dnaseq_cluster.pbs

#!/bin/bash

#PBS -l walltime=72:00:00,nodes=1:ppn=1
#PBS -joe .
#PBS -d .
#PBS -l vmem=30g,mem=30g
#PBS -N crg2_pbs


#please change the following three variables according to your settings, as the recent crg2 repo is not copied over here


SF=~/crg2/Snakefile; 
CP="/hpf/largeprojects/ccm_dccforge/dccdipg/Common/snakemake";
PBS=~/crg2/pbs_profile;
CONFIG=config_hpf.yaml

source /hpf/largeprojects/ccm_dccforge/dccdipg/Common/anaconda3/etc/profile.d/conda.sh
conda activate snakemake

snakemake --use-conda -s ${SF} --conda-prefix ${CP}  --profile ${PBS} --configfile ${CONFIG} -p