Drop of .pyc file → source code string cannot contain null bytes

[chimerax-bug-report@…]

The following bug report has been submitted:
Platform:        Darwin-18.2.0-x86_64-i386-64bit
ChimeraX Version: 0.8 (2018-12-17)
Description
(Describe the actions that caused this problem to occur here)

Log:
Startup Messages  
---  
note | available bundle cache has not been initialized yet  
  
Updating list of available bundles failed: 'list' object has no attribute
'split'  
UCSF ChimeraX version: 0.8 (2018-12-17)  
How to cite UCSF ChimeraX  

> open "/Users/katherineberman/Dropbox
(LucksLab)/LucksLab/Group_Resources/Grant_Proposals/Writing/NIH-R01-Riboswitches/Elements/05-Research_Strategy/Figures/Figure_5/Resources/4fe5_xpt_pbuX.pyc"

Traceback (most recent call last):  
File
"/private/var/folders/0h/013r8l7s2sx5gbmg7gg00kx40000gn/T/AppTranslocation/865BD88C-1337-40EB-B3D1-306420E9D9F9/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/ui/gui.py", line 458, in dropEvent  
_open_dropped_file(self.session, p)  
File
"/private/var/folders/0h/013r8l7s2sx5gbmg7gg00kx40000gn/T/AppTranslocation/865BD88C-1337-40EB-B3D1-306420E9D9F9/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/ui/gui.py", line 1136, in _open_dropped_file  
run(session, 'open %s' % quote_if_necessary(path))  
File
"/private/var/folders/0h/013r8l7s2sx5gbmg7gg00kx40000gn/T/AppTranslocation/865BD88C-1337-40EB-B3D1-306420E9D9F9/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/commands/run.py", line 31, in run  
results = command.run(text, log=log)  
File
"/private/var/folders/0h/013r8l7s2sx5gbmg7gg00kx40000gn/T/AppTranslocation/865BD88C-1337-40EB-B3D1-306420E9D9F9/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/commands/cli.py", line 2587, in run  
result = ci.function(session, **kw_args)  
File
"/private/var/folders/0h/013r8l7s2sx5gbmg7gg00kx40000gn/T/AppTranslocation/865BD88C-1337-40EB-B3D1-306420E9D9F9/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/commands/open.py", line 41, in open  
from_database=from_database, ignore_cache=ignore_cache, **kw))  
File
"/private/var/folders/0h/013r8l7s2sx5gbmg7gg00kx40000gn/T/AppTranslocation/865BD88C-1337-40EB-B3D1-306420E9D9F9/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/commands/open.py", line 117, in open  
models = handle_unknown_kw(session.models.open, paths, format=format,
name=name, **kw)  
File
"/private/var/folders/0h/013r8l7s2sx5gbmg7gg00kx40000gn/T/AppTranslocation/865BD88C-1337-40EB-B3D1-306420E9D9F9/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/commands/open.py", line 62, in handle_unknown_kw  
return f(*args, **kw)  
File
"/private/var/folders/0h/013r8l7s2sx5gbmg7gg00kx40000gn/T/AppTranslocation/865BD88C-1337-40EB-B3D1-306420E9D9F9/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/models.py", line 590, in open  
session, filenames, format=format, name=name, **kw)  
File
"/private/var/folders/0h/013r8l7s2sx5gbmg7gg00kx40000gn/T/AppTranslocation/865BD88C-1337-40EB-B3D1-306420E9D9F9/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/io.py", line 461, in open_multiple_data  
models, status = open_data(session, fspec, format=format, name=name, **kw)  
File
"/private/var/folders/0h/013r8l7s2sx5gbmg7gg00kx40000gn/T/AppTranslocation/865BD88C-1337-40EB-B3D1-306420E9D9F9/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/io.py", line 414, in open_data  
models, status = open_func(*args, **kw)  
File
"/private/var/folders/0h/013r8l7s2sx5gbmg7gg00kx40000gn/T/AppTranslocation/865BD88C-1337-40EB-B3D1-306420E9D9F9/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/scripting.py", line 57, in open_python_script  
code = compile(data, file_name, 'exec')  
ValueError: source code string cannot contain null bytes  
  
ValueError: source code string cannot contain null bytes  
  
File
"/private/var/folders/0h/013r8l7s2sx5gbmg7gg00kx40000gn/T/AppTranslocation/865BD88C-1337-40EB-B3D1-306420E9D9F9/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/scripting.py", line 57, in open_python_script  
code = compile(data, file_name, 'exec')  
  
See log for complete Python traceback.  
  




OpenGL version: 4.1 INTEL-12.4.7
OpenGL renderer: Intel(R) Iris(TM) Plus Graphics 640
OpenGL vendor: Intel Inc.

[Tom Goddard]

Saw this once before (probably there is a ticket) where I believe the user dropped a Chimera 1 session file the byte code compiled version *.pyc onto ChimeraX. I think I concluded Python3 gives this error if you hand it a Python2 *.pyc.

Possibly we should detect this, and maybe detect attempts to open Chimera 1 session .py files too based on the resulting error and give a more friendly error message that ChimeraX cannot read Chimera 1 session files.

[Greg Couch]

Can properly open .pyc files now.