![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 7 months ago
Closed 7 months ago
#17150 closed defect (can't reproduce)
Crash in event loop
| Reported by: | Owned by: | pett | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Core | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-15.3.2-arm64-arm-64bit
ChimeraX Version: 1.9rc202411190203 (2024-11-19 02:03:03 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault
Current thread 0x0000000205878840 (most recent call first):
File "/Applications/ChimeraX-1.9-rc2024.11.19.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py", line 330 in event_loop
File "/Applications/ChimeraX-1.9-rc2024.11.19.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1054 in init
File "/Applications/ChimeraX-1.9-rc2024.11.19.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.pdb_lib._load_libs, chimerax.map._map, charset_normalizer.md, requests.packages.charset_normalizer.md, requests.packages.chardet.md, PIL._imaging, kiwisolver._cext, chimerax.surface._surface, 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, lz4._version, lz4.frame._frame, msgpack._cmsgpack, chimerax.core._serialize, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets, chimerax.atomic._ribbons, chimerax.graphics._graphics, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, chimerax.pdb._pdbio, lxml._elementpath, lxml.etree (total: 57)
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{
"uptime" : 70000,
"procRole" : "Background",
"version" : 2,
"userID" : 349205124,
"deployVersion" : 210,
"modelCode" : "MacBookPro18,3",
"coalitionID" : 13098,
"osVersion" : {
"train" : "macOS 15.3.2",
"build" : "24D81",
"releaseType" : "User"
},
"captureTime" : "2025-03-20 12:22:47.0743 -0400",
"codeSigningMonitor" : 1,
"incident" : "287CD62D-8ECA-436B-992B-C5645D9C8E65",
"pid" : 54124,
"translated" : false,
"cpuType" : "ARM-64",
"roots_installed" : 0,
"bug_type" : "309",
"procLaunch" : "2025-03-20 12:01:25.1189 -0400",
"procStartAbsTime" : 1666162291941,
"procExitAbsTime" : 1696928489003,
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX-1.9-rc2024.11.19.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.9.0","CFBundleVersion":"1.9.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
"storeInfo" : {"deviceIdentifierForVendor":"2F072CF4-EFE6-5940-8246-E9A5CD3C5D57","thirdParty":true},
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "ACD670C4-92DC-6CB7-8BF1-4F8BCF0D4432",
"codeSigningID" : "edu.ucsf.cgl.ChimeraX",
"codeSigningTeamID" : "LWV8X224YF",
"codeSigningFlags" : 570491649,
"codeSigningValidationCategory" : 6,
"codeSigningTrustLevel" : 4294967295,
"instructionByteStream" : {"beforePC":"fyMD1f17v6n9AwCRcuD\/l78DAJH9e8Go\/w9f1sADX9YQKYDSARAA1A==","atPC":"AwEAVH8jA9X9e7+p\/QMAkWfg\/5e\/AwCR\/XvBqP8PX9bAA1\/WcAqA0g=="},
"bootSessionUUID" : "A7982EC1-1B28-4CE4-87E8-CB19128CB912",
"wakeTime" : 4993,
"sleepWakeUUID" : "3F9A604D-3DD9-4A1E-BB41-5D8EC15EEF32",
"sip" : "enabled",
"vmRegionInfo" : "0x5e44a4bdc9a8 is not in any region. Bytes after previous region: 103167878351273 Bytes before following region: 1904201578072\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n commpage (reserved) 1000000000-7000000000 [384.0G] ---\/--- SM=NUL reserved VM address space (unallocated)\n---> GAP OF 0x5f9000000000 BYTES\n MALLOC_NANO 600000000000-600020000000 [512.0M] rw-\/rwx SM=PRV ",
"exception" : {"codes":"0x0000000000000001, 0x00005e44a4bdc9a8","rawCodes":[1,103648914688424],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x00005e44a4bdc9a8"},
"termination" : {"flags":0,"code":11,"namespace":"SIGNAL","indicator":"Segmentation fault: 11","byProc":"ChimeraX","byPid":54124},
"vmregioninfo" : "0x5e44a4bdc9a8 is not in any region. Bytes after previous region: 103167878351273 Bytes before following region: 1904201578072\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n commpage (reserved) 1000000000-7000000000 [384.0G] ---\/--- SM=NUL reserved VM address space (unallocated)\n---> GAP OF 0x5f9000000000 BYTES\n MALLOC_NANO 600000000000-600020000000 [512.0M] rw-\/rwx SM=PRV ",
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===== Log before crash start =====
UCSF ChimeraX version: 1.9rc202411190203 (2024-11-19)
© 2016-2024 Regents of the University of California. All rights reserved.
> open "/Users/yw3310/Desktop/BLU945+L718V clash.cxs"
Log from Fri Jan 17 16:31:21 2025UCSF ChimeraX version: 1.9rc202411190203
(2024-11-19)
© 2016-2024 Regents of the University of California. All rights reserved.
> open "/Users/yw3310/Desktop/BLU945+L718V clash.cxs"
Log from Thu Jan 9 17:40:46 2025UCSF ChimeraX version: 1.9rc202411190203
(2024-11-19)
© 2016-2024 Regents of the University of California. All rights reserved.
> open "/Users/yw3310/Desktop/BLU945+L718V clash.cxs"
Log from Fri Nov 22 18:04:45 2024 Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.9rc202411190203 (2024-11-19)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open 8D76 format mmcif fromDatabase pdb
8d76 title:
Crystal Structure of EGFR LRTM with compound 24 [more info...]
Chain information for 8d76 #1
---
Chain | Description | UniProt
A B | Epidermal growth factor receptor | EGFR_HUMAN 695-1022
Non-standard residues in 8d76 #1
---
GOL — glycerol (glycerin; propane-1,2,3-triol)
QFO —
(3S,4R)-3-fluoro-1-(4-{[8-{3-[(methanesulfonyl)methyl]azetidin-1-yl}-5-(propan-2-yl)-2,7-naphthyridin-3-yl]amino}pyrimidin-2-yl)-3-methylpiperidin-4-ol
8d76 mmCIF Assemblies
---
1| author_and_software_defined_assembly
2| author_and_software_defined_assembly
32 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.
> select ::name="QFO"
76 atoms, 84 bonds, 2 residues, 1 model selected
> surface sel
> surface style mesh
> transparency (#!1 & sel) 30
> select clear
> select /A:1504@C5
1 atom, 1 residue, 1 model selected
> select up
38 atoms, 42 bonds, 1 residue, 2 models selected
> view sel
> set bgColor white
> select clear
> ui tool show "Show Sequence Viewer"
> sequence chain /A /B
Alignment identifier is 1
> select /A-B:718
16 atoms, 14 bonds, 2 residues, 1 model selected
> select /A-B:718
16 atoms, 14 bonds, 2 residues, 1 model selected
> select up
2 atoms, 1 bond, 1 residue, 1 model selected
> select up
8 atoms, 7 bonds, 1 residue, 1 model selected
> style sel stick
Changed 8 atom styles
> style sel stick
Changed 8 atom styles
> hide sel cartoons
> ui tool show Rotamers
> swapaa interactive sel VAL rotLib Dunbrack
/A LEU 718: phi -94.3, psi -28.8 trans
Changed 12 bond radii
> clashes #!1 & ~#!1/A:718 & ~solvent radius 0.065 reveal true restrict #1.3 &
> ~@c,ca,n
11 clashes
> show sel cartoons
> lighting full
> lighting simple
> save /Users/yw3310/Desktop/image10.png supersample 3
> save "/Users/yw3310/Desktop/BLU945+L718V clash.cxs"
——— End of log from Fri Nov 22 18:04:45 2024 ———
opened ChimeraX session
> select
> /A-B:706-707,712-721,724-731,740-746,777-782,786-790,833-834,843-847,850-853,860-861,869-870,890-891
874 atoms, 868 bonds, 110 residues, 1 model selected
> select clear
> select /A-B:718
16 atoms, 14 bonds, 2 residues, 1 model selected
> select up
150 atoms, 150 bonds, 20 residues, 1 model selected
> select up
5025 atoms, 5135 bonds, 625 residues, 1 model selected
> color sel light gray
> lighting full
> select clear
Drag select of 8d76_A SES surface, 82 of 8542 triangles, 1 atoms, 1 bonds
> select up
2 atoms, 1 bond, 1 residue, 2 models selected
> select up
38 atoms, 42 bonds, 1 residue, 2 models selected
> color (#!1 & sel) orange red
> surface hidePatches (#!1 & sel)
> select clear
Drag select of 3 residues, 1 bonds
> select clear
Drag select of 3 atoms, 3 residues, 3 bonds
Drag select of 11 atoms, 10 residues, 10 bonds
> select up
179 atoms, 179 bonds, 22 residues, 1 model selected
> select up
2510 atoms, 2565 bonds, 312 residues, 1 model selected
> select up
2881 atoms, 2627 bonds, 626 residues, 1 model selected
> select down
2510 atoms, 2565 bonds, 312 residues, 2 models selected
> select up
2881 atoms, 2627 bonds, 626 residues, 1 model selected
> select down
2510 atoms, 2565 bonds, 312 residues, 2 models selected
> select up
2881 atoms, 2627 bonds, 626 residues, 1 model selected
> color (#!1 & sel) light gray
> select clear
Drag select of 3 atoms, 1 residues, 4 bonds
> select clear
Drag select of 1 bonds
> select up
2 atoms, 1 bond, 1 residue, 1 model selected
> select up
38 atoms, 42 bonds, 1 residue, 2 models selected
> color (#!1 & sel) orange red
> select clear
> select /A-B:718
16 atoms, 14 bonds, 2 residues, 1 model selected
> select /A-B:718
16 atoms, 14 bonds, 2 residues, 1 model selected
> color sel blue
> color sel cornflower blue
> select clear
Drag select of 1 atoms
> select up
38 atoms, 42 bonds, 1 residue, 2 models selected
> surface style #1.1 mesh
> surface (#!1 & sel)
> transparency (#!1 & sel) 50
> select clear
Drag select of 1 bonds
> select clear
> select /A-B:718
16 atoms, 14 bonds, 2 residues, 1 model selected
> select /A-B:718
16 atoms, 14 bonds, 2 residues, 1 model selected
> ui tool show Rotamers
Populating font family aliases took 160 ms. Replace uses of missing font
family "Times" with one that exists to avoid this cost.
> swapaa interactive sel VAL rotLib Dunbrack
/A LEU 718: phi -94.3, psi -28.8 trans
Changed 12 bond radii
> clashes #!1 & ~#!1/A:718 & ~solvent radius 0.065 reveal true restrict #1.3 &
> ~@c,ca,n
11 clashes
> select clear
> save /Users/yw3310/Desktop/image20.png supersample 3
> lighting full
> lighting soft
> lighting simple
> lighting soft
> lighting flat
> lighting full
[Repeated 1 time(s)]
> lighting soft
> lighting flat
> lighting shadows true intensity 0.5
> lighting shadows false
> lighting shadows true
> lighting shadows false
> lighting shadows true
> lighting shadows false
> graphics silhouettes false
> graphics silhouettes true
> lighting flat
[Repeated 1 time(s)]
> lighting soft
[Repeated 1 time(s)]
> lighting simple
[Repeated 1 time(s)]
> lighting flat
> lighting soft
> lighting shadows true intensity 0.5
> graphics silhouettes false
> lighting soft
> lighting full
> lighting soft
> lighting simple
> lighting soft
> save /Users/yw3310/Desktop/image21.png supersample 3
> save /Users/yw3310/Desktop/image22.png supersample 3
> save "/Users/yw3310/Desktop/BLU945+L718V clash.cxs"
——— End of log from Thu Jan 9 17:40:46 2025 ———
opened ChimeraX session
Drag select of 8d76_A SES surface, 181 of 8542 triangles, 1 bonds
> select up
2 atoms, 1 bond, 1 residue, 1 model selected
> select up
38 atoms, 42 bonds, 1 residue, 2 models selected
> ui tool show "Color Actions"
> color sel salmon
> color sel byhetero
> surface style #1.1 mesh
> transparency (#!1 & sel) 40
> select clear
Drag select of 8d76_A SES surface, 40 of 8542 triangles, 1 atoms, 1 bonds
> select up
2 atoms, 1 bond, 1 residue, 2 models selected
> select up
38 atoms, 42 bonds, 1 residue, 2 models selected
> transparency (#!1 & sel) 60
> select clear
> lighting soft
[Repeated 1 time(s)]
> lighting simple
[Repeated 1 time(s)]
> lighting soft
> lighting flat
[Repeated 1 time(s)]
> lighting soft
> lighting flat
[Repeated 1 time(s)]
> lighting simple
> graphics silhouettes false
> lighting soft
> graphics silhouettes true
> lighting shadows true intensity 0.5
> graphics silhouettes false
> lighting soft
> lighting flat
[Repeated 1 time(s)]
> lighting simple
[Repeated 1 time(s)]
> lighting flat
> lighting shadows true intensity 0.5
> lighting shadows false
> graphics silhouettes false
> graphics silhouettes true
> graphics silhouettes false
> lighting soft
> lighting full
[Repeated 1 time(s)]
> lighting flat
[Repeated 1 time(s)]
> lighting soft
[Repeated 1 time(s)]
> lighting flat
> lighting shadows true intensity 0.5
> lighting shadows false
> graphics silhouettes false
> graphics silhouettes true
> graphics silhouettes false
> graphics silhouettes true
> lighting soft
[Repeated 1 time(s)]
> lighting shadows true intensity 0.5
> lighting shadows false
> lighting simple
[Repeated 4 time(s)]
> graphics silhouettes false
> lighting soft
[Repeated 1 time(s)]
> lighting flat
[Repeated 1 time(s)]
> lighting soft
[Repeated 1 time(s)]
> graphics silhouettes false
> graphics silhouettes true
> graphics silhouettes false
> graphics silhouettes true
> lighting flat
[Repeated 1 time(s)]
> lighting simple
> lighting soft
> graphics silhouettes false
> lighting soft
> lighting simple
> lighting soft
> select /A-B:718
16 atoms, 14 bonds, 2 residues, 1 model selected
> select /A-B:718
16 atoms, 14 bonds, 2 residues, 1 model selected
> ui tool show Rotamers
Populating font family aliases took 165 ms. Replace uses of missing font
family "Times" with one that exists to avoid this cost.
> swapaa interactive sel VAL rotLib Dunbrack
/A LEU 718: phi -94.3, psi -28.8 trans
Changed 12 bond radii
> clashes #!1 & ~#!1/A:718 & ~solvent radius 0.065 reveal true restrict #1.3 &
> ~@c,ca,n
11 clashes
> color #2 #ffd479ff models
> select clear
Drag select of 8d76_A SES surface, 34 of 8542 triangles, 1 atoms, 1 bonds
> select up
2 atoms, 1 bond, 1 residue, 2 models selected
> select up
38 atoms, 42 bonds, 1 residue, 2 models selected
> transparency (#!1 & sel) 80
> select clear
> color #2 #73fa79ff models
> color #2 #00f900ff models
> color #2 #0433ffff models
> color #2 #9437ffff models
> color #2 #ff40ffff models
> color #2 #ff85ffff models
> color #2 #d783ffff models
> color #2 #ff2f92ff models
> color #2 #941751ff models
> color #2 #929292ff models
> color #2 #00f900ff models
> color #2 #929000ff models
> color #2 #ff9300ff models
> color #2 #ffd479ff models
> color #2 #fffc79ff models
> color #2 #73fa79ff models
> color #2 #73fdffff models
> color #2 #ff85ffff models
> color #2 #ff8ad8ff models
> color #2 #ff2f92ff models
> save /Users/yw3310/Desktop/image27.png supersample 3
> save /Users/yw3310/Desktop/image28.png supersample 3
> save "/Users/yw3310/Desktop/BLU945+L718V clash.cxs"
——— End of log from Fri Jan 17 16:31:21 2025 ———
opened ChimeraX session
> select #!1/A-B:718
16 atoms, 14 bonds, 2 residues, 1 model selected
> select #!1/A-B:718
16 atoms, 14 bonds, 2 residues, 1 model selected
> select :718
16 atoms, 14 bonds, 2 residues, 1 model selected
> label sel
> label ss
Expected one of 'atoms', 'bonds', 'models', 'pseudobonds', or 'residues' or a
keyword
> cartoon style edged
Expected an atoms specifier or a keyword
> show sel cartoons
> select #!1/A-B:712
22 atoms, 22 bonds, 2 residues, 1 model selected
> select #!1/A-B:712-721
150 atoms, 150 bonds, 20 residues, 1 model selected
> select :718
16 atoms, 14 bonds, 2 residues, 1 model selected
> label sel
> label sel text "/{0.chain_id} {0.name} {0.number}{0.insertion_code}"
> label sel residues attribute chi1
> ui tool show Angles/Torsions
> log metadata
No models had metadata
===== Log before crash end =====
Log:
Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.9rc202411190203 (2024-11-19)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open /Users/yw3310/Downloads/new_models/L858R_L718V.pdb
Chain information for L858R_L718V.pdb #1
---
Chain | Description
? | No description available
Computing secondary structure
OpenGL version: 4.1 Metal - 89.3
OpenGL renderer: Apple M1 Pro
OpenGL vendor: Apple
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 Pro
Model Identifier: MacBookPro18,3
Model Number: MKGP3LL/A
Chip: Apple M1 Pro
Total Number of Cores: 8 (6 performance and 2 efficiency)
Memory: 16 GB
System Firmware Version: 11881.81.4
OS Loader Version: 11881.81.4
Software:
System Software Overview:
System Version: macOS 15.3.2 (24D81)
Kernel Version: Darwin 24.3.0
Time since boot: 2 days, 22 hours, 33 minutes
Graphics/Displays:
Apple M1 Pro:
Chipset Model: Apple M1 Pro
Type: GPU
Bus: Built-In
Total Number of Cores: 14
Vendor: Apple (0x106b)
Metal Support: Metal 3
Displays:
Color LCD:
Display Type: Built-in Liquid Retina XDR Display
Resolution: 3024 x 1964 Retina
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
DELL P2722HE:
Resolution: 1920 x 1080 (1080p FHD - Full High Definition)
UI Looks like: 1920 x 1080 @ 60.00Hz
Mirror: Off
Online: Yes
Rotation: Supported
Installed Packages:
alabaster: 1.0.0
appdirs: 1.4.4
appnope: 0.1.4
asttokens: 2.4.1
auditwheel: 6.1.0
babel: 2.16.0
beautifulsoup4: 4.12.3
blockdiag: 3.0.0
blosc2: 2.7.1
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: 1.58.7
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: 2.4.7
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: 1.9rc202411190203
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: 1.1.11
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: 1.6.1
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: 3.3.0
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: 1.8.8
decorator: 5.1.1
docutils: 0.21.2
executing: 2.1.0
filelock: 3.15.4
fonttools: 4.55.0
funcparserlib: 2.0.0a0
glfw: 2.7.0
grako: 3.16.5
h5py: 3.12.1
html2text: 2024.2.26
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: 2.10.1
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
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: 6.4.1
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
Change History (2)
comment:1 by , 7 months ago
| Component: | Unassigned → Core |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → accepted |
| Summary: | ChimeraX bug report submission → Crash in event loop |
comment:2 by , 7 months ago
| Resolution: | → can't reproduce |
|---|---|
| Status: | accepted → closed |
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