--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/Contra/scripts/target_breakdown.py	Thu Sep 13 02:31:43 2012 -0400
@@ -0,0 +1,56 @@
+# ----------------------------------------------------------------------#
+# Copyright (c) 2011, Richard Lupat & Jason Li.
+#
+# > Source License <
+# This file is part of CONTRA.
+#
+#    CONTRA is free software: you can redistribute it and/or modify
+#    it under the terms of the GNU General Public License as published by
+#    the Free Software Foundation, either version 3 of the License, or
+#    (at your option) any later version.
+#
+#    CONTRA is distributed in the hope that it will be useful,
+#    but WITHOUT ANY WARRANTY; without even the implied warranty of
+#    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+#    GNU General Public License for more details.
+#
+#    You should have received a copy of the GNU General Public License
+#    along with CONTRA.  If not, see <http://www.gnu.org/licenses/>.
+#
+# 
+#-----------------------------------------------------------------------#
+# Last Updated : 05 October 2011 16:43PM
+
+def target_breakdown(filename, maxRegionSize, targetRegionSize, out_fname):
+	from math import ceil
+
+	a	= open(filename)
+	output 	= open(out_fname, "w")
+
+	for x in a:
+		x 	= x.split()
+		chr 	= x[0]
+		start 	= int(x[1])
+		end	= int(x[2])
+		info	= ""
+		if (len(x) > 3):
+			info	= x[3]
+	
+		regionSize = end-start
+
+		if regionSize > maxRegionSize:
+			seg	= ceil(regionSize/float(targetRegionSize))
+			limit	= ceil(regionSize/float(seg))
+	
+			s_end = start	
+			for i in range(int(seg)):
+				s_start = s_end
+				s_end = int(start + (limit*(i+1)))
+				if s_end > end:
+					s_end = end
+				output.write("\t".join([chr, str(s_start), str(s_end), info+"(SPLIT)"])+"\n")
+		else:
+			output.write("\t".join([chr, str(start), str(end), info])+"\n")
+
+	output.close()
+