Opened 6 years ago

Closed 6 years ago

#2131 closed defect (duplicate)

'view' command: 'Objects' object is not iterable

Reported by: Elaine Meng Owned by: Conrad Huang
Priority: normal Milestone:
Component: General Controls Version:
Keywords: Cc:
Blocked By: Blocking:
Notify when closed: Platform: all
Project: ChimeraX

Description

The following bug report has been submitted:
Platform:        Darwin-17.7.0-x86_64-i386-64bit
ChimeraX Version: 0.91 (2019-06-27)
Description
zone specification broken in daily build

open a structure, select some atom, use command

view sel :<5.5
- or -
view sel @< 8

Log:
UCSF ChimeraX version: 0.91 (2019-06-27)  
© 2016-2019 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open 1zik format mmCIF fromDatabase pdb

1zik title:  
GCN4-leucine zipper core mutant ASN16LYS In the dimeric state [more info...]  
  
Chain information for 1zik #1  
---  
Chain | Description  
A B | general control protein GCN4  
  
  

> display

> select /A:17@OH

1 atom, 1 model selected  

> view sel :<5.5

Traceback (most recent call last):  
File
"/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/cmd_line/tool.py", line 254, in execute  
cmd.run(cmd_text)  
File
"/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/cli.py", line 2641, in run  
result = ci.function(session, **kw_args)  
File
"/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/std_commands/view.py", line 53, in view  
undo = UndoView("view", session, models)  
File
"/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/std_commands/view.py", line 509, in __init__  
self._before = NamedView(v, v.center_of_rotation, models)  
File
"/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/std_commands/view.py", line 184, in __init__  
for m in models:  
TypeError: 'Objects' object is not iterable  
  
TypeError: 'Objects' object is not iterable  
  
File
"/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/std_commands/view.py", line 184, in __init__  
for m in models:  
  
See log for complete Python traceback.  
  

> view sel :< 5.5

Traceback (most recent call last):  
File
"/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/cmd_line/tool.py", line 254, in execute  
cmd.run(cmd_text)  
File
"/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/cli.py", line 2641, in run  
result = ci.function(session, **kw_args)  
File
"/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/std_commands/view.py", line 53, in view  
undo = UndoView("view", session, models)  
File
"/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/std_commands/view.py", line 509, in __init__  
self._before = NamedView(v, v.center_of_rotation, models)  
File
"/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/std_commands/view.py", line 184, in __init__  
for m in models:  
TypeError: 'Objects' object is not iterable  
  
TypeError: 'Objects' object is not iterable  
  
File
"/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/std_commands/view.py", line 184, in __init__  
for m in models:  
  
See log for complete Python traceback.  
  

> view sel @< 8

Traceback (most recent call last):  
File
"/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/cmd_line/tool.py", line 254, in execute  
cmd.run(cmd_text)  
File
"/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/core/commands/cli.py", line 2641, in run  
result = ci.function(session, **kw_args)  
File
"/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/std_commands/view.py", line 53, in view  
undo = UndoView("view", session, models)  
File
"/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/std_commands/view.py", line 509, in __init__  
self._before = NamedView(v, v.center_of_rotation, models)  
File
"/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/std_commands/view.py", line 184, in __init__  
for m in models:  
TypeError: 'Objects' object is not iterable  
  
TypeError: 'Objects' object is not iterable  
  
File
"/Users/chimera/Applications/ChimeraX_Daily.app/Contents/Library/Frameworks/Python.framework/Versions/3.7/lib/python3.7/site-
packages/chimerax/std_commands/view.py", line 184, in __init__  
for m in models:  
  
See log for complete Python traceback.  
  




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

Change History (4)

comment:1 by Elaine Meng, 6 years ago

Platform: all
Project: ChimeraX

the 0.9 release does not have this problem (phew)

comment:2 by Eric Pettersen, 6 years ago

Component: UnassignedGeneral Controls
Owner: set to Tom Goddard
Status: newassigned
Summary: ChimeraX bug report submission'view' command: 'Objects' object is not iterable

comment:3 by Tom Goddard, 6 years ago

Owner: changed from Tom Goddard to Conrad Huang

Duplicate of #2120.

comment:4 by Tom Goddard, 6 years ago

Resolution: duplicate
Status: assignedclosed
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