PyPTS 0.2.5

Python toolbox for plant tissue simulation prototypes

# PyPTS: A Python Plant Tissue Simulation tools

PyPTS is a Python package for creating cell-based simulations of plant tissue. It provides the basic building blocks for prototyping and running small to medium scale simulations of two dimensional plant tissues.

• Author: Przemyslaw Klosiewicz ([e-mail])

• License: BSD 3-Clause, cfr. LICENSE.txt

## Installation

The standard way of installing PyPTS is either through pip:

pip install PyPTS

or downloading the sources / cloning the repository and running:

python ./setup.py install [–user]

inside the PyPTS source tree.

### Requirements

Currently used versions are indicated. Code possibly works with slightly older versions as well.

• Python 2.7

• NumPy (Used all throughout the code)

• SciPy (Maily for the solvers)

• h5py (I/O for tissue files)

• Matplotlib (Plotting tissue structures)

• PySide (optional; for tissue_plot.py visualization)

• MPI4Py (optional; for running bulk sweep jobs, cfr: mpi_*.py)

## Usage

See pypts/examples for some example scripts