Documentation for JAWS

Welcome to the official documentation for JAWS, the JGI Analysis Workflow Service, developed by the Joint Genome Institute (JGI). JAWS is designed to streamline the process of running computational workflows across high-performance computing (HPC), cluster, and cloud environments, improving workflow reusability and efficiency.

Summary of JAWS

• JAWS should simplify your workflow submissions because it takes care of resource configuration and scheduling.

• Before using JAWS, workflows need to be written in the human readable Workflow Description Language (WDL).

• JAWS commands can be integrated into larger workflows since everything is CLI based.

Getting Started with JAWS

Ready to start? Whether you’re writing your own workflows or running existing ones, here’s how to dive in:

• Build Your Own WDLs: Learn how to create workflows using WDL, with tips and best practices for building robust and scalable pipelines.

• Configure the JAWS Client: Follow step-by-step instructions to set up and configure the JAWS Client on your system.

• Run an existing WDL in JAWS: Start executing workflows with JAWS by following this quickstart guide.