Module can't find shared lib

[lpravda@…]

The following bug report has been submitted:
Platform:        Darwin-17.7.0-x86_64-i386-64bit
ChimeraX Version: 0.8 (2018-08-15)
Description
Something went wrong during the command

addh hbond true

Log:
Startup Messages  
---  
note | available bundle cache has not been initialized yet  
  
UCSF ChimeraX version: 0.8 (2018-08-15)  
How to cite UCSF ChimeraX  

open 3d12 fromDatabase pdbe_updated

3d12 title:  
Crystal Structures of Nipah Virus G Attachment Glycoprotein in Complex with
its Receptor Ephrin-B3 [more&nbspinfo...;]  
  
Chain information for 3d12 #1  
---  
Chain | Description  
A D | Hemagglutinin-neuraminidase  
B E | Ephrin-B3  
  
3d12 mmCIF Assemblies | 1| software_defined_assembly | 2|
author_and_software_defined_assembly | 3| author_and_software_defined_assembly  
  

addh hbond true

Termini for 3d12 (#1) chain D determined from SEQRES records  
Termini for 3d12 (#1) chain A determined from SEQRES records  
Termini for 3d12 (#1) chain E determined from SEQRES records  
Termini for 3d12 (#1) chain B determined from SEQRES records  
Chain-initial residues that are actual N termini: /D GLU 176, /A GLU 176, /E
SER 29, /B SER 29  
Chain-initial residues that are not actual N termini:  
Chain-final residues that are actual C termini: /D ALA 603, /A ALA 603, /E GLN
169, /B GLN 169  
Chain-final residues that are not actual C termini:  
Missing OXT added to C-terminal residue /E GLN 169  
Missing OXT added to C-terminal residue /B GLN 169  
Traceback (most recent call last):  
  File
"/private/var/folders/vq/c3s8rmy96xl28vqnlp31vv31fxhg53/T/AppTranslocation/57728D87-80A8-4065-B5B7-38B24D0CACE9/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/cmd_line/tool.py", line 205, in execute  
    cmd.run(cmd_text)  
  File
"/private/var/folders/vq/c3s8rmy96xl28vqnlp31vv31fxhg53/T/AppTranslocation/57728D87-80A8-4065-B5B7-38B24D0CACE9/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/core/commands/cli.py", line 2561, in run  
    result = ci.function(session, **kw_args)  
  File
"/private/var/folders/vq/c3s8rmy96xl28vqnlp31vv31fxhg53/T/AppTranslocation/57728D87-80A8-4065-B5B7-38B24D0CACE9/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/atomic/addh/cmd.py", line 52, in cmd_addh  
    add_h_func(session, structures, in_isolation=in_isolation, **prot_schemes)  
  File
"/private/var/folders/vq/c3s8rmy96xl28vqnlp31vv31fxhg53/T/AppTranslocation/57728D87-80A8-4065-B5B7-38B24D0CACE9/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/atomic/addh/cmd.py", line 158, in hbond_add_hydrogens  
    _make_shared_data(session, structures, in_isolation)  
  File
"/private/var/folders/vq/c3s8rmy96xl28vqnlp31vv31fxhg53/T/AppTranslocation/57728D87-80A8-4065-B5B7-38B24D0CACE9/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/atomic/addh/cmd.py", line 336, in _make_shared_data  
    from chimerax.atomic.search import AtomSearchTree  
  File
"/private/var/folders/vq/c3s8rmy96xl28vqnlp31vv31fxhg53/T/AppTranslocation/57728D87-80A8-4065-B5B7-38B24D0CACE9/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/atomic/search/__init__.py", line 14, in <module>  
    from .ast import AtomSearchTree  
ImportError:
dlopen(/private/var/folders/vq/c3s8rmy96xl28vqnlp31vv31fxhg53/T/AppTranslocation/57728D87-80A8-4065-B5B7-38B24D0CACE9/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/atomic/search/ast.cpython-36m-darwin.so, 2): Library not
loaded: @loader_path/libatom_search.dylib  
  Referenced from:
/private/var/folders/vq/c3s8rmy96xl28vqnlp31vv31fxhg53/T/AppTranslocation/57728D87-80A8-4065-B5B7-38B24D0CACE9/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/atomic/search/ast.cpython-36m-darwin.so  
  Reason: image not found  
  

ImportError:
dlopen(/private/var/folders/vq/c3s8rmy96xl28vqnlp31vv31fxhg53/T/AppTranslocation/57728D87-80A8-4065-B5B7-38B24D0CACE9/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/atomic/search/ast.cpython-36m-darwin.so, 2): Library not
loaded: @loader_path/libatom_search.dylib  
Referenced from:
/private/var/folders/vq/c3s8rmy96xl28vqnlp31vv31fxhg53/T/AppTranslocation/57728D87-80A8-4065-B5B7-38B24D0CACE9/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/atomic/search/ast.cpython-36m-darwin.so  
Reason: image not found  
  
File
"/private/var/folders/vq/c3s8rmy96xl28vqnlp31vv31fxhg53/T/AppTranslocation/57728D87-80A8-4065-B5B7-38B24D0CACE9/d/ChimeraX.app/Contents/Library/Frameworks/Python.framework/Versions/3.6/lib/python3.6/site-
packages/chimerax/atomic/search/__init__.py", line 14, in  
from .ast import AtomSearchTree  
  
See log for complete Python traceback.  
  
If you wish to report this error, send mail to chimerax-bugs@cgl.ucsf.edu and
describe what you were doing and include a copy of the contents of the log.
Don't include any data you wish to remain private since a publicly viewable
bug report will be created.  




OpenGL version: 4.1 ATI-1.68.20
OpenGL renderer: AMD Radeon Pro 560 OpenGL Engine
OpenGL vendor: ATI Technologies Inc.

[Eric Pettersen]

duplicate of #1256; adding reporter to recipient list for that ticket