Automated Model Assembly
from Text, Equations, and Software

This repository holds the source code for the AutoMATES documentation and several component pipelines.

For documentation: https://ml4ai.github.io/automates

Installation instructions

For all operating systems, the first step of the installation process is to clone the AutoMATES repository.

Linux and macOS

• Create a new Python virtualenv
• Activate your new Python virtualenv
• Install Graphviz as defined below
• Run pip install -e . from the root of the AutoMATES directory

GraphViz installation

Debian flavored linux

• Use the command: sudo apt-get install graphviz libgraphviz-dev pkg-config

macOS with Homebrew

• Use the command: brew install graphviz
• Install PyGraphviz to your virtualenv with: pip install --install-option="--include-path=/usr/local/include/" --install-option="--library-path=/usr/local/lib" pygraphviz

Windows

• Download and install Anaconda
• Edit the PYTHONPATH variable in environment.yml to be your local path to your checkout of the AutoMATES repo
• Run conda env create --file environment.yml from the root of the AutoMATES directory