Installing cmdstanpy

BIRDMAn uses the popular cmdstanpy interface for Bayesian inference. cmdstanpy is simply a lightweight Python wrapper around the cmdstan C++ toolchain.

Depending on how you install cmdstanpy, there may be some additional steps you need to take. We recommend installing via conda/mamba if possible because this will automatically install cmdstan to your system.

mamba install -c conda-forge cmdstanpy

If you are installing via pip, you need to install cmdstan manually. This is because pip cannot install the C++ components on its own.

First, install cmdstanpy as follows:

pip install cmdstanpy

Then, from your terminal you can run the install_cmdstan script to install the C++ toolchain.

install_cmdstan

For more information on installing cmdstanpy, please see the documentation.