-1
/gscratch/scrubbed/samwhite/outputs/20190415_metagenomics_pgen_megahit/pH71.all.R1.fq.gz
-2
/gscratch/scrubbed/samwhite/outputs/20190415_metagenomics_pgen_megahit/pH71.all.R2.fq.gz
--num-cpu-threads
28
--out-prefix
pH71
MEGAHIT_TEMP_DIR: ./megahit_out/tmp/