ViewDockX saving session: 'QEventLoop' object has no attribute 'exec_'

[thomas.knight.21@…]

The following bug report has been submitted:
Platform:        Windows-10-10.0.22000
ChimeraX Version: 1.4 (2022-06-03 23:39:42 UTC)
Description
I tried to save my ChimeraX session with Models and ViewDockX Table open, however, I received the following message which did not allow me to save my work. 

ValueError: error processing: 'tools' -> -> '1': Error while saving session data for 'tools' -> -> '1'

File "C:\Program Files\ChimeraX 1.4\bin\lib\site-packages\chimerax\core\session.py", line 266, in discovery
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))

See log for complete Python traceback.



Log:
UCSF ChimeraX version: 1.4 (2022-06-03)  
© 2016-2022 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open "C:/Users/thoma/OneDrive/Desktop/Docking in Chimera/Vina Docking
> Sessions/Gen ligand #1 docked/Gen ligand #1 docked.ligand.pdb"
> "C:/Users/thoma/OneDrive/Desktop/Docking in Chimera/Vina Docking
> Sessions/Gen ligand #1 docked/Gen ligand #1 docked.pdb"
> "C:/Users/thoma/OneDrive/Desktop/Docking in Chimera/Vina Docking
> Sessions/Gen ligand #1 docked/Gen ligand #1 docked.receptor.pdb"

Summary of feedback from opening C:/Users/thoma/OneDrive/Desktop/Docking in
Chimera/Vina Docking Sessions/Gen ligand #1 docked/Gen ligand #1 docked.pdb  
---  
warnings | Start residue of secondary structure not found: HELIX 1 1 CYS A 28
VAL A 35 1 8  
Start residue of secondary structure not found: HELIX 2 2 VAL A 61 GLN A 63 1
3  
Start residue of secondary structure not found: HELIX 3 3 THR A 105 THR A 112
1 8  
Start residue of secondary structure not found: HELIX 4 4 ALA A 118 ASN A 125
1 8  
Start residue of secondary structure not found: HELIX 5 5 GLU A 129 SER A 149
1 21  
640 messages similar to the above omitted  
  
Summary of feedback from opening C:/Users/thoma/OneDrive/Desktop/Docking in
Chimera/Vina Docking Sessions/Gen ligand #1 docked/Gen ligand #1
docked.receptor.pdb  
---  
warnings | Cannot find LINK/SSBOND residue CYS (5 )  
Cannot find LINK/SSBOND residue CYS (8 )  
Cannot find LINK/SSBOND residue CYS (16 )  
Cannot find LINK/SSBOND residue CYS (19 )  
Cannot find LINK/SSBOND residue CYS (26 )  
7 messages similar to the above omitted  
  
Chain information for Gen ligand #1 docked.pdb  
---  
Chain | Description  
2.1/A | No description available  
  
Gen ligand #1 docked.receptor.pdb title:  
Crystal structure of the sars-cov-2 helicase apo form [more info...]  
  
Chain information for Gen ligand #1 docked.receptor.pdb #3  
---  
Chain | Description | UniProt  
A | sars-cov-2 helicase NSP13 | R1AB_SARS2  
  
Non-standard residues in Gen ligand #1 docked.receptor.pdb #3  
---  
ZN — zinc ion  
  

> hide #!3 models

> hide #!2 models

> show #!2 models

> show #!3 models

> close session

> open "C:/Users/thoma/OneDrive/Desktop/Docking in Chimera/Vina Docking
> Sessions/Gen ligand #1 docked/Gen ligand #1 docked.pdbqt"
> "C:/Users/thoma/OneDrive/Desktop/Docking in Chimera/Vina Docking
> Sessions/Gen ligand #1 docked/Gen ligand #1 docked.ligand.pdbqt"
> "C:/Users/thoma/OneDrive/Desktop/Docking in Chimera/Vina Docking
> Sessions/Gen ligand #1 docked/Gen ligand #1 docked.receptor.pdbqt"

Summary of feedback from opening C:/Users/thoma/OneDrive/Desktop/Docking in
Chimera/Vina Docking Sessions/Gen ligand #1 docked/Gen ligand #1 docked.pdbqt  
---  
warnings | Ignored bad PDB record found on line 2  
REMARK VINA RESULT: -6.5 0.000 0.000  
  
Ignored bad PDB record found on line 3  
REMARK 6 active torsions:  
  
Ignored bad PDB record found on line 4  
REMARK status: ('A' for Active; 'I' for Inactive)  
  
Ignored bad PDB record found on line 5  
REMARK 1 A between atoms: C_1 and C_2  
  
Ignored bad PDB record found on line 6  
REMARK 2 A between atoms: C_3 and N_4  
  
115 messages similar to the above omitted  
  
Summary of feedback from opening C:/Users/thoma/OneDrive/Desktop/Docking in
Chimera/Vina Docking Sessions/Gen ligand #1 docked/Gen ligand #1
docked.ligand.pdbqt  
---  
warnings | Ignored bad PDB record found on line 1  
REMARK 6 active torsions:  
  
Ignored bad PDB record found on line 2  
REMARK status: ('A' for Active; 'I' for Inactive)  
  
Ignored bad PDB record found on line 3  
REMARK 1 A between atoms: C_1 and C_2  
  
Ignored bad PDB record found on line 4  
REMARK 2 A between atoms: C_3 and N_4  
  
Ignored bad PDB record found on line 5  
REMARK 3 A between atoms: C_6 and N_5  
  
18 messages similar to the above omitted  
  
Chain information for Gen ligand #1 docked.receptor.pdb #3  
---  
Chain | Description  
A | No description available  
  
Opened Gen ligand #1 docked.pdbqt containing 5 structures (250 atoms, 255
bonds)  
Opened Gen ligand #1 docked.ligand.pdbqt containing 1 structures (50 atoms, 51
bonds)  
Opened Gen ligand #1 docked.receptor.pdbqt containing 1 structures (5667
atoms, 5767 bonds)  

> hide #1.1 models

> show #1.1 models

> select add #1.1

50 atoms, 51 bonds, 1 residue, 1 model selected  

> select subtract #1.1

Nothing selected  

> hide #1.2 models

> hide #1.3 models

> hide #1.4 models

> hide #1.5 models

> hide #2 models

> hide #!3 models

> show #!3 models

> hide #!1 models

> show #!1 models

> hide #1.1 models

> show #1.1 models

> hide #!1 models

> show #1.2 models

> show #1.3 models

> show #1.4 models

> show #2 models

> hide #!3 models

> show #!3 models

> show #1.5 models

> color #3 #aaffff transparency 0

> color #3 #d3fffb transparency 0

> color #3 #b8dedb transparency 0

> color #3 #96ded9 transparency 0

> color #3 #83c2be transparency 0

> color #3 #89cbc7 transparency 0

> color #3 #abfef8 transparency 0

> color #3 #c0fefc transparency 0

> color #3 #bcfefe transparency 0

> select add #3

5667 atoms, 5767 bonds, 1 pseudobond, 593 residues, 2 models selected  

> surface (#!3 & sel)

> ui tool show "Color Actions"

> color sel cornflower blue

> color sel light sky blue

[Repeated 1 time(s)]

> color sel sky blue

> color sel light sky blue

> color sel sky blue

[Repeated 2 time(s)]

> color sel dim gray

> color sel light steel blue

> color sel slate gray

> color sel medium sea green

> color sel tan

> color sel rosy brown

> color sel light blue

> color sel light steel blue

> color sel thistle

> color sel light steel blue

> set bgColor white

> set bgColor black

> set bgColor white

> set bgColor sky blue

> set bgColor white

> color sel sky blue target acs

> color sel light sky blue target acs

> color sel light blue target acs

> color sel light steel blue target acs

> color sel lavender target acs

> color sel light blue target acs

> select subtract #3

1 model selected  

> select add #1

250 atoms, 255 bonds, 5 residues, 6 models selected  

> hide #1.5 models

> hide #1.4 models

> hide #1.3 models

> hide #1.2 models

> hide #1.1 models

> select subtract #1.5

200 atoms, 204 bonds, 4 residues, 5 models selected  

> show #1.1 models

> select subtract #1.2

150 atoms, 153 bonds, 3 residues, 4 models selected  

> select subtract #1.3

100 atoms, 102 bonds, 2 residues, 3 models selected  

> select subtract #1.4

50 atoms, 51 bonds, 1 residue, 2 models selected  

> surface sel

> show #1.2 models

> select add #1.2

100 atoms, 102 bonds, 2 residues, 4 models selected  

> show #1.3 models

> select add #1.3

150 atoms, 153 bonds, 3 residues, 5 models selected  

> show #1.4 models

> select add #1.4

200 atoms, 204 bonds, 4 residues, 6 models selected  

> show #1.5 models

> select add #1.5

250 atoms, 255 bonds, 5 residues, 7 models selected  

> select add #2

300 atoms, 306 bonds, 6 residues, 8 models selected  

> surface (#2#1.2-5#!1.1 & sel)

> color (#!2#!1.1-5 & sel) byelement

> transparency (#!2#!1.1-5 & sel) 50

> transparency (#!2#!1.1-5 & sel) 40

> transparency (#!2#!1.1-5 & sel) 60

> color #3 #9bc2ce transparency 0

> color #3 #87a9b3 transparency 0

> color #3 #89acb6 transparency 0

> select subtract #2

250 atoms, 255 bonds, 5 residues, 12 models selected  

> select subtract #1.5

200 atoms, 204 bonds, 4 residues, 10 models selected  

> select subtract #1.4

150 atoms, 153 bonds, 3 residues, 8 models selected  

> select subtract #1.3

100 atoms, 102 bonds, 2 residues, 6 models selected  

> select subtract #1.1

50 atoms, 51 bonds, 1 residue, 4 models selected  

> select subtract #1.2

2 models selected  

> select add #3

5667 atoms, 5767 bonds, 1 pseudobond, 593 residues, 3 models selected  

> transparency (#!3 & sel) 50

> transparency (#!3 & sel) 20

> hide #!2 models

> hide #!1.5 models

> hide #!1.3 models

> hide #!1.4 models

> hide #!1.2 models

> select add #1

5917 atoms, 6022 bonds, 1 pseudobond, 598 residues, 9 models selected  

> select subtract #1

5667 atoms, 5767 bonds, 1 pseudobond, 593 residues, 8 models selected  

> select subtract #3

1 model selected  

> ui tool show H-Bonds

> ui tool show ViewDockX

> show #!1.2 models

> hide #!1.1-2 models

> show #!1.3 models

> hide #!1.3 models

> show #!1.1 models

> show #!1.2 models

> show #!1.3 models

> show #!1.4 models

> show #!1.5 models

> hbonds #!1.1-5 restrict #!2-3 reveal true interSubmodel true

6 hydrogen bonds found  

> hide #!1.2 models

> hide #!1.3 models

> hide #!1.4 models

> hide #!1.1,5 models

> show #!1.5 models

> show #!1.1 models

> hide #!1.5 models

> ui tool show "Color Actions"

> show #!1.2 models

> show #!1.3 models

> show #!1.4 models

> show #!1.5 models

> clashes #!1.1-5 restrict #!2-3 reveal true interSubmodel true

10 clashes  

> hide #!1.5 models

> hide #!1.4 models

> hide #!1.3 models

> hide #!1.1-2 models

> show #!1.2 models

> color #5 red models transparency 0

> color #4 yellow models transparency 0

> show #!1.1 models

> hide #!1.2 models

> select add #4

6 pseudobonds, 1 model selected  

> select subtract #4

Nothing selected  

> select add #4

6 pseudobonds, 1 model selected  

> ui mousemode right distance

[Repeated 1 time(s)]

> ui mousemode right select

> select add #3

5667 atoms, 5767 bonds, 7 pseudobonds, 593 residues, 3 models selected  

> transparency (#!3 & sel) 70

> transparency (#!3 & sel) 50

> select subtract #3

1 model selected  

> select add #1

250 atoms, 255 bonds, 5 residues, 6 models selected  

> select subtract #1

5 models selected  

> select add #1

250 atoms, 255 bonds, 5 residues, 6 models selected  

> transparency (#!1.1 & sel) 30

> transparency (#!1.1 & sel) 80

> transparency (#!1.1 & sel) 60

> color #4 #55ff00 models transparency 0

> color #4 yellow models transparency 0

> select subtract #1.5

200 atoms, 204 bonds, 4 residues, 10 models selected  

> select subtract #1.4

150 atoms, 153 bonds, 3 residues, 8 models selected  

> select subtract #1.3

100 atoms, 102 bonds, 2 residues, 6 models selected  

> select subtract #1.2

50 atoms, 51 bonds, 1 residue, 4 models selected  

> select subtract #1.1

2 models selected  

> hide #!1.1 models

> show #!1.2 models

> hide #!1.2 models

> show #!1.3 models

> hide #!1.3 models

> select #3/A:502@NH1

1 atom, 1 residue, 1 model selected  

> select #3/A:502@CZ

1 atom, 1 residue, 1 model selected  

> select #3/A:502@CG

1 atom, 1 residue, 1 model selected  

> ui mousemode right label

> show #!1.1 models

> ui mousemode right label

> ui mousemode right select

> select add #3

5667 atoms, 5767 bonds, 1 pseudobond, 593 residues, 3 models selected  

> select subtract #3

1 model selected  

> save "C:/Users/thoma/OneDrive/Desktop/Docking in Chimera/Vina Docking
> Sessions/Gen ligand #1 docked/Gen ligand #1 docked.cxs"

Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 285, in process  
data = sm.take_snapshot(obj, session, self.state_flags)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\viewdockx\tool.py", line 272, in take_snapshot  
self.add_webview_state(data)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\viewdockx\tool.py", line 314, in add_webview_state  
event_loop.exec_()  
AttributeError: 'QEventLoop' object has no attribute 'exec_'  
  
The above exception was the direct cause of the following exception:  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 262, in discovery  
self.processed[key] = self.process(obj, parents)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 290, in process  
raise RuntimeError(msg) from e  
RuntimeError: Error while saving session data for 'tools' ->
<chimerax.core.tools.Tools object at 0x000001D7A88B3E80> ->
<chimerax.viewdockx.tool.TableTool object at 0x000001D7C2519640> '1'  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 896, in save  
session.save(output, version=version, include_maps=include_maps)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 625, in save  
mgr.discovery(self._state_containers)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
ValueError: error processing: 'tools' -> <chimerax.core.tools.Tools object at
0x000001D7A88B3E80> -> <chimerax.viewdockx.tool.TableTool object at
0x000001D7C2519640> '1': Error while saving session data for 'tools' ->
<chimerax.core.tools.Tools object at 0x000001D7A88B3E80> ->
<chimerax.viewdockx.tool.TableTool object at 0x000001D7C2519640> '1'  
  
ValueError: error processing: 'tools' -> -> '1': Error while saving session
data for 'tools' -> -> '1'  
  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 285, in process  
data = sm.take_snapshot(obj, session, self.state_flags)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\viewdockx\tool.py", line 272, in take_snapshot  
self.add_webview_state(data)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\viewdockx\tool.py", line 314, in add_webview_state  
event_loop.exec_()  
AttributeError: 'QEventLoop' object has no attribute 'exec_'  
  
The above exception was the direct cause of the following exception:  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 262, in discovery  
self.processed[key] = self.process(obj, parents)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 290, in process  
raise RuntimeError(msg) from e  
RuntimeError: Error while saving session data for 'tools' ->
<chimerax.core.tools.Tools object at 0x000001D7A88B3E80> ->
<chimerax.viewdockx.tool.TableTool object at 0x000001D7C2519640> '1'  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\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 "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 127, in show_save_file_dialog  
_dlg.display(session, **kw)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 51, in display  
run(session, cmd)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\commands\run.py", line 38, in run  
results = command.run(text, log=log, return_json=return_json)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 75, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 90, in provider_save  
saver_info.save(session, path, **provider_kw)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core_formats\\__init__.py", line 84, in save  
return cxs_save(session, path, **kw)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 896, in save  
session.save(output, version=version, include_maps=include_maps)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 625, in save  
mgr.discovery(self._state_containers)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
ValueError: error processing: 'tools' -> <chimerax.core.tools.Tools object at
0x000001D7A88B3E80> -> <chimerax.viewdockx.tool.TableTool object at
0x000001D7C2519640> '1': Error while saving session data for 'tools' ->
<chimerax.core.tools.Tools object at 0x000001D7A88B3E80> ->
<chimerax.viewdockx.tool.TableTool object at 0x000001D7C2519640> '1'  
  
ValueError: error processing: 'tools' -> -> '1': Error while saving session
data for 'tools' -> -> '1'  
  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
  
See log for complete Python traceback.  
  

> save "C:/Users/thoma/OneDrive/Desktop/Docking in Chimera/Vina Docking
> Sessions/Gen ligand #1 docked/Chimera X binding modes.cxs"

Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 285, in process  
data = sm.take_snapshot(obj, session, self.state_flags)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\viewdockx\tool.py", line 272, in take_snapshot  
self.add_webview_state(data)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\viewdockx\tool.py", line 314, in add_webview_state  
event_loop.exec_()  
AttributeError: 'QEventLoop' object has no attribute 'exec_'  
  
The above exception was the direct cause of the following exception:  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 262, in discovery  
self.processed[key] = self.process(obj, parents)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 290, in process  
raise RuntimeError(msg) from e  
RuntimeError: Error while saving session data for 'tools' ->
<chimerax.core.tools.Tools object at 0x000001D7A88B3E80> ->
<chimerax.viewdockx.tool.TableTool object at 0x000001D7C2519640> '1'  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 896, in save  
session.save(output, version=version, include_maps=include_maps)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 625, in save  
mgr.discovery(self._state_containers)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
ValueError: error processing: 'tools' -> <chimerax.core.tools.Tools object at
0x000001D7A88B3E80> -> <chimerax.viewdockx.tool.TableTool object at
0x000001D7C2519640> '1': Error while saving session data for 'tools' ->
<chimerax.core.tools.Tools object at 0x000001D7A88B3E80> ->
<chimerax.viewdockx.tool.TableTool object at 0x000001D7C2519640> '1'  
  
ValueError: error processing: 'tools' -> -> '1': Error while saving session
data for 'tools' -> -> '1'  
  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 285, in process  
data = sm.take_snapshot(obj, session, self.state_flags)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\viewdockx\tool.py", line 272, in take_snapshot  
self.add_webview_state(data)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\viewdockx\tool.py", line 314, in add_webview_state  
event_loop.exec_()  
AttributeError: 'QEventLoop' object has no attribute 'exec_'  
  
The above exception was the direct cause of the following exception:  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 262, in discovery  
self.processed[key] = self.process(obj, parents)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 290, in process  
raise RuntimeError(msg) from e  
RuntimeError: Error while saving session data for 'tools' ->
<chimerax.core.tools.Tools object at 0x000001D7A88B3E80> ->
<chimerax.viewdockx.tool.TableTool object at 0x000001D7C2519640> '1'  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\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 "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 127, in show_save_file_dialog  
_dlg.display(session, **kw)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 51, in display  
run(session, cmd)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\commands\run.py", line 38, in run  
results = command.run(text, log=log, return_json=return_json)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 75, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 90, in provider_save  
saver_info.save(session, path, **provider_kw)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core_formats\\__init__.py", line 84, in save  
return cxs_save(session, path, **kw)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 896, in save  
session.save(output, version=version, include_maps=include_maps)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 625, in save  
mgr.discovery(self._state_containers)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
ValueError: error processing: 'tools' -> <chimerax.core.tools.Tools object at
0x000001D7A88B3E80> -> <chimerax.viewdockx.tool.TableTool object at
0x000001D7C2519640> '1': Error while saving session data for 'tools' ->
<chimerax.core.tools.Tools object at 0x000001D7A88B3E80> ->
<chimerax.viewdockx.tool.TableTool object at 0x000001D7C2519640> '1'  
  
ValueError: error processing: 'tools' -> -> '1': Error while saving session
data for 'tools' -> -> '1'  
  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
  
See log for complete Python traceback.  
  

> ui mousemode right label

> label #3/A:502

> label #3/A:591

> label #3/A:593

> ui mousemode right label

[Repeated 1 time(s)]

> label #3/A:591

> select add #3

5667 atoms, 5767 bonds, 1 pseudobond, 593 residues, 3 models selected  

> surface hidePatches (#!3 & sel)

> label #3/A:474

[Repeated 1 time(s)]

> surface (#!3 & sel)

> ui mousemode right "color key"

> key delete

> ui mousemode right label

> ui mousemode right "color key"

> key #ffff7f:min white: red:max

> key #ffff7f:min white: red:C

> key #ffff7f:min white: red:Cl

> key #ffff7f:min white: red:Cla

> key #ffff7f:min white: red:Clas

> key #ffff7f:min white: red:Clash

> key #ffff7f:min white: "red:Clash "

> key #ffff7f:H white: "red:Clash "

> key "#ffff7f:H " white: "red:Clash "

> key "#ffff7f:H b" white: "red:Clash "

> key "#ffff7f:H bo" white: "red:Clash "

> key "#ffff7f:H bon" white: "red:Clash "

> key "#ffff7f:H bond" white: "red:Clash "

> key labelSide left/top

> key labelSide right/bottom

> key fontSize 23

> key fontSize 22

> key fontSize 21

> key fontSize 20

> key fontSize 19

> key fontSize 18

> key fontSize 17

> key fontSize 16

> key fontSize 15

> key fontSize 16

> key fontSize 17

> key fontSize 18

> key fontSize 19

> key fontSize 20

> key italic true

> key bold true

> key bold false

> key italic false

> key italic true

> key ticks true

> key ticks false

> key border false

> key border true

> key border false

> key border true

> key borderWidth 1.0

> key borderWidth 0.0

> key borderWidth 1.0

> key borderWidth 2.0

> ui mousemode right label

> save "C:/Users/thoma/OneDrive/Desktop/Docking in Chimera/Vina Docking
> Sessions/Gen ligand #1 docked/Binding modes ChimeraX.cxs"

Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 285, in process  
data = sm.take_snapshot(obj, session, self.state_flags)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\viewdockx\tool.py", line 272, in take_snapshot  
self.add_webview_state(data)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\viewdockx\tool.py", line 314, in add_webview_state  
event_loop.exec_()  
AttributeError: 'QEventLoop' object has no attribute 'exec_'  
  
The above exception was the direct cause of the following exception:  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 262, in discovery  
self.processed[key] = self.process(obj, parents)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 290, in process  
raise RuntimeError(msg) from e  
RuntimeError: Error while saving session data for 'tools' ->
<chimerax.core.tools.Tools object at 0x000001D7A88B3E80> ->
<chimerax.viewdockx.tool.TableTool object at 0x000001D7C2519640> '1'  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 896, in save  
session.save(output, version=version, include_maps=include_maps)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 625, in save  
mgr.discovery(self._state_containers)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
ValueError: error processing: 'tools' -> <chimerax.core.tools.Tools object at
0x000001D7A88B3E80> -> <chimerax.viewdockx.tool.TableTool object at
0x000001D7C2519640> '1': Error while saving session data for 'tools' ->
<chimerax.core.tools.Tools object at 0x000001D7A88B3E80> ->
<chimerax.viewdockx.tool.TableTool object at 0x000001D7C2519640> '1'  
  
ValueError: error processing: 'tools' -> -> '1': Error while saving session
data for 'tools' -> -> '1'  
  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 285, in process  
data = sm.take_snapshot(obj, session, self.state_flags)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\viewdockx\tool.py", line 272, in take_snapshot  
self.add_webview_state(data)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\viewdockx\tool.py", line 314, in add_webview_state  
event_loop.exec_()  
AttributeError: 'QEventLoop' object has no attribute 'exec_'  
  
The above exception was the direct cause of the following exception:  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 262, in discovery  
self.processed[key] = self.process(obj, parents)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 290, in process  
raise RuntimeError(msg) from e  
RuntimeError: Error while saving session data for 'tools' ->
<chimerax.core.tools.Tools object at 0x000001D7A88B3E80> ->
<chimerax.viewdockx.tool.TableTool object at 0x000001D7C2519640> '1'  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\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 "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 127, in show_save_file_dialog  
_dlg.display(session, **kw)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 51, in display  
run(session, cmd)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\commands\run.py", line 38, in run  
results = command.run(text, log=log, return_json=return_json)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 75, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 90, in provider_save  
saver_info.save(session, path, **provider_kw)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core_formats\\__init__.py", line 84, in save  
return cxs_save(session, path, **kw)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 896, in save  
session.save(output, version=version, include_maps=include_maps)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 625, in save  
mgr.discovery(self._state_containers)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
ValueError: error processing: 'tools' -> <chimerax.core.tools.Tools object at
0x000001D7A88B3E80> -> <chimerax.viewdockx.tool.TableTool object at
0x000001D7C2519640> '1': Error while saving session data for 'tools' ->
<chimerax.core.tools.Tools object at 0x000001D7A88B3E80> ->
<chimerax.viewdockx.tool.TableTool object at 0x000001D7C2519640> '1'  
  
ValueError: error processing: 'tools' -> -> '1': Error while saving session
data for 'tools' -> -> '1'  
  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
  
See log for complete Python traceback.  
  

> select subtract #3

1 model selected  

> hide #7 models

> show #7 models

Alignment identifier is 3/A  

> select #3/A:502

17 atoms, 16 bonds, 1 residue, 1 model selected  

> select #3/A:502

17 atoms, 16 bonds, 1 residue, 1 model selected  

> color (#!3 & sel) byhetero

> color (#!3 & sel) #bcfefeff

> undo

[Repeated 1 time(s)]

> select clear

> select #3/A:502

17 atoms, 16 bonds, 1 residue, 1 model selected  

> select #3/A:502

17 atoms, 16 bonds, 1 residue, 1 model selected  

> color (#!3 & sel) byelement

> color (#!3 & sel) byhetero

> undo

[Repeated 1 time(s)]

> select clear

> movie record

> turn y 2 180

> wait 180

> movie encode C:\ProgramData\ChimeraX\movie1.mp4

Movie saved to C:\ProgramData\ChimeraX\movie1.mp4  
  

> movie record

> turn y 2 180

> wait 180

> movie encode C:\ProgramData\ChimeraX\movie2.mp4

Movie saved to C:\ProgramData\ChimeraX\movie2.mp4  
  

> save C:\ProgramData\ChimeraX\image1.png supersample 3

> ui tool show "Selection Inspector"

> select add #5

10 pseudobonds, 1 model selected  

> select add #4

16 pseudobonds, 2 models selected  

> select add #3

5667 atoms, 5767 bonds, 17 pseudobonds, 593 residues, 5 models selected  

> select subtract #3

1 model selected  

> select add #1.1

50 atoms, 51 bonds, 1 residue, 1 model selected  

> select add #4

50 atoms, 51 bonds, 6 pseudobonds, 1 residue, 3 models selected  

> select add #5

50 atoms, 51 bonds, 16 pseudobonds, 1 residue, 4 models selected  

> ui tool show "Selection Inspector"

> select subtract #5

50 atoms, 51 bonds, 6 pseudobonds, 1 residue, 3 models selected  

> select subtract #4

50 atoms, 51 bonds, 1 residue, 2 models selected  

> select subtract #1.1

1 model selected  

> select add #1.1

50 atoms, 51 bonds, 1 residue, 1 model selected  

> transparency (#!1.1 & sel) 40

> movie record

> turn y 2 180

> wait 180

> movie encode C:\ProgramData\ChimeraX\movie3.mp4

Movie saved to C:\ProgramData\ChimeraX\movie3.mp4  
  

> select subtract #1.1

1 model selected  

> label delete residues

> label #3/A:475

> label delete residues

> ui mousemode right label

[Repeated 1 time(s)]

> save "C:/Users/thoma/OneDrive/Desktop/Docking in Chimera/Vina Docking
> Sessions/Gen ligand #1 docked/Gen ligand #1 docked.cxs"

Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 285, in process  
data = sm.take_snapshot(obj, session, self.state_flags)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\viewdockx\tool.py", line 272, in take_snapshot  
self.add_webview_state(data)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\viewdockx\tool.py", line 314, in add_webview_state  
event_loop.exec_()  
AttributeError: 'QEventLoop' object has no attribute 'exec_'  
  
The above exception was the direct cause of the following exception:  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 262, in discovery  
self.processed[key] = self.process(obj, parents)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 290, in process  
raise RuntimeError(msg) from e  
RuntimeError: Error while saving session data for 'tools' ->
<chimerax.core.tools.Tools object at 0x000001D7A88B3E80> ->
<chimerax.viewdockx.tool.TableTool object at 0x000001D7C2519640> '1'  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 896, in save  
session.save(output, version=version, include_maps=include_maps)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 625, in save  
mgr.discovery(self._state_containers)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
ValueError: error processing: 'tools' -> <chimerax.core.tools.Tools object at
0x000001D7A88B3E80> -> <chimerax.viewdockx.tool.TableTool object at
0x000001D7C2519640> '1': Error while saving session data for 'tools' ->
<chimerax.core.tools.Tools object at 0x000001D7A88B3E80> ->
<chimerax.viewdockx.tool.TableTool object at 0x000001D7C2519640> '1'  
  
ValueError: error processing: 'tools' -> -> '1': Error while saving session
data for 'tools' -> -> '1'  
  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 285, in process  
data = sm.take_snapshot(obj, session, self.state_flags)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\viewdockx\tool.py", line 272, in take_snapshot  
self.add_webview_state(data)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\viewdockx\tool.py", line 314, in add_webview_state  
event_loop.exec_()  
AttributeError: 'QEventLoop' object has no attribute 'exec_'  
  
The above exception was the direct cause of the following exception:  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 262, in discovery  
self.processed[key] = self.process(obj, parents)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 290, in process  
raise RuntimeError(msg) from e  
RuntimeError: Error while saving session data for 'tools' ->
<chimerax.core.tools.Tools object at 0x000001D7A88B3E80> ->
<chimerax.viewdockx.tool.TableTool object at 0x000001D7C2519640> '1'  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.4\bin\lib\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 "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 127, in show_save_file_dialog  
_dlg.display(session, **kw)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 51, in display  
run(session, cmd)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\commands\run.py", line 38, in run  
results = command.run(text, log=log, return_json=return_json)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 75, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2897, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 90, in provider_save  
saver_info.save(session, path, **provider_kw)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core_formats\\__init__.py", line 84, in save  
return cxs_save(session, path, **kw)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 896, in save  
session.save(output, version=version, include_maps=include_maps)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 625, in save  
mgr.discovery(self._state_containers)  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
ValueError: error processing: 'tools' -> <chimerax.core.tools.Tools object at
0x000001D7A88B3E80> -> <chimerax.viewdockx.tool.TableTool object at
0x000001D7C2519640> '1': Error while saving session data for 'tools' ->
<chimerax.core.tools.Tools object at 0x000001D7A88B3E80> ->
<chimerax.viewdockx.tool.TableTool object at 0x000001D7C2519640> '1'  
  
ValueError: error processing: 'tools' -> -> '1': Error while saving session
data for 'tools' -> -> '1'  
  
File "C:\Program Files\ChimeraX 1.4\bin\lib\site-
packages\chimerax\core\session.py", line 266, in discovery  
raise ValueError("error processing: %s: %s" % (_obj_stack(parents, obj), e))  
  
See log for complete Python traceback.  
  




OpenGL version: 3.3.0 - Build 30.0.101.1191
OpenGL renderer: Intel(R) Iris(R) Xe Graphics
OpenGL vendor: Intel

Python: 3.9.11
Locale: en_GB.cp1252
Qt version: PyQt6 6.3.0, Qt 6.3.0
Qt runtime version: 6.3.0
Qt platform: windows

Manufacturer: HP
Model: HP ENVY x360 Convertible 13-bd0xxx
OS: Microsoft Windows 11 Home (Build 22000)
Memory: 8,323,588,096
MaxProcessMemory: 137,438,953,344
CPU: 8 11th Gen Intel(R) Core(TM) i7-1165G7 @ 2.80GHz
OSLanguage: en-GB

Installed Packages:
    alabaster: 0.7.12
    appdirs: 1.4.4
    Babel: 2.10.1
    backcall: 0.2.0
    blockdiag: 3.0.0
    certifi: 2022.5.18.1
    cftime: 1.6.0
    charset-normalizer: 2.0.12
    ChimeraX-AddCharge: 1.2.3
    ChimeraX-AddH: 2.1.11
    ChimeraX-AlignmentAlgorithms: 2.0
    ChimeraX-AlignmentHdrs: 3.2.1
    ChimeraX-AlignmentMatrices: 2.0
    ChimeraX-Alignments: 2.4.3
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.0.2
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.0
    ChimeraX-Atomic: 1.39.1
    ChimeraX-AtomicLibrary: 7.0
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.1
    ChimeraX-BasicActions: 1.1
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 2.1.1
    ChimeraX-BondRot: 2.0
    ChimeraX-BugReporter: 1.0
    ChimeraX-BuildStructure: 2.7
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.1
    ChimeraX-ButtonPanel: 1.0
    ChimeraX-CageBuilder: 1.0
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.2
    ChimeraX-ChemGroup: 2.0
    ChimeraX-Clashes: 2.2.4
    ChimeraX-ColorActions: 1.0
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.1
    ChimeraX-CommandLine: 1.2.3
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0
    ChimeraX-Core: 1.4
    ChimeraX-CoreFormats: 1.1
    ChimeraX-coulombic: 1.3.2
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0
    ChimeraX-DataFormats: 1.2.2
    ChimeraX-Dicom: 1.1
    ChimeraX-DistMonitor: 1.1.5
    ChimeraX-Dssp: 2.0
    ChimeraX-EMDB-SFF: 1.0
    ChimeraX-ExperimentalCommands: 1.0
    ChimeraX-FileHistory: 1.0
    ChimeraX-FunctionKey: 1.0
    ChimeraX-Geometry: 1.2
    ChimeraX-gltf: 1.0
    ChimeraX-Graphics: 1.1
    ChimeraX-Hbonds: 2.1.2
    ChimeraX-Help: 1.2
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
    ChimeraX-ImageFormats: 1.2
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.1
    ChimeraX-ItemsInspection: 1.0
    ChimeraX-Label: 1.1.1
    ChimeraX-ListInfo: 1.1.1
    ChimeraX-Log: 1.1.5
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.8.1
    ChimeraX-Map: 1.1
    ChimeraX-MapData: 2.0
    ChimeraX-MapEraser: 1.0
    ChimeraX-MapFilter: 2.0
    ChimeraX-MapFit: 2.0
    ChimeraX-MapSeries: 2.1
    ChimeraX-Markers: 1.0
    ChimeraX-Mask: 1.0
    ChimeraX-MatchMaker: 2.0.6
    ChimeraX-MDcrds: 2.6
    ChimeraX-MedicalToolbar: 1.0.1
    ChimeraX-Meeting: 1.0
    ChimeraX-MLP: 1.1
    ChimeraX-mmCIF: 2.7
    ChimeraX-MMTF: 2.1
    ChimeraX-Modeller: 1.5.5
    ChimeraX-ModelPanel: 1.3.2
    ChimeraX-ModelSeries: 1.0
    ChimeraX-Mol2: 2.0
    ChimeraX-Morph: 1.0
    ChimeraX-MouseModes: 1.1
    ChimeraX-Movie: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nucleotides: 2.0.2
    ChimeraX-OpenCommand: 1.9
    ChimeraX-PDB: 2.6.6
    ChimeraX-PDBBio: 1.0
    ChimeraX-PDBLibrary: 1.0.2
    ChimeraX-PDBMatrices: 1.0
    ChimeraX-PickBlobs: 1.0
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.1
    ChimeraX-PubChem: 2.1
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1
    ChimeraX-RemoteControl: 1.0
    ChimeraX-ResidueFit: 1.0
    ChimeraX-RestServer: 1.1
    ChimeraX-RNALayout: 1.0
    ChimeraX-RotamerLibMgr: 2.0.1
    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
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.6
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0
    ChimeraX-Shortcuts: 1.1
    ChimeraX-ShowAttr: 1.0
    ChimeraX-ShowSequences: 1.0
    ChimeraX-SideView: 1.0
    ChimeraX-Smiles: 2.1
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.8
    ChimeraX-STL: 1.0
    ChimeraX-Storm: 1.0
    ChimeraX-StructMeasure: 1.0.1
    ChimeraX-Struts: 1.0.1
    ChimeraX-Surface: 1.0
    ChimeraX-SwapAA: 2.0
    ChimeraX-SwapRes: 2.1.1
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.1.1
    ChimeraX-ToolshedUtils: 1.2.1
    ChimeraX-Tug: 1.0
    ChimeraX-UI: 1.18.3
    ChimeraX-uniprot: 2.2
    ChimeraX-UnitCell: 1.0
    ChimeraX-ViewDockX: 1.1.2
    ChimeraX-VIPERdb: 1.0
    ChimeraX-Vive: 1.1
    ChimeraX-VolumeMenu: 1.0
    ChimeraX-VTK: 1.0
    ChimeraX-WavefrontOBJ: 1.0
    ChimeraX-WebCam: 1.0
    ChimeraX-WebServices: 1.1.0
    ChimeraX-Zone: 1.0
    colorama: 0.4.4
    comtypes: 1.1.10
    cxservices: 1.2
    cycler: 0.11.0
    Cython: 0.29.26
    debugpy: 1.6.0
    decorator: 5.1.1
    docutils: 0.17.1
    entrypoints: 0.4
    filelock: 3.4.2
    fonttools: 4.33.3
    funcparserlib: 1.0.0
    grako: 3.16.5
    h5py: 3.7.0
    html2text: 2020.1.16
    idna: 3.3
    ihm: 0.27
    imagecodecs: 2021.11.20
    imagesize: 1.3.0
    ipykernel: 6.6.1
    ipython: 7.31.1
    ipython-genutils: 0.2.0
    jedi: 0.18.1
    Jinja2: 3.0.3
    jupyter-client: 7.1.0
    jupyter-core: 4.10.0
    kiwisolver: 1.4.2
    line-profiler: 3.4.0
    lxml: 4.7.1
    lz4: 3.1.10
    MarkupSafe: 2.1.1
    matplotlib: 3.5.1
    matplotlib-inline: 0.1.3
    msgpack: 1.0.3
    nest-asyncio: 1.5.5
    netCDF4: 1.5.8
    networkx: 2.6.3
    numexpr: 2.8.1
    numpy: 1.22.1
    openvr: 1.16.802
    packaging: 21.3
    ParmEd: 3.4.3
    parso: 0.8.3
    pickleshare: 0.7.5
    Pillow: 9.0.1
    pip: 21.3.1
    pkginfo: 1.8.2
    prompt-toolkit: 3.0.29
    psutil: 5.9.0
    pycollada: 0.7.2
    pydicom: 2.2.2
    Pygments: 2.11.2
    PyOpenGL: 3.1.5
    PyOpenGL-accelerate: 3.1.5
    pyparsing: 3.0.9
    PyQt6-commercial: 6.3.0
    PyQt6-Qt6: 6.3.0
    PyQt6-sip: 13.3.1
    PyQt6-WebEngine-commercial: 6.3.0
    PyQt6-WebEngine-Qt6: 6.3.0
    python-dateutil: 2.8.2
    pytz: 2022.1
    pywin32: 303
    pyzmq: 23.1.0
    qtconsole: 5.3.0
    QtPy: 2.1.0
    RandomWords: 0.3.0
    requests: 2.27.1
    scipy: 1.7.3
    setuptools: 59.8.0
    sfftk-rw: 0.7.2
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    Sphinx: 4.3.2
    sphinx-autodoc-typehints: 1.15.2
    sphinxcontrib-applehelp: 1.0.2
    sphinxcontrib-blockdiag: 3.0.0
    sphinxcontrib-devhelp: 1.0.2
    sphinxcontrib-htmlhelp: 2.0.0
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 1.0.3
    sphinxcontrib-serializinghtml: 1.1.5
    suds-community: 1.0.0
    tables: 3.7.0
    tifffile: 2021.11.2
    tinyarray: 1.2.4
    tornado: 6.1
    traitlets: 5.1.1
    urllib3: 1.26.9
    wcwidth: 0.2.5
    webcolors: 1.11.1
    wheel: 0.37.1
    wheel-filename: 1.3.0
    WMI: 1.5.1

[Eric Pettersen]

Hi Tom,

Thanks for reporting this problem. I will add you to the recipient list for the main ticket we have open for this so that you will be notified when it gets fixed.

--Eric

Eric Pettersen
UCSF Computer Graphics Lab

[Zach Pearson]

​Fixed.