Dear Stephen,
You have installed RDKit in the environment my-rdkit-env, you need to
activate the environment in order to use it (btw, it seems that you
installed it in "mr-rdkit-env").
But you can also install RDKit in the default environment: conda install
rdkit -c rdkit

Best wishes,
Michal

On 17 August 2017 at 13:00, Stephen P. Molnar <s.mol...@sbcglobal.net>
wrote:

> I have installed Spyder3.2.1 in the current version of Miniconda3 on my
> Debian v-9.1.0 64 bit Linux platform.  Spyder is performing well, but I am
> having difficulty installing the RDKit.
>
> I followed the directions in the RDKit_Docs_current.pdf"
>
> How to install RDKit with Conda
> Creating a new conda environment with the RDKit installed using these
> packages requires one single command similar
> to the following::
> $ conda create -c rdkit -n my-rdkit-env rdkit
> Finally, the new environment must be activated, so that the corresponding
> python interpreter becomes available in the
> same shell:
> $ source activate my-rdkit-env
>
> There were no warning or error messages during the installation, but when
> I attempt running a simple Python script:
>
> #!/usr/bin/env python3
> # -*- coding: utf-8 -*-
> """
> Created on Tue Aug 15 11:41:24 2017
>
> @author: comp
> """
>
> from __future__ import print_function
> from rdkit import Chem
>
> m = Chem.MolFromSmiles('Cc1ccccc1')
> m
>
> I get:
>
> IPython 6.1.0 -- An enhanced Interactive Python.
>
> runfile('/home/comp/Apps/Python/untitled0.py',
> wdir='/home/comp/Apps/Python')
> Traceback (most recent call last):
>
>   File "<ipython-input-1-3842c59475d8>", line 1, in <module>
>     runfile('/home/comp/Apps/Python/untitled0.py',
> wdir='/home/comp/Apps/Python')
>
>   File "/home/comp/Apps/miniconda3/lib/python3.6/site-packages/spyd
> er/utils/site/sitecustomize.py", line 688, in runfile
>     execfile(filename, namespace)
>
>   File "/home/comp/Apps/miniconda3/lib/python3.6/site-packages/spyd
> er/utils/site/sitecustomize.py", line 101, in execfile
>     exec(compile(f.read(), filename, 'exec'), namespace)
>
>   File "/home/comp/Apps/Python/untitled0.py", line 10, in <module>
>     from rdkit import Chem
>
> ModuleNotFoundError: No module named 'rdkit'
>
> RDKit is installed in ~/miniconda3/envs/mr-rdkit-env
>
> Unfortunately, I have no clue as to what the problem(s) may be, assistance
> will be much appreciated.
>
> Thanks in advance.
> --
> Stephen P. Molnar, Ph.D.                Life is a fuzzy set
> www.molecular-modeling.net              Stochastic and multivariate
> (614)312-7528 (c)
> Skype: smolnar1
>
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