Repasted from user:
OSError: [Errno 1] Operation not permitted: '/var/folders/8_/5s2css_9007gl8ql42jdlx1r0000gn/T/pip-aba6qF-uninstall/System/Library/Frameworks/Python.framework/Versions/2.7/Extras/lib/python/scipy-0.13.0b1-py2.7.egg-info
Solution:
The default python in OSX is different between el capitan and sierra. To fix:
brew install python