#!/bin/bash
#SBATCH -t 24:00:00
#SBATCH --nodes=4 --ntasks-per-node=1
#SBATCH --mem=24g
#SBATCH --export=NONE
#SBATCH --mail-user=mramsey@uri.edu
#SBATCH --mail-type=BEGIN,END,FAIL

module load Bowtie2/2.3.5.1-GCC-8.3.0




genomedir=/data/mramseylab/genomes/
cmat1path=/data/mramseylab/genomes/cmat_atcc14266/
hpara1path=/data/mramseylab/genomes/hpara_392/
EL1path=/data/mramseylab/genomes/hpara_EL1/
anaespath=/data/mramseylab/genomes/a_naeslundii_atcc12104/




bowtie2-build -f /data/mramseylab/genomes/a_naeslundii_atcc12104/anaes.fa anaes