#!/bin/bash
#SBATCH --job-name=zJuAc-1
#SBATCH --output=zJuAc.1.out
#SBATCH --error=zJuAc.1.err
#SBATCH --time=160:00:00
#SBATCH -p akundaje,sfgf,wjg
#SBATCH --cpus-per-task=16
#SBATCH --mem=100000
#SBATCH -C NO_GPU
export PATH=/oak/stanford/groups/akundaje/marinovg/programs/bwa-0.7.17:$PATH; module load system; module load parallel/20180122; module load java; export PATH=$PATH:/oak/stanford/groups/akundaje/marinovg/programs/juicer_tools.2.13.07/; scripts/juicer.sh -t 20 -D /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2023-12-21-Amphidinium_carteri_Hi-C/juicer-Amphidinium_carterae-Acart.genome.v1-Hi-C-scaffold.FINAL-r10 -d /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2023-12-21-Amphidinium_carteri_Hi-C/juicer-Amphidinium_carterae-Acart.genome.v1-Hi-C-scaffold.FINAL-r10 -p /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2023-12-21-Amphidinium_carteri_Hi-C/juicer-Amphidinium_carterae-Acart.genome.v1-Hi-C-3D_DNA-r10/Acart.genome.v1.FINAL.chrom.sizes -y none -s none -z /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2023-12-21-Amphidinium_carteri_Hi-C/juicer-Amphidinium_carterae-Acart.genome.v1-Hi-C-3D_DNA-r10/bwa-indexes/Acart.genome.v1.FINAL.fa