module load bbtools
bbmask.sh -Xmx31g in=/global/scratch2/sd/vrsingan/PlantQC/AACZY/GCF_000001635.23_GRCm38.p3_genomic.fna.gz out=mouse_masked.fa.gz pigz=32 zl=10 unpigz sam=mapped_plant.sam.gz,mapped_fungus.sam.gz maskrepeats
