sym biomt: typos in import statement

[David.Bhella@…]

Hi

I am very much enjoying ChimeraX now that you have implemented a wide range of surface colour options. One issue with Chimera rendering is that rendering whole virus capsids as solvent excluded surfaces always looks very flat, so I am keen to use the ambient occlusion rendering capability of ChimeraX. I just installed the daily build yesterday (0.7), I get an error when I try to run a sim command to apply the bioMT operations from my model.

sym #1 biomt

gave this error:

Traceback (most recent call last):
  File "/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/cmd_line/tool.py", line 205, in execute
    cmd.run(cmd_text)
  File "/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/commands/cli.py", line 2526, in run
    prev_annos = self._process_positional_arguments()
  File "/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/commands/cli.py", line 2311, in _process_positional_arguments
    value, text = self._parse_arg(anno, text, session, False)
  File "/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/core/commands/cli.py", line 2174, in _parse_arg
    value, replacement, rest = annotation.parse(text, session)
  File "/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/atomic/args.py", line 136, in parse
    from chimerac.core.commmands import next_token
ModuleNotFoundError: No module named 'chimerac'

ModuleNotFoundError: No module named 'chimerac'

File "/Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/atomic/args.py", line 136, in parse
from chimerac.core.commmands import next_token

See log for complete Python traceback.

If you wish to report this error, send mail to chimerax-bugs@cgl.ucsf.edu and describe what you were doing and include a copy of the contents of the log. Don't include any data you wish to remain private since a publicly viewable bug report will be created.





Dr David Bhella
Director - Scottish Centre for Macromolecular Imaging

MRC-University of Glasgow Centre for Virus Research
Sir Michael Stoker Building
Garscube Campus
464 Bearsden Road
Glasgow G61 1QH
Scotland (UK)

Telephone:  0141-330-3685
Skype: d.bhella

Virus structure group on Facebook: https://www.facebook.com/CVRstructure
Molecular Machines - Images from Virus Research: http://www.molecularmachines.org.uk

CVR website: http://www.cvr.ac.uk
CVR on Facebook: https://www.facebook.com/centreforvirusresearch



[University of Glasgow: The Times Scottish University of the Year 2018]

[pett]

Hi David,

I'm glad you're enjoying ChimeraX, mostly. :-) Yeah, 'sym biomt' got messed up when some code moved around and "import" statements were updated incorrectly. This is fixed in tomorrow's build. You could fix it yourself in your build by editing /Applications/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-packages/chimerax/atomic/args.py and on line 136 changing "chimerac" to "chimerax" and taking the extra 'm' out of "commmands".

--Eric

Eric Pettersen
UCSF Computer Graphics Lab

[David.Bhella@…]

Fantastic! I probably should have seen those typos,…
I am very much enjoying ChimeraX, I have used Chimera for a long long time (since it was first released??).  It is far and away my favourite software, but the ambient occlusion rendering of ChimeraX is just amazing…

D.

Dr David Bhella
MRC-University of Glasgow Centre for Virus Research
Sir Michael Stoker Building
Garscube Campus
464 Bearsden Road
Glasgow G61 1QH
Scotland (UK)

Telephone:  0141-330-3685
Skype: d.bhella

Virus structure group on Facebook: https://www.facebook.com/CVRstructure
Molecular Machines - Images from Virus Research: http://www.molecularmachines.org.uk

CVR website: http://www.cvr.ac.uk
CVR on Facebook: https://www.facebook.com/centreforvirusresearch