Error setting cavity color

[chimerax-bug-report@…]

The following bug report has been submitted:
Platform:        Windows-10-10.0.26100
ChimeraX Version: 1.9 (2024-12-11 19:11:19 UTC)
Description
Replace this text with list of actions that caused this problem to occur

Log:
Startup Messages  
---  
note | available bundle cache has not been initialized yet  
  
You can double click a model's Name or ID in the model panel to edit those
fields  
UCSF ChimeraX version: 1.9 (2024-12-11)  
© 2016-2024 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open C:\Users\SNUH\Desktop\HZ_NEW.pdb format pdb

No such file/path: C:\Users\SNUH\Desktop\HZ_NEW.pdb  

> open C:\Users\SNUH\Desktop\HZ_NEW.pdb format pdb

No such file/path: C:\Users\SNUH\Desktop\HZ_NEW.pdb  

> open F:\020325_바탕화면\이형지\HZ_NEW.pdb format pdb

Summary of feedback from opening F:\020325_바탕화면\이형지\HZ_NEW.pdb  
---  
warnings | Start residue of secondary structure not found: HELIX 1 1 LYS A 564 HIS A 566 1 3  
Start residue of secondary structure not found: HELIX 2 2 ASN A 576 ALA A 584
1 9  
Start residue of secondary structure not found: HELIX 3 3 ILE A 653 GLU A 665
1 13  
Start residue of secondary structure not found: HELIX 4 4 ARG A 690 ASP A 699
1 10  
Start residue of secondary structure not found: HELIX 5 5 THR A 709 ALA A 719
1 11  
15 messages similar to the above omitted  
  
Chain information for HZ_NEW.pdb  
---  
Chain | Description  
1.1/A | No description available  
  

> ui tool show "Find Cavities"

No structures chosen  

> ui tool show "Find Cavities"

pyKVFinder module not installed; fetching from PyPi repository...  

Errors may have occurred when running pip:  

pip standard error:  
\---  
ERROR: pip's dependency resolver does not currently take into account all the
packages that are installed. This behaviour is the source of the following
dependency conflicts.  
chimerax-bundlebuilder 1.4.0 requires numpy==1.26.4, but you have numpy 2.2.4
which is incompatible.  
nptyping 2.5.0 requires numpy<2.0.0,>=1.20.0; python_version >= "3.8", but you
have numpy 2.2.4 which is incompatible.  
\---  

pip standard output:  
\---  
\---  

> kvfinder #1.1

13 cavities found for HZ_NEW.pdb #1.1  
HZ_NEW.pdb Cavities  
---  
ID |  | Volume | Area | Points  
1.1.2.1 |  | 1032.05 | 815.14 | 4778  
1.1.2.3 |  | 68.47 | 112.73 | 317  
1.1.2.7 |  | 38.66 | 50 | 179  
1.1.2.5 |  | 31.32 | 59.32 | 145  
1.1.2.2 |  | 19.66 | 30.97 | 91  
1.1.2.6 |  | 16.85 | 32.3 | 78  
1.1.2.13 |  | 11.23 | 22.87 | 52  
1.1.2.11 |  | 10.8 | 19.63 | 50  
1.1.2.8 |  | 9.94 | 19.63 | 46  
1.1.2.10 |  | 9.29 | 17.87 | 43  
1.1.2.4 |  | 8.86 | 14.42 | 41  
1.1.2.9 |  | 6.7 | 15.05 | 31  
1.1.2.12 |  | 5.83 | 8.75 | 27  
  

> view #1.1.2.1 @< 3.5

> zoom 0.75

moved plane near -41.91918173562165 [0.65130875 0.53325002 0.53985307]  
moved plane far -41.91918173562165 [0.65130875 0.53325002 0.53985307]  

> surface #1.1.2

> transparency #1.1.2 50

> ~surface #1.1.2

> surface #1.1.2.1

> show #!1.1 & (#1.1.2.1 :< 3.5)

> view #!1.1.2.3 @< 3.5

> zoom 0.75

moved plane near -24.55326796851142 [0.06193343 0.34597562 0.93619716]  
moved plane far -24.55326796851142 [0.06193343 0.34597562 0.93619716]  

> ~surface #1.1.2

> surface #!1.1.2.3

> show #!1.1 & (#!1.1.2.3 :< 3.5)

> hide #1.2 models

> view #!1.1.2.7 @< 3.5

> zoom 0.75

moved plane near -16.60286945310799 [0.29963001 0.38064692 0.87483129]  
moved plane far -16.60286945310799 [0.29963001 0.38064692 0.87483129]  

> ~surface #1.1.2

> surface #!1.1.2.7

> show #!1.1 & (#!1.1.2.7 :< 3.5)

> view #!1.1.2.5 @< 3.5

> zoom 0.75

moved plane near -21.060248151569457 [0.62562244 0.14612558 0.76631839]  
moved plane far -21.060248151569457 [0.62562244 0.14612558 0.76631839]  

> ~surface #1.1.2

> surface #!1.1.2.5

> show #!1.1 & (#!1.1.2.5 :< 3.5)

> select #!1.1 & (#!1.1.2.5 @< 3.5)

36 atoms, 26 bonds, 10 residues, 1 model selected  

> ~select #!1.1 & (#!1.1.2.5 @< 3.5)

Nothing selected  

> select #!1.1 & (#!1.1.2.5 @< 3.5)

36 atoms, 26 bonds, 10 residues, 1 model selected  

> show #1.2 models

> hide #1.2 models

> view #1.1

> view #!1.1.2.5 @< 3.5

> zoom 0.75

moved plane near -21.191221915267448 [0.35220264 0.16102191 0.92196814]  
moved plane far -21.191221915267448 [0.35220264 0.16102191 0.92196814]  

> view #1.1

> ~surface #1.1.2

[Repeated 1 time(s)]

> surface #!1.1.2.5

> ~surface #1.1.2

[Repeated 1 time(s)]

> surface #!1.1.2.5

> hide #!1.1 & (#!1.1.2.5 :< 3.5)

> show #!1.1 & (#!1.1.2.5 :< 3.5)

> select #!1.1.2.5

145 atoms, 1 residue, 1 model selected  

> ~select #!1.1.2.5

1 model selected  

> select #!1.1.2.5

145 atoms, 1 residue, 1 model selected  

> show #1.2 models

> hide #1.2 models

> ~surface #1.1.2

> surface #!1.1.2.1

> select #!1.1 & (#!1.1.2.1 @< 3.5)

344 atoms, 301 bonds, 1 pseudobond, 75 residues, 2 models selected  

> select #!1.1.2.1

4778 atoms, 1 residue, 1 model selected  

> show #!1.1 & (#!1.1.2.1 :< 3.5)

> show #1.2 models

> hide #1.2 models

> show #1.2 models

> hide #1.2 models

> ~surface #1.1.2

> surface #!1.1.2.12

> select #!1.1 & (#!1.1.2.12 @< 3.5)

21 atoms, 17 bonds, 7 residues, 1 model selected  

> select #!1.1.2.12

27 atoms, 1 residue, 1 model selected  

> show #!1.1 & (#!1.1.2.12 :< 3.5)

> ~surface #1.1.2

> surface #!1.1.2.9

> select #!1.1 & (#!1.1.2.9 @< 3.5)

17 atoms, 11 bonds, 6 residues, 1 model selected  

> select #!1.1.2.9

31 atoms, 1 residue, 1 model selected  

> show #!1.1 & (#!1.1.2.9 :< 3.5)

> ~surface #1.1.2

> surface #!1.1.2.4

> select #!1.1 & (#!1.1.2.4 @< 3.5)

18 atoms, 13 bonds, 6 residues, 1 model selected  

> select #!1.1.2.4

41 atoms, 1 residue, 1 model selected  

> show #!1.1 & (#!1.1.2.4 :< 3.5)

> ~surface #1.1.2

> surface #!1.1.2.10

> select #!1.1 & (#!1.1.2.10 @< 3.5)

27 atoms, 23 bonds, 5 residues, 1 model selected  

> select #!1.1.2.10

43 atoms, 1 residue, 1 model selected  

> show #!1.1 & (#!1.1.2.10 :< 3.5)

> ~surface #1.1.2

> surface #!1.1.2.8

> select #!1.1 & (#!1.1.2.8 @< 3.5)

22 atoms, 18 bonds, 5 residues, 1 model selected  

> select #!1.1.2.8

46 atoms, 1 residue, 1 model selected  

> show #!1.1 & (#!1.1.2.8 :< 3.5)

> ~surface #1.1.2

> surface #!1.1.2.11

> select #!1.1 & (#!1.1.2.11 @< 3.5)

23 atoms, 17 bonds, 6 residues, 1 model selected  

> select #!1.1.2.11

50 atoms, 1 residue, 1 model selected  

> show #!1.1 & (#!1.1.2.11 :< 3.5)

> ~surface #1.1.2

> surface #!1.1.2.13

> select #!1.1 & (#!1.1.2.13 @< 3.5)

36 atoms, 30 bonds, 11 residues, 1 model selected  

> select #!1.1.2.13

52 atoms, 1 residue, 1 model selected  

> show #!1.1 & (#!1.1.2.13 :< 3.5)

> ~surface #1.1.2

> surface #!1.1.2.6

> select #!1.1 & (#!1.1.2.6 @< 3.5)

26 atoms, 21 bonds, 6 residues, 1 model selected  

> select #!1.1.2.6

78 atoms, 1 residue, 1 model selected  

> show #!1.1 & (#!1.1.2.6 :< 3.5)

> ~surface #1.1.2

> surface #!1.1.2.2

> select #!1.1 & (#!1.1.2.2 @< 3.5)

37 atoms, 29 bonds, 9 residues, 1 model selected  

> select #!1.1.2.2

91 atoms, 1 residue, 1 model selected  

> show #!1.1 & (#!1.1.2.2 :< 3.5)

> ~surface #1.1.2

> surface #!1.1.2.5

> select #!1.1 & (#!1.1.2.5 @< 3.5)

36 atoms, 26 bonds, 10 residues, 1 model selected  

> select #!1.1.2.5

145 atoms, 1 residue, 1 model selected  

> show #!1.1 & (#!1.1.2.5 :< 3.5)

> ~surface #1.1.2

> surface #!1.1.2.7

> select #!1.1 & (#!1.1.2.7 @< 3.5)

38 atoms, 28 bonds, 11 residues, 1 model selected  

> select #!1.1.2.7

179 atoms, 1 residue, 1 model selected  

> show #!1.1 & (#!1.1.2.7 :< 3.5)

> ~surface #1.1.2

> surface #!1.1.2.3

> select #!1.1 & (#!1.1.2.3 @< 3.5)

92 atoms, 73 bonds, 26 residues, 1 model selected  

> select #!1.1.2.3

317 atoms, 1 residue, 1 model selected  

> show #!1.1 & (#!1.1.2.3 :< 3.5)

> show #1.2 models

> hide #1.2 models

> ~select #!1.1.2.3

1 model selected  

> select #!1.1.2.3

317 atoms, 1 residue, 1 model selected  

> ~surface #1.1.2

[Repeated 1 time(s)]

> surface #!1.1.2.3

> view #!1.1.2.3 @< 3.5

> zoom 0.75

moved plane near -29.79621319235191 [0.91104589 0.06689271 0.40684242]  
moved plane far -29.79621319235191 [0.91104589 0.06689271 0.40684242]  

> ~select #!1.1 & (#!1.1.2.3 @< 3.5)

317 atoms, 1 residue, 2 models selected  

> select #!1.1 & (#!1.1.2.3 @< 3.5)

92 atoms, 73 bonds, 26 residues, 1 model selected  

> show #1.2 models

> hide #1.2 models

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

> show sel surfaces

> show #1.2 models

> hide #1.2 models

> hide sel surfaces

> hide #!1.1 & (#!1.1.2.3 :< 3.5)

> show #!1.1 & (#!1.1.2.3 :< 3.5)

> hide #!1.1 & (#!1.1.2.3 :< 3.5)

> show #!1.1 & (#!1.1.2.3 :< 3.5)

> ~select #!1.1.2.3

92 atoms, 73 bonds, 26 residues, 2 models selected  

> select #!1.1.2.3

317 atoms, 1 residue, 1 model selected  

> ~select #!1.1.2.3

1 model selected  

> select #!1.1.2.3

317 atoms, 1 residue, 1 model selected  

> ~surface #1.1.2

[Repeated 1 time(s)]

> surface #!1.1.2.3

> view #1.1

> view #!1.1.2.3 @< 3.5

> zoom 0.75

moved plane near -22.82724226437306 [0.843433 0.00397288 0.53721968]  
moved plane far -22.82724226437306 [0.843433 0.00397288 0.53721968]  

> hide #!1.1 & (#!1.1.2.3 :< 3.5)

> show #!1.1 & (#!1.1.2.3 :< 3.5)

> hide #!1.1 & (#!1.1.2.3 :< 3.5)

> show #!1.1 & (#!1.1.2.3 :< 3.5)

> hide #!1.1 & (#!1.1.2.3 :< 3.5)

> show #!1.1 & (#!1.1.2.3 :< 3.5)

> hide #!1.1 & (#!1.1.2.3 :< 3.5)

> show #!1.1 & (#!1.1.2.3 :< 3.5)

> hide #!1.1 & (#!1.1.2.3 :< 3.5)

> show #!1.1 & (#!1.1.2.3 :< 3.5)

> hide #!1.1 & (#!1.1.2.3 :< 3.5)

> show #!1.1 & (#!1.1.2.3 :< 3.5)

> hide #!1.1 & (#!1.1.2.3 :< 3.5)

> show #!1.1 & (#!1.1.2.3 :< 3.5)

> show #1.2 models

> hide #1.2 models

> show #1.2 models

> hide #1.2 models

> show #1.2 models

> hide #!1.1 & (#!1.1.2.3 :< 3.5)

> show #!1.1 & (#!1.1.2.3 :< 3.5)

> hide #!1.1 & (#!1.1.2.3 :< 3.5)

> ~select #!1.1 & (#!1.1.2.3 @< 3.5)

317 atoms, 1 residue, 2 models selected  

> select #!1.1 & (#!1.1.2.3 @< 3.5)

92 atoms, 73 bonds, 26 residues, 1 model selected  

> show #!1.1 & (#!1.1.2.3 :< 3.5)

> hide #!1.1 & (#!1.1.2.3 :< 3.5)

> ~select #!1.1 & (#!1.1.2.3 @< 3.5)

1 model selected  

> select #!1.1 & (#!1.1.2.3 @< 3.5)

92 atoms, 73 bonds, 26 residues, 1 model selected  

> view #!1.1.2.1 @< 3.5

> zoom 0.75

moved plane near -42.79972438520153 [ 0.74224003 -0.65987149 0.11683046]  
moved plane far -42.79972438520153 [ 0.74224003 -0.65987149 0.11683046]  

> ~surface #1.1.2

> surface #!1.1.2.1

> select #!1.1 & (#!1.1.2.1 @< 3.5)

344 atoms, 301 bonds, 1 pseudobond, 75 residues, 2 models selected  

> select #!1.1.2.1

4778 atoms, 1 residue, 1 model selected  

> hide #1.2 models

> show #1.2 models

> hide #1.2 models

> view #!1.1.2.3 @< 3.5

> zoom 0.75

moved plane near -28.250017916524428 [ 0.67557637 -0.7243419 -0.13756955]  
moved plane far -28.250017916524428 [ 0.67557637 -0.7243419 -0.13756955]  

> ~surface #1.1.2

> surface #!1.1.2.3

> select #!1.1 & (#!1.1.2.3 @< 3.5)

92 atoms, 73 bonds, 26 residues, 1 model selected  

> select #!1.1.2.3

317 atoms, 1 residue, 1 model selected  

> ~select #!1.1 & (#!1.1.2.3 @< 3.5)

317 atoms, 1 residue, 2 models selected  

> select #!1.1 & (#!1.1.2.3 @< 3.5)

92 atoms, 73 bonds, 26 residues, 1 model selected  

> show #1.2 models

> hide #1.2 models

> show #1.2 models

> hide #!1.1 models

> show #!1.1 models

> hide #1.2 models

> show #1.2 models

> show sel surfaces

> hide sel surfaces

> hide #1.2 models

> ui mousemode right select

> ui mousemode right translate

> view #!1.1.2.7 @< 3.5

> zoom 0.75

moved plane near -15.204812410605717 [ 0.86651736 -0.0530612 0.49631863]  
moved plane far -15.204812410605717 [ 0.86651736 -0.0530612 0.49631863]  

> ~surface #1.1.2

> surface #!1.1.2.7

> select #!1.1 & (#!1.1.2.7 @< 3.5)

38 atoms, 28 bonds, 11 residues, 1 model selected  

> select #!1.1.2.7

179 atoms, 1 residue, 1 model selected  

> view #!1.1.2.5 @< 3.5

> zoom 0.75

moved plane near -17.024220518575746 [ 0.86651736 -0.0530612 0.49631863]  
moved plane far -17.024220518575746 [ 0.86651736 -0.0530612 0.49631863]  

> ~surface #1.1.2

> surface #!1.1.2.5

> select #!1.1 & (#!1.1.2.5 @< 3.5)

36 atoms, 26 bonds, 10 residues, 1 model selected  

> select #!1.1.2.5

145 atoms, 1 residue, 1 model selected  

> view #!1.1.2.3 @< 3.5

> zoom 0.75

moved plane near -22.220113626896666 [ 0.86651736 -0.0530612 0.49631863]  
moved plane far -22.220113626896666 [ 0.86651736 -0.0530612 0.49631863]  

> ~surface #1.1.2

> surface #!1.1.2.3

> select #!1.1 & (#!1.1.2.3 @< 3.5)

92 atoms, 73 bonds, 26 residues, 1 model selected  

> select #!1.1.2.3

317 atoms, 1 residue, 1 model selected  

> ~select #!1.1 & (#!1.1.2.3 @< 3.5)

317 atoms, 1 residue, 2 models selected  

> select #!1.1 & (#!1.1.2.3 @< 3.5)

92 atoms, 73 bonds, 26 residues, 1 model selected  

> ~select #!1.1 & (#!1.1.2.3 @< 3.5)

1 model selected  

> select #!1.1 & (#!1.1.2.3 @< 3.5)

92 atoms, 73 bonds, 26 residues, 1 model selected  

> ~select #!1.1.2.3

92 atoms, 73 bonds, 26 residues, 2 models selected  

> ~select #!1.1 & (#!1.1.2.3 @< 3.5)

1 model selected  

> select #!1.1 & (#!1.1.2.3 @< 3.5)

92 atoms, 73 bonds, 26 residues, 1 model selected  

> ~label (#!1.1 & sel) residues

> ui tool show ViewDockX

No suitable models found for ViewDockX  

> show #1.2 models

> ui tool show Contacts

> contacts resSeparation 1 interModel false intraMol false dashes 8 radius
> 0.105

430 contacts  

> contacts ignoreHiddenModels true

5564 contacts  

> hide #2 models

> select #!1.1/A

2099 atoms, 2070 bonds, 1433 pseudobonds, 321 residues, 3 models selected  

> hide #1.2 models

> show #1.2 models

> hide #1.2 models

> hide #!1.1 models

> show #1.2 models

> show #1.2 surfaces

> show #!1.1 models

> show sel surfaces

> hide sel surfaces

> select add #1.2

2194 atoms, 2165 bonds, 1433 pseudobonds, 322 residues, 7 models selected  

> select subtract #1.2

2099 atoms, 2070 bonds, 1433 pseudobonds, 321 residues, 5 models selected  

> select add #1.2

2194 atoms, 2165 bonds, 1433 pseudobonds, 322 residues, 7 models selected  

> select add #1.1

8072 atoms, 2165 bonds, 5438 pseudobonds, 335 residues, 25 models selected  

> select subtract #1.1

95 atoms, 95 bonds, 1 residue, 18 models selected  

> select add #1.1

8072 atoms, 2165 bonds, 5438 pseudobonds, 335 residues, 24 models selected  

> hide #!1.2 models

> select subtract #1.1

95 atoms, 95 bonds, 1 residue, 16 models selected  

> select add #1.1

8072 atoms, 2165 bonds, 5438 pseudobonds, 335 residues, 22 models selected  

> select subtract #1.1

95 atoms, 95 bonds, 1 residue, 16 models selected  

> select #!1.1.2.3

317 atoms, 1 residue, 1 model selected  

> label (#!1.1.2.3 & sel) text "{0.name} {0.number}{0.insertion_code}"

> show #!1.1 & (#!1.1.2.3 :< 3.5)

> hide #!1.1 & (#!1.1.2.3 :< 3.5)

> show #!1.1 & (#!1.1.2.3 :< 3.5)

> hide #!1.1 & (#!1.1.2.3 :< 3.5)

> ~select #!1.1.2.3

1 model selected  

> select #!1.1.2.3

317 atoms, 1 residue, 1 model selected  

> ~select #!1.1 & (#!1.1.2.3 @< 3.5)

317 atoms, 1 residue, 2 models selected  

> select #!1.1 & (#!1.1.2.3 @< 3.5)

92 atoms, 73 bonds, 51 pseudobonds, 26 residues, 2 models selected  

> show #!1.1 & (#!1.1.2.3 :< 3.5)

> hide #!1.1 & (#!1.1.2.3 :< 3.5)

> show sel surfaces

[Repeated 1 time(s)]

> hide sel surfaces

> view #!1.1.2.12 @< 3.5

> zoom 0.75

moved plane near -14.24357442653809 [ 0.0585422 -0.15922774 0.98550463]  
moved plane far -14.24357442653809 [ 0.0585422 -0.15922774 0.98550463]  

> ~surface #1.1.2

> surface #!1.1.2.12

> select #!1.1 & (#!1.1.2.12 @< 3.5)

21 atoms, 17 bonds, 2 pseudobonds, 7 residues, 2 models selected  

> select #!1.1.2.12

27 atoms, 1 residue, 1 model selected  

> view #!1.1.2.3 @< 3.5

> zoom 0.75

moved plane near -25.973410301446652 [ 0.0585422 -0.15922774 0.98550463]  
moved plane far -25.973410301446652 [ 0.0585422 -0.15922774 0.98550463]  

> ~surface #1.1.2

> surface #!1.1.2.3

> select #!1.1 & (#!1.1.2.3 @< 3.5)

92 atoms, 73 bonds, 51 pseudobonds, 26 residues, 2 models selected  

> select #!1.1.2.3

317 atoms, 1 residue, 1 model selected  

> ~select #!1.1 & (#!1.1.2.3 @< 3.5)

317 atoms, 1 residue, 2 models selected  

> select #!1.1 & (#!1.1.2.3 @< 3.5)

92 atoms, 73 bonds, 51 pseudobonds, 26 residues, 2 models selected  

> label (#!1.1 & sel) text "{0.label_one_letter_code}
> {0.number}{0.insertion_code}"

> show #!1.2 models

> hide #!1.2 models

> show #!1.2 models

> hide sel surfaces

> show sel cartoons

> show sel surfaces

> hide sel surfaces

> select add #2

92 atoms, 73 bonds, 5564 pseudobonds, 26 residues, 3 models selected  

> select add #1.2

187 atoms, 168 bonds, 5564 pseudobonds, 27 residues, 5 models selected  

> select subtract #2

187 atoms, 168 bonds, 27 residues, 5 models selected  

> hide sel surfaces

> hide #!1.1 models

> show #!1.1 models

> hide #!1.1 models

> show #!1.1 models

> show sel atoms

[Repeated 2 time(s)]

> hide sel atoms

> show sel atoms

> save F:/020325_바탕화면/이형지/PAPER/bindingsite.pdb

Chain IDs longer than 2 characters; truncating  

Atom names longer than 4 characters; truncating  

> close session

> open F:\020325_바탕화면\이형지\TAUTAU.mol2 format mol2

Chain information for best_model.pdb #1  
---  
Chain | Description  
A | No description available  
  
Opened TAUTAU.mol2 containing 1 structure (95 atoms, 95 bonds)  

> show atoms

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

> save F:/020325_바탕화면/이형지/PAPER/TAU.pdb

> close session

> open
> F:\020325_바탕화면\이형지\diffdock_output_20250326_070354_c05141ac\complex_0\TAU_ZO.pdb
> format pdb

Chain information for TAU_ZO.pdb #1  
---  
Chain | Description  
A | No description available  
  

> open F:/020325_바탕화면/이형지/PAPER/TAU.pdb

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

> select add #2

95 atoms, 95 bonds, 11 residues, 1 model selected  

> select add #1

2194 atoms, 2165 bonds, 1 pseudobond, 332 residues, 4 models selected  

> select subtract #1

95 atoms, 95 bonds, 11 residues, 1 model selected  

> select subtract #2

Nothing selected  

> select add #1

2099 atoms, 2070 bonds, 1 pseudobond, 321 residues, 3 models selected  

> select subtract #1

Nothing selected  

> hide #!1 models

> hide #2 models

> show #2 models

> select add #2

95 atoms, 95 bonds, 11 residues, 1 model selected  

> show #!1 models

> close session

> open F:\020325_바탕화면\이형지\PAPER\bindingsite.pdb format pdb

Summary of feedback from opening F:\020325_바탕화면\이형지\PAPER\bindingsite.pdb  
---  
warnings | Start residue of secondary structure not found: HELIX 1 1 LYS A 564 HIS A 566 1 3  
Start residue of secondary structure not found: HELIX 2 2 ASN A 576 ALA A 584
1 9  
Start residue of secondary structure not found: HELIX 3 3 ILE A 653 GLU A 665
1 13  
Start residue of secondary structure not found: HELIX 4 4 ARG A 690 ASP A 699
1 10  
Start residue of secondary structure not found: HELIX 5 5 THR A 709 ALA A 719
1 11  
275 messages similar to the above omitted  
  
Chain information for bindingsite.pdb  
---  
Chain | Description  
1.1/A | No description available  
  

> open F:/020325_바탕화면/이형지/PAPER/TAU.pdb

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

> select add #2

95 atoms, 95 bonds, 11 residues, 1 model selected  

> hide #!1 models

> show #!1 models

> ui mousemode right "translate selected models"

> view matrix models #2,1,0,0,2.5793,0,1,0,73.509,0,0,1,16.231

> show sel cartoons

> show sel atoms

> view matrix models #2,1,0,0,-0.5564,0,1,0,62.578,0,0,1,18.025

> view matrix models #2,1,0,0,-1.848,0,1,0,69.946,0,0,1,22.983

Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\item_table.py", line 51, in data  
widget.color = val  
^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 82, in set_color  
rgba = color_to_numpy_rgba8(color)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
TypeError: 'NoneType' object is not subscriptable  
  
TypeError: 'NoneType' object is not subscriptable  
  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\item_table.py", line 51, in data  
widget.color = val  
^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 82, in set_color  
rgba = color_to_numpy_rgba8(color)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
TypeError: 'NoneType' object is not subscriptable  
  
TypeError: 'NoneType' object is not subscriptable  
  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\item_table.py", line 51, in data  
widget.color = val  
^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 82, in set_color  
rgba = color_to_numpy_rgba8(color)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
TypeError: 'NoneType' object is not subscriptable  
  
TypeError: 'NoneType' object is not subscriptable  
  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\item_table.py", line 51, in data  
widget.color = val  
^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 82, in set_color  
rgba = color_to_numpy_rgba8(color)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
TypeError: 'NoneType' object is not subscriptable  
  
TypeError: 'NoneType' object is not subscriptable  
  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\item_table.py", line 51, in data  
widget.color = val  
^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 82, in set_color  
rgba = color_to_numpy_rgba8(color)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
TypeError: 'NoneType' object is not subscriptable  
  
TypeError: 'NoneType' object is not subscriptable  
  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\item_table.py", line 51, in data  
widget.color = val  
^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 82, in set_color  
rgba = color_to_numpy_rgba8(color)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
TypeError: 'NoneType' object is not subscriptable  
  
TypeError: 'NoneType' object is not subscriptable  
  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\item_table.py", line 51, in data  
widget.color = val  
^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 82, in set_color  
rgba = color_to_numpy_rgba8(color)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
TypeError: 'NoneType' object is not subscriptable  
  
TypeError: 'NoneType' object is not subscriptable  
  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\item_table.py", line 51, in data  
widget.color = val  
^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 82, in set_color  
rgba = color_to_numpy_rgba8(color)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
TypeError: 'NoneType' object is not subscriptable  
  
TypeError: 'NoneType' object is not subscriptable  
  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\item_table.py", line 51, in data  
widget.color = val  
^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 82, in set_color  
rgba = color_to_numpy_rgba8(color)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
TypeError: 'NoneType' object is not subscriptable  
  
TypeError: 'NoneType' object is not subscriptable  
  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\item_table.py", line 51, in data  
widget.color = val  
^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 82, in set_color  
rgba = color_to_numpy_rgba8(color)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
TypeError: 'NoneType' object is not subscriptable  
  
TypeError: 'NoneType' object is not subscriptable  
  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\item_table.py", line 51, in data  
widget.color = val  
^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 82, in set_color  
rgba = color_to_numpy_rgba8(color)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
TypeError: 'NoneType' object is not subscriptable  
  
TypeError: 'NoneType' object is not subscriptable  
  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\item_table.py", line 51, in data  
widget.color = val  
^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 82, in set_color  
rgba = color_to_numpy_rgba8(color)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
TypeError: 'NoneType' object is not subscriptable  
  
TypeError: 'NoneType' object is not subscriptable  
  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\item_table.py", line 51, in data  
widget.color = val  
^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 82, in set_color  
rgba = color_to_numpy_rgba8(color)  
^^^^^^^^^^^^^^^^^^^^^^^^^^^  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
TypeError: 'NoneType' object is not subscriptable  
  
TypeError: 'NoneType' object is not subscriptable  
  
File "C:\Program Files\ChimeraX 1.9\bin\Lib\site-
packages\chimerax\ui\widgets\color_button.py", line 165, in
color_to_numpy_rgba8  
if isinstance(color[0], numbers.Integral):  
~~~~~^^^  
  
See log for complete Python traceback.  
  

> hide #!1.1 models

> show #!1.1 models

> hide #1.2 models

> show #1.2 models




OpenGL version: 3.3.0 NVIDIA 527.27
OpenGL renderer: Quadro P2000/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation

Python: 3.11.4
Locale: ko_KR.cp949
Qt version: PyQt6 6.7.1, Qt 6.7.1
Qt runtime version: 6.7.3
Qt platform: windows

Manufacturer: HP
Model: HP Z4 G4 Workstation
OS: Microsoft Windows 11 Education (Build 26100)
Memory: 34,065,891,328
MaxProcessMemory: 137,438,953,344
CPU: 8 Intel(R) Xeon(R) W-2125 CPU @ 4.00GHz
OSLanguage: ko-KR

Installed Packages:
    alabaster: 1.0.0
    anyio: 4.7.0
    appdirs: 1.4.4
    asttokens: 3.0.0
    auditwheel: 6.1.0
    babel: 2.16.0
    beautifulsoup4: 4.12.3
    blockdiag: 3.0.0
    blosc2: 3.0.0
    build: 1.2.1
    certifi: 2024.8.30
    cftime: 1.6.4.post1
    charset-normalizer: 3.4.0
    ChimeraX-AddCharge: 1.5.18
    ChimeraX-AddH: 2.2.6
    ChimeraX-AlignmentAlgorithms: 2.0.2
    ChimeraX-AlignmentHdrs: 3.5
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 2.16.1
    ChimeraX-AlphaFold: 1.0.1
    ChimeraX-AltlocExplorer: 1.1.2
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.1
    ChimeraX-Atomic: 1.58.8
    ChimeraX-AtomicLibrary: 14.1.11
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.4
    ChimeraX-BasicActions: 1.1.2
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 3.0.0
    ChimeraX-BondRot: 2.0.4
    ChimeraX-BugReporter: 1.0.1
    ChimeraX-BuildStructure: 2.13.1
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.4.0
    ChimeraX-ButtonPanel: 1.0.1
    ChimeraX-CageBuilder: 1.0.1
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.4
    ChimeraX-ChangeChains: 1.1
    ChimeraX-CheckWaters: 1.4
    ChimeraX-ChemGroup: 2.0.1
    ChimeraX-Clashes: 2.3
    ChimeraX-ColorActions: 1.0.5
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.6
    ChimeraX-CommandLine: 1.2.5
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.9
    ChimeraX-CoreFormats: 1.2
    ChimeraX-coulombic: 1.4.4
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DataFormats: 1.2.3
    ChimeraX-Dicom: 1.2.6
    ChimeraX-DistMonitor: 1.4.2
    ChimeraX-DockPrep: 1.1.3
    ChimeraX-Dssp: 2.0
    ChimeraX-EMDB-SFF: 1.0
    ChimeraX-ESMFold: 1.0
    ChimeraX-FileHistory: 1.0.1
    ChimeraX-FunctionKey: 1.0.1
    ChimeraX-Geometry: 1.3
    ChimeraX-gltf: 1.0
    ChimeraX-Graphics: 1.4.1
    ChimeraX-Hbonds: 2.5
    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: 1.2.1
    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: 2.1.6
    ChimeraX-MCopy: 1.0
    ChimeraX-MDcrds: 2.7.2
    ChimeraX-MedicalToolbar: 1.1
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.14.2
    ChimeraX-MMTF: 2.2
    ChimeraX-ModelArchive: 1.0
    ChimeraX-Modeller: 1.5.18
    ChimeraX-ModelPanel: 1.5
    ChimeraX-ModelSeries: 1.0.1
    ChimeraX-Mol2: 2.0.3
    ChimeraX-Mole: 1.0
    ChimeraX-Morph: 1.0.2
    ChimeraX-MouseModes: 1.2
    ChimeraX-Movie: 1.0
    ChimeraX-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
    ChimeraX-OrthoPick: 1.0.1
    ChimeraX-PDB: 2.7.6
    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: 1.1.2
    ChimeraX-PubChem: 2.2
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.2
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.6.2
    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: 2.0.2
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0.1
    ChimeraX-Segmentations: 3.5.6
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.14
    ChimeraX-Shape: 1.0.1
    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: 1.18.1
    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
    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: 1.41
    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: 1.1.4
    ChimeraX-Zone: 1.0.1
    colorama: 0.4.6
    comm: 0.2.2
    comtypes: 1.4.5
    contourpy: 1.3.1
    cxservices: 1.2.3
    cycler: 0.12.1
    Cython: 3.0.10
    debugpy: 1.8.9
    decorator: 5.1.1
    docutils: 0.21.2
    executing: 2.1.0
    filelock: 3.15.4
    fonttools: 4.55.3
    funcparserlib: 2.0.0a0
    glfw: 2.8.0
    grako: 3.16.5
    h11: 0.14.0
    h5py: 3.12.1
    html2text: 2024.2.26
    httpcore: 1.0.7
    httpx: 0.28.1
    idna: 3.10
    ihm: 1.3
    imagecodecs: 2024.6.1
    imagesize: 1.4.1
    ipykernel: 6.29.5
    ipython: 8.26.0
    ipywidgets: 8.1.5
    jedi: 0.19.1
    Jinja2: 3.1.4
    jupyter_client: 8.6.2
    jupyter_core: 5.7.2
    jupyterlab_widgets: 3.0.13
    kiwisolver: 1.4.7
    line_profiler: 4.1.3
    lxml: 5.2.2
    lz4: 4.3.3
    MarkupSafe: 3.0.2
    matplotlib: 3.10.1
    matplotlib: 3.9.2
    matplotlib-inline: 0.1.7
    msgpack: 1.0.8
    narwhals: 1.35.0
    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: 2.2.4
    numpy: 1.26.4
    openvr: 1.26.701
    packaging: 23.2
    ParmEd: 4.2.2
    parso: 0.8.4
    pep517: 0.13.1
    pillow: 10.4.0
    pip: 24.2
    pkginfo: 1.11.1
    platformdirs: 4.3.6
    plotly: 6.0.1
    prompt_toolkit: 3.0.48
    psutil: 6.0.0
    pure_eval: 0.2.3
    py-cpuinfo: 9.0.0
    pycollada: 0.8
    pydicom: 2.4.4
    pyelftools: 0.31
    Pygments: 2.18.0
    pyKVFinder: 0.7.3
    pynmrstar: 3.3.4
    pynrrd: 1.0.0
    PyOpenGL: 3.1.7
    PyOpenGL-accelerate: 3.1.7
    pyopenxr: 1.0.3401
    pyparsing: 3.2.0
    pyproject_hooks: 1.2.0
    PyQt6-commercial: 6.7.1
    PyQt6-Qt6: 6.7.3
    PyQt6-WebEngine-commercial: 6.7.0
    PyQt6-WebEngine-Qt6: 6.7.3
    PyQt6-WebEngineSubwheel-Qt6: 6.7.3
    PyQt6_sip: 13.8.0
    python-dateutil: 2.9.0.post0
    pytz: 2024.2
    pywin32: 306
    pyzmq: 26.2.0
    qtconsole: 5.5.2
    QtPy: 2.4.2
    qtshim: 1.0
    RandomWords: 0.4.0
    requests: 2.32.3
    scipy: 1.14.0
    setuptools: 72.1.0
    sfftk-rw: 0.8.1
    six: 1.16.0
    sniffio: 1.3.1
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    soupsieve: 2.6
    Sphinx: 8.0.2
    sphinx-autodoc-typehints: 2.2.3
    sphinxcontrib-applehelp: 2.0.0
    sphinxcontrib-blockdiag: 3.0.0
    sphinxcontrib-devhelp: 2.0.0
    sphinxcontrib-htmlhelp: 2.1.0
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 2.0.0
    sphinxcontrib-serializinghtml: 2.0.0
    stack-data: 0.6.3
    superqt: 0.6.3
    tables: 3.10.1
    tcia_utils: 1.5.1
    tifffile: 2024.7.24
    tinyarray: 1.2.4
    toml: 0.10.2
    tornado: 6.4.2
    traitlets: 5.14.3
    typing_extensions: 4.12.2
    tzdata: 2024.2
    urllib3: 2.2.3
    wcwidth: 0.2.13
    webcolors: 24.6.0
    wheel: 0.43.0
    wheel-filename: 1.4.1
    widgetsnbextension: 4.0.13
    WMI: 1.5.1

[Eric Pettersen]

Duplicate of #16362