gfastats_hifi_parental_scaffolds.pbs

#!/bin/bash

#PBS -q condo05
#PBS -l select=1:ncpus=32:mem=250GB
#PBS -l walltime=168:00:00
#PBS -W group_list=x-ccast-prj-hulke
#PBS -N gfastats

cd /mmfs1/projects/brent.hulke/MutagenesisSmart/HudsonAlpha/HifiParentalIlluminaOmniCAssembly

echo "Haplotype 1"
/mmfs1/projects/brent.hulke/MutagenesisSmart/HudsonAlpha/gfastats/build/bin/gfastats /mmfs1/projects/brent.hulke/MutagenesisSmart/HudsonAlpha/HifiParentalIlluminaOmniCAssembly/yahs_scaffolding_trio_hap1/yahs.out_scaffolds_final_hap1.fa --threads 16 &

echo "\n\n\n\n\nHaplotype 2"
/mmfs1/projects/brent.hulke/MutagenesisSmart/HudsonAlpha/gfastats/build/bin/gfastats /mmfs1/projects/brent.hulke/MutagenesisSmart/HudsonAlpha/HifiParentalIlluminaOmniCAssembly/yahs_scaffolding_trio_hap2/yahs.out_scaffolds_final_hap2.fa --threads 16