Problem saving MRC/PDB: name 'model' is not defined

[doonam.kim@…]

The following bug report has been submitted:
Platform:        Darwin-18.7.0-x86_64-i386-64bit
ChimeraX Version: 0.92 (2020-02-19)
Description
Just trying to save as a mrc resulted in an error. Of course, this is my fault (I opened pdb file).

Log:
Startup Messages  
---  
warning | Populating font family aliases took 560 ms. Replace uses of missing
font family "Lucida Sans" with one that exists to avoid this cost.  
  
UCSF ChimeraX version: 0.92 (2020-02-19)  
© 2016-2020 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open /Users/kimd999/Projects/AI/MARS/structures/PDX1_2/PDX1_2.pdb

File not found: /Users/kimd999/Projects/AI/MARS/structures/PDX1_2/PDX1_2.pdb  

> open
> /Users/kimd999/Projects/AI/MARS/structures/PDX1_2/rotated/PDX1_2_x_30_y_30.pdb

Chain information for PDX1_2_x_30_y_30.pdb #1  
---  
Chain | Description  
A B C D E F G H I J K X | No description available  
  

> save data%dmodel.mrc models #1

Traceback (most recent call last):  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/cmd_line/tool.py", line 258, in execute  
cmd.run(cmd_text)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/cli.py", line 2837, in run  
result = ci.function(session, **kw_args)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/save.py", line 61, in save  
fmt.export(session, filename, fmt.nicknames[0], **kw)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/io.py", line 229, in export  
result = self.export_func(session, path, **kw)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/map/volume.py", line 3560, in save_map  
mstring = ' (#%s)' % ','.join(model.id_string for m in models) if models else
''  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/map/volume.py", line 3560, in <genexpr>  
mstring = ' (#%s)' % ','.join(model.id_string for m in models) if models else
''  
NameError: name 'model' is not defined  
  
NameError: name 'model' is not defined  
  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/map/volume.py", line 3560, in  
mstring = ' (#%s)' % ','.join(model.id_string for m in models) if models else
''  
  
See log for complete Python traceback.  
  

> save data%dmodel.mrc models #1

Traceback (most recent call last):  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/cmd_line/tool.py", line 258, in execute  
cmd.run(cmd_text)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/cli.py", line 2837, in run  
result = ci.function(session, **kw_args)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/save.py", line 61, in save  
fmt.export(session, filename, fmt.nicknames[0], **kw)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/io.py", line 229, in export  
result = self.export_func(session, path, **kw)  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/map/volume.py", line 3560, in save_map  
mstring = ' (#%s)' % ','.join(model.id_string for m in models) if models else
''  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/map/volume.py", line 3560, in <genexpr>  
mstring = ' (#%s)' % ','.join(model.id_string for m in models) if models else
''  
NameError: name 'model' is not defined  
  
NameError: name 'model' is not defined  
  
File
"/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/map/volume.py", line 3560, in  
mstring = ' (#%s)' % ','.join(model.id_string for m in models) if models else
''  
  
See log for complete Python traceback.  
  




OpenGL version: 4.1 INTEL-12.10.14
OpenGL renderer: Intel(R) Iris(TM) Plus Graphics 655
OpenGL vendor: Intel Inc.

[Tom Goddard]

Fixed.

The error message was supposed to say you specified a model that was not a map, but the code had a typo. Thanks for reporting the problem -- clear error messages are important.