--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/admixture.sh	Tue Apr 12 09:31:56 2016 -0400
@@ -0,0 +1,26 @@
+#!/bin/bash
+bed=$1
+fam=$2
+bim=$3
+outputs=$4
+logs=$5
+best_k_output=$6
+best_k_logfile=$7
+kmin=$8
+kmax=$9
+
+directory=`dirname $0`
+mkdir tmpdir$$
+cp -rf $bed tmpdir$$/input.bed
+cp -rf $fam tmpdir$$/input.fam
+cp -rf $bim tmpdir$$/input.bim
+
+ 
+perl $directory/Admixture.pl -i tmpdir$$/input -o $outputs -k $kmin -m $kmax -d tmpdir$$
+
+mv tmpdir$$/output $best_k_output
+mv tmpdir$$/log $best_k_logfile
+mv tmpdir$$/outputs.Q $outputs
+mv tmpdir$$/logs $logs
+
+