ChimeraX bug report submission

[chimerax-bug-report@…]

The following bug report has been submitted:
Platform:        Windows-10-10.0.19045
ChimeraX Version: 1.10rc202505160006 (2025-05-16 00:06:03 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Windows fatal exception: access violation

Current thread 0x00005f98 (most recent call first):
  File "C:\Program Files\ChimeraX 1.10rc202505160006\bin\Lib\site-packages\chimerax\graphics\opengl.py", line 248 in swap_buffers
  File "C:\Program Files\ChimeraX 1.10rc202505160006\bin\Lib\site-packages\chimerax\graphics\opengl.py", line 561 in swap_buffers
  File "C:\Program Files\ChimeraX 1.10rc202505160006\bin\Lib\site-packages\chimerax\ui\statusbar.py", line 166 in status
  File "C:\Program Files\ChimeraX 1.10rc202505160006\bin\Lib\site-packages\chimerax\ui\statusbar.py", line 98 in _expose_event
  File "C:\Program Files\ChimeraX 1.10rc202505160006\bin\Lib\site-packages\chimerax\ui\gui.py", line 368 in event_loop
  File "C:\Program Files\ChimeraX 1.10rc202505160006\bin\Lib\site-packages\chimerax\core\__main__.py", line 1057 in init
  File "C:\Program Files\ChimeraX 1.10rc202505160006\bin\Lib\site-packages\chimerax\core\__main__.py", line 1220 in 
  File "", line 88 in _run_code
  File "", line 198 in _run_module_as_main
===== Log before crash start =====
UCSF ChimeraX version: 1.10rc202505160006 (2025-05-16)  
© 2016-2025 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open "C:\Users\bt326\OneDrive - University of Exeter\DATA FILES\protein
> structures\esterases\Kondoi E4\Kondoi_E4_m0.pdb" format pdb

Kondoi_E4_m0.pdb title:  
27537e660e816132 - prepared [more info...]  
  
Chain information for Kondoi_E4_m0.pdb #1  
---  
Chain | Description  
A | No description available  
  
Computing secondary structure  

> select :158-160,237-239,242,387,391,392,433,487,488,491

194 atoms, 188 bonds, 14 residues, 1 model selected  

> color sel blue

> show sel atoms

> style sel sphere

Changed 194 atom styles  

> select :225-240

202 atoms, 203 bonds, 16 residues, 1 model selected  

> select :242

11 atoms, 10 bonds, 1 residue, 1 model selected  

> select :238,363,487

44 atoms, 42 bonds, 3 residues, 1 model selected  

> show sel atoms

> style sel sphere

Changed 44 atom styles  

> color sel cyan

> select :28,61,150,452,527,586

83 atoms, 78 bonds, 6 residues, 1 model selected  

> hide sel atoms

> show sel atoms

> style sel sphere

Changed 83 atom styles  

> color sel red

> ui mousemode right label

> label #1/A:28

> label #1/A:61

> label #1/A:150

> label #1/A:527

> label #1/A:586

> label #1/A:452

> label #1/A:363

> label #1/A:487

> label height 2

> label height 2.5

> ui mousemode right label

> ui mousemode right select

> ui mousemode right rotate

> ui mousemode right label

> label #1/A:487

> label #1/A:238

> label height 2.5

> ui mousemode right "move label"

> ui mousemode right label

> label #1/A:487

> ui mousemode right select

> select /A:238@HG

1 atom, 1 residue, 1 model selected  

> ui mousemode right rotate

> save "C:/Users/bt326/OneDrive - University of Exeter/Paper drafts/Kondoi
> paper/front E4 kondoi.png" width 5000 height 2959 supersample 4
> transparentBackground true

> ui mousemode right label

> ui mousemode right "move label"

> save "C:/Users/bt326/OneDrive - University of Exeter/Paper drafts/Kondoi
> paper/side E4 kondoi.png" width 5000 height 2959 supersample 3
> transparentBackground true

> ui tool show "Color Actions"

QWindowsWindow::setGeometry: Unable to set geometry 319x649+1441+615 (frame:
337x696+1432+577) on QWidgetWindow/"QDockWidgetClassWindow" on
"\\\\.\DISPLAY1". Resulting geometry: 317x641+1442+622 (frame:
335x688+1433+584) margins: 9, 38, 9, 9 minimum size: 255x519 maximum size:
524287x524287 MINMAXINFO(maxSize=POINT(x=0, y=0), maxpos=POINT(x=0, y=0),
maxtrack=POINT(x=655377, y=655406), mintrack=POINT(x=337, y=696)))  

> ui mousemode right label

QWindowsWindow::setGeometry: Unable to set geometry 670x458+1265+710 (frame:
688x505+1256+672) on QWidgetWindow/"QDockWidgetClassWindow" on
"\\\\.\DISPLAY1". Resulting geometry: 668x450+1266+717 (frame:
686x497+1257+679) margins: 9, 38, 9, 9 minimum size: 356x180 maximum size:
524287x524287 MINMAXINFO(maxSize=POINT(x=0, y=0), maxpos=POINT(x=0, y=0),
maxtrack=POINT(x=655377, y=655406), mintrack=POINT(x=463, y=272)))  

> color sel black target l

> ui mousemode right label

> label #1/A:28

> ui mousemode right "move label"

> label height 2.5

> ui mousemode right "move label"

> ui tool show "Color Actions"

> color sel dim gray target l

> set bgColor white

> set bgColor #ffffff00

> ui mousemode right "move label"

> save "C:/Users/bt326/OneDrive - University of Exeter/Paper drafts/Kondoi
> paper/side E4 kondoi.png" width 5000 height 2959 supersample 3

> ui mousemode right rotate

> ui mousemode right label

> ui mousemode right "move label"

> save "C:/Users/bt326/OneDrive - University of Exeter/Paper drafts/Kondoi
> paper/front E4 kondoi.png" width 5000 height 2959 supersample 3

> ui tool show "Build Structure"

> bond sel

Must specify two or more atoms  

> ui tool show H-Bonds

QWindowsWindow::setGeometry: Unable to set geometry 551x650+1325+614 (frame:
569x697+1316+576) on QWidgetWindow/"QDockWidgetClassWindow" on
"\\\\.\DISPLAY1". Resulting geometry: 549x642+1326+621 (frame:
567x689+1317+583) margins: 9, 38, 9, 9 minimum size: 441x520 maximum size:
524287x524287 MINMAXINFO(maxSize=POINT(x=0, y=0), maxpos=POINT(x=0, y=0),
maxtrack=POINT(x=655377, y=655406), mintrack=POINT(x=569, y=697)))  

> ui tool show "Dock Prep"

QWindowsWindow::setGeometry: Unable to set geometry 649x714+1276+583 (frame:
667x761+1267+545) on QWidgetWindow/"QDockWidgetClassWindow" on
"\\\\.\DISPLAY1". Resulting geometry: 647x706+1277+590 (frame:
665x753+1268+552) margins: 9, 38, 9, 9 minimum size: 519x545 maximum size:
524287x524287 MINMAXINFO(maxSize=POINT(x=0, y=0), maxpos=POINT(x=0, y=0),
maxtrack=POINT(x=655377, y=655406), mintrack=POINT(x=667, y=728)))  

Starting dock prep  
Deleting solvent  
Deleting non-metal-complex ions  
Deleting non-current alt locs  

QWindowsWindow::setGeometry: Unable to set geometry 444x320+1379+779 (frame:
462x367+1370+741) on QWidgetWindow/"QDockWidgetClassWindow" on
"\\\\.\DISPLAY1". Resulting geometry: 442x312+1380+786 (frame:
460x359+1371+748) margins: 9, 38, 9, 9 minimum size: 338x230 maximum size:
524287x524287 MINMAXINFO(maxSize=POINT(x=0, y=0), maxpos=POINT(x=0, y=0),
maxtrack=POINT(x=655377, y=655406), mintrack=POINT(x=441, y=335)))  

Summary of feedback from adding hydrogens to Kondoi_E4_m0.pdb #1  
---  
notes | No usable SEQRES records for Kondoi_E4_m0.pdb (#1) chain A; guessing termini instead  
Chain-initial residues that are actual N termini: /A MET 1  
Chain-initial residues that are not actual N termini:  
Chain-final residues that are actual C termini: /A LEU 593  
Chain-final residues that are not actual C termini:  
501 hydrogen bonds  
1 hydrogens added  
  

QWindowsWindow::setGeometry: Unable to set geometry 446x158+1378+860 (frame:
464x205+1369+822) on QWidgetWindow/"QDockWidgetClassWindow" on
"\\\\.\DISPLAY1". Resulting geometry: 444x150+1379+867 (frame:
462x197+1370+829) margins: 9, 38, 9, 9 minimum size: 252x100 maximum size:
524287x524287 MINMAXINFO(maxSize=POINT(x=0, y=0), maxpos=POINT(x=0, y=0),
maxtrack=POINT(x=655377, y=655406), mintrack=POINT(x=333, y=172)))  

Closest equivalent command: addcharge standardizeResidues none  
Using Amber 20 recommended default charges and atom types for standard
residues  
Dock prep finished  

> hbonds color #0000ff saltOnly true intraMol false intraRes false reveal true
> log true
    
    
    Finding intermodel H-bonds
    Finding intramodel H-bonds
    Constraints relaxed by 0.4 angstroms and 20 degrees
    Models used:
    	1 Kondoi_E4_m0.pdb
    
    0 H-bonds
    H-bonds (donor, acceptor, hydrogen, D..A dist, D-H..A dist):
    

  
0 hydrogen bonds found  

> hbonds color #0000ff saltOnly true intraMol false intraRes false reveal true
> log true
    
    
    Finding intermodel H-bonds
    Finding intramodel H-bonds
    Constraints relaxed by 0.4 angstroms and 20 degrees
    Models used:
    	1 Kondoi_E4_m0.pdb
    
    0 H-bonds
    H-bonds (donor, acceptor, hydrogen, D..A dist, D-H..A dist):
    

  
0 hydrogen bonds found  

> bond sel

Must specify two or more atoms  

> select /A

9243 atoms, 9376 bonds, 593 residues, 1 model selected  

> hide sel cartoons

> show sel cartoons

> color sel light gray

> select :28,61,150,452,527,586

83 atoms, 78 bonds, 6 residues, 1 model selected  

> color sel red

> select :158-160,237-239,242,387,391,392,433,487,488,491

194 atoms, 188 bonds, 14 residues, 1 model selected  

> show sel atoms

> style sel sphere

Changed 194 atom styles  

> color sel blue

> select :238,363,487

44 atoms, 42 bonds, 3 residues, 1 model selected  

> color sel cyan

> save C:\ProgramData\ChimeraX\image23.png supersample 3

> save "C:/Users/bt326/OneDrive - University of Exeter/Paper drafts/Kondoi
> paper/front E4 grey.png" width 5000 height 2664 supersample 3

> save "C:/Users/bt326/OneDrive - University of Exeter/Paper drafts/Kondoi
> paper/side E4 grey.png" width 5000 height 2664 supersample 3

> close session

> open "C:/Users/bt326/OneDrive - University of Exeter/DATA FILES/protein
> structures/M. persicae/CYP4G51/CYP4G51_alpha.pdb"

Chain information for CYP4G51_alpha.pdb #1  
---  
Chain | Description  
A | No description available  
  
Computing secondary structure  

> open "C:/Users/bt326/OneDrive - University of Exeter/DATA FILES/protein
> structures/M. persicae/CYP4G51/CYP4G51_prepped_0.pdb"

CYP4G51_prepped_0.pdb title:  
19c7a99e867963b4 - prepared [more info...]  
  
Chain information for CYP4G51_prepped_0.pdb #2  
---  
Chain | Description  
A | No description available  
  
Non-standard residues in CYP4G51_prepped_0.pdb #2  
---  
HEM — (HEM)  
  
Computing secondary structure  

> select #1/A#2/A

13071 atoms, 13259 bonds, 1048 residues, 2 models selected  

> ui tool show Matchmaker

> matchmaker #!2 to #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 CYP4G51_alpha.pdb, chain A (#1) with CYP4G51_prepped_0.pdb, chain A
(#2), sequence alignment score = 2273.7  
RMSD between 331 pruned atom pairs is 0.977 angstroms; (across all 482 pairs:
4.428)  
  

> matchmaker #!2 to #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 CYP4G51_alpha.pdb, chain A (#1) with CYP4G51_prepped_0.pdb, chain A
(#2), sequence alignment score = 2273.7  
RMSD between 331 pruned atom pairs is 0.977 angstroms; (across all 482 pairs:
4.428)  
  

> close session

> open "C:/Users/bt326/OneDrive - University of Exeter/DATA FILES/protein
> structures/M. persicae/CYP4CJ1/CYP4CJ1_prepped_0.pdb"

CYP4CJ1_prepped_0.pdb title:  
2568ca55b4098c36 - prepared [more info...]  
  
Chain information for CYP4CJ1_prepped_0.pdb #1  
---  
Chain | Description  
A | No description available  
  
Non-standard residues in CYP4CJ1_prepped_0.pdb #1  
---  
HEM — (HEM)  
  
Computing secondary structure  

> select :38,47

30 atoms, 28 bonds, 2 residues, 1 model selected  

> color sel red

> close session

> open "C:\Users\bt326\OneDrive - University of Exeter\DATA FILES\protein
> structures\M. persicae\CYP4G51\CYP4G51_prepped_0.pdb" format pdb

CYP4G51_prepped_0.pdb title:  
19c7a99e867963b4 - prepared [more info...]  
  
Chain information for CYP4G51_prepped_0.pdb #1  
---  
Chain | Description  
A | No description available  
  
Non-standard residues in CYP4G51_prepped_0.pdb #1  
---  
HEM — (HEM)  
  
Computing secondary structure  

> open "C:/Users/bt326/OneDrive - University of Exeter/DATA FILES/protein
> structures/M. persicae/CYP4G51/CYP4G51_alpha.pdb"

Chain information for CYP4G51_alpha.pdb #2  
---  
Chain | Description  
A | No description available  
  
Computing secondary structure  


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

Log:
You can double click a model's Name or ID in the model panel to edit those
fields  
UCSF ChimeraX version: 1.10rc202505160006 (2025-05-16)  
© 2016-2025 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  




OpenGL version: 3.3.0 NVIDIA 529.19
OpenGL renderer: NVIDIA T500/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation

Python: 3.11.4
Locale: en_GB.cp1252
Qt version: PyQt6 6.8.1, Qt 6.8.2
Qt runtime version: 6.8.2
Qt platform: windows

Manufacturer: HP
Model: HP ZBook Firefly 14 inch G8 Mobile Workstation PC
OS: Microsoft Windows 10 Enterprise (Build 19045)
Memory: 16,844,550,144
MaxProcessMemory: 137,438,953,344
CPU: 8 11th Gen Intel(R) Core(TM) i7-1165G7 @ 2.80GHz
OSLanguage: en-GB

Installed Packages:
    alabaster: 1.0.0
    appdirs: 1.4.4
    asttokens: 3.0.0
    auditwheel: 6.3.0
    babel: 2.17.0
    beautifulsoup4: 4.13.3
    blockdiag: 3.0.0
    blosc2: 3.3.3
    build: 1.2.2.post1
    certifi: 2025.4.26
    cftime: 1.6.4.post1
    charset-normalizer: 3.4.2
    ChimeraX-AddCharge: 1.5.18
    ChimeraX-AddH: 2.2.7
    ChimeraX-AlignmentAlgorithms: 2.0.2
    ChimeraX-AlignmentHdrs: 3.6.1
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 2.20.1
    ChimeraX-AlphaFold: 1.0.1
    ChimeraX-AltlocExplorer: 1.1.2
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Aniso: 1.1.3
    ChimeraX-Arrays: 1.1
    ChimeraX-Atomic: 1.60.6
    ChimeraX-AtomicLibrary: 14.1.18
    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: 1.0
    ChimeraX-BondRot: 2.0.4
    ChimeraX-BugReporter: 1.0.2
    ChimeraX-BuildStructure: 2.13.1
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.5.1
    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
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.10rc202505160006
    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: 2.5.1
    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: 1.6.2
    ChimeraX-Label: 1.1.14
    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: 2.2.1
    ChimeraX-MCopy: 1.0
    ChimeraX-MDcrds: 2.10.1
    ChimeraX-MedicalToolbar: 1.1
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.16
    ChimeraX-MMTF: 2.2
    ChimeraX-ModelArchive: 1.0
    ChimeraX-Modeller: 1.5.19
    ChimeraX-ModelPanel: 1.5.1
    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: 1.14.1
    ChimeraX-OrthoPick: 1.0.1
    ChimeraX-PDB: 2.7.10
    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: 1.1.3
    ChimeraX-ProfileGrids: 1.1.2
    ChimeraX-PubChem: 2.2
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.2
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.6.3
    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: 2.0.3
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0.1
    ChimeraX-Segmentations: 3.5.7
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.17.1
    ChimeraX-Shape: 1.1
    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: 1.19.1
    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: 1.45.1
    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: 1.1.5
    ChimeraX-Zone: 1.0.1
    colorama: 0.4.6
    comm: 0.2.2
    comtypes: 1.4.10
    contourpy: 1.3.2
    coverage: 7.8.0
    cxservices: 1.2.3
    cycler: 0.12.1
    Cython: 3.0.12
    debugpy: 1.8.14
    decorator: 5.2.1
    docutils: 0.21.2
    executing: 2.2.0
    filelock: 3.18.0
    fonttools: 4.58.0
    funcparserlib: 2.0.0a0
    glfw: 2.9.0
    grako: 3.16.5
    h5py: 3.13.0
    html2text: 2024.2.26
    idna: 3.10
    ihm: 2.2
    imagecodecs: 2024.6.1
    imagesize: 1.4.1
    iniconfig: 2.1.0
    ipykernel: 6.29.5
    ipython: 8.26.0
    ipywidgets: 8.1.7
    jedi: 0.19.1
    Jinja2: 3.1.6
    jupyter_client: 8.6.3
    jupyter_core: 5.7.2
    jupyterlab_widgets: 3.0.15
    kiwisolver: 1.4.8
    line_profiler: 4.2.0
    lxml: 5.3.1
    lz4: 4.4.4
    MarkupSafe: 3.0.2
    matplotlib: 3.10.1
    matplotlib-inline: 0.1.7
    msgpack: 1.1.0
    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: 2.10.2
    numpy: 1.26.4
    OpenMM: 8.2.0
    openvr: 1.26.701
    packaging: 24.2
    ParmEd: 4.2.2
    parso: 0.8.4
    pep517: 0.13.1
    pickleshare: 0.7.5
    pillow: 10.4.0
    pip: 25.0.1
    pkginfo: 1.11.1
    platformdirs: 4.3.8
    pluggy: 1.6.0
    prompt_toolkit: 3.0.51
    psutil: 7.0.0
    pure_eval: 0.2.3
    py-cpuinfo: 9.0.0
    pycollada: 0.8
    pydicom: 2.4.4
    pyelftools: 0.32
    Pygments: 2.18.0
    pynmrstar: 3.3.5
    pynrrd: 1.0.0
    PyOpenGL: 3.1.9
    PyOpenGL-accelerate: 3.1.9
    pyopenxr: 1.1.4501
    pyparsing: 3.2.3
    pyproject_hooks: 1.2.0
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    PyQt6-Qt6: 6.8.2
    PyQt6-WebEngine-commercial: 6.8.0
    PyQt6-WebEngine-Qt6: 6.8.2
    PyQt6_sip: 13.10.0
    pytest: 8.3.5
    pytest-cov: 6.1.1
    python-dateutil: 2.9.0.post0
    pytz: 2025.2
    pywin32: 310
    pyzmq: 26.4.0
    qtconsole: 5.5.2
    QtPy: 2.4.3
    qtshim: 1.1
    RandomWords: 0.4.0
    requests: 2.32.3
    roman-numerals-py: 3.1.0
    scipy: 1.14.0
    setuptools: 78.1.0
    sfftk-rw: 0.8.1
    six: 1.16.0
    snowballstemmer: 3.0.1
    sortedcontainers: 2.4.0
    soupsieve: 2.7
    Sphinx: 8.2.3
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    sphinxcontrib-applehelp: 2.0.0
    sphinxcontrib-blockdiag: 3.0.0
    sphinxcontrib-devhelp: 2.0.0
    sphinxcontrib-htmlhelp: 2.1.0
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    sphinxcontrib-qthelp: 2.0.0
    sphinxcontrib-serializinghtml: 2.0.0
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    tables: 3.10.2
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    tifffile: 2025.3.13
    tinyarray: 1.2.4
    tornado: 6.5
    traitlets: 5.14.3
    typing_extensions: 4.13.2
    tzdata: 2025.2
    urllib3: 2.4.0
    wcwidth: 0.2.13
    webcolors: 24.11.1
    wheel: 0.45.1
    wheel-filename: 1.4.2
    widgetsnbextension: 4.0.14
    WMI: 1.5.1