source: flex_extract.git/Templates/jobscript.template.bologna

#!/bin/bash

# ON ECS or HPC:
# start with ecaccess-job-submit -queueName <QUEUE_NAME> <NAME_OF_THIS_FILE>  on gateway server
# start with sbatch <NAME_OF_THIS_FILE> directly on machine

#SBATCH --chdir=/scratch/$username
#SBATCH --qos=el
#SBATCH --job-name=flex_extract
#SBATCH --output=flex_extract.%j.out
#SBATCH --error=flex_extract.%j.out
#SBATCH --mail-type=FAIL
#SBATCH --mail-user=$username
#SBATCH --time=24:00:00
## job output is in .ecaccess_DO_NOT_REMOVE

set -x
export VERSION=$version_number
case $$$${EC_CLUSTER} in
  *ecs*)
  module purge
  module load prgenv/gnu gcc/8.4.1
  module load python3
  module load ecmwf-toolbox
  module load ecaccess
  export PATH=$$$${PATH}:$fp_root_path
  ;;
  *hpc*)
  module purge
  module load prgenv/gnu gcc/8.4.1
  module load python3
  module load ecmwf-toolbox
  module load ecaccess
  export SCRATCH=$$$${TMPDIR}
  export PATH=$$$${PATH}:$fp_root_path
  ;;
esac

cd $$$${SCRATCH}
mkdir -p extract$$$$$$$$
cd extract$$$$$$$$

export CONTROL=CONTROL

cat >$$$${CONTROL}<<EOF
$$control_content
EOF


submit.py --controlfile=$$$${CONTROL} --inputdir=./work --outputdir=./work 1> prot 2>&1

if [ $? -eq 0 ] ; then
  l=0
  for muser in `grep -i MAILOPS $$$${CONTROL}`; do
      if [ $$$${l} -gt 0 ] ; then 
         mail -s flex.$$$${HOST}.$$$$$$$$ $$$${muser} <prot
         sleep 1
      fi
      l=$(($$$${l}+1))
  done
else
  l=0
  for muser in `grep -i MAILFAIL $$$${CONTROL}`; do
      if [ $$$${l} -gt 0 ] ; then 
         mail -s "ERROR! flex.$$$${HOST}.$$$$$$$$" $$$${muser} <prot
         sleep 1
      fi
      l=$(($$$${l}+1))
  done
fi