Views restored from sessions: self.positions key is None

[glander@…]

The following bug report has been submitted:
Platform:        Darwin-18.5.0-x86_64-i386-64bit
ChimeraX Version: 0.9 (2019-02-19)
Description
I can't seem to recover cxs files that have "views" saved

Log:
> camera ortho

> ui mousemode rightMode zoom

UCSF ChimeraX version: 0.9 (2019-02-19)  
© 2016-2019 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open "/Users/glander/Dropbox (Scripps Research)/Manuscripts-InProg/Lon
Paper/ChimeraXSessions/cartoon-stepV2.cxs" format session

opened ChimeraX session  

> view one

Traceback (most recent call last):  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/cmd_line/tool.py", line 252, in execute  
cmd.run(cmd_text)  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/cli.py", line 2617, in run  
result = ci.function(session, **kw_args)  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/std_commands/view.py", line 53, in view  
show_view(session, objects, frames)  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/std_commands/view.py", line 128, in show_view  
v2.remove_deleted_models()  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/std_commands/view.py", line 194, in remove_deleted_models  
if m.deleted:  
AttributeError: 'NoneType' object has no attribute 'deleted'  
  
AttributeError: 'NoneType' object has no attribute 'deleted'  
  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/std_commands/view.py", line 194, in remove_deleted_models  
if m.deleted:  
  
See log for complete Python traceback.  
  

> view two

Traceback (most recent call last):  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/cmd_line/tool.py", line 252, in execute  
cmd.run(cmd_text)  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/cli.py", line 2617, in run  
result = ci.function(session, **kw_args)  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/std_commands/view.py", line 53, in view  
show_view(session, objects, frames)  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/std_commands/view.py", line 128, in show_view  
v2.remove_deleted_models()  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/std_commands/view.py", line 194, in remove_deleted_models  
if m.deleted:  
AttributeError: 'NoneType' object has no attribute 'deleted'  
  
AttributeError: 'NoneType' object has no attribute 'deleted'  
  
File
"/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/std_commands/view.py", line 194, in remove_deleted_models  
if m.deleted:  
  
See log for complete Python traceback.  
  




OpenGL version: 4.1 INTEL-12.8.38
OpenGL renderer: Intel Iris OpenGL Engine
OpenGL vendor: Intel Inc.
File attachment: cartoon-stepV2.cxs

cartoon-stepV2.cxs​

[glander@…]

Added by email2trac

[Eric Pettersen]

Reported by Gabe Lander

[Tom Goddard]

Fixed.

I believe this bug is caused by making a named view, then deleting a model used in that named view, then saving a session. I've fixed the code to ignore the deleted model in the view when restoring the session. A closed model is removed from the view in current ChimeraX, but older ChimeraX may not have properly removed.

In the attached session "view one" will work in tonight's ChimeraX build.