Thank you sir. I used “import pybel”. I did not realize the difference in
“from pybel import*”. I’m learning how to use python now.
Looks like all is working.
Dan
> On Jul 8, 2016, at 10:55 AM, David Hall <li...@cowsandmilk.net> wrote:
>
> 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
> <mailto: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
>> <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
>>> <mailto: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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