#!/usr/bin/env bash echo "runscript ece-ifs+nemo.sh has been replaced by ece-esm.sh, please edit proj_xxxx.conf" exit 1 set -xuve cd %CURRENT_ROOTDIR% # librunscript defines some helper functions source ./librunscript.sh # ============================================================================= # *** BEGIN User configuration # ============================================================================= # ----------------------------------------------------------------------------- # *** General configuration # ----------------------------------------------------------------------------- # Component configuration # (for syntax of the $config variable, see librunscript.sh) # get config from autosubmit variables [[ "%OCEAN_ini%" = *[!\ ]* ]] && start_from_restart=":start_from_restart" || start_from_restart="" [ "%LSPPT%" = TRUE ] && sppt="sppt" || sppt="" [ "%ATM_NUDGING%" = TRUE ] && atmnudg="atmnudg" || atmnudg="" [ "%OCE_NUDG%" = TRUE ] && ocenudg=":ocenudg" || ocenudg="" [ "%PISCES%" = TRUE ] && pisces="pisces" || pisces="" [ "%NEMO_remove_land%" = TRUE ] && elpin=":elpin" || elpin="" [ "%SURF_RESTO%" = TRUE ] && surfresto=":surfresto" || surfresto="" [ "%IFS_VEG_SOURCE%" == "" ] && ifs_veg_source="era20c" || ifs_veg_source="%IFS_VEG_SOURCE%" if [[ "%SAVE_IC%" = FALSE ]] || [[ "%SAVE_IC%" = "" ]] || [[ "%SAVE_IC%" = "%%SAVE_IC%%" ]]; then save_ic="" ; else save_ic="save_ic:%SAVE_IC%" ; fi config="ifs ${atmnudg} ${sppt} nemo${start_from_restart}${elpin}${surfresto}${ocenudg} ${pisces} lim3 rnfmapper xios:detached oasis ${save_ic}" # Experiment name (exactly 4 letters!) exp_name=[[[MOD:GENERAL:EXP_NAME]]] # Simulation start and end date. Use any (reasonable) syntax you want. run_start_date="[[[MOD:GENERAL:RUN_START_DATE]]]" run_end_date="[[[MOD:GENERAL:RUN_END_DATE]]]" # Simulation member. Use any (reasonable) syntax you want. member="%MEMBER%" # Set $force_run_from_scratch to 'true' if you want to force this run to start # from scratch, possibly ignoring any restart files present in the run # directory. Leave set to 'false' otherwise. # NOTE: If set to 'true' the run directory $run_dir is cleaned! force_run_from_scratch=[[[MOD:GENERAL:FORCE_RUN_FROM_SCRATCH]]] # Resolution ifs_grid=[[[MOD:IFS:GRID]]] nem_grid=[[[MOD:NEM:GRID]]] # Restart frequency. Use any (reasonable) number and time unit you want. # For runs without restart, leave this variable empty rst_freq="[[[MOD:GENERAL:RST_FREQ]]]" # Number of restart legs to be run in one go run_num_legs=[[[MOD:GENERAL:RUN_NUM_LEGS]]] # Directories start_dir=${PWD} ctrl_file_dir=${start_dir}/ctrl output_control_files_dir=${start_dir}/[[[MOD:GENERAL:OUTPUT_CONTROL_FILES_DIR]]] # Architecture build_arch=[[[PLT:ACTIVE:BUILD_ARCH]]] # This file is used to store information about restarts ece_info_file="ece.info" # ----------------------------------------------------------------------------- # *** Read platform dependent configuration # ----------------------------------------------------------------------------- source ./ecconf.cfg configure # ----------------------------------------------------------------------------- # *** Time step settings # ----------------------------------------------------------------------------- case "${ifs_grid}--${nem_grid}" in T159L*--ORCA1L*) ifs_time_step_sec=3600; nem_time_step_sec=2700; lim_time_step_sec=2700; cpl_freq_atm_oce_sec=10800 ;; T255L*--ORCA1L*) ifs_time_step_sec=2700; nem_time_step_sec=2700; lim_time_step_sec=2700; cpl_freq_atm_oce_sec=2700 ;; T511L*--ORCA025L*) ifs_time_step_sec=900 ; nem_time_step_sec=900 ; lim_time_step_sec=900 ; cpl_freq_atm_oce_sec=2700 ;; *) error "Can't set time steps for unknown combination of horizontal grids: ${ifs_grid}-${nem_grid}" ;; esac # ----------------------------------------------------------------------------- # *** IFS configuration # ----------------------------------------------------------------------------- ifs_version=36r4 ifs_di_freq=$(( 24 * 3600 / ifs_time_step_sec )) ifs_ddh_freq=$(( 120 * 3600 / ifs_time_step_sec )) ifs_res_hor=$(echo ${ifs_grid} | sed 's:T\([0-9]\+\)L\([0-9]\+\):\1:') ifs_res_ver=$(echo ${ifs_grid} | sed 's:T\([0-9]\+\)L\([0-9]\+\):\2:') ifs_numproc=[[[MOD:IFS:NUMPROC]]] ifs_exe_file=${ecearth_src_dir}/ifs-${ifs_version}/bin/ifsmaster-${build_arch} ifs_lastout=false ifs_cmip5=[[[MOD:IFS:CMIP5]]] ifs_cmip5_rcp=[[[MOD:IFS:CMIP5_RCP]]] ifs_cmip_fixyear=[[[MOD:IFS:CMIP_FIXYEAR]]] [ -z "${ifs_cmip_fixyear}" ] && ifs_cmip_fixyear=0 ifs_cmip6=[[[MOD:IFS:CMIP6]]] ifs_mac2sp=[[[MOD:IFS:CMIP6]]] ifs_cmip6piaer=[[[MOD:IFS:CMIP6]]] ifs_cmip6_scenario=[[[MOD:IFS:CMIP6_SCENARIO]]] lcmip6_strataer_simp=FALSE lcmip6_strataer_full=[[[MOD:IFS:CMIP6]]] lcmip6_strataer_bckgd=FALSE ifs_A4xCO2=[[[MOD:IFS:CMIP6_A4xCO2]]] ifs_1PCTCO2=[[[MOD:IFS:CMIP6_1PCTCO2]]] # Time-varying orbital forcing (Qiong Zhang, SU-2013-09) # https://dev.ec-earth.org/projects/ecearth3/wiki/Orbital_forcing_in_EC-Earth_3 # # ifs_orb_switch=FALSE, no orbital calculations applied # ifs_orb_switch=TRUE, use orbital calculations according to ifs_orb_mode # ifs_orb_mode="fixed_year", or "variable_year", or "fixed_parameters" # fixed_year: calculate the orbital parameters at ifs_orb_iyear, e.g.,1850 # variable_year: calculate orbital parameters annually start from ifs_orb_iyear # fixed_parameters: prescribe orbital parameters for given year ifs_orb_switch=FALSE ifs_orb_mode="variable_year" ifs_orb_iyear=$(date -u -d "${run_start_date}" +%Y) # IFS tuning parameters ifs_tuning_parameter_file=${ctrl_file_dir}/ifs-tuning-parameters-${ifs_grid}.sh if [ -f ${ifs_tuning_parameter_file} ] then source ${ifs_tuning_parameter_file} else error "Sorry, ${ifs_tuning_parameter_file} not found, exiting." fi # Select source of vegetation data: # ifs climatology from IFS # era20c vegetation from an off-line LPJ-Guess run forced with ERA20C # (currently available only for T255 and T159) # # set above in AS runtime case ${ifs_veg_source} in "ifs" ) # Use Lambert-Beer to compute effective vegetation cover n_compute_eff_veg_fraction=2 ;; "era20c" ) # LPJG vegetation is provided as effective cover # Don't use Lambert-Beer n_compute_eff_veg_fraction=0 ;; * ) error "Vegetation from ${ifs_veg_source} not implemented" ;; esac # use DMI land ice physics and varying snow albedo ifs_landice=false # ----------------------------------------------------------------------------- # *** NEMO/LIM configuration # ----------------------------------------------------------------------------- # This is only needed if the experiment is started from an existing set of NEMO # restart files nem_restart_file_path=${ini_data_dir} nem_restart_offset=0 nem_res_hor=$(echo ${nem_grid} | sed 's:ORCA\([0-9]\+\)L[0-9]\+:\1:') { has_config pisces && nem_config_name=${nem_grid}_LIM3_PISCES; } \ || nem_config_name=${nem_grid}_LIM3 nem_exe_file=${ecearth_src_dir}/nemo-3.6/CONFIG/${nem_config_name}/BLD/bin/nemo.exe nem_numproc=[[[MOD:NEM:NUMPROC]]] # ----------------------------------------------------------------------------- # *** Runoff mapper configuration # ----------------------------------------------------------------------------- rnf_exe_file=${ecearth_src_dir}/runoff-mapper/bin/runoff-mapper.exe rnf_numproc=1 # ----------------------------------------------------------------------------- # *** OASIS configuration # ----------------------------------------------------------------------------- # Restart files for the coupling fields (note 8 character limit in OASIS) # rstas.nc : atmosphere single-category fields # rstam.nc : atmosphere multi-category fields # rstos.nc : ocean single-category fields # rstom.nc : ocean multi-category fields oas_rst_files="rstas.nc rstos.nc" # Decide whether the OASIS weight files for interpolation should be linked from # the setup directory (true) or not (false). In the latter case, the weights # are re-computed at the start of the run. oas_link_weights=true # Flux correction for runoff (not calving) sent from Oasis to ocean. # 1.07945 is computed to compensate for a P-E=-0.016 mm/day oas_mb_fluxcorr=1.07945 # ----------------------------------------------------------------------------- # *** XIOS configuration # ----------------------------------------------------------------------------- xio_exe_file=${ecearth_src_dir}/xios-2.5/bin/xios_server.exe xio_numproc=[[[MOD:XIO:NUMPROC]]] # ----------------------------------------------------------------------------- # *** Extra initial conditions saved during the run # ----------------------------------------------------------------------------- if has_config save_ic then source ./libsave_ic.sh declare -a save_ic_date save_ic_date1 save_ic_sec save_ic_day save_ic_ppt_file save_ic_nemo_ts fi # ============================================================================= # *** END of User configuration # ============================================================================= # ============================================================================= # *** This is where the code begins ... # ============================================================================= # ----------------------------------------------------------------------------- # *** Create the run dir if necessary and go there # Everything is done from here. # ----------------------------------------------------------------------------- if [ ! -d ${run_dir} ] then mkdir -p ${run_dir} fi cd ${run_dir} # ----------------------------------------------------------------------------- # *** Determine the time span of this run and whether it's a restart leg # ----------------------------------------------------------------------------- # Regularise the format of the start and end date of the simulation run_start_date=$(date -uR -d "${run_start_date}") run_end_date=$(date -uR -d "${run_end_date}") # ----------------------------------------------------------------------------- # *** Set path to grib_set # ----------------------------------------------------------------------------- grib_set=${GRIB_BIN_PATH}${GRIB_BIN_PATH:+/}grib_set # Loop over the number of legs for (( ; run_num_legs>0 ; run_num_legs-- )) do # Check for restart information file and set the current leg start date # Ignore restart information file if force_run_from_scratch is true if ${force_run_from_scratch} || ! [ -r ${ece_info_file} ] then leg_is_restart=false leg_start_date=${run_start_date} leg_number=1 else leg_is_restart=true . ./${ece_info_file} leg_start_date=${leg_end_date} leg_number=$((leg_number+1)) fi # Compute the end date of the current leg if [ -n "${rst_freq}" ] then leg_end_date=$(date -uR -d "${leg_start_date} + ${rst_freq}") else leg_end_date=${run_end_date} fi if [[ "%CHUNK%" == "%Chunk_LAST%" ]] then leg_end_date=${run_end_date} ifs_lastout=true fi # Some time variables needed later leg_length_sec=$(( $(date -u -d "${leg_end_date}" +%s) - $(date -u -d "${leg_start_date}" +%s) )) leg_start_sec=$(( $(date -u -d "${leg_start_date}" +%s) - $(date -u -d "${run_start_date}" +%s) )) leg_end_sec=$(( $(date -u -d "${leg_end_date}" +%s) - $(date -u -d "${run_start_date}" +%s) )) leg_start_date_yyyymmdd=$(date -u -d "${leg_start_date}" +%Y%m%d) leg_start_date_yyyy=$(date -u -d "${leg_start_date}" +%Y) leg_end_date_yyyy=$(date -u -d "${leg_end_date}" +%Y) # Check whether there's actually time left to simulate - exit otherwise if [ ${leg_length_sec} -le 0 ] then info "Leg start date equal to or after end of simulation." info "Nothing left to do. Exiting." exit 0 fi # Initial conditions saved during the run do_save_ic=false save_ic_custom=false has_config save_ic && save_ic_get_config # if you do not use an option with save_ic, you must define 'do_save_ic' and # 'save_ic_date_offset' here or in ../libsave_ic.sh/save_ic_get_config() # with AS runtime, no need to edit the script, set SAVE_IC_OFFSET (and optionally SAVE_IC_COND) if $save_ic_custom then [[ "%SAVE_IC_COND%" = "" ]] || [[ "%SAVE_IC_COND%" = "%%SAVE_IC_COND%%" ]] \ && save_ic_cond=true || save_ic_cond='%SAVE_IC_COND%' if eval $save_ic_cond ; then do_save_ic=true ; else do_save_ic=false ; fi save_ic_date_offset=( %SAVE_IC_OFFSET% ) fi ${do_save_ic} && save_ic_define_vars # ------------------------------------------------------------------------- # *** Prepare the run directory for a run from scratch # ------------------------------------------------------------------------- if ! $leg_is_restart then # --------------------------------------------------------------------- # *** Check if run dir is empty. If not, and if we are allowed to do so # by ${force_run_from_scratch}, remove everything # --------------------------------------------------------------------- if $(ls * >& /dev/null) then if ${force_run_from_scratch} then rm -fr ${run_dir}/* else error "Run directory not empty and \$force_run_from_scratch not set." fi fi # --------------------------------------------------------------------- # *** Copy executables of model components # *** Additionally, create symlinks to the original place for reference # --------------------------------------------------------------------- cp ${ifs_exe_file} . ln -s ${ifs_exe_file} $(basename ${ifs_exe_file}).lnk cp ${nem_exe_file} . ln -s ${nem_exe_file} $(basename ${nem_exe_file}).lnk cp ${rnf_exe_file} . ln -s ${rnf_exe_file} $(basename ${rnf_exe_file}).lnk cp ${xio_exe_file} . ln -s ${xio_exe_file} $(basename ${xio_exe_file}).lnk # --------------------------------------------------------------------- # *** Files needed for IFS (linked) # --------------------------------------------------------------------- # Initial data ln -s \ ${ini_data_dir}/ifs/${ifs_grid}/${leg_start_date_yyyymmdd}/ICMGGECE3INIUA \ ICMGG${exp_name}INIUA ln -s \ ${ini_data_dir}/ifs/${ifs_grid}/${leg_start_date_yyyymmdd}/ICMSHECE3INIT \ ICMSH${exp_name}INIT rm -f ICMGG${exp_name}INIT cp ${ini_data_dir}/ifs/${ifs_grid}/${leg_start_date_yyyymmdd}/ICMGGECE3INIT \ ICMGG${exp_name}INIT # add bare_soil_albedo to ICMGG*INIT tempfile=tmp.$$ ${grib_set} -s dataDate=$(date -u -d "$run_start_date" +%Y%m%d) \ ${ini_data_dir}/ifs/${ifs_grid}/climate/bare_soil_albedos.grb \ ${tempfile} cat ${tempfile} >> ICMGG${exp_name}INIT rm -f ${tempfile} # add land ice mask if needed if ${ifs_landice} then tempfile=tmp.$$ cdo divc,10 -setcode,82 -selcode,141 ICMGG${exp_name}INIT ${tempfile} ${grib_set} -s gridType=reduced_gg ${tempfile} ${tempfile} cat ${tempfile} >> ICMGG${exp_name}INIT rm -f ${tempfile} fi # Other stuff ln -s ${ini_data_dir}/ifs/rtables/* . # Output control (ppt files) if [ ! -f ${output_control_files_dir}/pptdddddd0600 ] && [ ! -f ${output_control_files_dir}/pptdddddd0300 ];then echo "Error from ece-esm.sh: Neither the file pptdddddd0600 or pptdddddd0300 exists in the directory:" echo " " ${output_control_files_dir} exit -1 fi mkdir postins cp ${output_control_files_dir}/ppt* postins/ if [ -f postins/pptdddddd0600 ];then ln -s pptdddddd0600 postins/pptdddddd0000 ln -s pptdddddd0600 postins/pptdddddd1200 ln -s pptdddddd0600 postins/pptdddddd1800 fi if [ -f postins/pptdddddd0300 ];then ln -s pptdddddd0300 postins/pptdddddd0900 ln -s pptdddddd0300 postins/pptdddddd1500 ln -s pptdddddd0300 postins/pptdddddd2100 if [ ! -f postins/pptdddddd0600 ];then ln -s pptdddddd0300 postins/pptdddddd0000 ln -s pptdddddd0300 postins/pptdddddd0600 ln -s pptdddddd0300 postins/pptdddddd1200 ln -s pptdddddd0300 postins/pptdddddd1800 fi fi /bin/ls -1 postins/* > dirlist # --------------------------------------------------------------------- # *** Files needed for NEMO (linked) # --------------------------------------------------------------------- # Link initialisation files for matching ORCA grid for f in \ bathy_meter.nc coordinates.nc \ ahmcoef.nc \ K1rowdrg.nc M2rowdrg.nc mask_itf.nc \ decay_scale_bot.nc decay_scale_cri.nc \ mixing_power_bot.nc mixing_power_cri.nc mixing_power_pyc.nc \ runoff_depth.nc subbasins.nc do [ -f ${ini_data_dir}/nemo/initial/${nem_grid}/$f ] && ln -s ${ini_data_dir}/nemo/initial/${nem_grid}/$f done # Link geothermal heating file (independent of grid) and matching weight file ln -s ${ini_data_dir}/nemo/initial/Goutorbe_ghflux.nc ln -s ${ini_data_dir}/nemo/initial/weights_Goutorbe1_2_orca${nem_res_hor}_bilinear.nc # Link the salinity climatology file (needed for diagnostics) ln -s ${ini_data_dir}/nemo/climatology/${nem_grid}/sali_ref_clim_monthly.nc # Link either restart files or climatology files for the initial state if $(has_config nemo:start_from_restart) then # When linking restart files, we accept three options: # (1) Merged files for ocean and ice, i.e. # restart_oce.nc and restart_ice.nc # (2) One-file-per-MPI-rank, i.e. # restart_oce_????.nc and restart_ice_????.nc # No check is done whether the number of restart files agrees # with the number of MPI ranks for NEMO! # (3) One-file-per-MPI-rank with a prefix, i.e. # __restart_oce_????.nc (similar for the ice) # The prefix is ignored. # The code assumes that one of the options can be applied! If more # options are applicable, the first is chosen. If none of the # options apply, NEMO will crash with missing restart file. if ls -U ${nem_restart_file_path}/restart_[oi]ce.nc > /dev/null 2>&1 then ln -s ${nem_restart_file_path}/restart_[oi]ce.nc ./ elif ls -U ${nem_restart_file_path}/restart_[oi]ce_????.nc > /dev/null 2>&1 then ln -s ${nem_restart_file_path}/restart_[oi]ce_????.nc ./ else for f in ${nem_restart_file_path}/????_????????_restart_[oi]ce_????.nc do ln -s $f $(echo $f | sed 's/.*_\(restart_[oi]ce_....\.nc\)/\1/') done fi else # Temperature and salinity files for initialisation ln -s ${ini_data_dir}/nemo/climatology/absolute_salinity_WOA13_decav_Reg1L75_clim.nc ln -s ${ini_data_dir}/nemo/climatology/conservative_temperature_WOA13_decav_Reg1L75_clim.nc ln -s ${ini_data_dir}/nemo/climatology/weights_WOA13d1_2_orca${nem_res_hor}_bilinear.nc # Grid dependent runoff files case ${nem_grid} in ORCA1*) ln -s ${ini_data_dir}/nemo/climatology/runoff-icb_DaiTrenberth_Depoorter_ORCA1_JD.nc ;; ORCA025*) ln -s ${ini_data_dir}/nemo/climatology/ORCA_R025_runoff_v1.1.nc ;; esac fi # for ocean_nudging if $(has_config nemo:ocenudg) ; then ln -fs ${ini_data_dir}/nemo/oce_nudg/resto.nc ./ fi # XIOS files . ${ctrl_file_dir}/iodef.xml.sh > iodef.xml ln -s ${ctrl_file_dir}/context_nemo.xml ln -s ${ctrl_file_dir}/domain_def_nemo.xml ln -s ${ctrl_file_dir}/axis_def_nemo.xml ln -s ${ctrl_file_dir}/grids_def_nemo.xml ln -s ${ctrl_file_dir}/field_def_nemo-lim.xml ln -s ${ctrl_file_dir}/field_def_nemo-opa.xml ln -s ${ctrl_file_dir}/field_def_nemo-pisces.xml ln -s ${ctrl_file_dir}/field_def_nemo-inerttrc.xml ln -s ${output_control_files_dir}/file_def_nemo-lim3.xml file_def_nemo-lim.xml ln -s ${output_control_files_dir}/file_def_nemo-opa.xml ln -s ${output_control_files_dir}/file_def_nemo-pisces.xml if [ -f ${ini_data_dir}/xios/ORCA${nem_res_hor}/coordinates_xios.nc ] then cp ${ini_data_dir}/xios/ORCA${nem_res_hor}/coordinates_xios.nc ./ else info "File 'coordinates_xios.nc' not found. NEMO can not be run with land domain removal!" fi # --------------------------------------------------------------------- # *** Files needed for the Runoff mapper (linked) # --------------------------------------------------------------------- ln -s ${ini_data_dir}/runoff-mapper/runoff_maps.nc # --------------------------------------------------------------------- # *** Files needed for OASIS (linked) # --------------------------------------------------------------------- oas_grid_dir=${ini_data_dir}/oasis/T${ifs_res_hor}-ORCA${nem_res_hor} # Name table file ln -s ${ini_data_dir}/oasis/cf_name_table.txt # Grid definition files ln -s ${oas_grid_dir}/areas.nc ln -s ${oas_grid_dir}/grids.nc ln -s ${oas_grid_dir}/masks.nc # Weight files case ${ifs_res_hor} in 159) oas_agrd=080 ;; 255) oas_agrd=128 ;; 511) oas_agrd=256 ;; 799) oas_agrd=400 ;; *) error "Unsupported horizontal resolution (IFS): ${ifs_res_hor}" ;; esac case ${nem_res_hor} in 1) oas_ogrd=O1t0 ;; 025) oas_ogrd=Ot25 ;; *) error "Unsupported horizontal resolution (NEMO): ${nem_res_hor}" ;; esac if ${oas_link_weights} then for f in ${oas_grid_dir}/rmp_????_to_????_GAUSWGT.nc do ln -s $f done fi for f in ${oas_rst_files} do cp ${oas_grid_dir}/rst/$f . done else # i.e. $leg_is_restart == true # --------------------------------------------------------------------- # *** Remove all leftover output files from previous legs # --------------------------------------------------------------------- # IFS files rm -f ICM{SH,GG}${exp_name}+?????? # NEMO files rm -f ${exp_name}_??_????????_????????_{grid_U,grid_V,grid_W,grid_T,icemod,SBC,scalar,SBC_scalar}.nc fi # ! $leg_is_restart #-------------------------------------------------------------------------- # *** Surface restoring and ocean nudging options #-------------------------------------------------------------------------- #for ocean_nudging if $(has_config nemo:ocenudg) ; then ln -fs ${ini_data_dir}/nemo/oce_nudg/temp_sal_*.nc ./ fi #for surface restoring if $(has_config nemo:surfresto) ; then ln -fs ${ini_data_dir}/nemo/surface_restoring/sss_restore_data*.nc ./ ln -fs ${ini_data_dir}/nemo/surface_restoring/sst_restore_data*.nc ./ ln -fs ${ini_data_dir}/nemo/surface_restoring/mask_restore*.nc ./ fi # ------------------------------------------------------------------------- # *** Remove land grid-points # ------------------------------------------------------------------------- if $(has_config nemo:elpin) then if [ ! -f coordinates_xios.nc ] then error "ELpIN requested, but file 'coordinates_xios.nc' was not found" fi jpns=($(${ecearth_src_dir}/util/ELPiN/ELPiNv2.cmd ${nem_numproc})) info "nemo domain decompostion from ELpIN: ${jpns[@]}" nem_numproc=${jpns[0]} nem_jpni=${jpns[1]} nem_jpnj=${jpns[2]} else info "nemo original domain decomposition (not using ELPiN)" fi # ------------------------------------------------------------------------- # *** Initial conditions saved during the run # ------------------------------------------------------------------------- ${do_save_ic} && save_ic_prepare_output # ------------------------------------------------------------------------- # *** Create some control files # ------------------------------------------------------------------------- # IFS frequency output for namelist if [ -f postins/pptdddddd0300 ] then ifs_output_freq=$(( 3 * 3600 / ifs_time_step_sec )) elif [ -f postins/pptdddddd0600 ] then ifs_output_freq=$(( 6 * 3600 / ifs_time_step_sec )) else error "IFS output frequency undefined." fi # IFS, NEMO, LIM namelist and OASIS namcouple files . ${ctrl_file_dir}/namelist.ifs.sh > fort.4 . ${ctrl_file_dir}/namelist.nemo.ref.sh > namelist_ref . ${ctrl_file_dir}/namelist.nemo-${nem_grid}-coupled.cfg.sh > namelist_cfg . ${ctrl_file_dir}/namelist.lim3.ref.sh > namelist_ice_ref . ${ctrl_file_dir}/namelist.lim3-${nem_grid}.cfg.sh > namelist_ice_cfg . ${ctrl_file_dir}/namelist.runoffmapper.sh > namelist.runoffmapper . ${ctrl_file_dir}/namcouple.sh > namcouple # ------------------------------------------------------------------------- # *** Create ICMCL file with vegetation fields # ------------------------------------------------------------------------- tempfile=tmp.$$ case ${ifs_veg_source} in "ifs" ) # Vegetation from IFS (climatology) icmclfile=${ini_data_dir}/ifs/${ifs_grid}/climate/ICMCL_ONLY_VEG_PD # Create data for december, the year before the leg starts ${grib_set} \ -s dataDate=$(printf "%04d" $((leg_start_date_yyyy-1)))1215 \ ${icmclfile}-12 ICMCL${exp_name}INIT # Create data for all month in the years of the leg for (( y=${leg_start_date_yyyy} ; y<=${leg_end_date_yyyy} ; y++ )) do yy=$(printf "%04d" $y) for m in {1..12} do mm=$(printf "%02d" $m) ${grib_set} -s dataDate=${yy}${mm}15 ${icmclfile}-${mm} ${tempfile} cat ${tempfile} >> ICMCL${exp_name}INIT done done # Create data for january, the year after the leg ends ${grib_set} \ -s dataDate=$(printf "%04d" $((leg_end_date_yyyy+1)))0115 \ ${icmclfile}-01 ${tempfile} cat ${tempfile} >> ICMCL${exp_name}INIT ;; "era20c" ) # Vegetation from an off-line LPJG run forced with ERA20C (v16) rm -f ICMCL${exp_name}INIT # Create data for all years of the leg, including one year # before and one year after for (( yr=leg_start_date_yyyy-1 ; yr<=leg_end_date_yyyy+1 ; yr+=1 )) do if [ $ifs_cmip_fixyear -le 0 ] then cat ${ini_data_dir}/ifs/${ifs_grid}/icmcl_v16/icmcl_$yr.grb >> ICMCL${exp_name}INIT else # Fixed year forcing, requires cdo! # If cdo is not available at runtime you need to fix proper # icmcl files beforehand and use them here cdo setyear,$yr ${ini_data_dir}/ifs/${ifs_grid}/icmcl_v16/icmcl_${ifs_cmip_fixyear}.grb ${tempfile} cat ${tempfile} >> ICMCL${exp_name}INIT fi done ;; * ) error "Vegetation from ${ifs_veg_source} not implemented" ;; esac # Clean up rm -f ${tempfile} # ------------------------------------------------------------------------- # *** Link the appropriate NEMO restart files of the previous leg # ------------------------------------------------------------------------- if $leg_is_restart then ns=$(printf %08d $(( leg_start_sec / nem_time_step_sec - nem_restart_offset ))) for (( n=0 ; n> output/ifs/${prv_leg}/${f} rm -f ${f} else mv ${f} ${outdir} fi done # ------------------------------------------------------------------------- # *** Move NEMO output files to archive directory # ------------------------------------------------------------------------- outdir="output/nemo/$(printf %03d $((leg_number)))" mkdir -p ${outdir} for v in grid_U grid_V grid_W grid_T icemod SBC scalar SBC_scalar diad_T \ grid_T_2D grid_U_2D grid_V_2D grid_W_2D grid_T_3D grid_U_3D grid_V_3D grid_W_3D \ grid_1point grid_T_3D_ncatice vert_sum \ grid_ptr_W_3basin_3D grid_ptr_T_3basin_2D grid_ptr_T_2D \ zoom_700_sum zoom_300_sum zoom_2000_sum do for f in ${exp_name}_*_????????_????????_*${v}.nc do test -f $f && mv $f $outdir/ done done # ------------------------------------------------------------------------- # *** Move IFS restart files to archive directory # ------------------------------------------------------------------------- if $leg_is_restart then outdir="restart/ifs/$(printf %03d $((leg_number)))" mkdir -p ${outdir} # Figure out the time part of the restart files (cf. CTIME on rcf files) # NOTE: Assuming that restarts are at full days (time=0000) only! nd="$(printf %06d $((leg_start_sec/(24*3600))))0000" mv srf${nd}.???? ${outdir} fi # ------------------------------------------------------------------------- # *** Move NEMO restart files to archive directory # ------------------------------------------------------------------------- if $leg_is_restart then outdir="restart/nemo/$(printf %03d $((leg_number)))" mkdir -p ${outdir} ns=$(printf %08d $(( leg_start_sec / nem_time_step_sec - nem_restart_offset ))) for f in oce ice do mv ${exp_name}_${ns}_restart_${f}_????.nc ${outdir} done fi # ------------------------------------------------------------------------- # *** Copy OASIS restart files to archive directory # NOTE: These files are copied and not moved as they are used in the # next leg! # Note also that the OASIS restart files present at the end of # the leg correspond to the start of the next leg! # ------------------------------------------------------------------------- outdir="restart/oasis/$(printf %03d $((leg_number+1)))" mkdir -p ${outdir} for f in ${oas_rst_files} do test -f ${f} && cp ${f} ${outdir} done # ------------------------------------------------------------------------- # *** Copy rcf files to the archive directory (of the next leg!) # ------------------------------------------------------------------------- outdir="restart/ifs/$(printf %03d $((leg_number+1)))" mkdir -p ${outdir} for f in rcf do test -f ${f} && cp ${f} ${outdir} done # ------------------------------------------------------------------------- # *** Move log files to archive directory # ------------------------------------------------------------------------- outdir="log/$(printf %03d $((leg_number)))" mkdir -p ${outdir} for f in \ ifs.log ifs.stat fort.4 ocean.output \ time.step solver.stat \ nout.000000 debug.??.?????? A*_??.nc O*_??.nc lucia.??.?????? do test -f ${f} && mv ${f} ${outdir} done # ------------------------------------------------------------------------- # *** Write the restart control file # ------------------------------------------------------------------------- # Compute CPMIP performance sypd="$(cpmip_sypd $leg_length_sec $(($t2 - $t1)))" chpsy="$(cpmip_chpsy $leg_length_sec $(($t2 - $t1)) $(($ifs_numproc + $nem_numproc + $rnf_numproc + $xio_numproc)))" echo "#" | tee -a ${ece_info_file} echo "# Finished leg at `date '+%F %T'` after ${tr} (hh:mm:ss)" \ | tee -a ${ece_info_file} echo "# CPMIP performance: $sypd SYPD $chpsy CHPSY"| tee -a ${ece_info_file} echo "leg_number=${leg_number}" | tee -a ${ece_info_file} echo "leg_start_date=\"${leg_start_date}\"" | tee -a ${ece_info_file} echo "leg_end_date=\"${leg_end_date}\"" | tee -a ${ece_info_file} # Need to reset force_run_from_scratch in order to avoid destroying the next leg force_run_from_scratch=false done # loop over legs # ----------------------------------------------------------------------------- # *** Platform dependent finalising of the run # ----------------------------------------------------------------------------- finalise