The below is dependent on how you import pybel
you did "import pybel", which imports the pybel functions with a "pybel."
prefix as shown in your efforts to run things.
Some of the examples in the documentation implicitly do "from pybel import *"
so the functions are imported without a prefix.
-David
> On Jul 8, 2016, at 11:14 AM, Dan Smith <s...@bellsouth.net>
>
> Importing pybel and openbabel works now. I tried to work through some of the
> examples on the web
> (http://openbabel.org/docs/current/UseTheLibrary/Python_Pybel.html). The
> examples do not work exactly as written. For instance, I cannot use the
> command “read string”, but I can use “pybel.readstring”.
>
> >>> mymol = readstring("smi", "CCCC")
> Traceback (most recent call last):
> File "<stdin>", line 1, in <module>
> NameError: name 'readstring' is not defined
> >>> mymol = pybel.readstring("smi", "CCCC")
> >>> print mymol.molwt
> 58.1222
>
> Is this normal or is there something wrong with my installation?
>
> Thanks,
>
> Dan
>
>
>> On Jul 7, 2016, at 6:01 PM, Leonardo Lazzaro <llazz...@dc.uba.ar> wrote:
>>
>> Hello,
>>
>> try to use the options DPYTHON_INCLUDE_DIR, DCMAKE_INSTALL_PREFIX.
>> for example for anaconda2 I used the following command:
>>
>> cmake .. -DPYTHON_BINDINGS=ON -DRUN_SWIG=ON
>> -DCMAKE_INSTALL_PREFIX=~/anaconda2
>> -DPYTHON_INCLUDE_DIR=~/anaconda2/include/python2.7
>> -DCMAKE_LIBRARY_PATH=~/anaconda2/lib
>> -DSWIG_DIR=~/anaconda2/share/swig/3.0.2/
>> -DSWIG_EXECUTABLE=~/anaconda2/bin/swig
>> -DPYTHON_LIBRARY=~/anaconda2/lib/libpython2.7.so
>> -DCMAKE_BUILD_TYPE=DEBUG
>>
>> hope it helps,
>> Leonardo
>>
>>> On 2016-07-07 17:23, Dan Smith wrote:
>>> Hello,
>>>
>>> I am using openbabel on a Mac - El Capitan OS X 10.11.5 operating
>>> system.
>>>
>>> I have installed eigen2. I have python version 2.7.10.
>>>
>>> I have successfully compiled version 2.3.90 using the following
>>> commands in terminal.
>>>
>>> cmake ../openbabel -DPYTHON_BINDINGS=ON -DRUN_SWIG=ON
>>> make
>>> sudo make install
>>> export PYTHONPATH=/usr/local/lib:$PYTHONPATH
>>>
>>> When I attempt to import pybel or openbabel in Python I get the
>>> following messages.
>>>
>>>>>> import pybel
>>> Traceback (most recent call last):
>>> File "<stdin>", line 1, in <module>
>>> ImportError: No module named pybel
>>>
>>>>>> import openbabel
>>> Traceback (most recent call last):
>>> File "<stdin>", line 1, in <module>
>>> ImportError: No module named openbabel
>>>
>>> I have tried to search previous posts but have not found an answer
>>> that will solve my problem. At this point I’m not sure what to do to
>>> diagnose the problem.
>>>
>>> Any help in solving my problem would be appreciated.
>>>
>>> Thanks,
>>>
>>> Dan
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