No space left on device saving command history

[chimerax-bug-report@…]

The following bug report has been submitted:
Platform:        macOS-15.5-arm64-arm-64bit
ChimeraX Version: 1.7.1 (2024-01-23 01:58:08 UTC)
Description
(Describe the actions that caused this problem to occur here)

Log:
UCSF ChimeraX version: 1.7.1 (2024-01-23)  
© 2016-2023 Regents of the University of California. All rights reserved.  

> open "/Users/iamsarahhan/Library/CloudStorage/OneDrive-
> UniversityofCambridge/Main PhD Project/Thesis/Chapter Drug
> repurposing/drugs/argratroban.cxs"

Log from Fri Aug 15 16:02:07 2025 Startup Messages  
---  
warning | Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR
bundle with that from NMRSTAR bundle  
  
UCSF ChimeraX version: 1.7.1 (2024-01-23)  
© 2016-2023 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open "/Users/iamsarahhan/Library/CloudStorage/OneDrive-
> UniversityofCambridge/Main PhD Project/Thesis/Chapter Drug
> repurposing/drugs/NRPb1receptor_argatroban_out_2.-7.1.complex.pdb"

Summary of feedback from opening
/Users/iamsarahhan/Library/CloudStorage/OneDrive-UniversityofCambridge/Main
PhD Project/Thesis/Chapter Drug
repurposing/drugs/NRPb1receptor_argatroban_out_2.-7.1.complex.pdb  
---  
warning | Ignored bad PDB record found on line 1  
REMARK The PDB FILE IS CREATED BY CY's PROGRAM AT Fri Aug 15 01:12:33 2025  
  
Chain information for NRPb1receptor_argatroban_out_2.-7.1.complex.pdb  
---  
Chain | Description  
1.1/A | No description available  
  

> set bgColor white

> select add #1.1

1229 atoms, 1258 bonds, 155 residues, 1 model selected  

> color sel cornflower blue

> preset "overall look" "publication 1 (silhouettes)"

Using preset: Overall Look / Publication 1 (Silhouettes)  
Preset expands to these ChimeraX commands:

    
    
    set bg white
    graphics silhouettes t
    lighting depthCue f

  

> ui tool show H-Bonds

> hbonds color #5ecaf3 interModel false distSlop 0.3 intraMol false intraRes
> false

0 hydrogen bonds found  

> hbonds color #5ecaf3 interModel false distSlop 0.5 intraMol false intraRes
> false

0 hydrogen bonds found  

> hbonds color #5ecaf3 interModel false distSlop 0.5 intraMol false intraRes
> false

0 hydrogen bonds found  

> hbonds color #5ecaf3 interModel false distSlop 1.0 intraMol false intraRes
> false

0 hydrogen bonds found  

> hbonds color #5ecaf3 interModel false distSlop 2.0 intraMol false intraRes
> false

0 hydrogen bonds found  

> hbonds color #5ecaf3 interModel false distSlop 2.0 intraMol false intraRes
> false

0 hydrogen bonds found  

> hbonds color #5ecaf3 interModel false distSlop 3.0 intraMol false intraRes
> false

0 hydrogen bonds found  
Must select at least one chain from each list  
[Repeated 1 time(s)]

> contacts sel overlapCutoff 3.9 interModel false intraMol false select true
> makePseudobonds false

No contacts  

> select add #1.2

42 atoms, 44 bonds, 1 residue, 1 model selected  

> label sel atoms attribute element

> label sel text "{0.label_one_letter_code} {0.number}{0.insertion_code}"

> label sel attribute label_specifier

> label sel atoms attribute element

> select add #1.2

42 atoms, 44 bonds, 1 residue, 2 models selected  

> ~label (#!1.2 & sel) atoms

> label (#!1.2 & sel) attribute label_one_letter_code

> label (#!1.2 & sel) atoms attribute element

> ~label (#!1.2 & sel) residues

> ~label (#!1.2 & sel) atoms

> select add #1

1271 atoms, 1302 bonds, 156 residues, 3 models selected  

> select subtract #1

Nothing selected  

> contacts sel overlapCutoff 3.9 intraMol false select true makePseudobonds
> false

No atoms match given atom specifier  

> hide #!1.1 models

> show #!1.1 models

> select add #1.2

42 atoms, 44 bonds, 1 residue, 1 model selected  

> ui tool show H-Bonds

> hbonds color #5ecaf3 interModel false distSlop 3.0 intraRes false

276 hydrogen bonds found  

> hbonds color #5ecaf3 interModel false distSlop 3.0 intraMol false intraRes
> false

0 hydrogen bonds found  

> hbonds color #5ecaf3 interModel false distSlop 3.0 intraMol false

0 hydrogen bonds found  

> hbonds color #5ecaf3 distSlop 3.0 intraMol false intraRes false

0 hydrogen bonds found  

> hbonds color #5ecaf3 distSlop 3.0 intraMol false intraRes false

0 hydrogen bonds found  

> hbonds color #5ecaf3 distSlop 3.0 intraMol false intraRes false

0 hydrogen bonds found  

> hbonds color #5ecaf3 distSlop 3.0 saltOnly true intraMol false intraRes
> false

0 hydrogen bonds found  

> hbonds color #5ecaf3 distSlop 3.0 saltOnly true intraMol false intraRes
> false

0 hydrogen bonds found  

> select add #1

1271 atoms, 1302 bonds, 156 residues, 3 models selected  

> select subtract #1

Nothing selected  

> save "/Users/iamsarahhan/Library/CloudStorage/OneDrive-
> UniversityofCambridge/Main PhD Project/Thesis/Chapter Drug
> repurposing/drugs/argratroban.cxs"

> label #1 text "{0.label_one_letter_code} {0.number}{0.insertion_code}"

> save "/Users/iamsarahhan/Library/CloudStorage/OneDrive-
> UniversityofCambridge/Main PhD Project/Thesis/Chapter Drug
> repurposing/drugs/argratroban.cxs"

——— End of log from Fri Aug 15 16:02:07 2025 ———

opened ChimeraX session  

> select add #1

1271 atoms, 1302 bonds, 156 residues, 5 models selected  

> ~label (#!1.1-2 & sel) residues

> ui tool show Contacts

> contacts interModel false intraMol false select true makePseudobonds false
> reveal true

No contacts  

> contacts interModel false intraMol false select true makePseudobonds false
> reveal true

No contacts  

> contacts interModel false intraMol false select true makePseudobonds false
> reveal true

No contacts  

> contacts interModel false intraMol false select true reveal true

No contacts  

> contacts interModel false select true reveal true

1029 contacts  

> contacts interModel false intraMol false select true reveal true

No contacts  

> contacts intraMol false select true reveal true

No contacts  

> contacts intraMol false select true reveal true

No contacts  

> hide #!1.1 models

> show #!1.1 models

> select add #1.1

1229 atoms, 1258 bonds, 155 residues, 1 model selected  

> hide sel atoms

> contacts sel overlapCutoff 3.9 intraMol false select true makePseudobonds
> false

No contacts  

> contacts sel overlapCutoff 3.9 intraRes true select true makePseudobonds
> false

No atoms match given atom specifier  

> select ::name="UNL"

42 atoms, 44 bonds, 1 residue, 1 model selected  

> name frozen argatroban sel

> ui tool show "Show Sequence Viewer"

> sequence chain #1.1/A

Alignment identifier is 1.1/A  

> select #1.1/A:349

7 atoms, 6 bonds, 1 residue, 1 model selected  

> show sel atoms

> select #1.1/A:300

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select #1.1/A:300

8 atoms, 7 bonds, 1 residue, 1 model selected  

> show sel atoms

> select #1.1/A:351

9 atoms, 8 bonds, 1 residue, 1 model selected  

> select #1.1/A:351

9 atoms, 8 bonds, 1 residue, 1 model selected  

> show sel atoms

> select #1.1/A:353

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1.1/A:353

12 atoms, 12 bonds, 1 residue, 1 model selected  

> show sel atoms

> select #1.1/A:297

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1.1/A:297

12 atoms, 12 bonds, 1 residue, 1 model selected  

> show sel atoms

> select #1.1/A:320

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select #1.1/A:320

8 atoms, 7 bonds, 1 residue, 1 model selected  

> show sel atoms

> select #1.1/A:427

7 atoms, 6 bonds, 1 residue, 1 model selected  

> select #1.1/A

1229 atoms, 1258 bonds, 155 residues, 1 model selected  

> color sel byhetero

> select #1.1/A:278

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

> select #1.1/A:278

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

> save "/Users/iamsarahhan/OneDrive - University of Cambridge/Main PhD
> Project/Thesis/Chapter Drug repurposing/argatroban.cxs"

> open "/Users/iamsarahhan/Library/CloudStorage/OneDrive-
> UniversityofCambridge/Main PhD Project/Thesis/Chapter Drug
> repurposing/drugs/NRPb1receptor_Lodoxamide_out_2.-6.1.complex.pdb"

Summary of feedback from opening
/Users/iamsarahhan/Library/CloudStorage/OneDrive-UniversityofCambridge/Main
PhD Project/Thesis/Chapter Drug
repurposing/drugs/NRPb1receptor_Lodoxamide_out_2.-6.1.complex.pdb  
---  
warning | Ignored bad PDB record found on line 1  
REMARK The PDB FILE IS CREATED BY CY's PROGRAM AT Fri Aug 15 01:45:07 2025  
  
Chain information for NRPb1receptor_Lodoxamide_out_2.-6.1.complex.pdb  
---  
Chain | Description  
2.1/A | No description available  
  

> hide #!1.2 models

> hide #2.2 models

> show #2.2 models

> hide #2.1 models

> show #2.1 models

> hide #2.1 models

> hide #!2 models

> show #!2 models

> hide #2.2 models

> show #2.2 models

> hide #!1 models

> show #!1 models

> select #1.1/A:329

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select #1.1/A:329

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select #1.1/A:320

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select #1.1/A:320

8 atoms, 7 bonds, 1 residue, 1 model selected  

> hide sel atoms

> select add #1.1

1229 atoms, 1258 bonds, 155 residues, 1 model selected  

> select subtract #1.1

Nothing selected  

> select #1.1/A:300-301

22 atoms, 23 bonds, 2 residues, 1 model selected  

> select #1.1/A:300-301

22 atoms, 23 bonds, 2 residues, 1 model selected  

> hide sel atoms

> show sel atoms

> select #1.1/A:297

12 atoms, 12 bonds, 1 residue, 1 model selected  

> select #1.1/A:297

12 atoms, 12 bonds, 1 residue, 1 model selected  

> show sel atoms

> select #1.1/A:316

7 atoms, 6 bonds, 1 residue, 1 model selected  

> select #1.1/A:316

7 atoms, 6 bonds, 1 residue, 1 model selected  

> show sel atoms

> hide sel atoms

> select #1.1/A:427

7 atoms, 6 bonds, 1 residue, 1 model selected  

> select #1.1/A

1229 atoms, 1258 bonds, 155 residues, 1 model selected  

> color sel byhetero

> select add #1

1271 atoms, 1302 bonds, 156 residues, 3 models selected  

> select subtract #1

Nothing selected  

> select #1.1/A:302

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

> select #1.1/A:302

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

> select #1.1/A:298

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

> select #1.1/A:298

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

> show sel atoms

> select add #1.1

1229 atoms, 1258 bonds, 155 residues, 1 model selected  

> select subtract #1.1

Nothing selected  

> ui tool show Distances

Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/triggerset.py", line 149, in invoke  
return self._func(self._name, data)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/cmd_line/tool.py", line 351, in _command_started_cb  
self.history_dialog.add(self._just_typed_command or cmd_text,  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/cmd_line/tool.py", line 456, in add  
self._history.enqueue((item, typed))  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/history.py", line 182, in enqueue  
self.save()  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/history.py", line 212, in save  
self._history.save(self._queue)  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/history.py", line 119, in save  
with SaveTextFile(self._filename) as f:  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/safesave.py", line 191, in __init__  
SaveFile.__init__(self, filename, open=open_text, critical=critical)  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/safesave.py", line 85, in __init__  
self._f = open(self._tmp_filename)  
^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/safesave.py", line 190, in open_text  
return open(filename, 'w', newline=newline, encoding=encoding)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
OSError: [Errno 28] No space left on device:
'/Users/iamsarahhan/Library/Application Support/ChimeraX/commands.84299.tmp'  
  

Window position QRect(2090,376 600x300) outside any known screen, using
primary screen  

Error processing trigger "command started":  
OSError: [Errno 28] No space left on device:
'/Users/iamsarahhan/Library/Application Support/ChimeraX/commands.84299.tmp'  
  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/safesave.py", line 190, in open_text  
return open(filename, 'w', newline=newline, encoding=encoding)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
  
See log for complete Python traceback.  
  

> ui tool show Distances

Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/triggerset.py", line 149, in invoke  
return self._func(self._name, data)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/cmd_line/tool.py", line 351, in _command_started_cb  
self.history_dialog.add(self._just_typed_command or cmd_text,  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/cmd_line/tool.py", line 456, in add  
self._history.enqueue((item, typed))  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/history.py", line 182, in enqueue  
self.save()  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/history.py", line 212, in save  
self._history.save(self._queue)  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/history.py", line 119, in save  
with SaveTextFile(self._filename) as f:  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/safesave.py", line 191, in __init__  
SaveFile.__init__(self, filename, open=open_text, critical=critical)  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/safesave.py", line 85, in __init__  
self._f = open(self._tmp_filename)  
^^^^^^^^^^^^^^^^^^^^^^^^  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/safesave.py", line 190, in open_text  
return open(filename, 'w', newline=newline, encoding=encoding)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
OSError: [Errno 28] No space left on device:
'/Users/iamsarahhan/Library/Application Support/ChimeraX/commands.84299.tmp'  
  
Error processing trigger "command started":  
OSError: [Errno 28] No space left on device:
'/Users/iamsarahhan/Library/Application Support/ChimeraX/commands.84299.tmp'  
  
File
"/Applications/ChimeraX-1.7.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/core/safesave.py", line 190, in open_text  
return open(filename, 'w', newline=newline, encoding=encoding)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^  
  
See log for complete Python traceback.  
  




OpenGL version: 4.1 Metal - 89.4
OpenGL renderer: Apple M1
OpenGL vendor: Apple

Python: 3.11.2
Locale: en_US.UTF-8
Qt version: PyQt6 6.3.1, Qt 6.3.1
Qt runtime version: 6.3.2
Qt platform: cocoa
Hardware:

    Hardware Overview:

      Model Name: MacBook Air
      Model Identifier: MacBookAir10,1
      Model Number: MGND3B/A
      Chip: Apple M1
      Total Number of Cores: 8 (4 performance and 4 efficiency)
      Memory: 8 GB
      System Firmware Version: 11881.121.1
      OS Loader Version: 11881.121.1

Software:

    System Software Overview:

      System Version: macOS 15.5 (24F74)
      Kernel Version: Darwin 24.5.0
      Time since boot: 4 days, 7 hours, 4 minutes

Graphics/Displays:

    Apple M1:

      Chipset Model: Apple M1
      Type: GPU
      Bus: Built-In
      Total Number of Cores: 7
      Vendor: Apple (0x106b)
      Metal Support: Metal 3
      Displays:
        Color LCD:
          Display Type: Built-In Retina LCD
          Resolution: 2560 x 1600 Retina
          Main Display: Yes
          Mirror: Off
          Online: Yes
          Automatically Adjust Brightness: Yes
          Connection Type: Internal


Installed Packages:
    alabaster: 0.7.16
    appdirs: 1.4.4
    appnope: 0.1.3
    asttokens: 2.4.1
    Babel: 2.14.0
    backcall: 0.2.0
    beautifulsoup4: 4.11.2
    blockdiag: 3.0.0
    blosc2: 2.0.0
    build: 0.10.0
    certifi: 2022.12.7
    cftime: 1.6.3
    charset-normalizer: 3.3.2
    ChimeraX-AddCharge: 1.5.13
    ChimeraX-AddH: 2.2.5
    ChimeraX-AlignmentAlgorithms: 2.0.1
    ChimeraX-AlignmentHdrs: 3.4.1
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 2.12.2
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.1.1
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.1
    ChimeraX-Atomic: 1.49.1
    ChimeraX-AtomicLibrary: 12.1.5
    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: 2.0.4
    ChimeraX-BugReporter: 1.0.1
    ChimeraX-BuildStructure: 2.10.5
    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: 1.1
    ChimeraX-CheckWaters: 1.3.2
    ChimeraX-ChemGroup: 2.0.1
    ChimeraX-Clashes: 2.2.4
    ChimeraX-ColorActions: 1.0.3
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.5
    ChimeraX-CommandLine: 1.2.5
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.7.1
    ChimeraX-CoreFormats: 1.2
    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: 1.1.3
    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: 1.1.8
    ChimeraX-ListInfo: 1.2.2
    ChimeraX-Log: 1.1.6
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.9.1
    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: 2.1.2
    ChimeraX-MCopy: 1.0
    ChimeraX-MDcrds: 2.6.1
    ChimeraX-MedicalToolbar: 1.0.2
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.12.1
    ChimeraX-MMTF: 2.2
    ChimeraX-Modeller: 1.5.14
    ChimeraX-ModelPanel: 1.4
    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: 1.1
    ChimeraX-NRRD: 1.1
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.13.1
    ChimeraX-PDB: 2.7.3
    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
    ChimeraX-PubChem: 2.1
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.2
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.1
    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-SelInspector: 1.0
    ChimeraX-SeqView: 2.11
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0.1
    ChimeraX-Shortcuts: 1.1.1
    ChimeraX-ShowSequences: 1.0.2
    ChimeraX-SideView: 1.0.1
    ChimeraX-Smiles: 2.1.2
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.12.4
    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: 2.2.2
    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: 1.33.3
    ChimeraX-uniprot: 2.3
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.3.2
    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: 1.1.3
    ChimeraX-Zone: 1.0.1
    colorama: 0.4.6
    comm: 0.2.1
    contourpy: 1.2.0
    cxservices: 1.2.2
    cycler: 0.12.1
    Cython: 0.29.33
    debugpy: 1.8.0
    decorator: 5.1.1
    docutils: 0.19
    executing: 2.0.1
    filelock: 3.9.0
    fonttools: 4.47.2
    funcparserlib: 2.0.0a0
    glfw: 2.6.4
    grako: 3.16.5
    h5py: 3.10.0
    html2text: 2020.1.16
    idna: 3.6
    ihm: 0.38
    imagecodecs: 2023.9.18
    imagesize: 1.4.1
    ipykernel: 6.23.2
    ipython: 8.14.0
    ipython-genutils: 0.2.0
    ipywidgets: 8.1.1
    jedi: 0.18.2
    Jinja2: 3.1.2
    jupyter-client: 8.2.0
    jupyter-core: 5.7.1
    jupyterlab-widgets: 3.0.9
    kiwisolver: 1.4.5
    line-profiler: 4.0.2
    lxml: 4.9.2
    lz4: 4.3.2
    MarkupSafe: 2.1.4
    matplotlib: 3.7.2
    matplotlib-inline: 0.1.6
    msgpack: 1.0.4
    nest-asyncio: 1.6.0
    netCDF4: 1.6.2
    networkx: 3.1
    nibabel: 5.0.1
    nptyping: 2.5.0
    numexpr: 2.8.8
    numpy: 1.25.1
    openvr: 1.23.701
    packaging: 21.3
    ParmEd: 3.4.3
    parso: 0.8.3
    pep517: 0.13.0
    pexpect: 4.9.0
    pickleshare: 0.7.5
    pillow: 10.2.0
    pip: 23.0
    pkginfo: 1.9.6
    platformdirs: 4.1.0
    prompt-toolkit: 3.0.43
    psutil: 5.9.5
    ptyprocess: 0.7.0
    pure-eval: 0.2.2
    py-cpuinfo: 9.0.0
    pycollada: 0.7.2
    pydicom: 2.3.0
    Pygments: 2.16.1
    pynrrd: 1.0.0
    PyOpenGL: 3.1.7
    PyOpenGL-accelerate: 3.1.7
    pyopenxr: 1.0.2801
    pyparsing: 3.0.9
    pyproject-hooks: 1.0.0
    PyQt6-commercial: 6.3.1
    PyQt6-Qt6: 6.3.2
    PyQt6-sip: 13.4.0
    PyQt6-WebEngine-commercial: 6.3.1
    PyQt6-WebEngine-Qt6: 6.3.2
    python-dateutil: 2.8.2
    pytz: 2023.3.post1
    pyzmq: 25.1.2
    qtconsole: 5.4.3
    QtPy: 2.4.1
    RandomWords: 0.4.0
    requests: 2.31.0
    scipy: 1.11.1
    setuptools: 67.4.0
    setuptools-scm: 7.0.5
    sfftk-rw: 0.7.3
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    soupsieve: 2.5
    sphinx: 6.1.3
    sphinx-autodoc-typehints: 1.22
    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: 0.5.0
    tables: 3.8.0
    tcia-utils: 1.5.1
    tifffile: 2023.7.18
    tinyarray: 1.2.4
    tomli: 2.0.1
    tornado: 6.4
    traitlets: 5.9.0
    typing-extensions: 4.9.0
    tzdata: 2023.4
    urllib3: 2.1.0
    wcwidth: 0.2.13
    webcolors: 1.12
    wheel: 0.38.4
    wheel-filename: 1.4.1
    widgetsnbextension: 4.0.9