Crash in event loop

[chimerax-bug-report@…]

The following bug report has been submitted:
Platform:        Linux-6.2.0-34-generic-x86_64-with-glibc2.35
ChimeraX Version: 1.6.1 (2023-05-09 17:57:07 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 0x00007ff3e169ab80 (most recent call first):
  File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/chimerax/ui/gui.py", line 275 in event_loop
  File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/chimerax/core/__main__.py", line 892 in init
  File "/usr/lib/ucsf-chimerax/lib/python3.9/site-packages/chimerax/core/__main__.py", line 1043 in 
  File "/usr/lib/ucsf-chimerax/lib/python3.9/runpy.py", line 87 in _run_code
  File "/usr/lib/ucsf-chimerax/lib/python3.9/runpy.py", line 197 in _run_module_as_main
===== Log before crash start =====
You can double click a model's Name or ID in the model panel to edit those
fields  
UCSF ChimeraX version: 1.6.1 (2023-05-09)  
© 2016-2023 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open /home/boyuan/Desktop/mmbr_fit/input/plot_Contour/protein_ongrid.mrc

Opened protein_ongrid.mrc as #1, grid size 418,454,97, pixel 1.17,1.17,1.17,
shown at level 0.352, step 2, values float32  

> volume #1 level 0.3295

> volume #1 level 0.2799

> volume #1 step 8

> volume #1 level 0.3007

> close #1

> open /home/boyuan/Desktop/mmbr_fit/input/auto_fit/typeA_mmbr_density.mrc

Opened typeA_mmbr_density.mrc as #1, grid size 400,400,400, pixel 1.39, shown
at level 0.0731, step 2, values float32  

> volume gaussian #1 sDev 5

Opened typeA_mmbr_density.mrc gaussian as #2, grid size 400,400,400, pixel
1.39, shown at step 1, values float32  

> volume gaussian #1 sDev 9

Opened typeA_mmbr_density.mrc gaussian as #3, grid size 400,400,400, pixel
1.39, shown at step 1, values float32  

> hide #!2 models

> show #!1 models

> volume gaussian #1 sDev 20

Opened typeA_mmbr_density.mrc gaussian as #4, grid size 400,400,400, pixel
1.39, shown at step 1, values float32  

> show #!1 models

> hide #!4 models

> show #!4 models

> hide #!3 models

> volume gaussian #1 sDev 50

Opened typeA_mmbr_density.mrc gaussian as #5, grid size 400,400,400, pixel
1.39, shown at step 1, values float32  

> hide #!5 models

> volume #1 level 0.05904

> volume #4 level 0.01416

> volume #4 level 0.01105

> show #!3 models

> hide #!4 models

> volume #3 level 0.007946

> show #!4 models

> hide #!3 models

> hide #!4 models

> show #!3 models

> hide #!3 models

> show #!3 models

> hide #!3 models

> volume #1 level 0.09213

> show #!3 models

> volume #3 level 0.007388

> hide #!1 models

> voluem mask #1 extend 2

Unknown command: voluem mask #1 extend 2  

> volume mask #1 extend 2

Missing required "surfaces" argument  

> save
> /home/boyuan/Desktop/mmbr_fit/input/auto_fit/typeA_mmbr_density_mask.mrc
> models #3

> hide #!3 models

> open
> /home/boyuan/Desktop/mmbr_fit/input/auto_fit/typeA_mmbr_density_mask.mrc

Opened typeA_mmbr_density_mask.mrc as #6, grid size 400,400,400, pixel 1.39,
shown at level 0.0499, step 2, values float32  

> volume #6 level 0.006856

> volume #5 level 0.007673

> volume #6 level 0.01021

> volume mask #1 surfaces #1

Opened typeA_mmbr_density.mrc masked as #7, grid size 337,345,341, pixel 1.39,
shown at step 1, values float32  

> hide #!6 models

> hide #!7 models

> show #!7 models

> close #5

> volume #7 level 0.05581

> volume mask #1 surfaces #1 extend 5

Opened typeA_mmbr_density.mrc masked as #5, grid size 337,345,341, pixel 1.39,
shown at step 1, values float32  

> hide #!7 models

> volume #5 level 0.001163

> volume #5 level 0.08931

> volume mask #1 surfaces #1 extend 3

Opened typeA_mmbr_density.mrc masked as #8, grid size 337,345,341, pixel 1.39,
shown at step 1, values float32  

> close #5

> volume #8 level 0.1078

> volume #7 level 0.08323

> volume #8 level 0.09691

> volume #8 level 0.05527

> volume #8 level 0.06551

> volume mask #1 surfaces #1 extend 2

Opened typeA_mmbr_density.mrc masked as #5, grid size 337,345,341, pixel 1.39,
shown at step 1, values float32  

> close #8

> volume #5 level 0.08137

> hide #!5 models

> show #!1 models

> volume #1 level 0.06235

> volume #1 level 0.07724

> volume #2 level 0.03488

> volume #5 level 0.03949

> hide #!5 models

> show #!1 models

> vop gaussian #1 sdev 4.17

Opened typeA_mmbr_density.mrc gaussian as #8, grid size 400,400,400, pixel
1.39, shown at step 1, values float32  

> vop gaussian #1 sdev 2

Opened typeA_mmbr_density.mrc gaussian as #9, grid size 400,400,400, pixel
1.39, shown at step 1, values float32  

> hide #!8 models

> show #!1 models

> hide #!1 models

> volume #9 level 0.0687

> vop gaussian #1 sdev 3

Opened typeA_mmbr_density.mrc gaussian as #10, grid size 400,400,400, pixel
1.39, shown at step 1, values float32  

> hide #!9 models

> volume #10 level 0.02915

> show #!1 models

> hide #!10 models

> volume #1 level 0.06897

> show #!10 models

> hide #!1 models

> hide #!3 models

> volume #10 level 0.03474

> volume #10 level 0.02

> volume #10 level 0.04

> hide #!10 models

> show #!9 models

> hide #!9 models

> show #!9 models

> show #!8 models

> close #9

> close #8

> show #!7 models

> close #7

> show #!6 models

> hide #!6 models

> show #!5 models

> close #5

> show #!4 models

> close #4

> show #!3 models

> show #!2 models

> hide #!3 models

> volume #2 level 0.02257

> show #!3 models

> hide #!2 models

> volume #3 level 0.01549

> show #!6 models

> hide #!3 models

> volume #6 level 0.009649

> hide #!6 models

> show #!3 models

> close #6

> open
> /home/boyuan/Desktop/mmbr_fit/input/auto_fit/typeA_mmbr_density_mask.mrc

Opened typeA_mmbr_density_mask.mrc as #4, grid size 400,400,400, pixel 1.39,
shown at level 0.0499, step 2, values float32  

> hide #!4 models

> hide #!3 models

> show #!3 models

> show #!4 models

> close #4

> hide #!3 models

> show #!3 models

> open
> /home/boyuan/Desktop/mmbr_fit/input/auto_fit/cryosparc_P45_typeA_mmbr_density_mask.mrc

Opened cryosparc_P45_typeA_mmbr_density_mask.mrc as #4, grid size 400,400,400,
pixel 1.39, shown at level 0.0499, step 2, values float32  

> hide #!3 models

> volume #4 level 0.01775

> volume #4 level 0.008253

> volume #4 level 0.009

> volume #4 level 0.008

> open /home/boyuan/Desktop/mmbr_fit/input/auto_fit/cryosparc_P45_J93_mask.mrc

Opened cryosparc_P45_J93_mask.mrc as #5, grid size 400,400,400, pixel 1.39,
shown at level 1, step 2, values float32  

> hide #!4 models

> hide #!5 models

> show #!5 models

> open /home/boyuan/Desktop/mmbr_fit/input/auto_fit/PO4_molecules.pdb

> show #!1 models

> close #5

> close #4

> show #!3 models

> hide #!1 models

> select add #6

46080 atoms, 36864 bonds, 9216 residues, 1 model selected  

> ui mousemode right "move picked models"

> view matrix models #6,1,0,0,24.574,0,1,0,88.925,0,0,1,109.1

> ui mousemode right "translate selected atoms"

> ui mousemode right "rotate selected models"

> view matrix models
> #6,0.99983,-0.0038329,-0.017792,29.475,0.0021586,0.99565,-0.093185,110.86,0.018072,0.093131,0.99549,87.961

> view matrix models
> #6,0.86434,-0.49964,-0.057219,164.43,0.48255,0.85601,-0.18545,63.932,0.14164,0.13268,0.98099,58.729

> ui mousemode right "move picked models"

> view matrix models #3,1,0,0,-12.885,0,1,0,3.5691,0,0,1,2.593

> undo

> ui mousemode right "translate selected models"

> view matrix models #6,1,0,0,93.603,0,1,0,68.523,0,0,1,94.929

> ui mousemode right zoom

> close #6

> open
> /home/boyuan/Desktop/mmbr_fit/input/auto_fit/larger_bilayer_lipids_POPC.pdb

> open /home/boyuan/Desktop/mmbr_fit/input/auto_fit/atoms_z_positive.pdb

Summary of feedback from opening
/home/boyuan/Desktop/mmbr_fit/input/auto_fit/atoms_z_positive.pdb  
---  
warnings | Ignored bad PDB record found on line 90319  
HETATM90317 N POP 1 8.865-100.511 17.914 1.00 0.00 N  
  
Ignored bad PDB record found on line 90321  
HETATM90319 N POP 1 408.865-100.511 17.914 1.00 0.00 N  
  
Ignored bad PDB record found on line 90347  
HETATM90345 C12 POP 1 10.109-100.131 18.706 1.00 0.00 C  
  
Ignored bad PDB record found on line 90349  
HETATM90347 C12 POP 1 410.109-100.131 18.706 1.00 0.00 C  
  
Ignored bad PDB record found on line 90355  
HETATM90353 C13 POP 1 7.676-100.784 18.755 1.00 0.00 C  
  
388398 messages similar to the above omitted  
  

> hide #4 models

> show #4 models

> close #5

> open "/home/boyuan/Desktop/mmbr_fit/input/auto_fit/atoms_z_positive (1).pdb"
> "/home/boyuan/Desktop/mmbr_fit/input/auto_fit/atoms_z_negative (1).pdb"

> hide #4 models

> show #4 models

> close #4

> hide #6 models

> hide #!3 models

> show #!3 models

> select add #5

487904 atoms, 469544 bonds, 3731 residues, 1 model selected  

> ui mousemode right "translate selected models"

> view matrix models #5,1,0,0,34.824,0,1,0,-22.687,0,0,1,313.28

> ui mousemode right zoom

> ui mousemode right "translate selected models"

> view matrix models #5,1,0,0,79.954,0,1,0,55.658,0,0,1,312.77

> ui mousemode right "rotate selected models"

> view matrix models
> #5,0.99994,-0.0038289,-0.010722,80.856,0.0026566,0.99422,-0.10729,57.507,0.011071,0.10725,0.99417,289.17

> select clear

Drag select of 3 typeA_mmbr_density_mask.mrc , 243516 atoms, 234310 bonds  

> select clear

Drag select of 3 typeA_mmbr_density_mask.mrc , 250943 atoms, 241346 bonds  

> select clear

Drag select of 3 typeA_mmbr_density_mask.mrc , 213473 atoms, 205315 bonds  

> select clear

> show #6 models

> select add #5

487904 atoms, 469544 bonds, 3731 residues, 1 model selected  

> select subtract #5

Nothing selected  

> select add #6

486772 atoms, 468748 bonds, 3702 residues, 1 model selected  

> ui mousemode right "translate selected models"

> ui mousemode right "rotate selected models"

> view matrix models
> #6,0.99998,-0.00017492,-0.0061701,-0.031496,-0.00033752,0.99655,-0.082955,-0.18736,0.0061633,0.082955,0.99653,-17.925

> view matrix models
> #6,0.99982,-0.018508,-0.0034506,3.7113,0.017599,0.98388,-0.17796,-2.3193,0.0066887,0.17787,0.98403,-37.225

> ui mousemode right "translate selected models"

> view matrix models
> #6,0.99982,-0.018508,-0.0034506,75.475,0.017599,0.98388,-0.17796,-29.476,0.0066887,0.17787,0.98403,126.35

> view matrix models
> #6,0.99982,-0.018508,-0.0034506,73.1,0.017599,0.98388,-0.17796,64.026,0.0066887,0.17787,0.98403,132.43

> ui mousemode right "rotate selected models"

> view matrix models
> #6,0.99976,-0.018691,-0.011293,73.06,0.017325,0.99368,-0.11088,62.879,0.013294,0.11065,0.99377,144.71

> ui mousemode right "rotate selected models"

> view matrix models
> #6,0.99974,-0.01969,-0.011129,73.265,0.018334,0.99365,-0.11099,62.681,0.013244,0.11075,0.99376,144.7

> ui mousemode right "translate selected models"

> view matrix models
> #6,0.99974,-0.01969,-0.011129,74.678,0.018334,0.99365,-0.11099,61.582,0.013244,0.11075,0.99376,151.31

> select subtract #6

Nothing selected  
Drag select of 3 typeA_mmbr_density_mask.mrc , 476019 atoms, 458173 bonds  

> select clear

Drag select of 3 typeA_mmbr_density_mask.mrc , 427990 atoms, 411966 bonds  

> select subtract #3

427990 atoms, 411966 bonds, 7433 residues, 2 models selected  

> select ~sel

546686 atoms, 525282 bonds, 6768 residues, 10 models selected  

> select subtract #3

546686 atoms, 525282 bonds, 6768 residues, 8 models selected  

> select subtract #2

546686 atoms, 525282 bonds, 6768 residues, 6 models selected  

> select subtract #1

546686 atoms, 525282 bonds, 6768 residues, 4 models selected  

> select subtract #10

546686 atoms, 525282 bonds, 6768 residues, 2 models selected  

> delete atoms sel

> delete bonds sel

> select add #5

205924 atoms, 197564 bonds, 3731 residues, 1 model selected  

> save /home/boyuan/Desktop/mmbr_fit/input/auto_fit/lipids_test_up.pdb models
> #5 selectedOnly true

> select subtract #5

Nothing selected  

> select add #6

222066 atoms, 213314 bonds, 3702 residues, 1 model selected  

> save /home/boyuan/Desktop/mmbr_fit/input/auto_fit/lipids_test_down.pdb
> models #6 selectedOnly true

> open /home/boyuan/Desktop/mmbr_fit/input/auto_fit/lipids_test_down_1.pdb
> /home/boyuan/Desktop/mmbr_fit/input/auto_fit/lipids_test_up_1.pdb

> hide #5 models

> hide #6 models

> undo

> select clear

> show #!1 models

> hide #!3 models

> hide #4 models

> hide #5 models

> hide #6 models

> hide #7 models

> hide #!1 models

> show #!1 models

> show #6 models

> hide #6 models

> show #6 models

> show #5 models

> hide #!1 models

> show #!2 models

> hide #!2 models

> close #2

> show #!3 models

> hide #6 models

> hide #5 models

> hide #!3 models

> show #!3 models

> ui mousemode right zoom

> show #5 models

> hide #5 models

> show #5 models

> hide #5 models

> show #!1 models

> hide #!3 models


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

Log:
UCSF ChimeraX version: 1.6.1 (2023-05-09)  
© 2016-2023 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  




OpenGL version: 4.5 (Core Profile) Mesa 23.0.4-0ubuntu1~22.04.1
OpenGL renderer: llvmpipe (LLVM 15.0.7, 256 bits)
OpenGL vendor: Mesa

Python: 3.9.11
Locale: en_US.UTF-8
Qt version: PyQt6 6.4.2, Qt 6.4.2
Qt runtime version: 6.4.3
Qt platform: xcb

XDG_SESSION_TYPE=x11
DESKTOP_SESSION=ubuntu
XDG_SESSION_DESKTOP=ubuntu
XDG_CURRENT_DESKTOP=ubuntu:GNOME
DISPLAY=:1
Manufacturer: Micro-Star International Co., Ltd.
Model: MS-7D25
OS: Ubuntu 22.04 Jammy Jellyfish
Architecture: 64bit ELF
Virtual Machine: none
CPU: 32 13th Gen Intel(R) Core(TM) i9-13900KF
Cache Size: 36864 KB
Memory:
	               total        used        free      shared  buff/cache   available
	Mem:           125Gi       4.3Gi       113Gi       287Mi       8.0Gi       119Gi
	Swap:          2.0Gi          0B       2.0Gi

Graphics:
	01:00.0 VGA compatible controller [0300]: NVIDIA Corporation Device [10de:2684] (rev a1)	
	Subsystem: PNY Device [196e:13b3]	
	Kernel modules: nvidiafb, nouveau

Installed Packages:
    alabaster: 0.7.13
    appdirs: 1.4.4
    asttokens: 2.2.1
    Babel: 2.12.1
    backcall: 0.2.0
    beautifulsoup4: 4.11.2
    blockdiag: 3.0.0
    build: 0.10.0
    certifi: 2023.5.7
    cftime: 1.6.2
    charset-normalizer: 3.1.0
    ChimeraX-AddCharge: 1.5.9.1
    ChimeraX-AddH: 2.2.5
    ChimeraX-AlignmentAlgorithms: 2.0.1
    ChimeraX-AlignmentHdrs: 3.3.1
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 2.9.3
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.0.3
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.1
    ChimeraX-Atomic: 1.43.10
    ChimeraX-AtomicLibrary: 10.0.6
    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: 1.2.2
    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-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: 1.6.1
    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: 1.2
    ChimeraX-DistMonitor: 1.4
    ChimeraX-DockPrep: 1.1.1
    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: 1.2.1
    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-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: 2.0.12
    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: 1.5.9
    ChimeraX-ModelPanel: 1.3.7
    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-NRRD: 1.0
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.10.1
    ChimeraX-PDB: 2.7.2
    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: 1.1
    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: 1.10.3
    ChimeraX-STL: 1.0.1
    ChimeraX-Storm: 1.0
    ChimeraX-StructMeasure: 1.1.2
    ChimeraX-Struts: 1.0.1
    ChimeraX-Surface: 1.0.1
    ChimeraX-SwapAA: 2.0.1
    ChimeraX-SwapRes: 2.2.1
    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: 1.28.4
    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: 0.1.3
    contourpy: 1.0.7
    cxservices: 1.2.2
    cycler: 0.11.0
    Cython: 0.29.33
    debugpy: 1.6.7
    decorator: 5.1.1
    distro: 1.7.0
    docutils: 0.19
    executing: 1.2.0
    filelock: 3.9.0
    fonttools: 4.39.3
    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: 6.6.0
    ipykernel: 6.21.1
    ipython: 8.10.0
    ipython-genutils: 0.2.0
    ipywidgets: 8.0.6
    jedi: 0.18.2
    Jinja2: 3.1.2
    jupyter-client: 8.0.2
    jupyter-core: 5.3.0
    jupyterlab-widgets: 3.0.7
    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
    msgpack: 1.0.4
    nest-asyncio: 1.5.6
    netCDF4: 1.6.2
    networkx: 2.8.8
    nibabel: 5.0.1
    nptyping: 2.5.0
    numexpr: 2.8.4
    numpy: 1.23.5
    openvr: 1.23.701
    packaging: 23.1
    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: 3.5.0
    prompt-toolkit: 3.0.38
    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
    pynrrd: 1.0.0
    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: 6.4.3
    PyQt6-sip: 13.4.1
    PyQt6-WebEngine-commercial: 6.4.0
    PyQt6-WebEngine-Qt6: 6.4.3
    python-dateutil: 2.8.2
    pytz: 2023.3
    pyzmq: 25.0.2
    qtconsole: 5.4.0
    QtPy: 2.3.1
    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: 2.4.1
    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: 1.2.0
    tifffile: 2022.10.10
    tinyarray: 1.2.4
    tomli: 2.0.1
    tornado: 6.3.1
    traitlets: 5.9.0
    typing-extensions: 4.5.0
    tzdata: 2023.3
    urllib3: 1.26.15
    wcwidth: 0.2.6
    webcolors: 1.12
    wheel: 0.38.4
    wheel-filename: 1.4.1
    widgetsnbextension: 4.0.7
    zipp: 3.15.0