ecearth_patch/util/special_restart_example_ecconf.sh

# Platform dependent configuration functions for the 'zenobe' machine
#(zenobe.hpc.cenaero.be)

function configure()
{
    # This function should configure all settings/modules needed to
    # later prepare the EC-Earth run directory and set variables used
    # in the run script


    # Configure paths for building/running EC-Earth
    ecearth_src_dir=${HOME}/modeles/ecearth/sources
    run_dir=/SCRATCH/acad/ecearth/${USER}/run/${exp_name}
    ini_data_dir=/SCRATCH/acad/ecearth/DATA

    # File for standard output.
    # NOTE: This will be modified for restart jobs!
    stdout_file=${PBS_O_WORKDIR-$PWD}/${PBS_JOBNAME-"local"}_${PBS_JOBID-"id"}.log

    # Resubmit this job for automatic restarts? [true/false]
    # Also, add options for the resubmit command here.
    resubmit_job=true
    resubmit_opt=""

    # Configure GRIBEX paths
    export LOCAL_DEFINITION_TEMPLATES=/projects/acad/ecearth/opt/gribex/lib/gribtemplates
    export ECMWF_LOCAL_TABLE_PATH=/projects/acad/ecearth/opt/gribex/lib/gribtables

    # Configure grib api paths
    export GRIB_DEFINITION_PATH=/projects/acad/ecearth/opt/grib_api/share/definitions
    export GRIB_SAMPLES_PATH=/projects/acad/ecearth/opt/grib_api/share/ifs_samples/grib1
    export GRIB_BIN_PATH=/projects/acad/ecearth/opt/grib_api/bin

    # Configure number of processors per node
    proc_per_node=24

    # Configure and load modules
    pre_load_modules_cmd="module purge"
    module_list="compiler compiler/intel/comp_and_lib/2016.2.181 intelmpi/5.1.3.181/64 hdf5/1.8.18-el6/intel_2016.2.181/intelmpi_5.1.3.181"

    if [ -n "${pre_load_modules_cmd}" ]
    then
        ${pre_load_modules_cmd}
    fi
    module load ${module_list}

    # Add directories to the shared library search path
    export LD_LIBRARY_PATH=${LD_LIBRARY_PATH:+${LD_LIBRARY_PATH}:}"/projects/acad/ecearth/opt/grib_api/lib:/projects/acad/ecearth/opt/openjpeg/lib:/projects/acad/ecearth/opt/netcdf/4.4.1.1_ivy_2016.2.181/lib"

}

function launch()
{
    # Compute and check the node distribution
    info "======================="
    info "Node/proc distribution:"
    info "-----------------------"
    info "IFS:   ${ifs_numproc}"
    info "NEMO:  ${nem_numproc}"
    info "XIOS:  ${xio_numproc}"
    info "======================="

    cmd="mpirun"

    while (( "$#" ))
    do
        nranks=$1
        executable=./$(basename $2)
        shift
        shift

        cmd+=" -n $nranks $executable"

        while (( "$#" )) && [ "$1" != "--" ]
        do
            cmd+=" $1"
            shift
        done
        shift || true

        (( "$#" )) && cmd+=" :"
    done

    #export OMP_NUM_THREADS=1
    pwd
    echo $cmd
    #exit
    $cmd
}

function finalise()
{
    # This function should execute of any post run functionality, e.g.
    # platform dependent cleaning or a resubmit

    if ${resubmit_job} && [ $(date -d "${leg_end_date}" +%s) -lt $(date -d "${run_end_date}" +%s) ]
    then
        info "Resubmitting job for leg $((leg_number+1))"
        # Need to go to start_dir to find the run script
        cd ${PBS_O_WORKDIR}  # same as $start_dir

        cp ./${PBS_JOBNAME} ./${PBS_JOBNAME}.$$
     
        sed "s:force_run_from_scratch=true:force_run_from_scratch=false:" \
            <./${PBS_JOBNAME}.$$ \
            >./${PBS_JOBNAME}

        cp -f ./${PBS_JOBNAME} ./${PBS_JOBNAME}.$$

        sed "s:special_restart=true:special_restart=false:" \
            <./${PBS_JOBNAME}.$$ \
            >./${PBS_JOBNAME}

        \rm -f ./${PBS_JOBNAME}.$$

        # Submit command
        set -x
        qsub ./${PBS_JOBNAME}
        set +x
    else
        info "Not resubmitting."
    fi
}