#!/bin/sh

# This is for running on EXPANSE

echo "CIPRES_NP=$CIPRES_NP"
echo "CIPRES_THREADSPP=$CIPRES_THREADSPP"
export SRUN_CPUS_PER_TASK=${SLURM_CPUS_PER_TASK}
export SINGULARITY_BIND="${PWD}:/mnt"

#module purge
module load singularitypro
module load openjdk/11.0.2


#include the whole path for the output file
cmdline="singularity exec -B $PWD:$PWD /expanse/projects/ngbt/opt/expanse/braker/braker3.sif  $*"
echo $cmdline
$cmdline 

for f in *; do
    if [[ -d $f ]]; then
        jar cvf ${f}.zip $f
        echo "archived subdir $f as ${f}.zip"
    fi
done
echo "... moving on"