running batch jobs on talon cluster ----> RepeatMasker

#!/bin/bash DIR=/users/prm0080/RepeatMasker/RepeatMasker/HMP_Bacteria_ContigCombine2 J=0 K=1 for i in $DIR/* do files[$J]=$i let J=$J+$K done #BSUB -J “jobArray[1-560]” #BSUB -n 1 #BSUB -M 2 #BSUB -e mothur.%J.err output error file; %J=job number

$LSB_JOBINDEX

#Run the application /users/prm0080/RepeatMasker/RepeatMasker/RepeatMasker ${files[$LSB_JOBINDEX]} -dir $DIR/suresh/