--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/ChoosePatterns.R	Fri Mar 15 18:23:57 2013 -0400
@@ -0,0 +1,27 @@
+sink(file="/tmp/none")
+sink("/dev/null")
+options(warn=-1)
+options(echo=F) 
+
+#invisible("EBSeq")
+suppressMessages(library("EBSeq"))
+
+args <- commandArgs(trailingOnly = T)
+inputfile <- args[1]
+Idx <- args[2]
+outputfile <- args[3]
+
+print(args)
+
+ReadIn=read.table(inputfile,stringsAsFactors=F,header=T, sep="\t")
+
+IndexIn=strsplit(Idx,split=",")[[1]]
+Index=as.numeric(IndexIn)
+
+Mat=data.matrix(ReadIn)
+
+Out=Mat[Index,]
+
+
+write.table(Out,file=outputfile,quote=F,col.names=T,row.names=T,sep = "\t")
+