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Opened 6 months ago
Closed 6 months ago
#17422 closed defect (duplicate)
Error setting cavity color
| Reported by: | Owned by: | pett | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | General Controls | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
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
Change History (2)
comment:1 by , 6 months ago
| Component: | Unassigned → Surface/Binding Analysis |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → accepted |
| Summary: | ChimeraX bug report submission → Find Cavities: most_common_color can return None |
comment:2 by , 6 months ago
| Component: | Surface/Binding Analysis → General Controls |
|---|---|
| Resolution: | → duplicate |
| Status: | accepted → closed |
| Summary: | Find Cavities: most_common_color can return None → Error setting cavity color |
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Duplicate of #16362