#!/bin/bash
#SBATCH --job-name=zL1112-3D-1
#SBATCH --output=zL1112-3D.1.out
#SBATCH --error=zL1112-3D.1.err
#SBATCH --time=160:00:00
#SBATCH -p akundaje,sfgf
#SBATCH --cpus-per-task=1
#SBATCH --mem=100000
./run-asm-pipeline.sh --sort-output --build-gapped-map -i 1000 /oak/stanford/groups/akundaje/marinovg/ENCODE4/datasets-gDNA/L1368-Galdieria_sulphuraria_gDNA/SPAdes-3.14-L1368-Galdieria_sulphuraria_gDNA/bwa-indexes/scaffolds.fa /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2020-01-23-Novogene-NovaSeq/juicer-L1112-Galdieria_sulphuraria_Hi-C/aligned/merged_nodups.txt