#!/bin/bash
#SBATCH --job-name=z3D-01-1
#SBATCH --output=z3D-01.1.out
#SBATCH --error=z3D-01.1.err
#SBATCH --time=160:00:00
#SBATCH -p akundaje,sfgf
#SBATCH --cpus-per-task=1
#SBATCH --mem=100000
#SBATCH -C NO_GPU
./run-asm-pipeline.sh -r 20 --sort-output --build-gapped-map /oak/stanford/groups/akundaje/marinovg/papers/2024_ToL_Hi-C/2023-07-09/01-Dinoflagellata-Kryptoperidinium_triquetrum/hifiasm.hic.p_ctg.fa /oak/stanford/groups/akundaje/marinovg/papers/2024_ToL_Hi-C/2023-07-09/01-Dinoflagellata-Kryptoperidinium_triquetrum/juicer-hifiasm.hic.p_ctg/aligned/merged_nodups.txt