# Platform dependent configuration functions for MareNostrum #(mnX.bsc.es) 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 # SCRATCH is not defined in MN3, define it here # and also make sure it is defined when compiling export SCRATCH=/gpfs/scratch/`id -gn`/${USER} # Configure paths for building/running EC-Earth ecearth_src_dir=[[[PLT:ACTIVE:ECEARTH_SRC_DIR]]] run_dir=[[[PLT:ACTIVE:RUN_DIR]]] ini_data_dir=[[[PLT:ACTIVE:INI_DATA_DIR]]] # File for standard output. # NOTE: This will be modified for restart jobs! stdout_file=${start_dir}/out/$(basename ${SLURM_JOB_NAME}).out # Resubmit this job for automatic restarts? [true/false] # Also, add options for the resubmit command here. resubmit_job=[[[PLT:ACTIVE:RESUBMIT_JOB]]] resubmit_opt="[[[PLT:ACTIVE:RESUBMIT_OPT]]]" # Configure grib api paths export GRIB_DEFINITION_PATH=[[[PLT:ACTIVE:ECEARTH_SRC_DIR]]]/util/grib_table_126:[[[PLT:ACTIVE:GRIBAPI_BASE_DIR]]]/[[[PLT:ACTIVE:GRIBAPI_DEFINITION_SUBDIR]]] export GRIB_SAMPLES_PATH=[[[PLT:ACTIVE:GRIBAPI_BASE_DIR]]]/[[[PLT:ACTIVE:GRIBAPI_SAMPLES_SUBDIR]]] export GRIB_BIN_PATH=[[[PLT:ACTIVE:GRIBAPI_BASE_DIR]]]/[[[PLT:ACTIVE:GRIBAPI_BIN_SUBDIR]]] # Configure number of processors per node proc_per_node=[[[PLT:ACTIVE:PROC_PER_NODE]]] # Configure and load modules pre_load_modules_cmd="[[[PLT:ACTIVE:PRE_LOAD_MODULES_CMD]]]" module_list="[[[PLT:ACTIVE:MODULE_LIST]]]" if [ -n "${module_list}" ] then set +eu if [ -n "${pre_load_modules_cmd}" ] then ${pre_load_modules_cmd} fi for m in "${module_list}" do module add $m done set -eu fi # Add directories to the shared library search path if [ -n "[[[PLT:ACTIVE:ADD_TO_LD_LIBRARY_PATH]]]" ] then export LD_LIBRARY_PATH=${LD_LIBRARY_PATH:+${LD_LIBRARY_PATH}:}"[[[PLT:ACTIVE:ADD_TO_LD_LIBRARY_PATH]]]" fi ulimit -s unlimited } function launch() { cmd="mpirun" while (( "$#" )) do # Get number of MPI ranks and executable name nranks=$1 executable=./$(basename $2) shift shift cmd+=" -np $nranks $executable" # Add any arguments to executable while (( "$#" )) && [ "$1" != "--" ] do cmd+=" $1" shift done shift || true # Add colon of more executables follow (( "$#" )) && cmd+=" :" done export OMP_NUM_THREADS=1 export I_MPI_ADJUST_BCAST=3 export PSM2_MTU=8196 export PSM2_MEMORY=large export PSM2_MQ_RNDV_HFI_THRESH=1 export I_MPI_DEBUG=5 export LD_LIBRARY_PATH="/apps/PSM2/10.3-37/usr/lib64:$LD_LIBRARY_PATH" export I_MPI_FABRIC=tmi echo SLURM_JOB_ID: $SLURM_JOB_ID $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 ${start_dir} # Submit command # Note: This does not work if you explicitely specify a job name! # bsub -n ${SLURM_JOB_NUM_NODES} \ # -w ${SLURM_JOB_ID} \ # -oo ${run_dir}/$(basename ${stdout_file}).$(printf %03d $((leg_number+1))) \ # ${resubmit_opt} \ # ${SLURM_JOB_NAME} fi }