Opened 20 months ago

Last modified 20 months ago

#14638 feedback defect

Crash in event loop

Reported by: wxh180@… Owned by: Eric Pettersen
Priority: normal Milestone:
Component: Core Version:
Keywords: Cc: Tom Goddard
Blocked By: Blocking:
Notify when closed: Platform: all
Project: ChimeraX

Description 

The following bug report has been submitted:
Platform:        Linux-6.2.0-39-generic-x86_64-with-glibc2.37
ChimeraX Version: 1.6.dev202302242240 (2023-02-24 22:40:11 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault

Thread 0x00007f406cff96c0 (most recent call first):
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/multiprocessing/pool.py", line 576 in _handle_results
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 910 in run
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x00007f406d7fa6c0 (most recent call first):
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/multiprocessing/pool.py", line 528 in _handle_tasks
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 910 in run
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x00007f406dffb6c0 (most recent call first):
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/selectors.py", line 416 in select
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/multiprocessing/connection.py", line 936 in wait
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/multiprocessing/pool.py", line 499 in _wait_for_updates
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/multiprocessing/pool.py", line 519 in _handle_workers
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 910 in run
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x00007f406e7fc6c0 (most recent call first):
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 910 in run
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x00007f406effd6c0 (most recent call first):
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 910 in run
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x00007f406f7fe6c0 (most recent call first):
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 910 in run
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x00007f406ffff6c0 (most recent call first):
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 910 in run
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x00007f4090ff96c0 (most recent call first):
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 910 in run
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x00007f40917fa6c0 (most recent call first):
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 910 in run
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x00007f4091ffb6c0 (most recent call first):
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 910 in run
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x00007f40927fc6c0 (most recent call first):
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 910 in run
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x00007f4092ffd6c0 (most recent call first):
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 910 in run
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x00007f40937fe6c0 (most recent call first):
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 910 in run
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x00007f4093fff6c0 (most recent call first):
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 910 in run
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x00007f40b0ff96c0 (most recent call first):
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 910 in run
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x00007f40b17fa6c0 (most recent call first):
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 910 in run
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x00007f40b1ffb6c0 (most recent call first):
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 910 in run
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x00007f40b27fc6c0 (most recent call first):
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 910 in run
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x00007f40b2ffd6c0 (most recent call first):
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/multiprocessing/pool.py", line 114 in worker
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 910 in run
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 930 in _bootstrap

Thread 0x00007f40b37fe6c0 (most recent call first):
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/ssl.py", line 1099 in read
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/ssl.py", line 1241 in recv_into
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/socket.py", line 704 in readinto
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/http/client.py", line 281 in _read_status
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/http/client.py", line 320 in begin
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/http/client.py", line 1377 in getresponse
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/urllib/request.py", line 1350 in do_open
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/urllib/request.py", line 1389 in https_open
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/urllib/request.py", line 494 in _call_chain
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/urllib/request.py", line 534 in _open
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/urllib/request.py", line 517 in open
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/urllib/request.py", line 214 in urlopen
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-packages/chimerax/core/toolshed/available.py", line 49 in load
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-packages/chimerax/core/toolshed/__init__.py", line 456 in reload_available
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 910 in run
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 973 in _bootstrap_inner
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/threading.py", line 930 in _bootstrap

Current thread 0x00007f4141c36b80 (most recent call first):
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-packages/chimerax/ui/gui.py", line 284 in event_loop
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-packages/chimerax/core/__main__.py", line 892 in init
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-packages/chimerax/core/__main__.py", line 1043 in 
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/runpy.py", line 87 in _run_code
  File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/runpy.py", line 197 in _run_module_as_main


Log:
> camera ortho

> cofr centerOfView

> mousemode rightMode clip

> mousemode alt rightMode "contour level"

> mousemode alt leftMode "move picked models"

> alias cofron cofr centerofview showpivot true

> alias cofroff cofr centerofview showpivot false

> alias symclip cofr centerofview; clip near -$1 far $1 position cofr

> alias cootmode surface cap false; surface style solid; lighting flat;
> graphics silhouettes false; style stick; ~rib; color ##num_residues gold;
> color byhet ; disp; ~disp @H*; style solvent ball; size ballscale 0.1; size
> stickradius 0.07; transparency 70; cofr centerofview; clip near -10 far 10
> position cofr; color ##~num_residues cornflower blue

> alias cootmode_mesh surface cap false; surface style mesh; lighting flat;
> graphics silhouettes false; style stick; ~rib; color ##num_residues gold;
> color byhet ; disp; ~disp @H*; style solvent ball; size ballscale 0.1; size
> stickradius 0.07; cofr centerofview; clip near -10 far 10 position cofr;
> color ##~num_residues #3d60ffff; transparency 50

> alias ca_and_sidechains ~rib $1; ~surf $1; ~disp $1; disp @CA&protein&$1;
> disp @P&nucleic&$1; style $1 stick; disp sidechain&$1; disp
> ~backbone&nucleic&$1; size stickradius 0.1; size pseudobondradius 0.1

> alias ca_trace ~rib $1; ~surf $1; ~disp $1; disp @CA&protein&$1; disp
> @P&nucleic&$1; style $1 stick; size stickradius 0.1; size pseudobondradius
> 0.1

> alias map_sphere_15 surface unzone ##~num_residues; sel; close #10000;
> marker #10000 position cofr; sel ~sel; surface zone ##~num_residues
> nearAtoms sel distance 15; close #10000

> alias map_unsphere surface unzone ##~num_residues

> alias default_mol_display ~disp; rib; rainbow chain palette RdYlBu-5;
> lighting soft

> alias hidemaps surface unzone ##~num_residues; sel; close #10000; marker
> #10000 position cofr; sel ~sel; surface zone ##~num_residues nearAtoms sel
> distance 0; close #10000

> alias showmaps surface unzone ##~num_residues

> alias caps_off surface cap false

> alias caps_on surface cap true

> alias selbetween ks ri

> buttonpanel Shortcuts rows 3 columns 4

> buttonpanel Shortcuts add Vol_Viewer command "tool show 'Volume Viewer'"

> buttonpanel Shortcuts add Model_Panel command "tool show Models"

> buttonpanel Shortcuts add Log command "tool show Log"

> buttonpanel Shortcuts add default_disp command default_mol_display

> buttonpanel Shortcuts add map_sphere command map_sphere_15

> buttonpanel Shortcuts add map_unsphere command map_unsphere

> buttonpanel Shortcuts add cofron command cofron

> buttonpanel Shortcuts add cofroff command cofroff

> buttonpanel Shortcuts add cootmode command cootmode

> buttonpanel Shortcuts add mark_cofr command "marker #10000 position cofr"

> buttonpanel Shortcuts add hidemaps command hidemaps

> buttonpanel Shortcuts add showmaps command showmaps

UCSF ChimeraX version: 1.6.dev202302242240 (2023-02-24)  
© 2016-2023 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open cryosparc_P115_J56_004_volume_map.mrc

Opened cryosparc_P115_J56_004_volume_map.mrc as #1, grid size 200,200,200,
pixel 1.07, shown at level 0.0596, step 1, values float32  




OpenGL version: 3.3.0 NVIDIA 550.54.14
OpenGL renderer: NVIDIA GeForce GTX 1080 Ti/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation

Python: 3.9.11
Locale: en_US.UTF-8
Qt version: PyQt6 6.4.2, Qt 6.4.2
Qt runtime version: 6.4.2
Qt platform: xcb

XDG_SESSION_TYPE=x11
DESKTOP_SESSION=ubuntu
XDG_SESSION_DESKTOP=ubuntu
XDG_CURRENT_DESKTOP=ubuntu:GNOME
DISPLAY=:0
Manufacturer: ASUS
Model: All Series
OS: Ubuntu 23.04 Lunar Lobster
Architecture: 64bit ELF
Virtual Machine: none
CPU: 16 Intel(R) Core(TM) i7-5960X CPU @ 3.00GHz
Cache Size: 20480 KB
Memory:
	               total        used        free      shared  buff/cache   available
	Mem:            62Gi       7.1Gi        47Gi       209Mi       9.2Gi        55Gi
	Swap:          1.9Gi          0B       1.9Gi

Graphics:
	05:00.0 VGA compatible controller [0300]: NVIDIA Corporation GP102 [GeForce GTX 1080 Ti] [10de:1b06] (rev a1)	
	Subsystem: ASUSTeK Computer Inc. GP102 [GeForce GTX 1080 Ti] [1043:85e5]	
	Kernel driver in use: nvidia

Installed Packages:
    alabaster: 0.7.13
    appdirs: 1.4.4
    asttokens: 2.2.1
    Babel: 2.11.0
    backcall: 0.2.0
    beautifulsoup4: 4.11.2
    blockdiag: 3.0.0
    build: 0.10.0
    certifi: 2022.12.7
    cftime: 1.6.2
    charset-normalizer: 3.0.1
    ChimeraX-AddCharge: 1.5.8
    ChimeraX-AddH: 2.2.3
    ChimeraX-AlignmentAlgorithms: 2.0.1
    ChimeraX-AlignmentHdrs: 3.3.1
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 2.9.2
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.0.3
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.1
    ChimeraX-Atomic: 1.43.8
    ChimeraX-AtomicLibrary: 10.0.5
    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: 2.0.1
    ChimeraX-BugReporter: 1.0.1
    ChimeraX-BuildStructure: 2.8
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.2.1
    ChimeraX-ButtonPanel: 1.0.1
    ChimeraX-CageBuilder: 1.0.1
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.3.2
    ChimeraX-ChangeChains: 1.0.2
    ChimeraX-CheckWaters: 1.3.1
    ChimeraX-ChemGroup: 2.0.1
    ChimeraX-Clashes: 2.2.4
    ChimeraX-Clipper: 0.20.0
    ChimeraX-ColorActions: 1.0.3
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.3
    ChimeraX-CommandLine: 1.2.5
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.6.dev202302242240
    ChimeraX-CoreFormats: 1.1
    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: 1.1
    ChimeraX-DistMonitor: 1.3.3
    ChimeraX-DockPrep: 1.1
    ChimeraX-Dssp: 2.0
    ChimeraX-EMDB-SFF: 1.0
    ChimeraX-ESMFold: 1.0
    ChimeraX-ExperimentalCommands: 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: 1.2.1
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
    ChimeraX-ImageFormats: 1.2
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.1
    ChimeraX-ISOLDE: 1.6.dev1
    ChimeraX-ItemsInspection: 1.0.1
    ChimeraX-Label: 1.1.7
    ChimeraX-LinuxSupport: 1.0.1
    ChimeraX-ListInfo: 1.1.1
    ChimeraX-Log: 1.1.5
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.8.2
    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: 2.0.11
    ChimeraX-MDcrds: 2.6
    ChimeraX-MedicalToolbar: 1.0.2
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.12
    ChimeraX-MMTF: 2.2
    ChimeraX-Modeller: 1.5.8
    ChimeraX-ModelPanel: 1.3.6
    ChimeraX-ModelSeries: 1.0.1
    ChimeraX-Mol2: 2.0
    ChimeraX-Mole: 1.0
    ChimeraX-Morph: 1.0.2
    ChimeraX-MouseModes: 1.2
    ChimeraX-Movie: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nifti: 1.0
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.10.1
    ChimeraX-PDB: 2.6.13
    ChimeraX-PDBBio: 1.0
    ChimeraX-PDBLibrary: 1.0.2
    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: 1.1.1
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.0
    ChimeraX-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    ChimeraX-RestServer: 1.1
    ChimeraX-RNALayout: 1.0
    ChimeraX-RotamerLibMgr: 3.0
    ChimeraX-RotamerLibsDunbrack: 2.0
    ChimeraX-RotamerLibsDynameomics: 2.0
    ChimeraX-RotamerLibsRichardson: 2.0
    ChimeraX-SaveCommand: 1.5.1
    ChimeraX-SchemeMgr: 1.0
    ChimeraX-SDF: 2.0.1
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0.1
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.8.3
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0.1
    ChimeraX-Shortcuts: 1.1.1
    ChimeraX-ShowSequences: 1.0.1
    ChimeraX-SideView: 1.0.1
    ChimeraX-Smiles: 2.1
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.10.1
    ChimeraX-STL: 1.0.1
    ChimeraX-Storm: 1.0
    ChimeraX-StructMeasure: 1.1.1
    ChimeraX-Struts: 1.0.1
    ChimeraX-Surface: 1.0.1
    ChimeraX-SwapAA: 2.0.1
    ChimeraX-SwapRes: 2.2.1
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.1.2
    ChimeraX-ToolshedUtils: 1.2.1
    ChimeraX-Topography: 1.0
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.27.2
    ChimeraX-uniprot: 2.2.2
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.2
    ChimeraX-VIPERdb: 1.0
    ChimeraX-Vive: 1.1
    ChimeraX-VolumeMenu: 1.0.1
    ChimeraX-VTK: 1.0
    ChimeraX-WavefrontOBJ: 1.0
    ChimeraX-WebCam: 1.0.2
    ChimeraX-WebServices: 1.1.1
    ChimeraX-Zone: 1.0.1
    colorama: 0.4.6
    comm: 0.1.2
    contourpy: 1.0.7
    cxservices: 1.2.2
    cycler: 0.11.0
    Cython: 0.29.33
    debugpy: 1.6.6
    decorator: 5.1.1
    distro: 1.7.0
    docutils: 0.19
    executing: 1.2.0
    filelock: 3.9.0
    fonttools: 4.38.0
    funcparserlib: 1.0.1
    grako: 3.16.5
    h5py: 3.8.0
    html2text: 2020.1.16
    idna: 3.4
    ihm: 0.35
    imagecodecs: 2022.9.26
    imagesize: 1.4.1
    importlib-metadata: 6.0.0
    ipykernel: 6.21.1
    ipython: 8.10.0
    ipython-genutils: 0.2.0
    ipywidgets: 8.0.4
    jedi: 0.18.2
    Jinja2: 3.1.2
    jupyter-client: 8.0.2
    jupyter-core: 5.2.0
    jupyterlab-widgets: 3.0.5
    kiwisolver: 1.4.4
    line-profiler: 4.0.2
    lxml: 4.9.2
    lz4: 4.3.2
    MarkupSafe: 2.1.2
    matplotlib: 3.6.3
    matplotlib-inline: 0.1.6
    MolecularDynamicsViewer: 1.4
    msgpack: 1.0.4
    nest-asyncio: 1.5.6
    netCDF4: 1.6.2
    networkx: 2.8.8
    nibabel: 5.0.1
    numexpr: 2.8.4
    numpy: 1.23.5
    openvr: 1.23.701
    packaging: 23.0
    pandas: 1.5.3
    ParmEd: 3.4.3
    parso: 0.8.3
    pep517: 0.13.0
    pexpect: 4.8.0
    pickleshare: 0.7.5
    Pillow: 9.3.0
    pip: 23.0
    pkginfo: 1.9.6
    platformdirs: 3.0.0
    prompt-toolkit: 3.0.37
    psutil: 5.9.4
    ptyprocess: 0.7.0
    pure-eval: 0.2.2
    pycollada: 0.7.2
    pydicom: 2.3.0
    Pygments: 2.14.0
    PyOpenGL: 3.1.5
    PyOpenGL-accelerate: 3.1.5
    pyparsing: 3.0.9
    pyproject-hooks: 1.0.0
    PyQt6-commercial: 6.4.2
    PyQt6-Qt6: 6.4.2
    PyQt6-sip: 13.4.1
    PyQt6-WebEngine-commercial: 6.4.0
    PyQt6-WebEngine-Qt6: 6.4.2
    python-dateutil: 2.8.2
    pytz: 2022.7.1
    pyzmq: 25.0.0
    qtconsole: 5.4.0
    QtPy: 2.3.0
    RandomWords: 0.4.0
    requests: 2.28.2
    scipy: 1.9.3
    setuptools: 67.4.0
    sfftk-rw: 0.7.3
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    soupsieve: 2.4
    sphinx: 6.1.3
    sphinx-autodoc-typehints: 1.22
    sphinxcontrib-applehelp: 1.0.4
    sphinxcontrib-blockdiag: 3.0.0
    sphinxcontrib-devhelp: 1.0.2
    sphinxcontrib-htmlhelp: 2.0.1
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 1.0.3
    sphinxcontrib-serializinghtml: 1.1.5
    stack-data: 0.6.2
    tables: 3.7.0
    tcia-utils: 1.0.2
    tifffile: 2022.10.10
    tinyarray: 1.2.4
    tomli: 2.0.1
    tornado: 6.2
    traitlets: 5.9.0
    urllib3: 1.26.14
    wcwidth: 0.2.6
    webcolors: 1.12
    wheel: 0.38.4
    wheel-filename: 1.4.1
    widgetsnbextension: 4.0.5
    zipp: 3.15.0

Change History (2)

comment:1 by Eric Pettersen, 20 months ago

Cc: Tom Goddard added
Component: Unassigned → Core
Owner: set to Eric Pettersen
Platform: → all
Project: → ChimeraX
Status: new → accepted
Summary: ChimeraX bug report submission → Crash in event loop

comment:2 by Eric Pettersen, 20 months ago

Status: accepted → feedback

Hi Wei,

Thanks for reporting this problem. Do you remember what you were doing when this crash occurred?

--Eric

Eric Pettersen
UCSF Computer Graphics Lab

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