CatKit: Catalysis Kit

Welcome to CatKit! A staging ground for computational tools which are generally useful for catalysis research. The goal of the project is to provide a communal location for those interested in hosting such tools under a common banner. In doing so, we hope to provide the infrastructure to produce more advanced functionality based on modular components of individual contributors.

You can find our full documentation here.

Installation

Pip installation

CatKit is most easily installed with pip using:

pip install git+https://github.com/SUNCAT-Center/CatKit.git

For usage on high-performance computers, installation will need to be performed locally which can be done using:

pip install --user git+https://github.com/SUNCAT-Center/CatKit.git

These commands will install all of the necessary dependencies for you.

Source installation

Alternatively, clone the git repo to your home directory.

git clone https://github.com/SUNCAT-Center/CatKit.git catkit

Then, add ~/catkit/bin and ~/catkit to your PATH and PYTHONPATH environment variables by adding the following line to your ~/.bashrc file.

export PYTHONPATH=~/catkit:$PYTHONPATH
export PATH=~/catkit/bin:$PATH

And install the package:

cd catkit/
python setup.py install

CatGen: Catalysis Generator

CatGen is an enumeration module designed to construct various catalytic structures.

• [X] Gas phase molecules
• [ ] Bulk structures
• [X] Surfaces structures
• [X] Adsorption sites
• [X] Catalytic structures

It also has functionality for enumeration of other systems relevant to the field of catalysis.

• [X] Reaction mechanisms
• [X] Reaction routes

For additional details regarding how the generator operates, including example usage, see the CatGen documentation.

CatFlow: Catalysis Workflow

CatFlow is currently a staging ground for Workflow code and techniques. These functions are meant to be used in conjunction with the other modules inside CatKit to help automate these tasks.

Currently, CatFlow’s functionality utilizes Fireworks and many of the functions are also specifically tailored to work on the high-performance computers which are available to the SUNCAT group as Stanford.

For additional detail see the CatFlow documentation.

Dependencies

CatKit attempts to make use of basic functionalities implemented by existing softwares when possible to extend its capabilities.

A full list of required packaged can be found in the requirements.