Coll_krook heat flux closure, updated PI_controller for density, and added PI_controller for temperature #283
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Need to us a different library extension (".dylib" instead of ".so") on macOS.
This is needed so that `makie_post_processing.generate_example_input_file()` can work. Also requires us to convert `figsize` back to a `Tuple` before we use it, because a `Tuple` is required by Makie.
Avoids errors when `python` is not a valid shell command, or when it runs Python-2 instead of Python-3.
Fix a couple of small errors in the setup process
Fix machine setup for HDF5 on macOS
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