The FuzCav distribution contains:

compile.pl: a script to recompile the code.
	if you want to change the installation directory, you have to modify this script

src: 
	contains the java code file.

bin:
	contains the java bytesCode.
	
dist:
	contains the jar file to execute the program.
	
utils:
	CaTagger.pl: 
		This script tag all Ca and metals of a cavity in mol2 format.
		usage : ./CaTagger.pl protein.mol2 > Protein-CA.mol2
	
	pairCalcDist.pl:
		This script compute the similarity between pair of fingerprint.
		usage : ./pairCalcSim.pl [list of pairs]  [ file containing FP]
	
	resDef:
		contain the definition of properties for each Atoms. The file to use is :  tableDefCA.txt

	simC++:
		contains the sources to compute pairwise simialrities between FPs
	simCalc:
		executable to compute pairwise similairiities		
	triplCav:
		contain the definition of the FP. The file to use is interval.txt
		combCalculator.pl : 
			this script generate a new definition of the FP using a given list of intervals and properties.

example:
	a complete example of the all procedure to compute similarity between binding sites. See the README file in this folder

For any comments and/or questions do not hesitate to contact:
Didier Rognan: rognan@unistra.fr
Nathanael Weill: nathanael.weill@unistra.fr
