PREREQUISITES:

Python v. 2.7		(apt: python, v. 2.7.8-1)
numpy v. 1.8		(apt: python-numpy, v. 1:1.8.2-1ubuntu1)
scipy v. 0.14		(apt: python-scipy, v. 0.14.0-2ubuntu1)
Orange v. 2.7 or above	(http://orange.biolab.si/)

OPTIONAL INSTALS:

Parallell graph distance calculation (i.e. useful for large matrices) for advanced users
1) install pathos (http://trac.mystic.cacr.caltech.edu/project/pathos)
2) remove pathos folder from the distribution, being a library placeholder
3) in GDcast.py code, please set __CORES__ variable to the actual number of cores to be used
4) run the script in a standard way

PyMol program for 3D visualization (apt: pymol, v.1.7.0.0-1)

PROTMAP2D program for 2D visualization (http://genesilico.pl/software/stand-alone/protmap2d)

INSTALLATION INSTRUCTIONS:

1) install all the prerequisites
2) uznip the distribution package
3) install additional software (i.e. pathos, see: OPTIONAL INSTALS)

USAGE:

$python <python_script_file> <options>
$pymol -u <pymol_script_file>
