id	summary	reporter	owner	description	type	status	priority	milestone	component	version	resolution	keywords	cc	blockedby	blocking	notify_on_close	platform	project
15997	Crash on Mac waking from sleep	chimerax-bug-report@…	Tom Goddard	"{{{
The following bug report has been submitted:
Platform:        macOS-15.0-x86_64-i386-64bit
ChimeraX Version: 1.8 (2024-06-10 23:15:52 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
{""app_name"":""ChimeraX"",""timestamp"":""2024-09-23 18:35:12.00 +0200"",""app_version"":""1.8.0"",""slice_uuid"":""194a3167-3db5-3029-8d22-1d742b826bb9"",""build_version"":""1.8.0.0"",""platform"":1,""bundleID"":""edu.ucsf.cgl.ChimeraX"",""share_with_app_devs"":1,""is_first_party"":0,""bug_type"":""309"",""os_version"":""macOS 15.0 (24A335)"",""roots_installed"":0,""name"":""ChimeraX"",""incident_id"":""4091F13E-8BC9-499B-B576-FC16F42D316C""}
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===== Log before crash start =====
Startup Messages  
---  
note | available bundle cache has not been initialized yet  
  
UCSF ChimeraX version: 1.8 (2024-06-10)  
© 2016-2024 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open /Users/lau/Downloads/5huu.cif

5huu.cif title:  
Structure of Candida albicans trehalose-6-phosphate synthase in complex with
UDP and glucose-6-phosphate [more info...]  
  
Chain information for 5huu.cif #1  
---  
Chain | Description | UniProt  
A B | Alpha,alpha-trehalose-phosphate synthase [UDP-forming] | TPS1_CANAL 1-478  
  
Non-standard residues in 5huu.cif #1  
---  
G6P — 6-O-phosphono-alpha-D-glucopyranose (ALPHA-D-GLUCOSE-6-PHOSPHATE;
6-O-phosphono-alpha-D-glucose; 6-O-phosphono-D-glucose; 6-O-phosphono-glucose)  
UDP — uridine-5'-diphosphate  
  
5huu.cif mmCIF Assemblies  
---  
1| author_defined_assembly  
2| software_defined_assembly  
  

> sym #1 assembly 1

Made 2 copies for 5huu.cif assembly 1  

> view

> sym #1 assembly 1

Made 2 copies for 5huu.cif assembly 1  

> view

> sym #1 assembly 2

Made 2 copies for 5huu.cif assembly 2  

> view

> sym #1 assembly 2

Made 2 copies for 5huu.cif assembly 2  

> view

> show #!1 models

> hide #!3 models

> hide #!4 models

> hide #!5 models

> hide #!5.1 models

> hide #!5.2 models

> hide #!4.2 models

> hide #!4.1 models

> hide #!3.2 models

> hide #!3.1 models

> hide #!1 models

> hide #!2.2 models

> hide #!2.1 models

> hide #!2 models

> hide #1.1 models

> show #!1 models

> show #1.1 models

> hide #1.1 models

> close #3

> close #5

> select /B

14872 atoms, 15124 bonds, 12 pseudobonds, 1908 residues, 8 models selected  

> select add #2.1

18738 atoms, 19052 bonds, 12 pseudobonds, 2410 residues, 9 models selected  

> ui tool show ""Show Sequence Viewer""

> sequence chain #1/A #1/B #2.1/A #2.2/B #4.1/A #4.1/B #4.2/A #4.2/B

Alignment identifier is 1  

> select
> #1/A:6-12,15-18,26-29,47-52,75-77,138-142,165-169,198-201,221-224,227-230,233-239,273-280,308-315,350-353,371-374,398-402,415-417/B:6-12,15-29,47-52,75-77,138-142,165-169,198-201,221-224,227-230,233-239,273-280,308-315,350-353,371-374,398-402,415-417
> #2.1/A:6-12,15-18,26-29,47-52,75-77,138-142,165-169,198-201,221-224,227-230,233-239,273-280,308-315,350-353,371-374,398-402,415-417
> #2.2/B:6-12,15-29,47-52,75-77,138-142,165-169,198-201,221-224,227-230,233-239,273-280,308-315,350-353,371-374,398-402,415-417
> #4.1/A:6-12,15-18,26-29,47-52,75-77,138-142,165-169,198-201,221-224,227-230,233-239,273-280,308-315,350-353,371-374,398-402,415-417/B:6-12,15-29,47-52,75-77,138-142,165-169,198-201,221-224,227-230,233-239,273-280,308-315,350-353,371-374,398-402,415-417
> #4.2/A:6-12,15-18,26-29,47-52,75-77,138-142,165-169,198-201,221-224,227-230,233-239,273-280,308-315,350-353,371-374,398-402,415-417/B:6-12,15-29,47-52,75-77,138-142,165-169,198-201,221-224,227-230,233-239,273-280,308-315,350-353,371-374,398-402,415-417

5332 atoms, 5324 bonds, 4 pseudobonds, 672 residues, 9 models selected  

> select #1/A-B:27 #2.1/A:27 #2.2/B:27 #4.1/A-B:27 #4.2/A-B:27

96 atoms, 96 bonds, 8 residues, 5 models selected  

> select
> #1/A:32-43,58-73,81-90,96-108,111-133,144-158,176-181,185-194,203-218,245-253,255-269,282-305,321-343,358-369,383-391,405-410,421-470/B:34-41,58-73,81-90,96-108,111-133,144-158,176-181,185-194,203-218,245-253,255-269,282-305,321-343,358-369,383-391,405-410,421-470
> #2.1/A:32-43,58-73,81-90,96-108,111-133,144-158,176-181,185-194,203-218,245-253,255-269,282-305,321-343,358-369,383-391,405-410,421-470
> #2.2/B:34-41,58-73,81-90,96-108,111-133,144-158,176-181,185-194,203-218,245-253,255-269,282-305,321-343,358-369,383-391,405-410,421-470
> #4.1/A:32-43,58-73,81-90,96-108,111-133,144-158,176-181,185-194,203-218,245-253,255-269,282-305,321-343,358-369,383-391,405-410,421-470/B:34-41,58-73,81-90,96-108,111-133,144-158,176-181,185-194,203-218,245-253,255-269,282-305,321-343,358-369,383-391,405-410,421-470
> #4.2/A:32-43,58-73,81-90,96-108,111-133,144-158,176-181,185-194,203-218,245-253,255-269,282-305,321-343,358-369,383-391,405-410,421-470/B:34-41,58-73,81-90,96-108,111-133,144-158,176-181,185-194,203-218,245-253,255-269,282-305,321-343,358-369,383-391,405-410,421-470

17504 atoms, 17784 bonds, 2136 residues, 5 models selected  

> select #1/A-B:89 #2.1/A:89 #2.2/B:89 #4.1/A-B:89 #4.2/A-B:89

96 atoms, 96 bonds, 8 residues, 5 models selected  

> select #1/A-B:89 #2.1/A:89 #2.2/B:89 #4.1/A-B:89 #4.2/A-B:89

96 atoms, 96 bonds, 8 residues, 5 models selected  
Alpha,alpha-trehalose-phosphate Synthase [UDP-forming] [ID: 1] region 8 chains
[89] RMSD: 40.948  
  

> select /B:89

48 atoms, 48 bonds, 4 residues, 4 models selected  

> select /B:89,285,379,387

152 atoms, 140 bonds, 16 residues, 4 models selected  

> color (#!1 & sel) red

> open AF-Q9SYM4-F1 fromDatabase alphafold format mmcif

UniProt identifiers must be 6 or 10 characters long, got ""AF-Q9SYM4-F1""  

> open Q9SYM4 fromDatabase alphafold format mmcif

Summary of feedback from opening Q9SYM4 fetched from alphafold  
---  
note | Fetching AlphaFold database settings from https://www.rbvi.ucsf.edu/chimerax/data/status/alphafold_database3.json  
  
Chain information for AlphaFold Q9SYM4 #3  
---  
Chain | Description | UniProt  
A | Alpha,alpha-trehalose-phosphate synthase [UDP-forming] 1 | TPS1_ARATH 1-942  
  
Color AlphaFold Q9SYM4 by residue attribute pLDDT_score  

> close #1

> show #!2 target m

> show #!2.1 target m

> ui tool show Matchmaker

> matchmaker #3 to #2.1

Parameters  
---  
Chain pairing | bb  
Alignment algorithm | Needleman-Wunsch  
Similarity matrix | BLOSUM-62  
SS fraction | 0.3  
Gap open (HH/SS/other) | 18/18/6  
Gap extend | 1  
SS matrix |  |  | H | S | O  
---|---|---|---  
H | 6 | -9 | -6  
S |  | 6 | -6  
O |  |  | 4  
Iteration cutoff | 2  
  
Matchmaker 5huu.cif, chain A (#2.1) with AlphaFold Q9SYM4, chain A (#3),
sequence alignment score = 1495.7  
RMSD between 394 pruned atom pairs is 0.829 angstroms; (across all 462 pairs:
1.944)  
  

> color #3 #ff2ad5ff

> color #3 #4eff70ff

> color #3 #3bbf54ff

> color #3 #184f23ff

> color #3 #004c2fff

> select /B:89,285,379,387

114 atoms, 105 bonds, 12 residues, 3 models selected  

> color #2.1 #dba071ff

> color #2.1 #dbd4c1ff

> color #2.1 #dbd3bbff

> select #2.1:89,285,379,387

38 atoms, 35 bonds, 4 residues, 1 model selected  

> color sel lime

> select #2.2

3718 atoms, 3781 bonds, 3 pseudobonds, 477 residues, 2 models selected  

> show #!2.2 models

> 379

Unknown command: 379  

> select #2.2:89,285,379,387

38 atoms, 35 bonds, 4 residues, 1 model selected  

> hide #!2.2 models

> color #3 #00a76fff

> color #3 #008659ff

> color #3 #008559ff

> color #3 #00312fff

> color #3 #007974ff

> color #3 #007a75ff

> color #3 #004c2fff

> color #3 #00c176ff

> color #3 #67c19aff

> color #3 #5ec186ff

> color #3 #83c188ff

> color #3 #40c154ff

> color #3 #50c145ff

> color #3 #6ec177ff

> color #3 #71c175ff

> color #3 #7fc178ff

> color #3 #33c129ff

> color #3 #155011ff

> color #3 #175813ff

> color #3 #1c582dff

> color #3 #1c412dff

> color #3 #1c3f2dff

> color #3 #1c3f2dc7

> color #3 #1c3f2dd0

> color #3 #1c652dd0

> color #3 #1c6541d0

> select #2.1 /A

3866 atoms, 3928 bonds, 502 residues, 1 model selected  

> select #2.1 /A G6P

Expected a keyword  

> select #2.1 /A:G6P

27 atoms, 27 bonds, 1 residue, 1 model selected  

> color sel cyan

> select #2.1 /A:UDP

36 atoms, 37 bonds, 1 residue, 1 model selected  

> color sel cyan

> ui tool show ""Side View""

> select clear

> select subtract #2.1.1

Nothing selected  

> select add #3

7462 atoms, 7624 bonds, 942 residues, 1 model selected  

> select subtract #2.1.1

7462 atoms, 7624 bonds, 942 residues, 1 model selected  

> log metadata #3

The model has no metadata

> log chains #3

Chain information for AlphaFold Q9SYM4 #3  
---  
Chain | Description | UniProt  
A | Alpha,alpha-trehalose-phosphate synthase [UDP-forming] 1 | TPS1_ARATH 1-942  
  

> select #3

7462 atoms, 7624 bonds, 942 residues, 1 model selected  

> select #3:176,374,468,476

38 atoms, 35 bonds, 4 residues, 1 model selected  

> show sel atoms

> color sel light sea green

> select clear

> select #2.1 /A:UDP

36 atoms, 37 bonds, 1 residue, 1 model selected  

> color sel red

> select #2.1 /A:G6P

27 atoms, 27 bonds, 1 residue, 1 model selected  

> color sel red

> select #3:176,374,468,476

38 atoms, 35 bonds, 4 residues, 1 model selected  

> color sel light sea green

> color #3 #1cbe93ff

> select clear

> select #2.1 /B: 89

Nothing selected  

> select #2.1 /B:89

Nothing selected  

> select #2.1 89

Expected a keyword  

> select #2.1 /B

Nothing selected  

> select #2.2:89,285,379,387

38 atoms, 35 bonds, 4 residues, 1 model selected  

> select #2.1:89,285,379,387

38 atoms, 35 bonds, 4 residues, 1 model selected  

> color sel gray

> color sel dim gray

> select #2.1

3866 atoms, 3928 bonds, 502 residues, 1 model selected  

> color sel gray

> select #3

7462 atoms, 7624 bonds, 942 residues, 1 model selected  

> color sel light sea green

> select #2.1 /A:G6P

27 atoms, 27 bonds, 1 residue, 1 model selected  

> select #2.1 /A:G6P,UDP

63 atoms, 64 bonds, 2 residues, 1 model selected  

> color sel orange red

> color sel red

> select clear

> select #3

7462 atoms, 7624 bonds, 942 residues, 1 model selected  

> select #3: 176,374,468,476

38 atoms, 35 bonds, 4 residues, 1 model selected  

> color sel medium blue

> select #2.1: 89,285,468,476

33 atoms, 32 bonds, 3 residues, 1 model selected  

> color sel white

> select #2.1: 89,285,379,476

29 atoms, 27 bonds, 3 residues, 1 model selected  

> color sel white

> select #2.1: 89,285,379,387

38 atoms, 35 bonds, 4 residues, 1 model selected  

> color sel white

> show sel cartoons

> show sel atoms

> select #2.1: 89,285,379,387

38 atoms, 35 bonds, 4 residues, 1 model selected  

> label sel text ""/{0.chain_id} {0.name} {0.number}{0.insertion_code}""

> label sel residues bgColor grey

> label sel residues height 1

> select #3: 176,374,468,476

38 atoms, 35 bonds, 4 residues, 1 model selected  

> label sel residues bgColor blue

> label sel residues height 1

> ui tool show ""Side View""

> label sel residues height 0.8

> select #3: 119

5 atoms, 4 bonds, 1 residue, 1 model selected  

> color sel yellow

> show sel atoms

> save /Users/lau/Desktop/image1.png supersample 3


===== Log before crash end =====

Log:
Startup Messages  
---  
note | available bundle cache has not been initialized yet  
  
UCSF ChimeraX version: 1.8 (2024-06-10)  
© 2016-2024 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  




OpenGL version: 4.1 INTEL-23.0.21
OpenGL renderer: Intel(R) Iris(TM) Plus Graphics 655
OpenGL vendor: Intel Inc.

Python: 3.11.4
Locale: UTF-8
Qt version: PyQt6 6.6.1, Qt 6.6.1
Qt runtime version: 6.6.3
Qt platform: cocoa
Hardware:

    Hardware Overview:

      Model Name: MacBook Pro
      Model Identifier: MacBookPro15,2
      Processor Name: Quad-Core Intel Core i5
      Processor Speed: 2.3 GHz
      Number of Processors: 1
      Total Number of Cores: 4
      L2 Cache (per Core): 256 KB
      L3 Cache: 6 MB
      Hyper-Threading Technology: Enabled
      Memory: 16 GB
      System Firmware Version: 2069.0.0.0.0 (iBridge: 22.16.10353.0.0,0)
      OS Loader Version: 582~1023

Software:

    System Software Overview:

      System Version: macOS 15.0 (24A335)
      Kernel Version: Darwin 24.0.0
      Time since boot: 1 day, 36 minutes

Graphics/Displays:

    Intel Iris Plus Graphics 655:

      Chipset Model: Intel Iris Plus Graphics 655
      Type: GPU
      Bus: Built-In
      VRAM (Dynamic, Max): 1536 MB
      Vendor: Intel
      Device ID: 0x3ea5
      Revision ID: 0x0001
      Metal Support: Metal 3
      Displays:
        Color LCD:
          Display Type: Built-In Retina LCD
          Resolution: 2560 x 1600 Retina
          Framebuffer Depth: 30-Bit Color (ARGB2101010)
          Main Display: Yes
          Mirror: Off
          Online: Yes
          Automatically Adjust Brightness: Yes
          Connection Type: Internal
        DELL P2425:
          Resolution: 1920 x 1200 (WUXGA - Widescreen Ultra eXtended Graphics Array)
          UI Looks like: 1920 x 1200 @ 60.00Hz
          Framebuffer Depth: 30-Bit Color (ARGB2101010)
          Display Serial Number: BNPC304     
          Mirror: Off
          Online: Yes
          Rotation: Supported
          Connection Type: DVI or HDMI
          Adapter Firmware Version: 7.55
        DELL P2425:
          Resolution: 1920 x 1200 (WUXGA - Widescreen Ultra eXtended Graphics Array)
          UI Looks like: 1920 x 1200 @ 59.00Hz
          Framebuffer Depth: 30-Bit Color (ARGB2101010)
          Display Serial Number: 1CRC304     
          Mirror: Off
          Online: Yes
          Rotation: Supported
          Connection Type: Thunderbolt/DisplayPort


Installed Packages:
    alabaster: 0.7.16
    appdirs: 1.4.4
    appnope: 0.1.4
    asttokens: 2.4.1
    Babel: 2.15.0
    beautifulsoup4: 4.12.3
    blockdiag: 3.0.0
    blosc2: 2.0.0
    build: 1.2.1
    certifi: 2023.11.17
    cftime: 1.6.4
    charset-normalizer: 3.3.2
    ChimeraX-AddCharge: 1.5.17
    ChimeraX-AddH: 2.2.6
    ChimeraX-AlignmentAlgorithms: 2.0.2
    ChimeraX-AlignmentHdrs: 3.5
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 2.12.7
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.1.1
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.1
    ChimeraX-Atomic: 1.57.1
    ChimeraX-AtomicLibrary: 14.0.6
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.4
    ChimeraX-BasicActions: 1.1.2
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 2.4.6
    ChimeraX-BondRot: 2.0.4
    ChimeraX-BugReporter: 1.0.1
    ChimeraX-BuildStructure: 2.12.1
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.2.7
    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: 2.2.4
    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: 1.8
    ChimeraX-CoreFormats: 1.2
    ChimeraX-coulombic: 1.4.3
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DataFormats: 1.2.3
    ChimeraX-Dicom: 1.2.4
    ChimeraX-DiffPlot: 1.0
    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: 1.1.1
    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: 1.1.10
    ChimeraX-ListInfo: 1.2.2
    ChimeraX-Log: 1.1.6
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.9.1
    ChimeraX-Map: 1.2
    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: 2.1.3
    ChimeraX-MCopy: 1.0
    ChimeraX-MDcrds: 2.7.1
    ChimeraX-MedicalToolbar: 1.0.3
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.14.1
    ChimeraX-MMTF: 2.2
    ChimeraX-Modeller: 1.5.17
    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-Neuron: 1.0
    ChimeraX-Nifti: 1.2
    ChimeraX-NMRSTAR: 1.0.2
    ChimeraX-NRRD: 1.2
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.13.5
    ChimeraX-PDB: 2.7.5
    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: 1.1.1
    ChimeraX-PubChem: 2.2
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.2
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.4.1
    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-Segmentations: 3.0.15
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.11.2
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0.1
    ChimeraX-Shortcuts: 1.1.1
    ChimeraX-ShowSequences: 1.0.3
    ChimeraX-SideView: 1.0.1
    ChimeraX-Smiles: 2.1.2
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.16.5
    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: 1.1.2
    ChimeraX-ToolshedUtils: 1.2.4
    ChimeraX-Topography: 1.0
    ChimeraX-ToQuest: 1.0
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.39.1
    ChimeraX-uniprot: 2.3
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.4.3
    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: 1.2.1
    cxservices: 1.2.2
    cycler: 0.12.1
    Cython: 3.0.10
    debugpy: 1.8.1
    decorator: 5.1.1
    docutils: 0.20.1
    executing: 2.0.1
    filelock: 3.13.4
    fonttools: 4.53.0
    funcparserlib: 2.0.0a0
    glfw: 2.7.0
    grako: 3.16.5
    h5py: 3.11.0
    html2text: 2024.2.26
    idna: 3.7
    ihm: 1.0
    imagecodecs: 2024.1.1
    imagesize: 1.4.1
    ipykernel: 6.29.2
    ipython: 8.21.0
    ipywidgets: 8.1.3
    jedi: 0.19.1
    jinja2: 3.1.4
    jupyter-client: 8.6.0
    jupyter-core: 5.7.2
    jupyterlab-widgets: 3.0.11
    kiwisolver: 1.4.5
    line-profiler: 4.1.2
    lxml: 5.2.1
    lz4: 4.3.3
    MarkupSafe: 2.1.5
    matplotlib: 3.8.4
    matplotlib-inline: 0.1.7
    msgpack: 1.0.8
    nest-asyncio: 1.6.0
    netCDF4: 1.6.5
    networkx: 3.3
    nibabel: 5.2.0
    nptyping: 2.5.0
    numexpr: 2.10.0
    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: 10.3.0
    pip: 24.0
    pkginfo: 1.10.0
    platformdirs: 4.2.2
    prompt-toolkit: 3.0.47
    psutil: 5.9.8
    ptyprocess: 0.7.0
    pure-eval: 0.2.2
    py-cpuinfo: 9.0.0
    pycollada: 0.8
    pydicom: 2.4.4
    pygments: 2.17.2
    pynmrstar: 3.3.4
    pynrrd: 1.0.0
    PyOpenGL: 3.1.7
    PyOpenGL-accelerate: 3.1.7
    pyopenxr: 1.0.3401
    pyparsing: 3.1.2
    pyproject-hooks: 1.1.0
    PyQt6-commercial: 6.6.1
    PyQt6-Qt6: 6.6.3
    PyQt6-sip: 13.6.0
    PyQt6-WebEngine-commercial: 6.6.0
    PyQt6-WebEngine-Qt6: 6.6.3
    python-dateutil: 2.9.0.post0
    pytz: 2024.1
    pyzmq: 26.0.3
    qtconsole: 5.5.1
    QtPy: 2.4.1
    RandomWords: 0.4.0
    requests: 2.31.0
    scipy: 1.13.0
    setuptools: 69.5.1
    setuptools-scm: 8.0.4
    sfftk-rw: 0.8.1
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    soupsieve: 2.5
    sphinx: 7.2.6
    sphinx-autodoc-typehints: 2.0.1
    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: 0.6.3
    tables: 3.8.0
    tcia-utils: 1.5.1
    tifffile: 2024.1.30
    tinyarray: 1.2.4
    tornado: 6.4.1
    traitlets: 5.14.2
    typing-extensions: 4.12.2
    tzdata: 2024.1
    urllib3: 2.2.1
    wcwidth: 0.2.13
    webcolors: 1.13
    wheel: 0.43.0
    wheel-filename: 1.4.1
    widgetsnbextension: 4.0.11
}}}
"	defect	closed	normal		Window Toolkit		duplicate						all	ChimeraX