defattr: name 'session' is not defined

[papai@…]

The following bug report has been submitted:
Platform:        macOS-10.15.7-x86_64-i386-64bit
ChimeraX Version: 1.2.dev202010190630 (2020-10-19 06:30:28 UTC)
Description
I tried to color atoms by bfactor. I could reproduce it with opening a pdb from wwPDB: 1TBP.
Originally I tried coloring a pdb, where I modified the bfactors to conservation values in Chimera.

Log:
> mousemode rightMode zoom

> toolshed show "side view"

Error running startup command 'toolshed show "side view"': Cannot find bundle
'side view' in Toolshed  
UCSF ChimeraX version: 1.2.dev202010190630 (2020-10-19)  
© 2016-2020 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open pdb:1tbp

1tbp title:  
Crystal structure of yeast tata-binding protein and model for interaction with
DNA [more info...]  
  
Chain information for 1tbp #1  
---  
Chain | Description  
A B | tata-binding protein  
  

> color bfactor

Traceback (most recent call last):  
File
"/Users/papai/Chimera/ChimeraX_Daily-191020.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/toolbar/tool.py", line 202, in callback  
bundle_info.run_provider(session, name, session.toolbar,
display_name=display_name)  
File
"/Users/papai/Chimera/ChimeraX_Daily-191020.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/core/toolshed/info.py", line 361, in run_provider  
return api._api_caller.run_provider(api, session, name, mgr, **kw)  
File
"/Users/papai/Chimera/ChimeraX_Daily-191020.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/core/toolshed/__init__.py", line 1271, in run_provider  
return cls._get_func(api, "run_provider")(session, name, mgr, **kw)  
File
"/Users/papai/Chimera/ChimeraX_Daily-191020.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/shortcuts/__init__.py", line 52, in run_provider  
shortcuts.run_provider(session, name)  
File
"/Users/papai/Chimera/ChimeraX_Daily-191020.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/shortcuts/shortcuts.py", line 1221, in run_provider  
keyboard_shortcuts(session).try_shortcut(name)  
File
"/Users/papai/Chimera/ChimeraX_Daily-191020.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/shortcuts/shortcuts.py", line 376, in try_shortcut  
self.run_shortcut(keys)  
File
"/Users/papai/Chimera/ChimeraX_Daily-191020.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/shortcuts/shortcuts.py", line 394, in run_shortcut  
sc.run(self.session, status = self._enabled)  
File
"/Users/papai/Chimera/ChimeraX_Daily-191020.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/shortcuts/shortcuts.py", line 313, in run  
f(s)  
File
"/Users/papai/Chimera/ChimeraX_Daily-191020.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/shortcuts/shortcuts.py", line 537, in run_expanded_command  
run(session, cmd)  
File
"/Users/papai/Chimera/ChimeraX_Daily-191020.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/shortcuts/shortcuts.py", line 480, in run  
run_command(session, command, **kw)  
File
"/Users/papai/Chimera/ChimeraX_Daily-191020.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/core/commands/run.py", line 36, in run  
results = command.run(text, log=log, return_json=return_json)  
File
"/Users/papai/Chimera/ChimeraX_Daily-191020.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/core/commands/cli.py", line 2851, in run  
result = ci.function(session, *args, optional=optional,  
File
"/Users/papai/Chimera/ChimeraX_Daily-191020.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/core/commands/cli.py", line 3382, in __call__  
return self.cmd.run(text, _used_aliases=_used_aliases, log=log)  
File
"/Users/papai/Chimera/ChimeraX_Daily-191020.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/core/commands/cli.py", line 2835, in run  
result = ci.function(session, **kw_args)  
File
"/Users/papai/Chimera/ChimeraX_Daily-191020.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/std_commands/color.py", line 1080, in color_by_attr  
attr_name, class_obj = parse_attribute_name(attr_name, allowable_types=[int,
float])  
File
"/Users/papai/Chimera/ChimeraX_Daily-191020.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/std_commands/defattr.py", line 272, in parse_attribute_name  
allowable_attrs = session.attr_registration.attributes_returning(  
NameError: name 'session' is not defined  
  
NameError: name 'session' is not defined  
  
File
"/Users/papai/Chimera/ChimeraX_Daily-191020.app/Contents/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-
packages/chimerax/std_commands/defattr.py", line 272, in parse_attribute_name  
allowable_attrs = session.attr_registration.attributes_returning(  
  
See log for complete Python traceback.  
  




OpenGL version: 4.1 ATI-3.10.18
OpenGL renderer: AMD Radeon Pro 580X OpenGL Engine
OpenGL vendor: ATI Technologies Inc.Hardware:

    Hardware Overview:

      Model Name: iMac
      Model Identifier: iMac19,1
      Processor Name: 6-Core Intel Core i5
      Processor Speed: 3.7 GHz
      Number of Processors: 1
      Total Number of Cores: 6
      L2 Cache (per Core): 256 KB
      L3 Cache: 9 MB
      Memory: 16 GB
      Boot ROM Version: 1037.140.50.0.0
      SMC Version (system): 2.46f13

Software:

    System Software Overview:

      System Version: macOS 10.15.7 (19H2)
      Kernel Version: Darwin 19.6.0
      Time since boot: 24 days 5 minutes

Graphics/Displays:

    Radeon Pro 580X:

      Chipset Model: Radeon Pro 580X
      Type: GPU
      Bus: PCIe
      PCIe Lane Width: x16
      VRAM (Total): 8 GB
      Vendor: AMD (0x1002)
      Device ID: 0x67df
      Revision ID: 0x00c0
      ROM Revision: 113-D0008A-042
      VBIOS Version: 113-D0008A1X-009
      EFI Driver Version: 01.B1.042
      Metal: Supported, feature set macOS GPUFamily2 v1
      Displays:
        iMac:
          Display Type: Built-In Retina LCD
          Resolution: 5120 x 2880 Retina
          Framebuffer Depth: 30-Bit Color (ARGB2101010)
          Main Display: Yes
          Mirror: Off
          Online: Yes
          Automatically Adjust Brightness: No
          Connection Type: Internal

Locale: (None, 'UTF-8')
PyQt version: 5.15.1
Compiled Qt version: 5.15.1
Runtime Qt version: 5.15.1
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[Eric Pettersen]

Hi Gabor,

Thanks for reporting this problem. It was fixed about 3 days after the version you have, so If you download the current daily build then things should work. Sorry for the inconvenience.

--Eric

Eric Pettersen
UCSF Computer Graphics Lab