gistfile1.py

import os
from optparse import OptionParser
#from scipy.stats import ks_2samp

parser = OptionParser ()

parser.set_defaults(verbose=False)
parser.set_defaults(infile=True)
parser.set_defaults(outfile=True)

parser.add_option("-v", "--verbose", dest = "verbose", action = "store_true", help = "prints information about the programs")
parser.add_option("-i", "--infile", dest = "infile", action = "store", help = "requires input file location")
parser.add_option("-o", "--outfile", dest = "outfile",action = "store", help = "requires output file location")

(options, args) = parser.parse_args()
all_data = []

for file in os.listdir(options.infile):
	filename = options.infile + "/" + file
	inputfile = open(filename, "r")
	input = inputfile.readlines()
	dict_files = []
	for line in input:
		line = line.strip()
		sep = line.split(" ")
		dict_files.append(sep)
	all_data.append(dict_files)
	
# Working with all data:

for i in range(0, len(all_data)):
	if (len(all_data) >= i+2):
		print 'have both, now do something'
	else:
		print 'end, only have one left'

# Compare all vs eachother
for i in range(0, len(all_data)):
	for ii in range(0, len(all_data)):
		if (ii != i): print(str(i)+'..'+str(ii))