![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 87 minutes ago
#19963 new defect
ChimeraX bug report submission
| Reported by: | Owned by: | ||
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Unassigned | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | ||
| Project: |
Description
The following bug report has been submitted:
Platform: macOS-14.4-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.
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{
"uptime" : 140000,
"procRole" : "Background",
"version" : 2,
"userID" : 501,
"deployVersion" : 210,
"modelCode" : "Mac15,3",
"coalitionID" : 20211,
"osVersion" : {
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"build" : "23E214",
"releaseType" : "User"
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"captureTime" : "2026-03-11 12:17:32.6430 -0400",
"codeSigningMonitor" : 1,
"incident" : "A48401D4-3184-4877-863E-F9B034F55308",
"pid" : 36585,
"translated" : false,
"cpuType" : "ARM-64",
"roots_installed" : 0,
"bug_type" : "309",
"procLaunch" : "2026-03-11 10:04:01.9277 -0400",
"procStartAbsTime" : 3395554639267,
"procExitAbsTime" : 3587805601896,
"procName" : "ChimeraX",
"procPath" : "\/private\/var\/folders\/*\/ChimeraX-1.11.1.app\/Contents\/MacOS\/ChimeraX",
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "2AC53730-C2BF-5407-5FF6-3ACF1B5BD626",
"codeSigningID" : "",
"codeSigningTeamID" : "",
"codeSigningFlags" : 570491649,
"codeSigningValidationCategory" : 0,
"codeSigningTrustLevel" : 4294967295,
"wakeTime" : 11439,
"sleepWakeUUID" : "2291A9D7-0624-49DF-8D95-FB5E825595BB",
"sip" : "enabled",
"vmRegionInfo" : "0x1037c16b4 is in 0x10356c000-0x103938000; bytes after start: 2447028 bytes before end: 1534283
REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL
ColorSync 103568000-10356c000 [ 16K] r--\/r-- SM=COW
---> mapped file 10356c000-103938000 [ 3888K] r-x\/rwx SM=COW Object_id=51b4cb69
mapped file 103938000-103968000 [ 192K] r--\/rwx SM=COW Object_id=51067569",
"exception" : {"codes":"0x000000000000000a, 0x00000001037c16b4","rawCodes":[10,4353431220],"type":"EXC_BAD_ACCESS","signal":"SIGILL","subtype":"KERN_MEMORY_ERROR at 0x00000001037c16b4"},
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"vmregioninfo" : "0x1037c16b4 is in 0x10356c000-0x103938000; bytes after start: 2447028 bytes before end: 1534283
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ColorSync 103568000-10356c000 [ 16K] r--\/r-- SM=COW
---> mapped file 10356c000-103938000 [ 3888K] r-x\/rwx SM=COW Object_id=51b4cb69
mapped file 103938000-103968000 [ 192K] r--\/rwx SM=COW Object_id=51067569",
"extMods" : {"caller":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"system":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"targeted":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"warnings":0},
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===== Log before crash start =====
Startup Messages
---
note | available bundle cache has not been initialized yet
You can double click a model's Name or ID in the model panel to edit those
fields
UCSF ChimeraX version: 1.11.1 (2026-01-23)
© 2016-2025 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open
> /Volumes/sviswanathan/users/amedda/alphafold/Adrian/TFE3/fold_2025_12_18_19_13_model_0_trimmed.pdb
> /Volumes/sviswanathan/users/amedda/alphafold/Adrian/TFE3/fold_2025_12_18_19_13_summary_confidences_0.json
Opening an AlphaFold PAE file requires first opening the predicted atomic
model. Did not find an open atomic model from the same directory. If the
atomic model is already open choose it using menu
Tools / Structure Prediction / AlphaFold Error Plot
or use the open command structure option, for example
open
/Volumes/sviswanathan/users/amedda/alphafold/Adrian/TFE3/fold_2025_12_18_19_13_summary_confidences_0.json
structure #1
If you are trying to open a JSON file that is not AlphaFold PAE data then you
need to specify the specific JSON format such as
open mole_channels.json format mole
> open
> /Volumes/sviswanathan/users/amedda/alphafold/Adrian/TFE3/fold_2025_12_18_19_13_model_0_trimmed.pdb
Chain information for fold_2025_12_18_19_13_model_0_trimmed.pdb #1
---
Chain | Description
A B | No description available
C D | No description available
> open
> /Volumes/sviswanathan/users/amedda/alphafold/Adrian/TFE3/fold_2025_12_18_19_13_summary_confidences_0.json
JSON file
"/Volumes/sviswanathan/users/amedda/alphafold/Adrian/TFE3/fold_2025_12_18_19_13_summary_confidences_0.json"
is not AlphaFold predicted aligned error data, expected a top level list
> open
> /Volumes/sviswanathan/users/amedda/alphafold/Adrian/TFE3/fold_2025_12_18_19_13_model_0.cif
Chain information for fold_2025_12_18_19_13_model_0.cif #2
---
Chain | Description
A B | .
C D | .
Computing secondary structure
> open
> /Volumes/sviswanathan/users/amedda/alphafold/Adrian/TFE3/fold_2025_12_18_19_13_summary_confidences_0.json
Opening an AlphaFold PAE file requires first opening the predicted atomic
model. Did not find an open atomic model from the same directory. If the
atomic model is already open choose it using menu
Tools / Structure Prediction / AlphaFold Error Plot
or use the open command structure option, for example
open
/Volumes/sviswanathan/users/amedda/alphafold/Adrian/TFE3/fold_2025_12_18_19_13_summary_confidences_0.json
structure #1
If you are trying to open a JSON file that is not AlphaFold PAE data then you
need to specify the specific JSON format such as
open mole_channels.json format mole
> ui tool show "AlphaFold Error Plot"
> alphafold pae #1 file
> /Volumes/sviswanathan/users/amedda/alphafold/Adrian/TFE3/fold_2025_12_18_19_13_full_data_0.json
> ui tool show "AlphaFold Error Plot"
> alphafold pae #1 file
> /Volumes/sviswanathan/users/amedda/alphafold/Adrian/TFE3/fold_2025_12_18_19_13_full_data_0.json
> alphafold pae #1 colorDomains true
> color bfactor #1 palette alphafold
3763 atoms, 447 residues, atom bfactor range 30.5 to 98.7
> hide #2 models
> show #2 models
> hide #!1 models
> ui mousemode right label
> select #2/B:367
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #2/B:370
4 atoms, 3 bonds, 1 residue, 1 model selected
> select #2/B:367
9 atoms, 8 bonds, 1 residue, 1 model selected
Drag select of 14 residues
Drag select of 396 atoms, 1150 residues, 402 bonds
> ui mousemode right label
> select clear
> select #2/B:368
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #2/B:368
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #2/B:391
5 atoms, 4 bonds, 1 residue, 1 model selected
> select #2/A:365
11 atoms, 10 bonds, 1 residue, 1 model selected
> select #2/A:30
11 atoms, 10 bonds, 1 residue, 1 model selected
> select #2/A:109
6 atoms, 5 bonds, 1 residue, 1 model selected
> select #2/A:356
11 atoms, 10 bonds, 1 residue, 1 model selected
> select #2/A:357
11 atoms, 10 bonds, 1 residue, 1 model selected
> select #2/A:355
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #2/A:354
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #2/A:354
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #2/A:355
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #2/A:356
11 atoms, 10 bonds, 1 residue, 1 model selected
> select #2/A:357
11 atoms, 10 bonds, 1 residue, 1 model selected
> select #2/A:356
11 atoms, 10 bonds, 1 residue, 1 model selected
> select #2/A:357
11 atoms, 10 bonds, 1 residue, 1 model selected
> select #2/A:358
11 atoms, 10 bonds, 1 residue, 1 model selected
> select #2/A:359
11 atoms, 10 bonds, 1 residue, 1 model selected
> select #2/B:128
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #2/B:203
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #2/A:318
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #2/A:256
6 atoms, 5 bonds, 1 residue, 1 model selected
> select clear
> select #2/A:539
4 atoms, 3 bonds, 1 residue, 1 model selected
> select clear
> select #2/A:529
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #2/A:527
9 atoms, 8 bonds, 1 residue, 1 model selected
> select clear
> select #2/A:524
8 atoms, 7 bonds, 1 residue, 1 model selected
> select clear
> select #2/A:501
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #2/A:505
11 atoms, 11 bonds, 1 residue, 1 model selected
> select clear
> select #2/A:509
10 atoms, 10 bonds, 1 residue, 1 model selected
> select #2/B:345
11 atoms, 10 bonds, 1 residue, 1 model selected
> show #!1 models
> hide #2 models
> ui mousemode right label
> select add #2
8898 atoms, 9096 bonds, 1162 residues, 1 model selected
> select subtract #2
Nothing selected
> select add #1
3763 atoms, 3820 bonds, 6 pseudobonds, 447 residues, 3 models selected
> ui mousemode right label
> select subtract #1
Nothing selected
> label /A:355,380,385 residues text {0.label}
> ui mousemode right "move picked models"
> label /A:355,380,385 residues text {0.label} onTop true
> set bgColor white
> label listfonts
392 fonts available:
.Apple Symbols Fallback
.AppleSystemUIFont
Academy Engraved LET
Adelle Sans Devanagari
AkayaKanadaka
AkayaTelivigala
Al Bayan
Al Nile
Al Tarikh
Alegreya Sans
American Typewriter
Amiri
Andale Mono
Annai MN
Apple Braille
Apple Chancery
Apple Color Emoji
Apple LiGothic
Apple LiSung
Apple SD Gothic Neo
Apple Symbols
AppleGothic
AppleMyungjo
Arial
Arial Black
Arial Hebrew
Arial Hebrew Scholar
Arial Narrow
Arial Rounded MT Bold
Arial Unicode MS
Arima Koshi
Arima Madurai
Asar
Audiowide
Avenir
Avenir Next
Avenir Next Condensed
Ayuthaya
BM Dohyeon
BM Hanna 11yrs Old
BM Hanna Air
BM Hanna Pro
BM Jua
BM Kirang Haerang
BM Yeonsung
Baghdad
Bai Jamjuree
Baloo 2
Baloo Bhai 2
Baloo Bhaijaan
Baloo Bhaina 2
Baloo Chettan 2
Baloo Da 2
Baloo Paaji 2
Baloo Tamma 2
Baloo Tammudu 2
Baloo Thambi 2
Bangla MN
Bangla Sangam MN
Baoli SC
Baoli TC
Baskerville
Beirut
BiauKaiHK
BiauKaiTC
Big Caslon
Bodoni 72
Bodoni 72 Oldstyle
Bodoni 72 Smallcaps
Bodoni Ornaments
Bradley Hand
Brush Script MT
Bubblegum Sans
Cairo
Cambay
Cambay Devanagari
Caroline
Chakra Petch
Chalkboard
Chalkboard SE
Chalkduster
Charm
Charmonman
Charter
Cochin
Comfortaa
Comic Sans MS
Copperplate
Corsiva Hebrew
Courgette
Courier New
DIN Alternate
DIN Condensed
Damascus
Dancing Script
DecoType Naskh
Devanagari MT
Devanagari Sangam MN
Didact Gothic
Didot
Diwan Kufi
Diwan Thuluth
Eczar
Euphemia UCAS
Fahkwang
Farah
Farisi
Fira Sans Condensed
Futura
GB18030 Bitmap
Galvji
Geeza Pro
Geneva
Georgia
Gill Sans
Gotu
Grantha Sangam MN
Great Vibes
Gujarati MT
Gujarati Sangam MN
GungSeo
Gurmukhi MN
Gurmukhi MT
Gurmukhi Sangam MN
Hannotate SC
Hannotate TC
HanziPen SC
HanziPen TC
HeadLineA
Hei
Heiti SC
Heiti TC
Helvetica
Helvetica Neue
Herculanum
Hiragino Maru Gothic ProN
Hiragino Mincho ProN
Hiragino Sans
Hiragino Sans CNS
Hiragino Sans GB
Hoefler Text
Hubballi
ITF Devanagari
ITF Devanagari Marathi
Impact
InaiMathi
Inconsolata
Indie Flower
Jaini
Jaini Purva
Just Me Again Down Here
K2D
Kai
Kailasa
Kaiti SC
Kaiti TC
Kannada MN
Kannada Sangam MN
Katari
Katibeh
Kaushan Script
Kavivanar
Kefa
Khmer MN
Khmer Sangam MN
Klee
KoHo
Kodchasan
Kohinoor Bangla
Kohinoor Devanagari
Kohinoor Gujarati
Kohinoor Telugu
Kokonor
Krub
Krungthep
KufiStandardGK
Kurale
Lahore Gurmukhi
Laila
Lantinghei SC
Lantinghei TC
Lao MN
Lao Sangam MN
Lava Devanagari
Lava Kannada
Lava Telugu
LiHei Pro
LiSong Pro
Libian SC
Libian TC
Limelight
LingWai SC
LingWai TC
Lobster
Lora
Lucida Grande
Luminari
Maitree
Maku
Malayalam MN
Malayalam Sangam MN
Mali
Markazi Text
Marker Felt
Menlo
Merriweather
Metal Mania
Microsoft Sans Serif
Mishafi
Mishafi Gold
Mitr
Mitr Light
Modak
Monaco
Mshtakan
Mukta
Mukta Mahee
Mukta Malar
Mukta Vaani
Muli
Muna
Myanmar MN
Myanmar Sangam MN
Mystery Quest
Nadeem
Nanum Brush Script
Nanum Gothic
Nanum Myeongjo
Nanum Pen Script
NanumGothic
NanumMyeongjo
New Peninim MT
Niramit
Noteworthy
Noto Nastaliq Urdu
Noto Sans
Noto Sans Arabic
Noto Sans Armenian
Noto Sans Batak
Noto Sans CJK JP
Noto Sans Devanagari
Noto Sans JP
Noto Sans JP Regular
Noto Sans KR
Noto Sans Kannada
Noto Sans Myanmar
Noto Sans NKo
Noto Sans Oriya
Noto Sans SC
Noto Sans SC Light
Noto Sans SC Regular
Noto Sans TC
Noto Sans TC Regular
Noto Sans Tagalog
Noto Sans Thai
Noto Sans Zawgyi
Noto Serif
Noto Serif JP
Noto Serif KR
Noto Serif Kannada
Noto Serif Myanmar
Noto Serif SC
Noto Serif SC Light
October Compressed Devanagari
October Compressed Tamil
October Condensed Devanagari
October Condensed Tamil
October Devanagari
October Tamil
Open Sans
Open Sans Condensed
Optima
Oriya MN
Oriya Sangam MN
Osaka
PCMyungjo
PSL Ornanong Pro
PT Mono
PT Sans
PT Sans Caption
PT Sans Narrow
PT Serif
PT Serif Caption
Padyakke Expanded One
Palatino
Papyrus
Party LET
Patrick Hand
Phosphate
PilGi
PingFang HK
PingFang SC
PingFang TC
Pirata One
Plantagenet Cherokee
Playball
Poiret One
Quicksand
Raanana
Ribeye Marrow
Righteous
Roboto
Roboto Condensed
Roboto Mono
Roboto Slab
Rockwell
STFangsong
STHeiti
STIX Two Math
STIX Two Text
STKaiti
STSong
Sacramento
Sahitya
Sama Devanagari
Sama Gujarati
Sama Gurmukhi
Sama Kannada
Sama Malayalam
Sama Tamil
Sana
Sancreek
Sarabun
Sathu
Savoye LET
Scheherazade
Shadows Into Light Two
Shobhika
Shojumaru
Shree Devanagari 714
SignPainter
Silom
SimSong
Sinhala MN
Sinhala Sangam MN
Skia
Snell Roundhand
Songti SC
Songti TC
Source Code Pro
Source Sans Pro
Srisakdi
Sukhumvit Set
Symbol
Tahoma
Tamil MN
Tamil Sangam MN
Telugu MN
Telugu Sangam MN
Thonburi
Times
Times New Roman
Tiro Bangla
Tiro Devanagari Hindi
Tiro Devanagari Marathi
Tiro Devanagari Sanskrit
Tiro Gurmukhi
Tiro Kannada
Tiro Tamil
Tiro Telugu
Toppan Bunkyu Gothic
Toppan Bunkyu Midashi Gothic
Toppan Bunkyu Midashi Mincho
Toppan Bunkyu Mincho
Trattatello
Trebuchet MS
Tsukushi A Round Gothic
Tsukushi B Round Gothic
Ubuntu Mono
Verdana
Vesper Libre
Waseem
Wawati SC
Wawati TC
Webdings
Wingdings
Wingdings 2
Wingdings 3
Xingkai SC
Xingkai TC
YuGothic
YuKyokasho
YuKyokasho Yoko
YuMincho
YuMincho +36p Kana
Yuanti SC
Yuanti TC
Yuppy SC
Yuppy TC
ZCOOL XiaoWei
Zapf Dingbats
Zapfino
> label listselect /A:45,67,89
Expected one of 'atoms', 'bonds', 'models', 'pseudobonds', or 'residues' or a
keyword
> label listselect atoms /A:45,67,89
Expected one of 'atoms', 'bonds', 'models', 'pseudobonds', or 'residues' or a
keyword
> label /A:45,67,89 text {0.label}
> label /A:355,380,385 residues text {0.label} onTop true size 50
> label /A:355,380,385 size 48
> label /A:355,380,385 size 80
> select #1/B:386
4 atoms, 3 bonds, 1 residue, 1 model selected
> select #1/B:386
4 atoms, 3 bonds, 1 residue, 1 model selected
> label /A:355,380,385 height 6.0
> label /A:355,380,385 height 4.0
> label /A:355,380,385 height 3.0
> label /B:355,380,385 height 3.0
===== 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 - 88
OpenGL renderer: Apple M3
OpenGL vendor: Apple
Python: 3.11.9
Locale: 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: MacBook Pro
Model Identifier: Mac15,3
Model Number: MR7J3LL/A
Chip: Apple M3
Total Number of Cores: 8 (4 performance and 4 efficiency)
Memory: 8 GB
System Firmware Version: 10151.101.3
OS Loader Version: 10151.101.3
Software:
System Software Overview:
System Version: macOS 14.4 (23E214)
Kernel Version: Darwin 23.4.0
Time since boot: 6 days, 22 hours, 59 minutes
Graphics/Displays:
Apple M3:
Chipset Model: Apple M3
Type: GPU
Bus: Built-In
Total Number of Cores: 10
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 P2422H:
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:
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
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