#!/bin/bash
#SBATCH --job-name=zJ-Bn-1k-1
#SBATCH --output=zJ-Bn-1k.1.out
#SBATCH --error=zJ-Bn-1k.1.err
#SBATCH --time=160:00:00
#SBATCH -p akundaje,sfgf
#SBATCH --cpus-per-task=16
#SBATCH --mem=100000
module load java; java -Xmx40G -jar juicer_tools.jar pre -r 2500000,1000000,500000,250000,100000,50000,25000,10000,5000,1000,500 -q 1 aligned/merged_nodups.txt aligned/inter_1K.hic /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-Hi-C/L1330-Bigelowiella_natans_Hi-C_MluCI/final-post-review/Bigelowiella_natans_CCMP2755_v1.0.20+chrM+chrC+NM.FINAL.renamed.chrom.sizes