[chimerax-users] Trouble initializing ChimeraX on CentOS

[Brown, Alex]

Hello and good morning,

I have always had a great experience using Chimera and so I was hoping to try out ChimeraX for some of our larger cryo-em data sets. However, following download and an install that did not seem to produce an error message, I can not seem to initialize the program. I have copied the output from the command prompt below. Beyond that, I should probably also mention that we are running the centos-release-7-6.1810.2.el7.centos.x86_64 operating system with intel chips and nvidia graphics cards.

[root at gaolab ~]# chimerax-daily
NOTE: available bundle cache has not been initialized yet
WARNING: could not retrieve bundle list from toolshed
NOTE: Traceback (most recent call last):
 File "/opt/UCSF/ChimeraX-daily/lib/python3.7/runpy.py", line 193, in
_run_module_as_main
   "__main__", mod_spec)
 File "/opt/UCSF/ChimeraX-daily/lib/python3.7/runpy.py", line 85, in
_run_code
   exec(code, run_globals)
 File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-
packages/ChimeraX_main.py", line 871, in <module>
   exit_code = init(sys.argv)
 File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-
packages/ChimeraX_main.py", line 580, in init
   check_available=opts.get_available_bundles)
 File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-
packages/chimerax/core/toolshed/__init__.py", line 1681, in init
   _toolshed = Toolshed(*args, **kw)
 File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-
packages/chimerax/core/toolshed/__init__.py", line 359, in __init__
   if not available.has_cache_file(self._cache_dir):
 File "/opt/UCSF/ChimeraX-daily/lib/python3.7/site-
packages/chimerax/core/toolshed/available.py", line 109, in has_cache_file
   return os.path.exists(os.path.join(cache_dir, _CACHE_FILE))
 File "/usr/bin/../../opt/UCSF/ChimeraX-daily/lib/python3.7/posixpath.py",
line 80, in join
   a = os.fspath(a)
TypeError: expected str, bytes or os.PathLike object, not NoneType


BUG: TypeError: expected str, bytes or os.PathLike object, not NoneType

File "/usr/bin/../../opt/UCSF/ChimeraX-daily/lib/python3.7/posixpath.py", line
80, in join
a = os.fspath(a)

 _See log for complete Python traceback._

Thanks in advance for any support you may be able to provide on this!
-Alex

Alexander Brown IV, PhD

Postdoctoral Researcher

Horae Gene Therapy Center

Li Weibo Institute for Rare Diseases Research

University of Massachusetts Medical School

368 Plantation Street, AS6-2011

Worcester, MA 01605

Phone: (508) 856-3316

Email: alex.brown at umassmed.edu<mailto:alex.brown at umassmed.edu>



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