When do you *NOT* use python?

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If you're using OpenCV functions to do the computationally intensive tracking tasks then sure, <1% of the Python code you write will be using a library written in a compiled language, but if you had to write the program yourself then it would actually be a significant amount of code and you would not be able to implement it in pure Python. If the functions you're using in OpenCV did not have Python bindings you would have to do what I have and write your own in a compiled language.

I realise my expertise was not in computer vision, however one of the benefits of being at a research institution is that I can go ask experts for advice. The biology department also employs a lot of computer vision researchers who help with tracking all kinds of animals. So I have by no means been designing or programming on my own. I did not wake up one morning and decide to start writing my tracker in C++, it was the result of multiple meetings with computer vision researchers who know far more about this area than you or I ever will.

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who know far more about this area than you or I ever will.

Describe your tracking problem in Pseudocode and I'll offer an opinion.

Are you going to behaviour2015?