Crash using File→Open on Windows

[chimerax-bug-report@…]

The following bug report has been submitted:
Platform:        Windows-10-10.0.19042
ChimeraX Version: 1.4.dev202111251245 (2021-11-25 12:45:15 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Windows fatal exception: code 0x8001010e

Thread 0x00001cac (most recent call first):
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\open_command\dialog.py", line 135 in show_open_file_dialog
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\open_command\dialog.py", line 107 in 
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\ui\gui.py", line 316 in event_loop
  File "C:\Program Files\ChimeraWindows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

Windows fatal exception: code 0x8001010e

X 1.4.dev202111251245\bin\lib\site-packages\ChimeraX_main.py", line 867 in init
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\ChimeraX_main.py", line 1018 in 
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\runpy.py", line 87 in _run_code
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\runpy.py", line 197 in _run_module_as_main
Windows fatal exception: code 0x8001010e

Thread 0x00001cac (most recent call first):
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\open_command\dialog.py", line 135 in show_open_file_dialog
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\open_command\dialog.py", line 107 in 
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\ui\gui.py", line 316 in event_loop
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\ChimeraX_main.py", line 867 in init
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\ChimeraX_main.py", line 1018 in 
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\runpy.py", line 87 in _run_code
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\runpy.py", line 197 in _run_module_as_main
Windows fatal exception: code 0x8001010e

Thread 0x00001cac (most recent call first):
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\open_command\dialog.py", line 135 in show_open_file_dialog
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\open_command\dialog.py", line 107 in 
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\ui\gui.py", line 316 in event_loop
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\ChimeraX_main.py", line 867 in init
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\ChimeraX_main.py", line 1018 in 
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\runpy.py", line 87 in _run_code
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\runpy.py", line 197 in _run_module_as_main
Windows fatal exception: code 0x8001010e

Thread 0x00001cac (most recent call first):
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\open_command\dialog.py", line 135 in show_open_file_dialog
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\open_command\dialog.py", line 107 in 
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\ui\gui.py", line 316 in event_loop
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\ChimeraX_main.py", line 867 in init
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\ChimeraX_main.py", line 1018 in 
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\runpy.py", line 87 in _run_code
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\runpy.py", line 197 in _run_module_as_main
Windows fatal exception: code 0x8001010e

Thread 0x00001cac (most recent call first):
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\open_command\dialog.py", line 135 in show_open_file_dialog
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\open_command\dialog.py", line 107 in 
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\ui\gui.py", line 316 in event_loop
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\ChimeraX_main.py", line 867 in init
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\ChimeraX_main.py", line 1018 in 
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\runpy.py", line 87 in _run_code
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\runpy.py", line 197 in _run_module_as_main
Windows fatal exception: code 0x8001010e

Thread 0x00001cac (most recent call first):
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\open_command\dialog.py", line 135 in show_open_file_dialog
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\open_command\dialog.py", line 107 in 
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\ui\gui.py", line 316 in event_loop
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\ChimeraX_main.py", line 867 in init
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\ChimeraX_main.py", line 1018 in 
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\runpy.py", line 87 in _run_code
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\runpy.py", line 197 in _run_module_as_main
Windows fatal exception: code 0x8001010e

Thread 0x00001cac (most recent call first):
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\open_command\dialog.py", line 135 in show_open_file_dialog
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\open_command\dialog.py", line 107 in 
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\ui\gui.py", line 316 in event_loop
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\ChimeraX_main.py", line 867 in init
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\ChimeraX_main.py", line 1018 in 
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\runpy.py", line 87 in _run_code
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\runpy.py", line 197 in _run_module_as_main
Windows fatal exception: code 0x8001010e

Thread 0x00001cac (most recent call first):
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\open_command\dialog.py", line 135 in show_open_file_dialog
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\open_command\dialog.py", line 107 in 
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\ui\gui.py", line 316 in event_loop
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\ChimeraX_main.py", line 867 in init
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\ChimeraX_main.py", line 1018 in 
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\runpy.py", line 87 in _run_code
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\runpy.py", line 197 in _run_module_as_main
Windows fatal exception: code 0x8001010e

Thread 0x00001cac (most recent call first):
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\open_command\dialog.py", line 135 in show_open_file_dialog
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\open_command\dialog.py", line 107 in 
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\ui\gui.py", line 316 in event_loop
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\ChimeraX_main.py", line 867 in init
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\ChimeraX_main.py", line 1018 in 
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\runpy.py", line 87 in _run_code
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\runpy.py", line 197 in _run_module_as_main
Windows fatal exception: code 0x8001010e

Thread 0x00001cac (most recent call first):
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\open_command\dialog.py", line 135 in show_open_file_dialog
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\open_command\dialog.py", line 107 in 
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\chimerax\ui\gui.py", line 316 in event_loop
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\ChimeraX_main.py", line 867 in init
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\site-packages\ChimeraX_main.py", line 1018 in 
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\runpy.py", line 87 in _run_code
  File "C:\Program Files\ChimeraX 1.4.dev202111251245\bin\lib\runpy.py", line 197 in _run_module_as_main
===== Log before crash start =====
UCSF ChimeraX version: 1.4.dev202111251245 (2021-11-25)  
© 2016-2021 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open "C:\Users\consc842\OneDrive\Dokumente\Master Biotech-DESKTOP-
> CONRAD\Biotech 4. Semester Sweden\KICD structure\empty active site.cxs"
> format session

opened ChimeraX session  
Drag select of 1 residues  

> select /A:363

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

> select /A:363-364

19 atoms, 19 bonds, 2 residues, 1 model selected  

> ui tool show "Color Actions"

> color sel tan

> color sel byhetero

> select /A:365

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

> select /A:365-366

14 atoms, 13 bonds, 2 residues, 1 model selected  

> select /A:364

11 atoms, 11 bonds, 1 residue, 1 model selected  

> select /A:364

11 atoms, 11 bonds, 1 residue, 1 model selected  

> select /A:365

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

> select /A:365

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

> select /A:363

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

> select /A:363

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

> color sel orange

> color sel byhetero

> ui tool show "Build Structure"

> open 979 fromDatabase pubchem

Summary of feedback from opening 979 fetched from pubchem  
---  
note | Fetching compressed PubChem 979 from
https://pubchem.ncbi.nlm.nih.gov/rest/pug/compound/cid/979/SDF?record_type=3d  
  
PubChem entry 979  
  

> hide #2 models

> show #2 models

> ui tool show "Side View"

> select #1

3532 atoms, 3118 bonds, 12 pseudobonds, 863 residues, 4 models selected  

> ~select #1

Nothing selected  

> select #2

21 atoms, 21 bonds, 1 residue, 1 model selected  

> ui tool show "Fit in Map"

> select #1

3532 atoms, 3118 bonds, 12 pseudobonds, 863 residues, 4 models selected  

Fit in map shortcut requires 1 displayed atomic model and 1 map or two maps,
got 2 atomic models, 0 maps.  

> ~select #1

Nothing selected  

> select #2

21 atoms, 21 bonds, 1 residue, 1 model selected  

> ui mousemode right translate

> ui mousemode right "translate selected models"

> view matrix models #2,1,0,0,-9.6791,0,1,0,8.3152,0,0,1,2.694

> view matrix models #2,1,0,0,-29.732,0,1,0,22.029,0,0,1,14.983

> view matrix models #2,1,0,0,-13.039,0,1,0,32.936,0,0,1,22.51

> view matrix models #2,1,0,0,-5.9598,0,1,0,44.044,0,0,1,17.85

> view matrix models #2,1,0,0,-6.4155,0,1,0,41.741,0,0,1,18.74

> view matrix models #2,1,0,0,-3.6292,0,1,0,48.858,0,0,1,6.1157

> ~select #2

Nothing selected  

> ui mousemode right "translate selected models"

> select #2

21 atoms, 21 bonds, 1 residue, 1 model selected  

> view matrix models #2,1,0,0,-0.25011,0,1,0,46.422,0,0,1,4.4894

> ui mousemode right "rotate selected models"

> view matrix models
> #2,0.27557,-0.51647,0.81076,-0.37106,-0.47453,-0.80657,-0.35252,46.062,0.836,-0.28758,-0.46734,4.4599

> view matrix models
> #2,0.3399,-0.54322,0.76771,-0.37139,-0.40466,-0.82136,-0.40201,46.064,0.84895,-0.17402,-0.499,4.4789

> ui mousemode right "translate selected models"

> view matrix models
> #2,0.3399,-0.54322,0.76771,0.020715,-0.40466,-0.82136,-0.40201,46.395,0.84895,-0.17402,-0.499,6.1215

> ui mousemode right "rotate selected models"

> view matrix models
> #2,0.4074,-0.53289,0.74165,0.027551,-0.40711,-0.83292,-0.37484,46.394,0.81749,-0.14922,-0.55628,6.1206

> view matrix models
> #2,-0.1601,-0.59831,0.78511,-0.033145,-0.64751,-0.53667,-0.54103,46.415,0.74504,-0.59499,-0.30149,6.049

> view matrix models
> #2,0.084271,-0.6761,0.73198,-0.026144,-0.71519,-0.55254,-0.42802,46.411,0.69383,-0.48743,-0.5301,6.0536

> ui mousemode right "next docked"

> hide #* target a

> show sel target ab

> undo

> ~select #2

Nothing selected  

> select #2

21 atoms, 21 bonds, 1 residue, 1 model selected  

> undo

> ui mousemode right select

Drag select of 1 atoms  

> hide sel atoms

Drag select of 1 atoms  

> hide sel atoms

> select clear

Drag select of 1 atoms  

> hide sel atoms

Drag select of 2 atoms  

> hide sel atoms

Drag select of 1 atoms  

> hide sel atoms

Drag select of 1 atoms  

> hide sel atoms

> select clear

Drag select of 1 atoms  

> hide sel atoms

> select #2

21 atoms, 21 bonds, 1 residue, 1 model selected  

> ~select #2

Nothing selected  

> select #2

21 atoms, 21 bonds, 1 residue, 1 model selected  

> ui mousemode right translate

> ui mousemode right "translate selected models"

> view matrix models
> #2,0.084271,-0.6761,0.73198,-0.24101,-0.71519,-0.55254,-0.42802,45.547,0.69383,-0.48743,-0.5301,6.3842

> view matrix models
> #2,0.084271,-0.6761,0.73198,0.42044,-0.71519,-0.55254,-0.42802,44.992,0.69383,-0.48743,-0.5301,5.8623

> ui mousemode right "rotate selected models"

> view matrix models
> #2,0.30307,-0.76108,0.5735,0.373,-0.79645,-0.53274,-0.28609,45.014,0.52327,-0.37006,-0.76762,5.8793

> view matrix models
> #2,0.39019,-0.77318,0.49994,0.35095,-0.81123,-0.54551,-0.21052,45.022,0.43549,-0.32342,-0.84009,5.8916

> ui mousemode right "translate selected models"

> view matrix models
> #2,0.39019,-0.77318,0.49994,0.85056,-0.81123,-0.54551,-0.21052,44.849,0.43549,-0.32342,-0.84009,5.4424

> ui mousemode right "rotate selected models"

> view matrix models
> #2,0.28572,-0.78186,0.55413,0.87869,-0.62912,-0.58922,-0.50699,44.8,0.7229,-0.20376,-0.66023,5.3651

> ui mousemode right "translate selected models"

> view matrix models
> #2,0.28572,-0.78186,0.55413,1.1212,-0.62912,-0.58922,-0.50699,45.108,0.7229,-0.20376,-0.66023,5.8859

> view matrix models
> #2,0.28572,-0.78186,0.55413,1.1114,-0.62912,-0.58922,-0.50699,45.445,0.7229,-0.20376,-0.66023,5.9818

> ~select #2

Nothing selected  
Drag select of 1 atoms  

> hide sel surfaces

> hide sel target a

Drag select of 1 atoms  

> hide sel target a

Drag select of 1 atoms  

> hide sel target a

> select #2

21 atoms, 21 bonds, 1 residue, 1 model selected  

> ui tool show H-Bonds

> hbonds reveal true

1718 hydrogen bonds found  

> hide #3 models

> undo

> redo

> hide #3 models

> show #3 models

> hide #3 models

> select #1

3532 atoms, 3118 bonds, 1720 pseudobonds, 863 residues, 4 models selected  

> ~select #1

Nothing selected  

> select #2

21 atoms, 21 bonds, 1 residue, 1 model selected  

> log metadata #2

The model has no metadata

> log chains #2

> ui tool show H-Bonds

> select ::name="HOH"

480 atoms, 671 pseudobonds, 480 residues, 2 models selected  

> hide #3 target m

> hide (#!1 & sel) target a

> select #1

3532 atoms, 3118 bonds, 1720 pseudobonds, 863 residues, 4 models selected  

> select #3

1718 pseudobonds, 1 model selected  

> ~select #3

Nothing selected  

> hide atoms

> hide #2 models

> show #2 models

> show atoms

> hide atoms

> select #2

21 atoms, 21 bonds, 1 residue, 1 model selected  

> select #1

3532 atoms, 3118 bonds, 1720 pseudobonds, 863 residues, 4 models selected  

> ~select #1

Nothing selected  

> show atoms

> hide atoms

> select #2

21 atoms, 21 bonds, 1 residue, 1 model selected  

> show sel target ab

> ui tool show ViewDockX

No suitable models found for ViewDockX  

> open 979 fromDatabase pubchem

PubChem entry 979  
  

> hide #4 models

> ~hbonds

> select #1/A:363-364

19 atoms, 19 bonds, 2 residues, 1 model selected  

> select #1/A:363-364

19 atoms, 19 bonds, 2 residues, 1 model selected  

> select #1/A:336

11 atoms, 11 bonds, 1 residue, 1 model selected  

> select #1/A:336,363-364

30 atoms, 30 bonds, 3 residues, 1 model selected  

> select #1/A:265,336,363-364

39 atoms, 38 bonds, 4 residues, 1 model selected  

> select #1/A:251,265,336,363-364

48 atoms, 46 bonds, 5 residues, 1 model selected  

> select #1/A:251,265,334,336,363-364

57 atoms, 54 bonds, 6 residues, 1 model selected  

> show sel atoms

> select #1

3532 atoms, 3118 bonds, 7 pseudobonds, 863 residues, 3 models selected  

> ~select #1

Nothing selected  

> select ::name="CL"

1 atom, 1 residue, 1 model selected  

> style sel sphere

Changed 1 atom style  

> show sel atoms

> hide sel atoms

> select ::name="CO"

1 atom, 1 residue, 1 model selected  

> show sel atoms

> style sel sphere

Changed 1 atom style  

> select #1/A:207

10 atoms, 10 bonds, 1 residue, 1 model selected  

> select #1/A:207

10 atoms, 10 bonds, 1 residue, 1 model selected  

> select #1/A:183

10 atoms, 10 bonds, 1 residue, 1 model selected  

> select #1/A:183

10 atoms, 10 bonds, 1 residue, 1 model selected  

> select #1/A:182

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

> select #1/A:181-182

16 atoms, 15 bonds, 2 residues, 1 model selected  

> select #1/A:183

10 atoms, 10 bonds, 1 residue, 1 model selected  

> select #1/A:183

10 atoms, 10 bonds, 1 residue, 1 model selected  

> select #1/A:187

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

> select #1/A:187

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

> select #1/A:186

4 atoms, 3 bonds, 1 residue, 1 model selected  

> select #1/A:186

4 atoms, 3 bonds, 1 residue, 1 model selected  

> select #1/A:185

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

> select #1/A:185

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

> select #1/A:184

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

> select #1/A:184

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

> select #1/A:183

10 atoms, 10 bonds, 1 residue, 1 model selected  

> select #1/A:183

10 atoms, 10 bonds, 1 residue, 1 model selected  

> show sel atoms

Drag select of 1 residues  

> show sel atoms

> select #1

3532 atoms, 3118 bonds, 7 pseudobonds, 863 residues, 3 models selected  

> ~select #1

Nothing selected  
Drag select of 1 atoms  

> hide sel atoms

Drag select of 1 atoms  

> hide sel atoms

Drag select of 1 atoms  

> hide sel atoms

> select clear

Drag select of 1 atoms  

> hide sel atoms

Drag select of 1 atoms  

> hide sel atoms

Drag select of 1 atoms  

> hide sel atoms

> select clear

Drag select of 1 atoms  

> hide sel atoms

> select clear

Drag select of 1 atoms  

> hide sel atoms

> select clear

Drag select of 3 residues  
Drag select of 1 bonds  
Drag select of 3 residues  

> select clear

Drag select of 1 residues  

> label sel attribute name

> ~label sel residues

Drag select of 1 atoms, 1 residues  

> label sel attribute name

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

> label sel attribute label_specifier

> label sel text "HIS 266"

Drag select of 1 atoms, 2 residues  
Drag select of 1 residues  

> select #1/A:183

10 atoms, 10 bonds, 1 residue, 1 model selected  

> label sel text "HIS 183"

Drag select of 1 residues  

> hide sel atoms

> show sel atoms

> select #1

3532 atoms, 3118 bonds, 7 pseudobonds, 863 residues, 3 models selected  

> ~select #1

Nothing selected  

> save "C:/Users/consc842/OneDrive/Dokumente/Master Biotech-DESKTOP-
> CONRAD/Biotech 4. Semester Sweden/KICD structure/final_HPPfit_hHPPD.cxs"

> select clear

Drag select of 2 atoms  

> ui mousemode right distance

> distance #2/?:1@O1 #1/A:265@NE2

Distance between pubchem:979 #2/? UNL 1 O1 and 3isq.pdb #1/A GLN 265 NE2:
2.667Å  

> distance #1/A:251@NE2 #2/?:1@O1

Distance between 3isq.pdb #1/A GLN 251 NE2 and pubchem:979 #2/? UNL 1 O1:
2.556Å  

> distance #1/A:334@NE2 #2/?:1@O4

Distance between 3isq.pdb #1/A GLN 334 NE2 and pubchem:979 #2/? UNL 1 O4:
2.957Å  

> distance #1/A:334@NE2 #2/?:1@O3

Distance between 3isq.pdb #1/A GLN 334 NE2 and pubchem:979 #2/? UNL 1 O3:
2.534Å  

> distance #2/?:1@O3 #1/A:901@CO

Distance between pubchem:979 #2/? UNL 1 O3 and 3isq.pdb #1/A CO 901 CO: 2.379Å  

> distance #2/?:1@O2 #1/A:901@CO

Distance between pubchem:979 #2/? UNL 1 O2 and 3isq.pdb #1/A CO 901 CO: 2.566Å  

> hide #3.1 models

> select #1

3532 atoms, 3118 bonds, 7 pseudobonds, 863 residues, 3 models selected  

> ~select #1

Nothing selected  

> select clear

> ui mousemode right select

> select clear

Drag select of 1 residues  

> select clear

> save C:\Users\consc842\Desktop\image3.png supersample 3

> show #3.1 models

> hide #3.1 models

> show #3.1 models

> hide #3.1 models

> set bgColor white

> save C:\Users\consc842\Desktop\image3.png supersample 3

Drag select of 1 pseudobonds  

> select clear

Drag select of 1 pseudobonds  

> select clear

Drag select of 1 pseudobonds  

> select clear

Drag select of 1 pseudobonds  

> hide target m

> open "C:/Users/consc842/OneDrive/Dokumente/Master Biotech-DESKTOP-
> CONRAD/Biotech 4. Semester Sweden/KICD structure/final_HPPfit_hHPPD.cxs"

opened ChimeraX session  

> set bgColor white

> ui tool show "Side View"

Drag select of 2 atoms, 2 bonds  

> hide sel atoms

Drag select of 1 atoms  

> hide sel atoms

> select #2/?:1@C6

1 atom, 1 residue, 1 model selected  

> hide sel atoms

> ui mousemode right distance

> distance #2/?:1@O3 #1/A:901@CO

Distance between pubchem:979 #2/? UNL 1 O3 and 3isq.pdb #1/A CO 901 CO: 2.379Å  

> distance #2/?:1@O2 #1/A:901@CO

Distance between pubchem:979 #2/? UNL 1 O2 and 3isq.pdb #1/A CO 901 CO: 2.566Å  

> distance #1/A:334@NE2 #2/?:1@O3

Distance between 3isq.pdb #1/A GLN 334 NE2 and pubchem:979 #2/? UNL 1 O3:
2.534Å  

> distance #1/A:334@OE1 #2/?:1@O4

Distance between 3isq.pdb #1/A GLN 334 OE1 and pubchem:979 #2/? UNL 1 O4:
3.516Å  

> select clear

Drag select of 1 pseudobonds  
No visible atoms or bonds selected  

> select #3

4 pseudobonds, 2 models selected  

> ~select #3

Nothing selected  

> select #3

4 pseudobonds, 2 models selected  

> ui mousemode right "map eraser"

> hide #5 models

> select #1/A:146

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

> select #1/A:146-147

15 atoms, 14 bonds, 2 residues, 1 model selected  
Drag select of 1 pseudobonds  

> select clear

Drag select of 1 residues, 1 pseudobonds  

> select clear

> ui mousemode right "delete markers"

> ui mousemode right "link markers"

No visible atoms or bonds selected  

> ui mousemode right distance

> ~distance #1/A:334@OE1 #2/?:1@O4

> distance #1/A:334@NE2 #2/?:1@O4

Distance between 3isq.pdb #1/A GLN 334 NE2 and pubchem:979 #2/? UNL 1 O4:
2.957Å  

> ui mousemode right label

> label delete residues

> ui mousemode right "move label"

> hide #3.1 models

> ui mousemode right select

> select #1/A:183@CB

1 atom, 1 residue, 1 model selected  

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

> label sel text H183

> select #1/A:266@CB

1 atom, 1 residue, 1 model selected  

> select #1/A:183@CB

1 atom, 1 residue, 1 model selected  

> label sel text "HIS 183"

> select #1/A:266@CB

1 atom, 1 residue, 1 model selected  

> label sel text "HIS 266"

> select #1/A:265@CG

1 atom, 1 residue, 1 model selected  

> label sel text "Q 265"

> label sel attribute label_one_letter_code

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

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

> label sel text "GLN 265"

> select #1/A:251

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

> label sel text "GLN 251"

> select #1/A:363

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

> label sel text "ASN 363"

> select #1/A:364

11 atoms, 11 bonds, 1 residue, 1 model selected  

> select #1/A:363

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

> label sel text "ASN3 63"

> label sel text "ASN 363"

> select #1/A:364

11 atoms, 11 bonds, 1 residue, 1 model selected  

> label sel text "PHE 364"

> select #1/A:334@CG

1 atom, 1 residue, 1 model selected  

> label sel text "GLN 334"

> select #1/A:336

11 atoms, 11 bonds, 1 residue, 1 model selected  

> label sel text "PHE 336"

> select #1

3532 atoms, 3118 bonds, 7 pseudobonds, 863 residues, 3 models selected  

> ~select #1

Nothing selected  

> color #2 #65eb6e transparency 0

> color #2 #46a34c transparency 0

> color #2#!1 byhetero

> save "C:/Users/consc842/OneDrive/Dokumente/Master Biotech-DESKTOP-
> CONRAD/Biotech 4. Semester Sweden/KICD structure/final_KIC_hHPPD.cxs"

> save C:\Users\consc842\Desktop\image3.png supersample 3


===== Log before crash end =====

Log:
UCSF ChimeraX version: 1.4.dev202111251245 (2021-11-25)  
© 2016-2021 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  




OpenGL version: 3.3.0 - Build 30.0.100.9805
OpenGL renderer: Intel(R) HD Graphics 620
OpenGL vendor: Intel
Manufacturer: Dell Inc.
Model: Latitude 7480
OS: Microsoft Windows 10 Education (Build 19042)
Memory: 17,055,117,312
MaxProcessMemory: 137,438,953,344
CPU: 4 Intel(R) Core(TM) i5-7200U CPU @ 2.50GHz
OSLanguage: en-US
Locale: ('en_GB', 'cp1252')
PyQt5 5.15.2, Qt 5.15.2
Installed Packages:
    alabaster: 0.7.12
    appdirs: 1.4.4
    Babel: 2.9.1
    backcall: 0.2.0
    blockdiag: 2.0.1
    certifi: 2021.10.8
    cftime: 1.5.1.1
    charset-normalizer: 2.0.8
    ChimeraX-AddCharge: 1.2.2
    ChimeraX-AddH: 2.1.11
    ChimeraX-AlignmentAlgorithms: 2.0
    ChimeraX-AlignmentHdrs: 3.2
    ChimeraX-AlignmentMatrices: 2.0
    ChimeraX-Alignments: 2.2.3
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.0.1
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.0
    ChimeraX-Atomic: 1.31.2
    ChimeraX-AtomicLibrary: 4.2
    ChimeraX-AtomSearch: 2.0
    ChimeraX-AtomSearchLibrary: 1.0
    ChimeraX-AxesPlanes: 2.1
    ChimeraX-BasicActions: 1.1
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 2.0
    ChimeraX-BondRot: 2.0
    ChimeraX-BugReporter: 1.0
    ChimeraX-BuildStructure: 2.6
    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: 2.2.2
    ChimeraX-ColorActions: 1.0
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5
    ChimeraX-CommandLine: 1.1.5
    ChimeraX-ConnectStructure: 2.0
    ChimeraX-Contacts: 1.0
    ChimeraX-Core: 1.4.dev202111251245
    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: 1.0
    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: 1.1
    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
    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: 2.0.4
    ChimeraX-MDcrds: 2.6
    ChimeraX-MedicalToolbar: 1.0.1
    ChimeraX-Meeting: 1.0
    ChimeraX-MLP: 1.1
    ChimeraX-mmCIF: 2.4
    ChimeraX-MMTF: 2.1
    ChimeraX-Modeller: 1.5
    ChimeraX-ModelPanel: 1.3.1
    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: 1.8
    ChimeraX-PDB: 2.6.5
    ChimeraX-PDBBio: 1.0
    ChimeraX-PDBLibrary: 1.0.2
    ChimeraX-PDBMatrices: 1.0
    ChimeraX-PickBlobs: 1.0
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.0.1
    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
    ChimeraX-SchemeMgr: 1.0
    ChimeraX-SDF: 2.0
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.4.6
    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: 1.6.1
    ChimeraX-STL: 1.0
    ChimeraX-Storm: 1.0
    ChimeraX-StructMeasure: 1.0.1
    ChimeraX-Struts: 1.0
    ChimeraX-Surface: 1.0
    ChimeraX-SwapAA: 2.0
    ChimeraX-SwapRes: 2.1
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.1
    ChimeraX-ToolshedUtils: 1.2
    ChimeraX-Tug: 1.0
    ChimeraX-UI: 1.15
    ChimeraX-uniprot: 2.2
    ChimeraX-UnitCell: 1.0
    ChimeraX-ViewDockX: 1.0.1
    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: 1.0
    ChimeraX-Zone: 1.0
    colorama: 0.4.4
    comtypes: 1.1.10
    cxservices: 1.1
    cycler: 0.11.0
    Cython: 0.29.24
    decorator: 5.1.0
    docutils: 0.17.1
    filelock: 3.0.12
    funcparserlib: 0.3.6
    grako: 3.16.5
    h5py: 3.6.0
    html2text: 2020.1.16
    idna: 3.3
    ihm: 0.21
    imagecodecs: 2021.4.28
    imagesize: 1.3.0
    ipykernel: 5.5.5
    ipython: 7.23.1
    ipython-genutils: 0.2.0
    jedi: 0.18.0
    Jinja2: 3.0.1
    jupyter-client: 6.1.12
    jupyter-core: 4.9.1
    kiwisolver: 1.3.2
    lxml: 4.6.3
    lz4: 3.1.3
    MarkupSafe: 2.0.1
    matplotlib: 3.4.3
    matplotlib-inline: 0.1.3
    msgpack: 1.0.2
    netCDF4: 1.5.7
    networkx: 2.6.3
    numexpr: 2.7.3
    numpy: 1.21.2
    openvr: 1.16.801
    packaging: 21.3
    ParmEd: 3.2.0
    parso: 0.8.2
    pickleshare: 0.7.5
    Pillow: 8.3.2
    pip: 21.2.4
    pkginfo: 1.7.1
    prompt-toolkit: 3.0.22
    psutil: 5.8.0
    pycollada: 0.7.1
    pydicom: 2.1.2
    Pygments: 2.10.0
    PyOpenGL: 3.1.5
    PyOpenGL-accelerate: 3.1.5
    pyparsing: 3.0.6
    PyQt5-commercial: 5.15.2
    PyQt5-sip: 12.8.1
    PyQtWebEngine-commercial: 5.15.2
    python-dateutil: 2.8.2
    pytz: 2021.3
    pywin32: 228
    pyzmq: 22.3.0
    qtconsole: 5.1.1
    QtPy: 1.11.2
    RandomWords: 0.3.0
    requests: 2.26.0
    scipy: 1.7.1
    setuptools: 57.5.0
    sfftk-rw: 0.7.1
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    Sphinx: 4.2.0
    sphinx-autodoc-typehints: 1.12.0
    sphinxcontrib-applehelp: 1.0.2
    sphinxcontrib-blockdiag: 2.0.0
    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-jurko: 0.6
    tables: 3.6.1
    tifffile: 2021.4.8
    tinyarray: 1.2.3
    tornado: 6.1
    traitlets: 5.1.1
    urllib3: 1.26.7
    wcwidth: 0.2.5
    webcolors: 1.11.1
    wheel: 0.37.0
    wheel-filename: 1.3.0
    WMI: 1.5.1

[Eric Pettersen]

1.4, pre-3.9.11