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Is there a simple example to start with for using kohonen 1.1.2 or is it only the test file that will be the reference?

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There are alternative solutions for self organizing maps.

Best of them I found pymvpa where the example is easy to read and understand. It is also maintained quite activately as you can see from their Github.

I tried to run the kohonen 1.1.2 test file, but it did not run after two days of trying. So, let's have a try for the another solution.

To run pyMVPA example som.py, you have to do the following (at least):

1 install some pre-requisites: at least numpy, scipy, nibabel and swig to be able to run setup.py
2 run the commands: 
   python setup.py build
   python setup.py install
3 modify example under doc/examples (som.py) to have 
 import matplotlib.pyplot as pl
4 run command:
   python som.py

Note that this works only in python 2, not python3 can be used as command.

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  • $\begingroup$ I am not able to build it on my system. It keeps on failing due to Android SDK errors! $\endgroup$ – user 923227 Apr 9 '18 at 23:23
  • $\begingroup$ Well, errors tell what is missing. You will need to install them manually. $\endgroup$ – mico Apr 10 '18 at 3:55
  • $\begingroup$ :) Sure! I had to run step 2 as sudo. ` python setup.py build python setup.py install` and then as you said python 3 it was not working - so one of the installs I had to do python -m pip install <package> for Python 2 explicitly. Thanks for the motivation! $\endgroup$ – user 923227 Apr 10 '18 at 22:45

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