Installation

Requirements

UQ-PhysiCell requires Python 3.10 or later and the following dependencies:

• pcdl

• SALib

Installation from PyPI

We recommend using a virtual environment, such as venv or conda.

pip install uq-physicell

Installation from Source

1. Clone the repository:

   git clone https://github.com/heberlr/UQ_PhysiCell.git
   cd UQ_PhysiCell
   

2. Install in development mode:

   pip install -e .
   

Additional Dependencies

For Bayesian optimization features, install the optional dependencies:

pip install torch botorch gpytorch

For Aproximate Bayesian Computation:

pip install pyabc

Verification

To verify the installation, run:

import uq_physicell
print(f"UQ-PhysiCell version: {uq_physicell.__version__}")

You should see the current version number displayed. The latest version is 1.2.8.