#!/bin/sh

#SBATCH --account=def-pliang
#SBATCH --time=00:05:00

module load samtools bowtie2

#java -Xmx1G -jar ../../melt/MELT.jar BuildTransposonZIP rm_AluY_cons.fa rm10_Alu.bed ALU 10
#java -Xmx1G -jar ../../melt/MELT.jar BuildTransposonZIP rm10_L1_RS2_cons.fa rm10_L1.bed LINE1 3
#java -Xmx1G -jar ../../melt/MELT.jar BuildTransposonZIP rm10_MacSVA_cons.fa rheMac10.MacSVA.bed SVA 10
java -Xmx1G -jar ../../melt/MELT.jar BuildTransposonZIP rm10_ERVK2-int_cons.fa rm10_LTR.bed ERVK 10