Opened 6 years ago

Closed 6 years ago

#2774 closed defect (fixed)

Showing title in log for model: not enough arguments for format string

Reported by: chimerax-bug-report@… Owned by: Eric Pettersen
Priority: normal Milestone:
Component: Logging Version:
Keywords: Cc:
Blocked By: Blocking:
Notify when closed: Platform: all
Project: ChimeraX

Description 

The following bug report has been submitted:
Platform:        Darwin-16.1.0-x86_64-i386-64bit
ChimeraX Version: 0.92 (2020-01-24)
Description
(Describe the actions that caused this problem to occur here)

Log:
Startup Messages  
---  
note | available bundle cache has not been initialized yet  
  
UCSF ChimeraX version: 0.92 (2020-01-24)  
© 2016-2020 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> help help:quickstart

> open /Users/charlotte/Downloads/3mwy.pdb

Traceback (most recent call last):  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/ui/gui.py", line 628, in _qt_safe  
run(session, "open " + " ".join([FileNameArg.unparse(p) for p in paths]))  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/run.py", line 31, in run  
results = command.run(text, log=log)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/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
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 73, in open  
_handle_unexpected_keyword_error(e, 4)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 68, in open  
path_models = session.models.open(paths, format=format, name=name, **kw)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 741, in open  
self.add(models)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 585, in add  
m.added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 2260, in added_to_session  
super().added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 130, in added_to_session  
Model.added_to_session(self, session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '<i>%s</i> title:<br><b>%s</b>' % self.name  
TypeError: not enough arguments for format string  
  
TypeError: not enough arguments for format string  
  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '%s title:  
%s' % self.name  
  
See log for complete Python traceback.  
  

> open /Users/charlotte/Downloads/3mwy.pdb

Traceback (most recent call last):  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/ui/gui.py", line 523, in dropEvent  
_open_dropped_file(self.session, p)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/ui/gui.py", line 1575, in _open_dropped_file  
run(session, 'open %s' % FileNameArg.unparse(path))  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/run.py", line 31, in run  
results = command.run(text, log=log)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/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
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 73, in open  
_handle_unexpected_keyword_error(e, 4)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 68, in open  
path_models = session.models.open(paths, format=format, name=name, **kw)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 741, in open  
self.add(models)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 585, in add  
m.added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 2260, in added_to_session  
super().added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 130, in added_to_session  
Model.added_to_session(self, session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '<i>%s</i> title:<br><b>%s</b>' % self.name  
TypeError: not enough arguments for format string  
  
TypeError: not enough arguments for format string  
  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '%s title:  
%s' % self.name  
  
See log for complete Python traceback.  
  

> open 3mwy

Summary of feedback from opening 3mwy fetched from pdb  
---  
notes | Fetching compressed mmCIF 3mwy from
http://files.rcsb.org/download/3mwy.cif  
Fetching CCD AGS from http://ligand-expo.rcsb.org/reports/A/AGS/AGS.cif  
  
Traceback (most recent call last):  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/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
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/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
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 44, in open  
db_models, status = _fetch_from_database(session, db_id, db_name, db_format,
name, ignore_cache, **kw)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 160, in _fetch_from_database  
session.models.add(models)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 585, in add  
m.added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 2260, in added_to_session  
super().added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 130, in added_to_session  
Model.added_to_session(self, session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '<i>%s</i> title:<br><b>%s</b>' % self.name  
TypeError: not enough arguments for format string  
  
TypeError: not enough arguments for format string  
  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '%s title:  
%s' % self.name  
  
See log for complete Python traceback.  
  

> open pdb:3mwy

Traceback (most recent call last):  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/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
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/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
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 44, in open  
db_models, status = _fetch_from_database(session, db_id, db_name, db_format,
name, ignore_cache, **kw)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 160, in _fetch_from_database  
session.models.add(models)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 585, in add  
m.added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 2260, in added_to_session  
super().added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 130, in added_to_session  
Model.added_to_session(self, session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '<i>%s</i> title:<br><b>%s</b>' % self.name  
TypeError: not enough arguments for format string  
  
TypeError: not enough arguments for format string  
  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '%s title:  
%s' % self.name  
  
See log for complete Python traceback.  
  

> open /Users/charlotte/Downloads/6g0l.pdb

Traceback (most recent call last):  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/ui/gui.py", line 523, in dropEvent  
_open_dropped_file(self.session, p)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/ui/gui.py", line 1575, in _open_dropped_file  
run(session, 'open %s' % FileNameArg.unparse(path))  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/run.py", line 31, in run  
results = command.run(text, log=log)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/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
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 73, in open  
_handle_unexpected_keyword_error(e, 4)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 68, in open  
path_models = session.models.open(paths, format=format, name=name, **kw)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 741, in open  
self.add(models)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 585, in add  
m.added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 2260, in added_to_session  
super().added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 130, in added_to_session  
Model.added_to_session(self, session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '<i>%s</i> title:<br><b>%s</b>' % self.name  
TypeError: not enough arguments for format string  
  
TypeError: not enough arguments for format string  
  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '%s title:  
%s' % self.name  
  
See log for complete Python traceback.  
  

> volume show

No volumes specified  

> help help:quickstart

> open /Users/charlotte/Downloads/6g0l.pdb

Traceback (most recent call last):  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/ui/gui.py", line 628, in _qt_safe  
run(session, "open " + " ".join([FileNameArg.unparse(p) for p in paths]))  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/run.py", line 31, in run  
results = command.run(text, log=log)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/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
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 73, in open  
_handle_unexpected_keyword_error(e, 4)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 68, in open  
path_models = session.models.open(paths, format=format, name=name, **kw)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 741, in open  
self.add(models)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 585, in add  
m.added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 2260, in added_to_session  
super().added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 130, in added_to_session  
Model.added_to_session(self, session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '<i>%s</i> title:<br><b>%s</b>' % self.name  
TypeError: not enough arguments for format string  
  
TypeError: not enough arguments for format string  
  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '%s title:  
%s' % self.name  
  
See log for complete Python traceback.  
  

> open /Users/charlotte/Downloads/6g0l.pdb

Traceback (most recent call last):  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/ui/gui.py", line 523, in dropEvent  
_open_dropped_file(self.session, p)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/ui/gui.py", line 1575, in _open_dropped_file  
run(session, 'open %s' % FileNameArg.unparse(path))  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/run.py", line 31, in run  
results = command.run(text, log=log)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/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
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 73, in open  
_handle_unexpected_keyword_error(e, 4)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 68, in open  
path_models = session.models.open(paths, format=format, name=name, **kw)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 741, in open  
self.add(models)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 585, in add  
m.added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 2260, in added_to_session  
super().added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 130, in added_to_session  
Model.added_to_session(self, session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '<i>%s</i> title:<br><b>%s</b>' % self.name  
TypeError: not enough arguments for format string  
  
TypeError: not enough arguments for format string  
  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '%s title:  
%s' % self.name  
  
See log for complete Python traceback.  
  

> open pdb:6g0I

Summary of feedback from opening 6g0I fetched from pdb  
---  
notes | Fetching compressed mmCIF 6g0i from
http://files.rcsb.org/download/6g0i.cif  
Fetching CCD PO4 from http://ligand-expo.rcsb.org/reports/P/PO4/PO4.cif  
Fetching CCD FE from http://ligand-expo.rcsb.org/reports/F/FE/FE.cif  
Fetching CCD MN from http://ligand-expo.rcsb.org/reports/M/MN/MN.cif  
Fetching CCD CSO from http://ligand-expo.rcsb.org/reports/C/CSO/CSO.cif  
  
Traceback (most recent call last):  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/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
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/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
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 44, in open  
db_models, status = _fetch_from_database(session, db_id, db_name, db_format,
name, ignore_cache, **kw)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 160, in _fetch_from_database  
session.models.add(models)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 585, in add  
m.added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 2260, in added_to_session  
super().added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 130, in added_to_session  
Model.added_to_session(self, session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '<i>%s</i> title:<br><b>%s</b>' % self.name  
TypeError: not enough arguments for format string  
  
TypeError: not enough arguments for format string  
  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '%s title:  
%s' % self.name  
  
See log for complete Python traceback.  
  

> style sphere

Changed 107880 atom styles  

> help help:quickstart

> open 2bbv

Summary of feedback from opening 2bbv fetched from pdb  
---  
notes | Fetching compressed mmCIF 2bbv from
http://files.rcsb.org/download/2bbv.cif  
Fetching CCD CA from http://ligand-expo.rcsb.org/reports/C/CA/CA.cif  
  
Traceback (most recent call last):  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/ui/gui.py", line 600, in customEvent  
func(*args, **kw)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/ui/widgets/htmlview.py", line 427, in defer  
cxcmd(session, topic)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/ui/widgets/htmlview.py", line 443, in cxcmd  
run(session, cmd)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/run.py", line 31, in run  
results = command.run(text, log=log)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/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
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 44, in open  
db_models, status = _fetch_from_database(session, db_id, db_name, db_format,
name, ignore_cache, **kw)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 160, in _fetch_from_database  
session.models.add(models)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 585, in add  
m.added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 2260, in added_to_session  
super().added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 130, in added_to_session  
Model.added_to_session(self, session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '<i>%s</i> title:<br><b>%s</b>' % self.name  
TypeError: not enough arguments for format string  
  
TypeError: not enough arguments for format string  
  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '%s title:  
%s' % self.name  
  
See log for complete Python traceback.  
  

> style /b stick

Changed 4368 atom styles  

> ui mousemode rightMode zoom

> ui mousemode rightMode translate

> ui mousemode rightMode zoom

> nucleotides atoms

> style nucleic stick

Changed 21909 atom styles  

> nucleotides ladder

> nucleotides ladder

> ui mousemode rightMode translate

> nucleotides stubs

> nucleotides ladder

> nucleotides ladder

> hide atoms

> show atoms

> lighting simple

> lighting flat

> toolshed show "Build Structure"

> select clear

> ui mousemode rightMode zoom

> ui mousemode rightMode zoom

> ui mousemode rightMode zoom

> ui mousemode rightMode select

Drag select of 11372 atoms, 38 pseudobonds, 1954 residues, 999 bonds, 20
shapes  
Drag select of 23644 atoms, 72 pseudobonds, 3058 residues, 2448 bonds, 20
shapes  
Drag select of 23788 atoms, 78 pseudobonds, 3070 residues, 2448 bonds, 20
shapes  

> select #9/E:376@CA

1 atom, 1 model selected  
Drag select of 23788 atoms, 78 pseudobonds, 3070 residues, 2448 bonds, 20
shapes  

> select clear

Drag select of 23788 atoms, 78 pseudobonds, 3070 residues, 2448 bonds, 20
shapes  

> select clear

> select #9/A:181@O

1 atom, 1 model selected  

> select #9/A:236@CG1

1 atom, 1 model selected  

Expected a models specifier or a keyword  

> select #1/W:434@CB

1 atom, 1 model selected  

> select #1/W:657@CE

1 atom, 1 model selected  

> select #1/W:263@CA

1 atom, 1 model selected  

> select #9/C:354@O

1 atom, 1 model selected  

Expected a models specifier or a keyword  

> close

> open pdb:6g0I

Traceback (most recent call last):  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/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
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/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
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 44, in open  
db_models, status = _fetch_from_database(session, db_id, db_name, db_format,
name, ignore_cache, **kw)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 160, in _fetch_from_database  
session.models.add(models)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 585, in add  
m.added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 2260, in added_to_session  
super().added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 130, in added_to_session  
Model.added_to_session(self, session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '<i>%s</i> title:<br><b>%s</b>' % self.name  
TypeError: not enough arguments for format string  
  
TypeError: not enough arguments for format string  
  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '%s title:  
%s' % self.name  
  
See log for complete Python traceback.  
  

> style sphere

Changed 2378 atom styles  

> color bychain

> ui mousemode rightMode zoom

> ui mousemode rightMode rotate

> close

> open pdb:6g0I

Traceback (most recent call last):  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/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
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/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
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 44, in open  
db_models, status = _fetch_from_database(session, db_id, db_name, db_format,
name, ignore_cache, **kw)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 160, in _fetch_from_database  
session.models.add(models)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 585, in add  
m.added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 2260, in added_to_session  
super().added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 130, in added_to_session  
Model.added_to_session(self, session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '<i>%s</i> title:<br><b>%s</b>' % self.name  
TypeError: not enough arguments for format string  
  
TypeError: not enough arguments for format string  
  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '%s title:  
%s' % self.name  
  
See log for complete Python traceback.  
  

> show cartoons

> show atoms

> ui mousemode rightMode zoom

> ui mousemode rightMode translate

> ui mousemode rightMode select

> ui mousemode rightMode translate

> ui mousemode rightMode zoom

> close

> open /Users/charlotte/Downloads/6g0l.pdb

Traceback (most recent call last):  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/ui/gui.py", line 523, in dropEvent  
_open_dropped_file(self.session, p)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/ui/gui.py", line 1575, in _open_dropped_file  
run(session, 'open %s' % FileNameArg.unparse(path))  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/run.py", line 31, in run  
results = command.run(text, log=log)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/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
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 73, in open  
_handle_unexpected_keyword_error(e, 4)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/open.py", line 68, in open  
path_models = session.models.open(paths, format=format, name=name, **kw)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 741, in open  
self.add(models)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 585, in add  
m.added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 2260, in added_to_session  
super().added_to_session(session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/atomic/structure.py", line 130, in added_to_session  
Model.added_to_session(self, session)  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '<i>%s</i> title:<br><b>%s</b>' % self.name  
TypeError: not enough arguments for format string  
  
TypeError: not enough arguments for format string  
  
File
"/private/var/folders/_w/wfnm4mmd4z929l59sm6jn00m0000gn/T/AppTranslocation/BF629194-668D-4EC4-A86A-06EB5E371549/d/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/models.py", line 397, in added_to_session  
fmt = '%s title:  
%s' % self.name  
  
See log for complete Python traceback.  
  

> show cartoons

> ui mousemode rightMode translate

> ui mousemode rightMode zoom

> ui mousemode rightMode rotate

> ui mousemode rightMode zoom

> ui mousemode rightMode translate

> select /M/W

14252 atoms, 14529 bonds, 26 pseudobonds, 3 models selected  

> toolshed show Toolbar

> color sel red

> select /C/G

1604 atoms, 1624 bonds, 1 model selected  

> color sel magenta

> color sel yellow

> preset "molecular surfaces" "atomic coloring (transparent)"

Changed 27448 atom styles  
Preset expands to these ChimeraX commands:

    
    
    style (protein|nucleic|solvent) & @@draw_mode=0 stick
    surface
    color fromatoms targ s trans 70

  

> undo

> undo

> preset "initial styles" "original look"

Preset implemented in Python; no expansion to individual ChimeraX commands
available.  

> nucleotides sel ladder

> nucleotides sel tube/slab shape box

> nucleotides sel tube/slab shape muffler

> nucleotides sel tube/slab shape muffler

> nucleotides sel stubs

> nucleotides sel stubs




OpenGL version: 4.1 INTEL-10.20.25
OpenGL renderer: Intel(R) HD Graphics 6000
OpenGL vendor: Intel Inc.

Change History (2)

comment:1 by Eric Pettersen, 6 years ago

Component: Unassigned → Logging
Owner: set to Eric Pettersen
Platform: → all
Project: → ChimeraX
Status: new → accepted
Summary: ChimeraX bug report submission → Showing title in log for model: not enough arguments for format string

comment:2 by Eric Pettersen, 6 years ago

Resolution: → fixed
Status: accepted → closed
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