Hi all,
After updating my mac os can't use my rdkit installation.. It has some
problems with boost, but I can't figure out what is wrong. So I tried to
re-install boost, boost-python and rdkit packages with homebrew, but anyway
get the same error:
Uninstalling /usr/local/Cellar/rdkit/2014.09.1...
λ 130-229-33-223 ~ → brew install rdkit --build-from-source
==> Installing rdkit from rdkit/homebrew-rdkit
==> Downloading
https://github.com/rdkit/rdkit/archive/Release_2014_09_1.tar.gz
Already downloaded: /Library/Caches/Homebrew/rdkit-2014.09.1.tar.gz
==> cmake -DCMAKE_INSTALL_PREFIX='/usr/local/Cellar/rdkit/2014.09.1'
-DCMAKE_BUILD_TYPE=None -DCMAKE_FIND_FRAMEWORK=LAST -Wno-dev
-DRDK_INSTALL_INTREE=OFF -DRDK_BUILD_CPP_TESTS=OFF -DRDK_INSTALL_STATIC_LI
==> make
==> make install
==> Caveats
You may need to add RDBASE to your environment variables.
For Bash, put something like this in your $HOME/.bashrc
export RDBASE=/usr/local/share/RDKit
==> Summary
🍺 /usr/local/Cellar/rdkit/2014.09.1: 896 files, 38M, built in 3.2 minutes
λ 130-229-33-223 ~ → python
Python 2.7.8 (default, Oct 27 2014, 14:17:15)
[GCC 4.2.1 Compatible Apple LLVM 6.0 (clang-600.0.54)] on darwin
Type "help", "copyright", "credits" or "license" for more information.
>>> from rdkit import Chem
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File
"/usr/local/Cellar/rdkit/2013.06.1/lib/python2.7/site-packages/rdkit/Chem/__init__.py",
line 18, in <module>
from rdkit import rdBase
ImportError:
dlopen(/usr/local/Cellar/rdkit/2013.06.1/lib/python2.7/site-packages/rdkit/rdBase.so,
2): Symbol not found:
__ZN5boost6python7objects15function_objectERKNS1_11py_functionERKSt4pairIPKNS0_6detail7keywordES9_E
Referenced from:
/usr/local/Cellar/rdkit/2013.06.1/lib/python2.7/site-packages/rdkit/rdBase.so
Expected in: /usr/local/lib/libboost_python-mt.dylib
in
/usr/local/Cellar/rdkit/2013.06.1/lib/python2.7/site-packages/rdkit/rdBase.so
>>>
Any idea what is wrong and how can I fix it?
Best wishes,
Alexey
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