id	summary	reporter	owner	description	type	status	priority	milestone	component	version	resolution	keywords	cc	blockedby	blocking	notify_on_close	platform	project
1291	bumps command: attempt to get argmax of an empty sequence	Elaine Meng	Tom Goddard	"{{{
The following bug report has been submitted:
Platform:        Darwin-17.7.0-x86_64-i386-64bit
ChimeraX Version: 0.8 (2018-09-07)
Description
""bumps"" command traceback

undoubtedly I'm twisting the purpose of this command, but the following gives a traceback as shown in the Log

open 2gbp
molmap protein 5
bumps #2 center ligand

Log:
UCSF ChimeraX version: 0.8 (2018-09-07)  
How to cite UCSF ChimeraX  

open 2gbp format mmCIF fromDatabase pdb ↵

2gbp title:  
Sugar and signal-transducer binding sites of the escherichia coli galactose
chemoreceptor protein [more&nbspinfo...;]  
  
Chain information for 2gbp #1  
---  
Chain | Description  
A | D-galactose/D-glucose binding protein  
  
  

molmap protein 5 ↵

bumps #2 ligand

Expected a keyword  

bumps #2 center ligand ↵

Found 0 bumps, minimum height 1, base area 10  
Error processing trigger ""frame drawn""  
Traceback (most recent call last):  
File
""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/triggerset.py"", line 126, in invoke  
return self._func(self._name, data)  
File
""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/model_panel/tool.py"", line 139, in _fill_tree  
model_id, model_id_string, bg_color, display, name, selected, part_selected =
self._get_info(model)  
File
""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/model_panel/tool.py"", line 204, in _get_info  
bg_color = self._model_color(obj)  
File
""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/model_panel/tool.py"", line 227, in _model_color  
return model.single_color  
File
""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/atomic/structure.py"", line 260, in _get_single_color  
return most_common_color(atoms.colors)  
File
""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/colors.py"", line 727, in most_common_color  
max_index = argmax(counts)  
File
""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/numpy/core/fromnumeric.py"", line 1004, in argmax  
return _wrapfunc(a, 'argmax', axis=axis, out=out)  
File
""/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/numpy/core/fromnumeric.py"", line 52, in _wrapfunc  
return getattr(obj, method)(*args, **kwds)  
ValueError: attempt to get argmax of an empty sequence  

toolshed show ""Bug Reporter"" ↵




OpenGL version: 4.1 NVIDIA-10.32.0 355.11.10.10.40.102
OpenGL renderer: NVIDIA GeForce GTX 675MX OpenGL Engine
OpenGL vendor: NVIDIA Corporation

}}}
"	defect	closed	normal		Volume Data		fixed						all	ChimeraX