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#3171 closed defect (duplicate)

Save options widgets deleted

Reported by:	chimerax-bug-report@…	Owned by:	Eric Pettersen
Priority:	normal	Milestone:
Component:	Input/Output	Version:
Keywords:		Cc:
Blocked By:		Blocking:
Notify when closed:		Platform:	all
Project:	ChimeraX

Description

The following bug report has been submitted:
Platform:        Windows-10-10.0.18362
ChimeraX Version: 1.0 (2020-05-08)
Description
(Describe the actions that caused this problem to occur here)

Log:
UCSF ChimeraX version: 1.0rc202005080235 (2020-05-08)  
© 2016-2020 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open "C:\Users\Ruensern Tan\Downloads\5nvu.pdb" format pdb

5nvu.pdb title:  
Full length human cytoplasmic dynein-1 In the φ-particle conformation [more
info...]  
  
Chain information for 5nvu.pdb #1  
---  
Chain | Description  
A B | dynein motor domain  
C | dynein tail heavy chain  
D E | dynein intermediate chain  
F | dynein tail heavy chain  
G | dynein light intermediate chain  
H | dynein light intermediate chain  
I | N-terminal dimerization domain  
J | N-terminal dimerization domain  
K L | LC8  
M | TCTEX  
N | TCTEX  
O | intermediate chain N-terminus peptides  
P | intermediate chain N-terminus peptides  
Q R | ROBL  
  

> select /C

4654 atoms, 4629 bonds, 52 pseudobonds, 2 models selected  

> color (#!1 & sel) cyan

> select /A

15703 atoms, 15690 bonds, 24 pseudobonds, 2 models selected  

> color (#!1 & sel) cyan

> select /C

4654 atoms, 4629 bonds, 52 pseudobonds, 2 models selected  

> select /F

4459 atoms, 4434 bonds, 53 pseudobonds, 2 models selected  

> color (#!1 & sel) blue

> select /F

4459 atoms, 4434 bonds, 53 pseudobonds, 2 models selected  

> select /B

15703 atoms, 15690 bonds, 24 pseudobonds, 2 models selected  

> color (#!1 & sel) blue

> select /K

421 atoms, 420 bonds, 1 model selected  

> select /I

625 atoms, 617 bonds, 14 pseudobonds, 2 models selected  

> color (#!1 & sel) purple

> select /R

587 atoms, 586 bonds, 1 model selected  

> select /Q

587 atoms, 586 bonds, 1 model selected  

> color sel forest green

> select /M

507 atoms, 506 bonds, 1 model selected  

> select /K

421 atoms, 420 bonds, 1 model selected  

> select /I

625 atoms, 617 bonds, 14 pseudobonds, 2 models selected  

> select /J

620 atoms, 612 bonds, 14 pseudobonds, 2 models selected  

> color (#!1 & sel) purple

> select /K

421 atoms, 420 bonds, 1 model selected  

> select /Q

587 atoms, 586 bonds, 1 model selected  

> select /R

587 atoms, 586 bonds, 1 model selected  

> color sel forest green

> select /M

507 atoms, 506 bonds, 1 model selected  

> select /D

1723 atoms, 1719 bonds, 6 pseudobonds, 2 models selected  

> color (#!1 & sel) orange

> select /E

1723 atoms, 1719 bonds, 6 pseudobonds, 2 models selected  

> color (#!1 & sel) orange

> select /G

1471 atoms, 1467 bonds, 6 pseudobonds, 2 models selected  

> color (#!1 & sel) gray

> select /H

1459 atoms, 1459 bonds, 4 pseudobonds, 2 models selected  

> color (#!1 & sel) gray

> select /B

15703 atoms, 15690 bonds, 24 pseudobonds, 2 models selected  

> select

51453 atoms, 51354 bonds, 212 pseudobonds, 2 models selected  

> select clear

> select /A

15703 atoms, 15690 bonds, 24 pseudobonds, 2 models selected  

> color (#!1 & sel) black

> select clear

> undo

> undo

> select clear

> preset "overall look" publication

Preset expands to these ChimeraX commands:

    
    
    set bg white
    graphics silhouettes t

  

> graphics silhouettes false

> graphics silhouettes true

> graphics silhouettes false

> lighting flat

> lighting soft

> lighting simple

> lighting soft

> lighting full

> lighting soft

> lighting flat

> lighting shadows true intensity 0.5

> lighting shadows false

> lighting shadows true

> lighting shadows false

> lighting shadows true

> lighting shadows false

> lighting flat

> lighting full

> lighting flat

> lighting flat

> lighting full

> lighting soft

> volume style surface

No volumes specified  

> volume appearance initial

No volumes specified  

> save "C:/Users/Ruensern Tan/Desktop/Reviews/NatChemBioDynein 2020/dynein
> phi.tif" width 1920 height 834 supersample 3

> save "C:/Users/Ruensern Tan/Desktop/Reviews/NatChemBioDynein 2020/dynein
> phi.tif" width 7680 height 3336 supersample 4

> save "C:/Users/Ruensern Tan/Desktop/Reviews/NatChemBioDynein 2020/dynein
> phi.tif" width 7680 height 3336 supersample 4

> open "C:/Users/Ruensern Tan/Downloads/5nvs.pdb"

5nvs.pdb title:  
Human cytoplasmic dynein-1 tail In the twisted N-terminus state [more info...]  
  
Chain information for 5nvs.pdb #2  
---  
Chain | Description  
1 | N-terminal dimerization domain  
2 | N-terminal dimerization domain  
A | dynein heavy chain  
B | dynein heavy chain  
C D | dynein intermediate chain  
E | dynein light intermediate chain  
F | dynein light intermediate chain  
I J | LC8  
K | TCTEX  
L | TCTEX  
M | intermediate chain  
N | intermediate chain  
R S | ROBL  
  

> undo

> undo

> toolshed show "Side View"

> undo

> toolshed show "Model Panel"

> hide #!2 models

> hide #!1 models

> open "C:/Users/Ruensern Tan/Downloads/6f1t.pdb"

6f1t.pdb title:  
Cryo-em structure of two dynein tail domains bound to dynactin and BICDR1
[more info...]  
  
Chain information for 6f1t.pdb #3  
---  
Chain | Description  
A B C D E F G I | ARP1 actin related protein 1 homolog A  
H | β-actin  
J | actin related protein 10 homolog  
K | capping protein (actin filament) muscle Z-line, α 1  
L | F-actin capping protein β subunit  
M | dynactin subunit 2  
N | dynactin subunit 2  
O P | dynactin subunit 3  
Q R | dynactin subunit 2  
U | dynactin 6  
V | dynactin subunit 5  
X | bicd family-like cargo adapter 1,bicd family-like cargo adapter 1,bicd
family-like cargo adapter 1,bicdr-1  
Y | dynactin subunit 4  
Z | dynactin subunit 1  
a | dynactin subunit 2  
b | dynactin subunit 2  
c | dynactin subunit 2  
d | dynactin subunit 2  
e f m n | cytoplasmic dynein 1 heavy chain 1,cytoplasmic dynein 1 heavy chain
1,cytoplasmic dynein 1 heavy chain 1,dynein heavy chain, cytoplasmic dynein 1
heavy chain 1,cytoplasmic dynein 1 heavy chain 1,cytoplasmic dynein 1 heavy
chain 1,cytoplasmic dynein 1 heavy chain 1,dynein heavy chain,cytoplasmic
dynein 1 heavy chain 1,cytoplasmic dynein 1 heavy chain 1  
g h o p | cytoplasmic dynein 1 intermediate chain 2  
i j q r | cytoplasmic dynein 1 light intermediate chain 2  
k l s t | dynein light chain roadblock-type 1  
x | bicd family-like cargo adapter 1,bicd family-like cargo adapter 1,bicd
family-like cargo adapter 1  
z | dynactin subunit 1  
  
Non-standard residues in 6f1t.pdb #3  
---  
ADP — adenosine-5'-diphosphate  
ATP — adenosine-5'-triphosphate  
  

> open "C:/Users/Ruensern Tan/Downloads/6f3a.pdb"

6f3a.pdb title:  
Cryo-em structure of A single dynein tail domain bound to dynactin and BICD2N
[more info...]  
  
Chain information for 6f3a.pdb #4  
---  
Chain | Description  
5 6 | BICD2N  
A B C D E F G I | ARP1 actin related protein 1 homolog A  
H | β-actin  
J | actin related protein 10 homolog  
K | capping protein (actin filament) muscle Z-line, α 1  
L | F-actin capping protein β subunit  
M | dynactin subunit 2  
N | dynactin subunit 2  
O P | dynactin subunit 3  
Q R | dynactin subunit 2  
U | dynactin 6  
V | dynactin subunit 5  
Y | dynactin subunit 4  
Z | dynactin subunit 1  
a | dynactin subunit 2  
b c d | dynactin subunit 2  
e f | cytoplasmic dynein 1 heavy chain 1  
g h | cytoplasmic dynein 1 intermediate chain 2  
j | cytoplasmic dynein 1 light intermediate chain 2  
k l | dynein light chain roadblock-type 1  
z | dynactin subunit 1  
  
Non-standard residues in 6f3a.pdb #4  
---  
ADP — adenosine-5'-diphosphate  
ATP — adenosine-5'-triphosphate  
  

> hide #!4 models

> hide #!3 models

> show #!4 models

> select #4

48864 atoms, 48802 bonds, 93 pseudobonds, 2 models selected  

> view #!4 clip false

> select #3

92795 atoms, 94018 bonds, 145 pseudobonds, 2 models selected  

> show #!2 models

> select #2

20047 atoms, 19955 bonds, 152 pseudobonds, 2 models selected  

> select #4

48864 atoms, 48802 bonds, 93 pseudobonds, 2 models selected  

> show #!3 models

> close session

> open "C:\Users\Ruensern Tan\Downloads\6f3a.pdb" format pdb

6f3a.pdb title:  
Cryo-em structure of A single dynein tail domain bound to dynactin and BICD2N
[more info...]  
  
Chain information for 6f3a.pdb #1  
---  
Chain | Description  
5 6 | BICD2N  
A B C D E F G I | ARP1 actin related protein 1 homolog A  
H | β-actin  
J | actin related protein 10 homolog  
K | capping protein (actin filament) muscle Z-line, α 1  
L | F-actin capping protein β subunit  
M | dynactin subunit 2  
N | dynactin subunit 2  
O P | dynactin subunit 3  
Q R | dynactin subunit 2  
U | dynactin 6  
V | dynactin subunit 5  
Y | dynactin subunit 4  
Z | dynactin subunit 1  
a | dynactin subunit 2  
b c d | dynactin subunit 2  
e f | cytoplasmic dynein 1 heavy chain 1  
g h | cytoplasmic dynein 1 intermediate chain 2  
j | cytoplasmic dynein 1 light intermediate chain 2  
k l | dynein light chain roadblock-type 1  
z | dynactin subunit 1  
  
Non-standard residues in 6f3a.pdb #1  
---  
ADP — adenosine-5'-diphosphate  
ATP — adenosine-5'-triphosphate  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\ui\gui.py", line 1543, in <lambda>  
action.triggered.connect(lambda arg, cb = callback: cb())  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 111, in <lambda>  
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 122, in show_save_file_dialog  
_dlg.display(session, **kw)  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 24, in display  
self._customize_dialog(session, dialog)  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 86, in _customize_dialog  
self._format_selected(session, dialog)  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 98, in _format_selected  
self._options_layout.addWidget(self._current_option)  
RuntimeError: wrapped C/C++ object of type SaveOptionsWidget has been deleted  
  
RuntimeError: wrapped C/C++ object of type SaveOptionsWidget has been deleted  
  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 98, in _format_selected  
self._options_layout.addWidget(self._current_option)  
  
See log for complete Python traceback.  
  

> select /A/B/C/D/E/F/G/I

14792 atoms, 14800 bonds, 1 model selected  

> surface hidePatches sel

> toolshed show "Color Actions"

> color sel white

> hide /a

> hide /5

> hide /6

> hide /a

> hide /b

> hide /c

> hide /d

> hide /e

> show /e

> show /a

> show /b

> show /c

> show /d

> show /e

> select /A/B/C/D/E/F/G/I

14792 atoms, 14800 bonds, 1 model selected  

> hide

> hide /selected

> hide /A-G

> hide /5-6

> select /L

1327 atoms, 1326 bonds, 1 model selected  

> hide sel target a

> select /J

1846 atoms, 1845 bonds, 4 pseudobonds, 2 models selected  

> hide (#!1 & sel) target a

> select /U

843 atoms, 841 bonds, 1 pseudobond, 2 models selected  

> cartoon hide (#!1 & sel)

> hide (#!1 & sel) target a

> select /Z/z

525 atoms, 523 bonds, 1 model selected  

> hide sel target a

> select /M/N/Q/R/a/b/c/d

7806 atoms, 7781 bonds, 34 pseudobonds, 2 models selected  

> hide (#!1 & sel) target a

> select /M/N/Q/R/a/b/c/d

7806 atoms, 7781 bonds, 34 pseudobonds, 2 models selected  

> select /O/P

646 atoms, 638 bonds, 12 pseudobonds, 2 models selected  

> hide (#!1 & sel) target a

> select /Y

1320 atoms, 1307 bonds, 24 pseudobonds, 2 models selected  

> hide (#!1 & sel) target a

> select /V

812 atoms, 811 bonds, 1 model selected  

> hide sel target a

> select /H

1853 atoms, 1854 bonds, 1 model selected  

> hide sel target a

> select /A/B/C/D/E/F/G/I

14792 atoms, 14800 bonds, 1 model selected  

> hide sel target a

> select /5/6

2750 atoms, 2749 bonds, 1 model selected  

> select /L

1327 atoms, 1326 bonds, 1 model selected  

> select /J

1846 atoms, 1845 bonds, 4 pseudobonds, 2 models selected  

> select /K

1378 atoms, 1377 bonds, 1 model selected  

> hide sel target a

> select /e/f

8026 atoms, 8017 bonds, 14 pseudobonds, 2 models selected  

> select /e

3898 atoms, 3894 bonds, 6 pseudobonds, 2 models selected  

> color (#!1 & sel) cyan

> select /f

4128 atoms, 4123 bonds, 8 pseudobonds, 2 models selected  

> color (#!1 & sel) cornflower blue

> color (#!1 & sel) blue

> select /g

1961 atoms, 1959 bonds, 2 pseudobonds, 2 models selected  

> color (#!1 & sel) orange

> select /g/h

3941 atoms, 3937 bonds, 4 pseudobonds, 2 models selected  

> color (#!1 & sel) orange

> select /j

75 atoms, 74 bonds, 1 model selected  

> select /j

75 atoms, 74 bonds, 1 model selected  

> color sel forest green

> select /j

75 atoms, 74 bonds, 1 model selected  

> select /g/h

3941 atoms, 3937 bonds, 4 pseudobonds, 2 models selected  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\ui\gui.py", line 1543, in <lambda>  
action.triggered.connect(lambda arg, cb = callback: cb())  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 111, in <lambda>  
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 122, in show_save_file_dialog  
_dlg.display(session, **kw)  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 24, in display  
self._customize_dialog(session, dialog)  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 86, in _customize_dialog  
self._format_selected(session, dialog)  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 98, in _format_selected  
self._options_layout.addWidget(self._current_option)  
RuntimeError: wrapped C/C++ object of type SaveOptionsWidget has been deleted  
  
RuntimeError: wrapped C/C++ object of type SaveOptionsWidget has been deleted  
  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 98, in _format_selected  
self._options_layout.addWidget(self._current_option)  
  
See log for complete Python traceback.  
  

> split /f atoms :1-200 atoms :201-end

Chain information for 6f3a.pdb 1 #1.1  
---  
Chain | Description  
5 6 | No description available  
A B C D E F G I | No description available  
H | No description available  
J | No description available  
K | No description available  
L | No description available  
M N | No description available  
O P | No description available  
Q R | No description available  
U | No description available  
V | No description available  
Y | No description available  
a | No description available  
b | No description available  
c | No description available  
d | No description available  
e | No description available  
f | No description available  
g h | No description available  
k l | No description available  
  
Chain information for 6f3a.pdb 2 #1.2  
---  
Chain | Description  
5 6 | No description available  
A B C D E F G I | No description available  
H | No description available  
J | No description available  
K | No description available  
L | No description available  
M | No description available  
N | No description available  
Y | No description available  
Z | No description available  
e | No description available  
f | No description available  
g | No description available  
h | No description available  
j | No description available  
z | No description available  
  
Split 6f3a.pdb (#1) into 2 models  

> hide #!1.1 models

> show #!1.1 models

> hide #!1.1 models

> show #!1.1 models

> hide #!1.1 models

> show #!1.1 models

> hide #!1.2 models

> show #!1.2 models

> hide #!1.1 models

> show #!1.1 models

> hide #!1.1 models

> show #!1.1 models

> color purple

> undo

> select #1.1

22144 atoms, 22090 bonds, 41 pseudobonds, 2 models selected  

> ~select #1.1

Nothing selected  

> select #1.1

22144 atoms, 22090 bonds, 41 pseudobonds, 2 models selected  

> select #1.1/V

812 atoms, 811 bonds, 1 model selected  

> select #1.1

22144 atoms, 22090 bonds, 41 pseudobonds, 2 models selected  

> color (#!1.1 & sel) purple

> select #1.1/5#1.2/5

1375 atoms, 1373 bonds, 2 models selected  

> hide #!1 models

> show #!1 models

> hide #!1.2 models

> select #1.2/Z

260 atoms, 259 bonds, 1 model selected  

> select #1.2/z

265 atoms, 264 bonds, 1 model selected  

> select #1.2/N

2225 atoms, 2220 bonds, 8 pseudobonds, 2 models selected  

> select #1.1

22144 atoms, 22090 bonds, 41 pseudobonds, 2 models selected  

> info chains

chain id #1.1/5 chain_id 5  
chain id #1.1/6 chain_id 6  
chain id #1.1/A chain_id A  
chain id #1.1/B chain_id B  
chain id #1.1/C chain_id C  
chain id #1.1/D chain_id D  
chain id #1.1/E chain_id E  
chain id #1.1/F chain_id F  
chain id #1.1/G chain_id G  
chain id #1.1/H chain_id H  
chain id #1.1/I chain_id I  
chain id #1.1/J chain_id J  
chain id #1.1/K chain_id K  
chain id #1.1/L chain_id L  
chain id #1.1/M chain_id M  
chain id #1.1/N chain_id N  
chain id #1.1/O chain_id O  
chain id #1.1/P chain_id P  
chain id #1.1/Q chain_id Q  
chain id #1.1/R chain_id R  
chain id #1.1/U chain_id U  
chain id #1.1/V chain_id V  
chain id #1.1/Y chain_id Y  
chain id #1.1/a chain_id a  
chain id #1.1/b chain_id b  
chain id #1.1/c chain_id c  
chain id #1.1/d chain_id d  
chain id #1.1/e chain_id e  
chain id #1.1/f chain_id f  
chain id #1.1/g chain_id g  
chain id #1.1/h chain_id h  
chain id #1.1/k chain_id k  
chain id #1.1/l chain_id l  
chain id #1.2/5 chain_id 5  
chain id #1.2/6 chain_id 6  
chain id #1.2/A chain_id A  
chain id #1.2/B chain_id B  
chain id #1.2/C chain_id C  
chain id #1.2/D chain_id D  
chain id #1.2/E chain_id E  
chain id #1.2/F chain_id F  
chain id #1.2/G chain_id G  
chain id #1.2/H chain_id H  
chain id #1.2/I chain_id I  
chain id #1.2/J chain_id J  
chain id #1.2/K chain_id K  
chain id #1.2/L chain_id L  
chain id #1.2/M chain_id M  
chain id #1.2/N chain_id N  
chain id #1.2/Y chain_id Y  
chain id #1.2/Z chain_id Z  
chain id #1.2/e chain_id e  
chain id #1.2/f chain_id f  
chain id #1.2/g chain_id g  
chain id #1.2/h chain_id h  
chain id #1.2/j chain_id j  
chain id #1.2/z chain_id z  

> info chains

chain id #1.1/5 chain_id 5  
chain id #1.1/6 chain_id 6  
chain id #1.1/A chain_id A  
chain id #1.1/B chain_id B  
chain id #1.1/C chain_id C  
chain id #1.1/D chain_id D  
chain id #1.1/E chain_id E  
chain id #1.1/F chain_id F  
chain id #1.1/G chain_id G  
chain id #1.1/H chain_id H  
chain id #1.1/I chain_id I  
chain id #1.1/J chain_id J  
chain id #1.1/K chain_id K  
chain id #1.1/L chain_id L  
chain id #1.1/M chain_id M  
chain id #1.1/N chain_id N  
chain id #1.1/O chain_id O  
chain id #1.1/P chain_id P  
chain id #1.1/Q chain_id Q  
chain id #1.1/R chain_id R  
chain id #1.1/U chain_id U  
chain id #1.1/V chain_id V  
chain id #1.1/Y chain_id Y  
chain id #1.1/a chain_id a  
chain id #1.1/b chain_id b  
chain id #1.1/c chain_id c  
chain id #1.1/d chain_id d  
chain id #1.1/e chain_id e  
chain id #1.1/f chain_id f  
chain id #1.1/g chain_id g  
chain id #1.1/h chain_id h  
chain id #1.1/k chain_id k  
chain id #1.1/l chain_id l  
chain id #1.2/5 chain_id 5  
chain id #1.2/6 chain_id 6  
chain id #1.2/A chain_id A  
chain id #1.2/B chain_id B  
chain id #1.2/C chain_id C  
chain id #1.2/D chain_id D  
chain id #1.2/E chain_id E  
chain id #1.2/F chain_id F  
chain id #1.2/G chain_id G  
chain id #1.2/H chain_id H  
chain id #1.2/I chain_id I  
chain id #1.2/J chain_id J  
chain id #1.2/K chain_id K  
chain id #1.2/L chain_id L  
chain id #1.2/M chain_id M  
chain id #1.2/N chain_id N  
chain id #1.2/Y chain_id Y  
chain id #1.2/Z chain_id Z  
chain id #1.2/e chain_id e  
chain id #1.2/f chain_id f  
chain id #1.2/g chain_id g  
chain id #1.2/h chain_id h  
chain id #1.2/j chain_id j  
chain id #1.2/z chain_id z  

> ~select #1.1

Nothing selected  

> select #1.1

22144 atoms, 22090 bonds, 41 pseudobonds, 2 models selected  

> info models

model id #1 type Model name 6f3a.pdb  
model id #1.1 type AtomicStructure name "6f3a.pdb 1"  
model id #1.1.1 type PseudobondGroup name "missing structure"  
model id #1.2 type AtomicStructure name "6f3a.pdb 2"  
model id #1.2.1 type PseudobondGroup name "missing structure"  

> toolshed show Log

> select model id #1.2.1

Expected an objects specifier or a keyword  

> info chains

chain id #1.1/5 chain_id 5  
chain id #1.1/6 chain_id 6  
chain id #1.1/A chain_id A  
chain id #1.1/B chain_id B  
chain id #1.1/C chain_id C  
chain id #1.1/D chain_id D  
chain id #1.1/E chain_id E  
chain id #1.1/F chain_id F  
chain id #1.1/G chain_id G  
chain id #1.1/H chain_id H  
chain id #1.1/I chain_id I  
chain id #1.1/J chain_id J  
chain id #1.1/K chain_id K  
chain id #1.1/L chain_id L  
chain id #1.1/M chain_id M  
chain id #1.1/N chain_id N  
chain id #1.1/O chain_id O  
chain id #1.1/P chain_id P  
chain id #1.1/Q chain_id Q  
chain id #1.1/R chain_id R  
chain id #1.1/U chain_id U  
chain id #1.1/V chain_id V  
chain id #1.1/Y chain_id Y  
chain id #1.1/a chain_id a  
chain id #1.1/b chain_id b  
chain id #1.1/c chain_id c  
chain id #1.1/d chain_id d  
chain id #1.1/e chain_id e  
chain id #1.1/f chain_id f  
chain id #1.1/g chain_id g  
chain id #1.1/h chain_id h  
chain id #1.1/k chain_id k  
chain id #1.1/l chain_id l  
chain id #1.2/5 chain_id 5  
chain id #1.2/6 chain_id 6  
chain id #1.2/A chain_id A  
chain id #1.2/B chain_id B  
chain id #1.2/C chain_id C  
chain id #1.2/D chain_id D  
chain id #1.2/E chain_id E  
chain id #1.2/F chain_id F  
chain id #1.2/G chain_id G  
chain id #1.2/H chain_id H  
chain id #1.2/I chain_id I  
chain id #1.2/J chain_id J  
chain id #1.2/K chain_id K  
chain id #1.2/L chain_id L  
chain id #1.2/M chain_id M  
chain id #1.2/N chain_id N  
chain id #1.2/Y chain_id Y  
chain id #1.2/Z chain_id Z  
chain id #1.2/e chain_id e  
chain id #1.2/f chain_id f  
chain id #1.2/g chain_id g  
chain id #1.2/h chain_id h  
chain id #1.2/j chain_id j  
chain id #1.2/z chain_id z  

> /select#1.2

Unknown command: /select#1.2  

> /select #1.2

Unknown command: /select #1.2  

> /select #1.2/j

Unknown command: /select #1.2/j  

> select #1.2/j

75 atoms, 74 bonds, 1 model selected  

> select #1.2

26720 atoms, 26694 bonds, 46 pseudobonds, 2 models selected  

> select #1.1

22144 atoms, 22090 bonds, 41 pseudobonds, 2 models selected  

> select #1.1a-l

Expected an objects specifier or a keyword  

> select #1.1a

Expected an objects specifier or a keyword  

> select #1.1/a-l

3662 atoms, 3645 bonds, 14 pseudobonds, 2 models selected  

> color (#!1.1 & sel) forest green

> select #1.1/a-c

802 atoms, 796 bonds, 6 pseudobonds, 2 models selected  

> select #1.1/c-d

293 atoms, 290 bonds, 2 pseudobonds, 2 models selected  

> select #1.1/d-h

1936 atoms, 1927 bonds, 8 pseudobonds, 2 models selected  

> select #1.1/h-l

1019 atoms, 1016 bonds, 1 model selected  

> color sel forest green

> select #1.1/g

95 atoms, 94 bonds, 1 model selected  

> color sel forest green

> show #!1.2 models

Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\ui\gui.py", line 1543, in <lambda>  
action.triggered.connect(lambda arg, cb = callback: cb())  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 111, in <lambda>  
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 122, in show_save_file_dialog  
_dlg.display(session, **kw)  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 24, in display  
self._customize_dialog(session, dialog)  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 86, in _customize_dialog  
self._format_selected(session, dialog)  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 98, in _format_selected  
self._options_layout.addWidget(self._current_option)  
RuntimeError: wrapped C/C++ object of type SaveOptionsWidget has been deleted  
  
RuntimeError: wrapped C/C++ object of type SaveOptionsWidget has been deleted  
  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 98, in _format_selected  
self._options_layout.addWidget(self._current_option)  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\ui\gui.py", line 1543, in <lambda>  
action.triggered.connect(lambda arg, cb = callback: cb())  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 111, in <lambda>  
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 122, in show_save_file_dialog  
_dlg.display(session, **kw)  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 24, in display  
self._customize_dialog(session, dialog)  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 86, in _customize_dialog  
self._format_selected(session, dialog)  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 98, in _format_selected  
self._options_layout.addWidget(self._current_option)  
RuntimeError: wrapped C/C++ object of type SaveOptionsWidget has been deleted  
  
RuntimeError: wrapped C/C++ object of type SaveOptionsWidget has been deleted  
  
File "C:\Program Files\ChimeraX 1.0rc202005080235\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 98, in _format_selected  
self._options_layout.addWidget(self._current_option)  
  
See log for complete Python traceback.  
  




OpenGL version: 3.3.0 NVIDIA 432.00
OpenGL renderer: GeForce GTX 970/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Manufacturer: MSI
Model: MS-7917
OS: Microsoft Windows 10 Home (Build 18362)
Memory: 10,684,276,736
MaxProcessMemory: 137,438,953,344
CPU: 4 Intel(R) Core(TM) i5-4690K CPU @ 3.50GHz"

Change History (2)

comment:1 by Eric Pettersen, 6 years ago

Component:	Unassigned → Input/Output
Owner:	set to Eric Pettersen
Platform:	→ all
Project:	→ ChimeraX
Status:	new → accepted
Summary:	ChimeraX bug report submission → Save options widgets deleted

comment:2 by Eric Pettersen, 6 years ago

Resolution:	→ duplicate
Status:	accepted → closed

duplicate of #3166

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