ChimeraX-BuildStructure: 2.10.5
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.2.2
    ChimeraX-ButtonPanel: 1.0.1
    ChimeraX-CageBuilder: 1.0.1
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.3.2
    ChimeraX-ChangeChains: 1.1
    ChimeraX-CheckWaters: 1.3.2
    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: 1.7.1
    ChimeraX-CoreFormats: 1.2
    ChimeraX-coulombic: 1.4.2
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DataFormats: 1.2.3
    ChimeraX-Dicom: 1.2
    ChimeraX-DistMonitor: 1.4
    ChimeraX-DockPrep: 1.1.3
    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: 1.1.8
    ChimeraX-LinuxSupport: 1.0.1
    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: 2.1.2
    ChimeraX-MCopy: 1.0
    ChimeraX-MDcrds: 2.6.1
    ChimeraX-MedicalToolbar: 1.0.2
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.12.1
    ChimeraX-MMTF: 2.2
    ChimeraX-Modeller: 1.5.14
    ChimeraX-ModelPanel: 1.4
    ChimeraX-ModelSeries: 1.0.1
    ChimeraX-Mol2: 2.0.3
    ChimeraX-Mole: 1.0
    ChimeraX-Morph: 1.0.2
    ChimeraX-MouseModes: 1.2
    ChimeraX-Movie: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nifti: 1.1
    ChimeraX-NRRD: 1.1
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.13.1
    ChimeraX-PDB: 2.7.3
    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
    ChimeraX-PubChem: 2.1
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.2
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.1
    ChimeraX-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    ChimeraX-RestServer: 1.2
    ChimeraX-RNALayout: 1.0
    ChimeraX-RotamerLibMgr: 4.0
    ChimeraX-RotamerLibsDunbrack: 2.0
    ChimeraX-RotamerLibsDynameomics: 2.0
    ChimeraX-RotamerLibsRichardson: 2.0
    ChimeraX-SaveCommand: 1.5.1
    ChimeraX-SchemeMgr: 1.0
    ChimeraX-SDF: 2.0.2
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0.1
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.11
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0.1
    ChimeraX-Shortcuts: 1.1.1
    ChimeraX-ShowSequences: 1.0.2
    ChimeraX-SideView: 1.0.1
    ChimeraX-Smiles: 2.1.2
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.12.4
    ChimeraX-STL: 1.0.1
    ChimeraX-Storm: 1.0
    ChimeraX-StructMeasure: 1.1.2
    ChimeraX-Struts: 1.0.1
    ChimeraX-Surface: 1.0.1
    ChimeraX-SwapAA: 2.0.1
    ChimeraX-SwapRes: 2.2.2
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-TaskManager: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.1.2
    ChimeraX-ToolshedUtils: 1.2.4
    ChimeraX-Topography: 1.0
    ChimeraX-ToQuest: 1.0
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.33.3
    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: 0.2.1
    contourpy: 1.2.0
    cxservices: 1.2.2
    cycler: 0.12.1
    Cython: 0.29.33
    debugpy: 1.8.0
    decorator: 5.1.1
    distro: 1.7.0
    docutils: 0.19
    executing: 2.0.1
    filelock: 3.9.0
    fonttools: 4.47.2
    funcparserlib: 2.0.0a0
    glfw: 2.6.4
    grako: 3.16.5
    h5py: 3.10.0
    html2text: 2020.1.16
    idna: 3.6
    ihm: 0.38
    imagecodecs: 2023.9.18
    imagesize: 1.4.1
    ipykernel: 6.23.2
    ipython: 8.14.0
    ipython-genutils: 0.2.0
    ipywidgets: 8.1.1
    jedi: 0.18.2
    Jinja2: 3.1.2
    jupyter-client: 8.2.0
    jupyter-core: 5.7.1
    jupyterlab-widgets: 3.0.9
    kiwisolver: 1.4.5
    line-profiler: 4.0.2
    lxml: 4.9.2
    lz4: 4.3.2
    MarkupSafe: 2.1.4
    matplotlib: 3.7.2
    matplotlib-inline: 0.1.6
    msgpack: 1.0.4
    nest-asyncio: 1.6.0
    netCDF4: 1.6.2
    networkx: 3.1
    nibabel: 5.0.1
    nptyping: 2.5.0
    numexpr: 2.8.8
    numpy: 1.25.1
    openvr: 1.23.701
    packaging: 23.2
    ParmEd: 3.4.3
    parso: 0.8.3
    pep517: 0.13.0
    pexpect: 4.9.0
    pickleshare: 0.7.5
    pillow: 10.2.0
    pip: 23.0
    pkginfo: 1.9.6
    platformdirs: 4.1.0
    prompt-toolkit: 3.0.43
    psutil: 5.9.5
    ptyprocess: 0.7.0
    pure-eval: 0.2.2
    py-cpuinfo: 9.0.0
    pycollada: 0.7.2
    pydicom: 2.3.0
    Pygments: 2.16.1
    pynrrd: 1.0.0
    PyOpenGL: 3.1.7
    PyOpenGL-accelerate: 3.1.7
    pyopenxr: 1.0.2801
    pyparsing: 3.0.9
    pyproject-hooks: 1.0.0
    PyQt6-commercial: 6.3.1
    PyQt6-Qt6: 6.3.2
    PyQt6-sip: 13.4.0
    PyQt6-WebEngine-commercial: 6.3.1
    PyQt6-WebEngine-Qt6: 6.3.2
    python-dateutil: 2.8.2
    pytz: 2023.3.post1
    pyzmq: 25.1.2
    qtconsole: 5.4.3
    QtPy: 2.4.1
    RandomWords: 0.4.0
    requests: 2.31.0
    scipy: 1.11.1
    setuptools: 67.4.0
    sfftk-rw: 0.7.3
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    soupsieve: 2.5
    sphinx: 6.1.3
    sphinx-autodoc-typehints: 1.22
    sphinxcontrib-applehelp: 1.0.8
    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: 0.5.0
    tables: 3.8.0
    tcia-utils: 1.5.1
    tifffile: 2023.7.18
    tinyarray: 1.2.4
    tomli: 2.0.1
    tornado: 6.4
    traitlets: 5.9.0
    typing-extensions: 4.9.0
    tzdata: 2023.4
    urllib3: 2.1.0
    wcwidth: 0.2.13
    webcolors: 1.12
    wheel: 0.38.4
    wheel-filename: 1.4.1
    widgetsnbextension: 4.0.9

Change History (2)

comment:1 by pett, 11 months ago

Cc: Greg Couch added
Component: Unassigned → Platform
Owner: set to Tom Goddard
Platform: → all
Project: → ChimeraX
Status: new → assigned
Summary: ChimeraX bug report submission → Crash with XCB errors

comment:2 by Tom Goddard, 11 months ago

Resolution: → nonchimerax
Status: assigned → closed

Apparently the xcb X11 client library lost the connection to the server. Maybe they were using remote display. Interesting that the graphics in this report is an A40 machine learning GPU.

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