I have the same Run 'Doctests in __init __' problem with PyCharm 2016. I am not sure if this is due to the same problem as other people, but this is my fix.
I noticed a file that will not start life in the resource directory:

As soon as I opened a new PyCharm project using a script, I want to run it not in the resource directory, PyCharm ran it without any problems.
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