./run-asm-pipeline.sh --sort-output --build-gapped-map -i 1000 /oak/stanford/groups/akundaje/marinovg/genomes/Eustygmatophyta/Nannochloropsis_oculata_CCMP525-ASM433545v1/sequence/GCA_004335455.1_ASM433545v1_genomic.fa /oak/stanford/groups/akundaje/marinovg/Symbiodinium/2019-10-06-NextSeq-run/juicer-L1110-Nannochloropsis_Hi-C/aligned/merged_nodups.txt &