bam_names=*pooled.bam
for bam_name in $bam_names
do
	fname=`basename $bam_name`
	echo "this is the fname"
	echo $fname
	bname=${fname%\.bam}
	echo "bname"
	echo $bname
	
	samtools sort -o ${bname}.sorted.bam $fname
	samtools index ${bname}.sorted.bam
done