matpopmod 0.1.0

Matrix population models library with an interface to the COMPADRE / COMADRE databases.

Matpopmod - Matrix Population Models in Python

Matpopmod is a Python library for the study of matrix population models. It can be used to:

• compute a wide variety of demographic descriptors;
• study and plot deterministic and stochastic trajectories;
• access the COMPADRE/COMADRE databases.

See the project homepage for more information.

Installation

Matpopmod requires Python ≥3.6 with NumPy ≥1.10 and Matplotlib. You can install the latest stable version from PyPI with:

python3 -m pip install matpopmod

Usage

Matpopmod can be used interactively or as a library in Python scripts. See the quickstart guide and the documentation for details.

Development

Contributions are welcome on the Git lab repository.

Installing the development version

You can install the current development version using:

python3 -m pip install https://gitlab.com/bienvenu/matpopmod/-/archive/master/matpopmod-dev.tar.gz

However, if you want to be able to run the tests, build the documentation and contribute, we recommend fetching the source and setting up a development environment with:

git clone https://gitlab.com/bienvenu/matpopmod.git
python3 -m venv env
source env/bin/activate
python3 -m pip install -e matpopmod/

Running tests

python3 -m pip install pytest
pytest matpopmod

Show test coverage:

python3 -m pip install pytest-cov
pytest --cov=matpopmod --cov-report html
python3 -m http.server 8002 # serve

Building the documentation

# HTML documentation in /public
python3 -m pip install sphinx
cd matpopmod
sphinx-build -b html doc/ public

# PDF documentation in /public
python3 -m pip install sphinx
cd matpopmod
sphinx-build -b latex doc/ public
cd public
pdflatex matpopmod.tex

Building the package

The version number is maintained in src/matpopmod/VERSION.

python3 -m build .
# To upload the package on PyPI
python3 -m twine upload dist/*

License

This project is licensed under the GNU Lesser General Public License v3.0 or later.