Installation

The ruffus is a lightweight python module to support running computational pipelines.

The easy way

rufus is available as an easy-install -able package on the Python Package Index.

1. Install setuptools:

   wget peak.telecommunity.com/dist/ez_setup.py
   sudo python ez_setup.py

2. Install Ruffus automatically:

   easy_install -U ruffus

The most up-to-date code:

More rarely, the most up-to-date code can be found from

• download the latest sources from here

  or check out the latest code from svn:

  svn checkout http://ruffus.googlecode.com/svn/trunk/ ruffus-read-only

  or ask to be a project member and enter your google name:

  svn checkout https://ruffus.googlecode.com/svn/trunk/ ruffus --username yourname

• To install, type:

  python setup.py install

Graphical flowcharts

Ruffus relies on the dot programme from Graphviz (“Graph visualisation”) to make pretty flowchart representations of your pipelines in multiple graphical formats (e.g. png, jpg). The crossplatform Graphviz package can be downloaded here for Windows, Linux, Macs and Solaris. Some Linux distributions may include prebuilt packages.

For Fedora, try

yum list 'graphviz*'

For ubuntu / Debian, try

sudo apt-get install graphviz