The homebrew open-babel package requires python also from homebrew, which somehow has been uninstalled (did you run “brew uninstall --ignore-dependencies python”?). I presume “brew install python” will bring it back. Open Babel from homebrew won’t work with the separate python 3.8 you appear to also have installed.
> On 6 Nov 2019, at 16:30, Peng Yu <pengyu...@gmail.com> wrote: > > Hi, > > I got the following error to load pybel in openbabel python module. Does > anybody know what is wrong? Thanks. > > $ brew info open-babel > open-babel: stable 3.0.0 (bottled), HEAD > Chemical toolbox > https://openbabel.org > /usr/local/Cellar/open-babel/3.0.0 (328 files, 19.5MB) * > Poured from bottle on 2019-11-02 at 02:42:41 > From: > https://github.com/Homebrew/homebrew-core/blob/master/Formula/open-babel.rb > ==> Dependencies > Build: cmake ✘, pkg-config ✔, rapidjson ✘, swig ✔ > Required: cairo ✔, eigen ✔, python ✘ > ==> Options > --HEAD > Install HEAD version > $ pip3 install -U openbabel > Requirement already up-to-date: openbabel in > /Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-packages > (2.4.1) > $ python3 > Python 3.8.0a3 (v3.8.0a3:9a448855b5, Mar 25 2019, 17:05:20) > [Clang 6.0 (clang-600.0.57)] on darwin > Type "help", "copyright", "credits" or "license" for more information. >>>> from openbabel import pybel > Traceback (most recent call last): > File "<stdin>", line 1, in <module> > File > "/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-packages/openbabel.py", > line 15, in <module> > import _openbabel > ImportError: > dlopen(/Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-packages/_openbabel.cpython-38m-darwin.so, > 2): Library not loaded: /usr/local/opt/open-babel/lib/libopenbabel.5.dylib > Referenced from: > /Library/Frameworks/Python.framework/Versions/3.8/lib/python3.8/site-packages/_openbabel.cpython-38m-darwin.so > Reason: image not found > > > _______________________________________________ > OpenBabel-discuss mailing list > OpenBabel-discuss@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/openbabel-discuss _______________________________________________ OpenBabel-discuss mailing list OpenBabel-discuss@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/openbabel-discuss
