tomsup 1.3.1

Description:

tomsup 1.3.1

tomsup: Theory of Mind Simulation using Python








A Python Package for Agent-Based simulations. The package provides a computational eco-system for investigating and comparing computational models of hypothesized Theory of mind (ToM) mechanisms and for using them as experimental stimuli. The package notably includes an easy-to-use implementation of the variational Bayesian k-ToM model developed by Devaine, et al. (2017). This model has been shown able to capture individual and group-level differences in social skills, including between clinical populations and across primate species. It has also been deemed among the best computational models of ToM in terms of interaction with others and recursive representation of mental states. We provide a series of tutorials on how to implement the k-ToM model and a score of simpler types of ToM mechanisms in game-theory based simulations and experimental stimuli, including how to specify custom ToM models, and show examples of how resulting data can be analyzed.
📰 News

7 March 2022

Paper accepted at Behavior Research Methods 2022


v. 1.1.5

New plotting features were added
Speed and memory improvements as well as support for multicore simulations 🏎
Added workflows to ensure dependencies are being updated
Minor bugfixes


v. 1.1.0

A speed comparison between the matlab implementation was introduced, showing the the tomsup implementation to be notably faster.
An extensive testsuite was introduced, for how to run it see the FAQ.
Code coverage was upped to 86% and code quality was raised to A.
A documentation site was introduced.
Added continiuous integration to ensure that the package always works as intended, with support for mac, windows and linux tests.
A new logo was introduced 🌟


v. 1.0.0

tomsup released its first version along with a preprint on psyarxiv
A series of tutorials was introduced to get you started with tomsup



🔧 Setup and installation
tomsup supports Python 3.6 or later. We strongly recommend that you install tomsup from pip. If you haven't installed pip you can install it from the official pip website, otherwise, run:
pip install tomsup


Detailed instructions
You can also install it directly from GitHub by simply running:
pip install git+https://github.com/KennethEnevoldsen/tomsup.git

or more explicitly:
git clone https://github.com/KennethEnevoldsen/tomsup.git
cd tomsup
pip3 install -e .


Getting Started with tomsup
To get started with tomsup we recommend the tutorials in the tutorials folder. We recommend that you start with the introduction.
The tutorials are provided as Jupyter Notebooks. If you do not have Jupyter Notebook installed, instructions for installing and running can be found here.



Tutorial
Content
file name
Open with




Documentation
The documentations of tomsup




Introduction
a general introduction to the features of tomsup which follows the implementation in the paper
paper_implementation.ipynb



Creating an agent
an example of how you would create new agent for the package.
Creating_an_agent.ipynb



Specifying internal states
a short guide on how to specify internal states on a k-ToM agent
specifying_internal_states.ipynb



Psychopy experiment
An example of how one might implement tomsup in an experiment
Not a notebook, but a folder, psychopy_experiment




🤔 Issues and Usage Q&A
To ask report issues or request features, please use the GitHub Issue Tracker. Otherwise, please use the discussion Forums.
FAQ

How do I test the code and run the test suite?
tomsup comes with an extensive test suite. In order to run the tests, you'll usually want to clone the repository and build tomsup from the source. This will also install the required development dependencies and test utilities defined in the requirements.txt.
pip install -r requirements.txt
pip install pytest

python -m pytest

which will run all the test in the tomsup/tests folder.
Specific tests can be run using:
python -m pytest tomsup/tests/<DesiredTest>.py

Code Coverage
If you want to check code coverage you can run the following:
pip install pytest-cov

python -m pytest--cov=.



Does tomsup run on X?
tomssup is intended to run on all major OS, this includes Windows (latest version), MacOS (Catalina) and the latest version of Linux (Ubuntu). Please note these are only the systems tomsup is being actively tested on, if you run on a similar system (e.g. an earlier version of Linux) the package will likely run there as well.


How is the documentation generated?
Tomsup uses sphinx to generate documentation. It uses the Furo theme with a custom styling.
To make the documentation you can run:
# install sphinx, themes and extensions
pip install sphinx furo sphinx-copybutton sphinxext-opengraph

# generate html from documentations

make -C docs html


Using this Work
License
tomsup is released under the Apache License, Version 2.0.
Citing
If you use this work please cite:
@article{waade2022introducing,
title={Introducing tomsup: Theory of mind simulations using Python},
author={Waade, Peter T and Enevoldsen, Kenneth C and Vermillet, Arnault-Quentin and Simonsen, Arndis and Fusaroli, Riccardo},
journal={Behavior Research Methods},
pages={1--35},
year={2022},
publisher={Springer}
}