On Chemistry Stack Exchange I asked a question regarding Open Babel & Python being used together.

The problem is that the answer I was provided (by Geoff Hutchinson) requires Python to be able to import the module Pybel.

I have installed Open Babel on this PC via two ways, APT and source. I then deleted my APT installation after I realized pybel wasn't available for Python use and I decided to install from source with Python bindings.

To do so I followed this guide with the final command being customized to (running from ~/build)

cmake ../openbabel-2.3.2 -DBUILD_GUI=ON -DPYTHON_BINDINGS=ON

which gave the output:

-- Using included inchi library.

-- Found wxWidgets: TRUE  

-- Cairo found. PNG output will be supported.

-- Attempting to build the GUI

--    wxWidgets found => GUI will be built

CMake Warning (dev) at test/CMakeLists.txt:171 (include):

  Syntax Warning in cmake code at



    /home/fusion809/Downloads/openbabel-2.3.2/cmake/modules/UsePythonTest.cmake:54:14



  Argument not separated from preceding token by whitespace.

This warning is for project developers.  Use -Wno-dev to suppress it.



CMake Warning (dev) at test/CMakeLists.txt:171 (include):

  Syntax Warning in cmake code at



    /home/fusion809/Downloads/openbabel-2.3.2/cmake/modules/UsePythonTest.cmake:54:31



  Argument not separated from preceding token by whitespace.

This warning is for project developers.  Use -Wno-dev to suppress it.



CMake Warning (dev) at test/CMakeLists.txt:171 (include):

  Syntax Warning in cmake code at



    /home/fusion809/Downloads/openbabel-2.3.2/cmake/modules/UsePythonTest.cmake:57:25



  Argument not separated from preceding token by whitespace.

This warning is for project developers.  Use -Wno-dev to suppress it.



CMake Warning (dev) at test/CMakeLists.txt:171 (include):

  Syntax Warning in cmake code at



    /home/fusion809/Downloads/openbabel-2.3.2/cmake/modules/UsePythonTest.cmake:57:39



  Argument not separated from preceding token by whitespace.

This warning is for project developers.  Use -Wno-dev to suppress it.



-- Python bindings will be compiled

-- Could NOT find Ruby (missing:  RUBY_INCLUDE_DIR RUBY_LIBRARY RUBY_CONFIG_INCLUDE_DIR) (found version "2.1.0")

-- Ruby library files NOT found. Ruby bindings will NOT be compiled.

-- Configuring done

-- Generating done

-- Build files have been written to: /home/fusion809/build

I should mention, however, that the first time I compiled Open Babel I forgot to add the -DBUILD_GUI & -DPYTHON_BINDINGS commands to the cmake line, so I had to run this new cmake command after I had initially compiled the software. Does this make any difference? Should I remove Open Babel and re-compile? If so do I have to delete some files in my /usr/ directory to (if so please mention them as I don't know which ones)? If relevant I am on 32 bit 15.04.

EDIT

I deleted my build directory's contents & started again and after the cmake command I ran:

make

sudo make install

export PYTHONPATH=/usr/local/lib:$PYTHONPATH

At the end of the output I received were these two lines:

-- Up-to-date: /usr/local/lib/openbabel.py

-- Up-to-date: /usr/local/lib/pybel.py

In a Python terminal I ran import openbabel and import pybel and it gave the output: ImportError: No module named ... where ... is openbabel or pybel, depending on which of the commands were executed, so I suspect it's a problem on my Python installation's end.