usage: rgi main [-h] -i INPUT_SEQUENCE -o OUTPUT_FILE [-t {contig,protein}] [-a {DIAMOND,BLAST}] [-n THREADS] [--include_loose] [--local] [--clean] [--debug] [--low_quality] [-d {wgs,plasmid,chromosome,NA}] [-v] [--split_prodigal_jobs] Resistance Gene Identifier - 4.2...