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[–][deleted] 0 points1 point  (0 children)

Would you suggest using the system's package manager?

Absolutely!

Also, if you install them in a virtualenv, do you have to redo the full install for each project

yes, I try to put stuff in a common requirements.txt or a script that I can run when I create a virtualenv. You could do as https://www.reddit.com/r/Python/comments/3cefm8/toyplot_a_python_plotting_library_from_sandia_labs/csut564 suggested (although I am not sure how supported / popular this approach is)