This repository contains the source code associated with the manuscript
Mayer, Mora, Rivoire, Walczak : Transitions in optimal adaptive strategies for populations in fluctuating environments, Arxiv 2017
It allows reproduction of all numerical results reported in the manuscript.
The code uses Python 2.7+.
A number of standard scientific python packages are needed for the numerical simulations and visualizations. An easy way to install all of these is to install a Python distribution such as Anaconda. The file environment.yml contains a list of the relevant packages in a format understood by Anaconda.
Additionally the code also relies on these packages:
And optionally for nicer progress output install:
The time stepping of the population dynamics is accelerated by a Cython module, which needs to be compiled first. To compile it run make cython in the lib directory. In the directories for the figures about the results in correlated environments launch make run followed by make agg to produce the underlying data. We provide both Jupyter notebooks with additional explanatory comments and plain python files for generating the figures.
Note: As the simulations are stochastic you will not get precisely equivalent plots.
If you run into any difficulties running the code, feel free to contact us at andimscience@gmail.com.
The source code is freely available under an MIT license. The plots are licensed under a Creative commons attributions license (CC-BY).