The Ruffus python module provides automatic support for

• Managing dependencies
• Parallel jobs
• Re-starting from arbitrary points, especially after errors
• Display of the pipeline as a flowchart
• Reporting

Computational pipelines are often conceptually quite simple, especially if we breakdown the process into simple stages, or separate tasks.

Each stage or task in a computational pipeline is represented by a python function.

Each python function can be called in parallel to run multiple jobs.

It was originally written for scientific research (bioinformatics/genome analysis pipelines).

Design goals

(In order)

• Elegance
• Lightweight
• Unintrusiveness
• Flexible
• Practical (i.e. powerful)

There is no hidden magic so Ruffus is completely customisable.

Project Documentation

Project documentation is available here: http://wwwfgu.anat.ox.ac.uk/~lg/oss/ruffus/index.html

Tutorial

An simple tutorial is available here: http://wwwfgu.anat.ox.ac.uk/~lg/oss/ruffus/tutorials/simple_tutorial/simple_tutorial.html

Cylindrophis ruffus

Is the name of the red-tailed pipe snake from Hong Kong where the author comes from http://en.wikipedia.org/wiki/Cylindrophis_ruffus

Click here if you are on ohloh and are using Ruffus: