OrderDAGError saving GLTF in session

[chimerax-bug-report@…]

The following bug report has been submitted:
Platform:        macOS-13.5.1-arm64-arm-64bit
ChimeraX Version: 1.6rc202303310103 (2023-03-31 01:03:33 UTC)
Description
(Describe the actions that caused this problem to occur here)

Log:
You can double click a model's Name or ID in the model panel to edit those
fields  
UCSF ChimeraX version: 1.6rc202303310103 (2023-03-31)  
© 2016-2023 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open /Users/carinalinnemann/Downloads/AF-Q8NHY0-F1.glb

Opened glTF file containing 1 scenes, 1 nodes, 1 meshes  

> set bgColor white

> show cartoons

> hide cartoons

[Repeated 2 time(s)]

> show target m

> movie record

> turn y 2 180

> wait 180

> movie encode /Users/carinalinnemann/Desktop/movie1.mp4

Movie saved to /Users/carinalinnemann/Desktop/movie1.mp4  
  

> movie record

> turn y 2 180

> wait 180

> movie encode /Users/carinalinnemann/Desktop/movie2.mp4

Movie saved to /Users/carinalinnemann/Desktop/movie2.mp4  
  

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

> show cartoons

> ui tool show "Side View"

[Repeated 1 time(s)]

> graphics silhouettes true

> lighting shadows true

> lighting shadows false

> lighting shadows true

> lighting flat

[Repeated 1 time(s)]

> lighting full

> lighting soft

> lighting simple

> select add #1.1

1 model selected  

> lighting flat

[Repeated 1 time(s)]

> select subtract #1.1

Nothing selected  

> graphics silhouettes false

> graphics silhouettes true

> lighting shadows true intensity 0.5

> lighting shadows false

> lighting shadows true

> lighting flat

[Repeated 1 time(s)]

> lighting full

> lighting soft

> lighting full

> lighting simple

> lighting flat

> lighting full

> nucleotides tube/slab shape box

> select add #1.1

1 model selected  

> show surfaces

> show cartoons

[Repeated 1 time(s)]

> select subtract #1.1

Nothing selected  

> select amino acid 48-63

Expected an objects specifier or a keyword  

> select residues 48-63

Invalid "residues" argument: Expected true or false (or 1 or 0)  

> select residues 48

Invalid "residues" argument: Expected true or false (or 1 or 0)  

> select add #1.1

1 model selected  

> select residues 48

Invalid "residues" argument: Expected true or false (or 1 or 0)  

> ~hbonds

[Repeated 1 time(s)]

> select clear

> mlp

mlp: no amino acids specified  

> select subtract #1.1

Nothing selected  

> select add #1.1

1 model selected  

> mlp

mlp: no amino acids specified  

> select subtract #1.1

Nothing selected  

> mlp

mlp: no amino acids specified  

> mlp

mlp: no amino acids specified  

> select add #1.1

1 model selected  

> mlp

mlp: no amino acids specified  

> coulombic

To also show corresponding color key, enter the above coulombic command and
add key true  

> mlp

mlp: no amino acids specified  

> color bypolymer

> rainbow

> color bynucleotide

> select subtract #1.1

Nothing selected  

> set bgColor black

> set bgColor white

> save /Users/carinalinnemann/Desktop/B4GALNT2_Q8NHY0_alphafold.png width 866
> height 533 supersample 3

> movie record

> turn y 2 180

> wait 180

> movie encode /Users/carinalinnemann/Desktop/movie3.mp4

Movie saved to /Users/carinalinnemann/Desktop/movie3.mp4  
  

> open /Users/carinalinnemann/Downloads/AF-Q8NHY0-F1-model_v4.pdb

AF-Q8NHY0-F1-model_v4.pdb title:  
Alphafold monomer V2.0 prediction for β-1,4 N-acetylgalactosaminyltransferase
2 (Q8NHY0) [more info...]  
  
Chain information for AF-Q8NHY0-F1-model_v4.pdb #2  
---  
Chain | Description | UniProt  
A | β-1,4 N-acetylgalactosaminyltransferase 2 | B4GN2_HUMAN 1-566  
  

> hide #2 models

> show #2 models

> hide #1.1 models

> mlp

Map values for surface "AF-Q8NHY0-F1-model_v4.pdb_A SES surface": minimum
-28.56, mean -3.723, maximum 23.2  
To also show corresponding color key, enter the above mlp command and add key
true  

> mlp

Map values for surface "AF-Q8NHY0-F1-model_v4.pdb_A SES surface": minimum
-28.56, mean -3.723, maximum 23.2  
To also show corresponding color key, enter the above mlp command and add key
true  

> mlp

Map values for surface "AF-Q8NHY0-F1-model_v4.pdb_A SES surface": minimum
-28.56, mean -3.723, maximum 23.2  
To also show corresponding color key, enter the above mlp command and add key
true  

> rainbow

> mlp

Map values for surface "AF-Q8NHY0-F1-model_v4.pdb_A SES surface": minimum
-28.56, mean -3.723, maximum 23.2  
To also show corresponding color key, enter the above mlp command and add key
true  

> nucleotides tube/slab shape box

> hide surfaces

> show cartoons

> hide cartoons

> show cartoons

> show atoms

> hide atoms

> color bfactor

4467 atoms, 566 residues, 1 surfaces, atom bfactor range 22.9 to 98.9  

> color bynucleotide

> color bychain

> color bypolymer

> color bychain

> color byhetero

> color bychain

Alignment identifier is 2/A  

> select
> /A:65-96,119-125,152-155,161-178,262-271,319-321,333-346,380-390,411-420,480-486,498-503,529-542,546-559

1273 atoms, 1287 bonds, 150 residues, 1 model selected  

> slect residue 48

Unknown command: slect residue 48  

> select residues 48

Invalid "residues" argument: Expected true or false (or 1 or 0)  

> select residues 48

Invalid "residues" argument: Expected true or false (or 1 or 0)  

> select 48

Expected an objects specifier or a keyword  

> select residues

Missing "residues" keyword's argument  

> select empty

Expected an objects specifier or a keyword  

> select cler

Expected an objects specifier or a keyword  

> select clear

> select :sti

Nothing selected  

> select Residues

Expected an objects specifier or a keyword  

> select Residues 48

Expected an objects specifier or a keyword  

> select Residues 48

Expected an objects specifier or a keyword  

> select Residues 48

Expected an objects specifier or a keyword  

> select
> ::name="ALA"::name="ARG"::name="ASN"::name="ASP"::name="CYS"::name="GLN"::name="GLU"::name="GLY"::name="HIS"::name="ILE"::name="LEU"::name="LYS"::name="MET"::name="PHE"::name="PRO"::name="SER"::name="THR"::name="TRP"::name="TYR"::name="VAL"

4467 atoms, 4580 bonds, 566 residues, 1 model selected  

> select clear

> select :48-63

124 atoms, 129 bonds, 16 residues, 1 model selected  

> color: red

Unknown command: color: red  

> show sel atoms

[Repeated 1 time(s)]

> hide sel atoms

> style sel ball

Changed 124 atom styles  

> style sel ball

Changed 124 atom styles  

> volume style surface

No volumes specified  

> ui mousemode right "resize markers"

> ui mousemode right "mark surface"

> color (#!2 & sel) red

> color #2 #6cebe3ff

> color #2 #3eebe6ff

> color #2 #2b58ebff

> select: 48-63

Unknown command: select: 48-63  

> select :48-63

124 atoms, 129 bonds, 16 residues, 1 model selected  

> color (#!2 & sel) red

> select :61-68

69 atoms, 69 bonds, 8 residues, 1 model selected  

> color red sel

Expected a collection of one of 'All', 'atoms', 'bonds', 'cartoons', 'labels',
'models', 'pseudobonds', 'ribbons', 'rings', or 'surfaces' or a keyword  

> select :61-68

69 atoms, 69 bonds, 8 residues, 1 model selected  

> color (#!2 & sel) red

> color (#!2 & sel) magenta

> color (#!2 & sel) orange

> select :8-16

69 atoms, 70 bonds, 9 residues, 1 model selected  

> color (#!2 & sel) red

> select :20-60

292 atoms, 299 bonds, 41 residues, 1 model selected  

> color (#!2 & sel) blue

> select clear

> undo

> color (#!2 & sel) medium blue

> select clear

> movie record

> turn y 2 180

> wait 180

> movie encode /Users/carinalinnemann/Desktop/movie3.mp4

Movie saved to /Users/carinalinnemann/Desktop/movie3.mp4  
  

> save /Users/carinalinnemann/Desktop/B4GALNT2_Q8NHY0.cxs

Traceback (most recent call last):  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 899, in save  
session.save(output, version=version, include_maps=include_maps)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 628, in save  
for name, data in mgr.walk():  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 307, in walk  
key = next(odg)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 69, in order_dag  
yield from _postorder_traversal(path, d, node)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 82, in _postorder_traversal  
yield from _postorder_traversal(path, d, dnode)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 82, in _postorder_traversal  
yield from _postorder_traversal(path, d, dnode)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 82, in _postorder_traversal  
yield from _postorder_traversal(path, d, dnode)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 80, in _postorder_traversal  
raise OrderDAGError("cycle detected, reached %s from %s" % (repr(dnode),
repr(path)), path)  
chimerax.core.order_dag.OrderDAGError: cycle detected, reached <('ChimeraX-
gltf', 'gltfModel'), 1> from ['models', <'Models', 1>, <('ChimeraX-gltf',
'gltfModel'), 1>, <('ChimeraX-gltf', 'gltfModel'), 2>]  
  
chimerax.core.order_dag.OrderDAGError: cycle detected, reached from ['models',
, , ]  
  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 80, in _postorder_traversal  
raise OrderDAGError("cycle detected, reached %s from %s" % (repr(dnode),
repr(path)), path)  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/dialog.py", line 116, in <lambda>  
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/dialog.py", line 127, in show_save_file_dialog  
_dlg.display(session, **kw)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/dialog.py", line 51, in display  
run(session, cmd)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/run.py", line 38, in run  
results = command.run(text, log=log, return_json=return_json)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/cmd.py", line 75, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/cmd.py", line 90, in provider_save  
saver_info.save(session, path, **provider_kw)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core_formats/__init__.py", line 84, in save  
return cxs_save(session, path, **kw)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 899, in save  
session.save(output, version=version, include_maps=include_maps)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 628, in save  
for name, data in mgr.walk():  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 307, in walk  
key = next(odg)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 69, in order_dag  
yield from _postorder_traversal(path, d, node)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 82, in _postorder_traversal  
yield from _postorder_traversal(path, d, dnode)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 82, in _postorder_traversal  
yield from _postorder_traversal(path, d, dnode)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 82, in _postorder_traversal  
yield from _postorder_traversal(path, d, dnode)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 80, in _postorder_traversal  
raise OrderDAGError("cycle detected, reached %s from %s" % (repr(dnode),
repr(path)), path)  
chimerax.core.order_dag.OrderDAGError: cycle detected, reached <('ChimeraX-
gltf', 'gltfModel'), 1> from ['models', <'Models', 1>, <('ChimeraX-gltf',
'gltfModel'), 1>, <('ChimeraX-gltf', 'gltfModel'), 2>]  
  
chimerax.core.order_dag.OrderDAGError: cycle detected, reached from ['models',
, , ]  
  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 80, in _postorder_traversal  
raise OrderDAGError("cycle detected, reached %s from %s" % (repr(dnode),
repr(path)), path)  
  
See log for complete Python traceback.  
  

> save /Users/carinalinnemann/Desktop/B4GALNT2_Q8NHY0_alphafold.cxs

Traceback (most recent call last):  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 899, in save  
session.save(output, version=version, include_maps=include_maps)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 628, in save  
for name, data in mgr.walk():  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 307, in walk  
key = next(odg)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 69, in order_dag  
yield from _postorder_traversal(path, d, node)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 82, in _postorder_traversal  
yield from _postorder_traversal(path, d, dnode)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 82, in _postorder_traversal  
yield from _postorder_traversal(path, d, dnode)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 82, in _postorder_traversal  
yield from _postorder_traversal(path, d, dnode)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 80, in _postorder_traversal  
raise OrderDAGError("cycle detected, reached %s from %s" % (repr(dnode),
repr(path)), path)  
chimerax.core.order_dag.OrderDAGError: cycle detected, reached <('ChimeraX-
gltf', 'gltfModel'), 1> from ['models', <'Models', 1>, <('ChimeraX-gltf',
'gltfModel'), 1>, <('ChimeraX-gltf', 'gltfModel'), 2>]  
  
chimerax.core.order_dag.OrderDAGError: cycle detected, reached from ['models',
, , ]  
  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 80, in _postorder_traversal  
raise OrderDAGError("cycle detected, reached %s from %s" % (repr(dnode),
repr(path)), path)  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/toolbar/tool.py", line 165, in callback  
bundle_info.run_provider(session, name, session.toolbar,
display_name=display_name)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/toolshed/info.py", line 386, in run_provider  
return api._api_caller.run_provider(api, session, name, mgr, **kw)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/toolshed/__init__.py", line 1289, in run_provider  
return cls._get_func(api, "run_provider")(session, name, mgr, **kw)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/toolbar/__init__.py", line 37, in run_provider  
providers.run_provider(session, name)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/toolbar/providers.py", line 45, in run_provider  
what(session)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/toolbar/providers.py", line 27, in _file_save  
show_save_file_dialog(session)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/dialog.py", line 127, in show_save_file_dialog  
_dlg.display(session, **kw)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/dialog.py", line 51, in display  
run(session, cmd)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/run.py", line 38, in run  
results = command.run(text, log=log, return_json=return_json)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/cmd.py", line 75, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/cmd.py", line 90, in provider_save  
saver_info.save(session, path, **provider_kw)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core_formats/__init__.py", line 84, in save  
return cxs_save(session, path, **kw)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 899, in save  
session.save(output, version=version, include_maps=include_maps)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 628, in save  
for name, data in mgr.walk():  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 307, in walk  
key = next(odg)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 69, in order_dag  
yield from _postorder_traversal(path, d, node)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 82, in _postorder_traversal  
yield from _postorder_traversal(path, d, dnode)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 82, in _postorder_traversal  
yield from _postorder_traversal(path, d, dnode)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 82, in _postorder_traversal  
yield from _postorder_traversal(path, d, dnode)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 80, in _postorder_traversal  
raise OrderDAGError("cycle detected, reached %s from %s" % (repr(dnode),
repr(path)), path)  
chimerax.core.order_dag.OrderDAGError: cycle detected, reached <('ChimeraX-
gltf', 'gltfModel'), 1> from ['models', <'Models', 1>, <('ChimeraX-gltf',
'gltfModel'), 1>, <('ChimeraX-gltf', 'gltfModel'), 2>]  
  
chimerax.core.order_dag.OrderDAGError: cycle detected, reached from ['models',
, , ]  
  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 80, in _postorder_traversal  
raise OrderDAGError("cycle detected, reached %s from %s" % (repr(dnode),
repr(path)), path)  
  
See log for complete Python traceback.  
  
No map chosen to save  

> save /Users/carinalinnemann/Desktop/B4GALNT2_Q8NHY0.cxs

Traceback (most recent call last):  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 899, in save  
session.save(output, version=version, include_maps=include_maps)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 628, in save  
for name, data in mgr.walk():  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 307, in walk  
key = next(odg)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 69, in order_dag  
yield from _postorder_traversal(path, d, node)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 82, in _postorder_traversal  
yield from _postorder_traversal(path, d, dnode)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 82, in _postorder_traversal  
yield from _postorder_traversal(path, d, dnode)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 82, in _postorder_traversal  
yield from _postorder_traversal(path, d, dnode)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 80, in _postorder_traversal  
raise OrderDAGError("cycle detected, reached %s from %s" % (repr(dnode),
repr(path)), path)  
chimerax.core.order_dag.OrderDAGError: cycle detected, reached <('ChimeraX-
gltf', 'gltfModel'), 1> from ['models', <'Models', 1>, <('ChimeraX-gltf',
'gltfModel'), 1>, <('ChimeraX-gltf', 'gltfModel'), 2>]  
  
chimerax.core.order_dag.OrderDAGError: cycle detected, reached from ['models',
, , ]  
  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 80, in _postorder_traversal  
raise OrderDAGError("cycle detected, reached %s from %s" % (repr(dnode),
repr(path)), path)  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/toolbar/tool.py", line 165, in callback  
bundle_info.run_provider(session, name, session.toolbar,
display_name=display_name)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/toolshed/info.py", line 386, in run_provider  
return api._api_caller.run_provider(api, session, name, mgr, **kw)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/toolshed/__init__.py", line 1289, in run_provider  
return cls._get_func(api, "run_provider")(session, name, mgr, **kw)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/toolbar/__init__.py", line 37, in run_provider  
providers.run_provider(session, name)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/toolbar/providers.py", line 45, in run_provider  
what(session)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/toolbar/providers.py", line 27, in _file_save  
show_save_file_dialog(session)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/dialog.py", line 127, in show_save_file_dialog  
_dlg.display(session, **kw)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/dialog.py", line 51, in display  
run(session, cmd)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/run.py", line 38, in run  
results = command.run(text, log=log, return_json=return_json)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/cmd.py", line 75, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/commands/cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/save_command/cmd.py", line 90, in provider_save  
saver_info.save(session, path, **provider_kw)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core_formats/__init__.py", line 84, in save  
return cxs_save(session, path, **kw)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 899, in save  
session.save(output, version=version, include_maps=include_maps)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 628, in save  
for name, data in mgr.walk():  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/session.py", line 307, in walk  
key = next(odg)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 69, in order_dag  
yield from _postorder_traversal(path, d, node)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 82, in _postorder_traversal  
yield from _postorder_traversal(path, d, dnode)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 82, in _postorder_traversal  
yield from _postorder_traversal(path, d, dnode)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 82, in _postorder_traversal  
yield from _postorder_traversal(path, d, dnode)  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 80, in _postorder_traversal  
raise OrderDAGError("cycle detected, reached %s from %s" % (repr(dnode),
repr(path)), path)  
chimerax.core.order_dag.OrderDAGError: cycle detected, reached <('ChimeraX-
gltf', 'gltfModel'), 1> from ['models', <'Models', 1>, <('ChimeraX-gltf',
'gltfModel'), 1>, <('ChimeraX-gltf', 'gltfModel'), 2>]  
  
chimerax.core.order_dag.OrderDAGError: cycle detected, reached from ['models',
, , ]  
  
File
"/Users/carinalinnemann/Desktop/ChimeraX-1.6-rc2023.03.31.app/Contents/Library/Frameworks/Python.framework/Versions/3.9/lib/python3.9/site-
packages/chimerax/core/order_dag.py", line 80, in _postorder_traversal  
raise OrderDAGError("cycle detected, reached %s from %s" % (repr(dnode),
repr(path)), path)  
  
See log for complete Python traceback.  
  




OpenGL version: 4.1 Metal - 83.1
OpenGL renderer: Apple M1
OpenGL vendor: Apple

Python: 3.9.11
Locale: UTF-8
Qt version: PyQt6 6.4.2, Qt 6.4.2
Qt runtime version: 6.4.3
Qt platform: cocoa
Hardware:

    Hardware Overview:

      Model Name: MacBook Air
      Model Identifier: MacBookAir10,1
      Model Number: MGND3D/A
      Chip: Apple M1
      Total Number of Cores: 8 (4 performance and 4 efficiency)
      Memory: 8 GB
      System Firmware Version: 8422.141.2
      OS Loader Version: 8422.141.2

Software:

    System Software Overview:

      System Version: macOS 13.5.1 (22G90)
      Kernel Version: Darwin 22.6.0
      Time since boot: 5 Tage, 5 Stunden und 41 Minuten

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: 0.7.13
    appdirs: 1.4.4
    appnope: 0.1.3
    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: 2021.10.8
    cftime: 1.6.2
    charset-normalizer: 3.1.0
    ChimeraX-AddCharge: 1.5.9
    ChimeraX-AddH: 2.2.4
    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: 1.6rc202303310103
    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-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
    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: 1.10.2
    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: 1.6.6
    decorator: 5.1.1
    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: 2022.2.22
    imagesize: 1.4.1
    importlib-metadata: 6.1.0
    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: 21.3
    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: 3.2.0
    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
    setuptools-scm: 7.0.5
    sfftk-rw: 0.7.3
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    soupsieve: 2.4
    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: 6.2
    traitlets: 5.9.0
    typing-extensions: 4.5.0
    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