#!/bin/bash # # Job options # #SBATCH --job-name=EC00 #SBATCH --time=12:00:00 #SBATCH --account=ecearth # #SBATCH --nodes=4 #SBATCH --exclusive ##SBATCH --ntasks=1320 #SBATCH --ntasks-per-node=102 #SBATCH --partition=batch # set -ueo pipefail # LOCAL_NODES=4 LOCAL_TASKS=408 # stdout_file=${SLURM_SUBMIT_DIR-$PWD}/${SLURM_JOB_NAME-"local"}_${SLURM_JOB_ID-"id"}.log exec > ${stdout_file} echo "------------------ Job Info --------------------" echo "jobid : ${SLURM_JOB_ID-"id"}" echo "jobname : ${SLURM_JOB_NAME-"local"}" echo "nodename : ${SLURMD_NODENAME-"local"}" echo "# nodes : ${SLURM_JOB_NUM_NODES-$LOCAL_NODES}" echo "# tasks : ${SLURM_NTASKS-$LOCAL_TASKS}" echo "submit dir : ${SLURM_SUBMIT_DIR-$PWD}" set -ue # # Cluster variables # NB_CORES_PER_NODES=128 MAX_CORES_PER_NODES=100 LIST_CORES_SOCKET=`seq -s',' 0 $((NB_CORES_PER_NODES-1))` # # Directories start_dir=${SLURM_SUBMIT_DIR-$PWD} # librunscript defines some helper functions . ${start_dir}/librunscript.sh # ============================================================================= # *** BEGIN User configuration # ============================================================================= # ----------------------------------------------------------------------------- # *** General configuration # ----------------------------------------------------------------------------- # Component configuration (for syntax of the $config variable, see librunscript.sh) # # Currently maintained: # config="ifs amip oasis" # "GCM forced-SST" : IFS + AMIP # config="ifs amip oasis lpjg:fdbck" # "Veg" : forced-GCM + LPJ-Guess # config="ifs amip oasis tm5:chem,o3fb,ch4fb,aerfb" # "AerChem" : forced-GCM + TM5 # # config="ifs nemo lim3 rnfmapper xios:detached oasis" # "GCM" : IFS+NEMO # config="ifs nemo lim3 rnfmapper xios:detached oasis lpjg:fdbck" # "Veg" : GCM+LPJ-Guess # config="ifs nemo lim3 rnfmapper xios:detached oasis pisces lpjg:fdbck tm5:co2,co2fb" # "C-cycle" : GCM+LPJG+TM5 # config="ifs nemo lim3 rnfmapper xios:detached oasis tm5:chem,o3fb,ch4fb,aerfb" # "AerChem" : GCM+TM5 # # config="ifs nemo pisces lim3 rnfmapper xios:detached oasis" # "GCM" : IFS+NEMO+PISCES # config="ifs nemo lim3 rnfmapper xios:detached oasis" # minimum sanity has_config amip nemo && error "Cannot have both nemo and amip in config!!" ! has_config ifs && error "The ESM script requires ifs in config" # Experiment name (exactly 4 letters!) export exp_name=EC00 # Simulation start and end date. Use any (reasonable) syntax you want. run_start_date="1850-01-01" run_end_date="${run_start_date} + 10 years" # 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 $run_dir is cleaned! force_run_from_scratch=true special_restart=false special_restart_from=ECE3 special_restart_date="1995-01-01" # Resolution (TM5 resolution is set at compilation) ifs_grid=T255L91 nem_grid=ORCA1L75 # Restart frequency. Use any (reasonable) number and time unit you want. # For runs without restart, leave this variable empty rst_freq="1 year" # Number of restart legs to be run in one go run_num_legs=2 # Coupling frequencies has_config ifs tm5 && cpl_freq_atm_ctm_hrs=6 has_config ifs lpjg && cpl_freq_atm_lpjg_hrs=24 # Don't change the coupling frequency because UPDCLIE (where SST and SIC # are updated) is called every 24 hours (hardcoded in ifs-36r4/src/ifs/utility/updtim.F90) has_config amip && cpl_freq_amip_sec=86400 # Directories #start_dir=${PWD} ctrl_file_dir=${start_dir}/ctrl output_control_files_dir=${start_dir}/ctrl # Architecture build_arch=ecconf use_machinefile=%USE_MACHINEFILE% # This file is used to store information about restarts ece_info_file="ece.info" # ----------------------------------------------------------------------------- # *** Read platform dependent configuration # ----------------------------------------------------------------------------- . ${start_dir}/ecconf.cfg configure # ----------------------------------------------------------------------------- # *** Time step settings # ----------------------------------------------------------------------------- if has_config ifs then case "${ifs_grid}" in T159L*) ifs_time_step_sec=3600 ;; T255L*) ifs_time_step_sec=2700 ;; T511L*) ifs_time_step_sec=900 ;; *) error "Can't set time steps for unknown horizontal grid: ${ifs_grid}" ;; esac fi if has_config nemo then case "${nem_grid}" in ORCA1L*) nem_time_step_sec=2700; lim_time_step_sec=2700 ;; ORCA025L*) nem_time_step_sec=900 ; lim_time_step_sec=900 ;; *) error "Can't set time steps for unknown horizontal grid: ${nem_grid}" ;; esac fi if has_config ifs nemo then case "${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 fi # ----------------------------------------------------------------------------- # *** IFS configuration # ----------------------------------------------------------------------------- ifs_version=36r4 ifs_di_freq=$(( 24 * 3600 / ifs_time_step_sec )) ifs_ddh_freq=$(( 120 * 3600 / ifs_time_step_sec )) export 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=802 ifs_numproc=320 ifs_exe_file=${ecearth_src_dir}/ifs-${ifs_version}/bin/ifsmaster-${build_arch} ifs_lastout=false # USE FORCING FROM CMIP5 (SOLAR, GHG, AEROSOL, O3) ifs_cmip5=TRUE # SWITCH FOR RCP AND HISTORICAL RUNS FOR CMIP5 (0=HISTO 1=RCP 3-PD, 2=RCP 4.5, 3=RCP 6.0, 4=RCP 8.5) ifs_cmip5_rcp=0 # 1PCTCO2 and A4XCO2 should operate together with ifs_cmip_fixyear years, ie., the baseline GHGs level will use that for year ifs_cmip_fixyear export ifs_cmip_fixyear=0 export ifs_cmip_fixyear_ch4=0 # Repeat trap from ifs/suecrad.F90 for early catch if ! has_config tm5:ch4fb && (( $ifs_cmip_fixyear != $ifs_cmip_fixyear_ch4 )) then error 'CH4 in IFS is not provided by TM5, NCMIPFIXYR_CH4 should be set equal to NCMIPFIXYR' fi # USE FORCING FROM CMIP6 (HAS PRIORITY OVER LCMIP5) ifs_cmip6=TRUE # MAC-SP anthropogenic simple plume model (parameterization of anthropogenic aerosol optical properties) ifs_mac2sp=TRUE # Use CMIP6 prescribed preindustrial aerosol ifs_cmip6piaer=TRUE # !! scenario 'historical' max 2014 # 1850 (o3_pi) # 1850 --> 2014 (o3_histo) # !! other scenarios (> 2014), default: SSP3-7.0 # SSP1-1.9, SSP1-2.6, SSP1-2.6-Ext, SSP2-4.5, SSP3-7.0, SSP3-LowNTCF, SSP4-3.4, SSP5-3.4-OS, SSP4-6.0, SSP5-3.4-OS-Ext, SSP5-8.5, SSP5-8.5-Ext ifs_cmip6_scenario=historical # Enable optional COVID-19 scenarios, will enforce ifs_cmip6_scenario=SSP2-4.5 ifs_covid19=FALSE # Choose one scenario : Base TwoYearBlip ModerateGreen StrongGreen FossilFuel ifs_covid19scen=Base # Basic sanity checks if [ ${ifs_covid19} == TRUE ] ; then [ ${ifs_cmip6_scenario} != SSP2-4.5 ] && echo "*WARNING* with ifs_covid19=TRUE IFS uses ifs_cmip6_scenario=SSP2-4.5 not ${ifs_cmip6_scenario}" has_config any lpjg pisces tm5 && error "ifs_covid19=TRUE is not supported with LPJ-GUESS, PISCES nor TM5" fi # Read CMIP6 stratospheric aerosol data file, vertically integrated version lcmip6_strataer_simp=FALSE lcmip6_strataer_full=TRUE lcmip6_strataer_bckgd=FALSE # for an abrupt increase of CO2 to 4x the starting year (ifs_cmip_fixyear) export ifs_A4xCO2=FALSE # for an 1% per year increase of CO2 until reaching 4x the starting year (ifs_cmip_fixyear) export ifs_1PCTCO2=FALSE export bgc_1PCTCO2=FALSE # Time-varying orbital forcing (Qiong Zhang, SU-2013-09) # https://dev.ec-earth.org/projects/ecearth3/wiki/Orbital_forcing_in_EC-Earth_3 # # ifs_orb_switch=false, no orbital calculations applied # ifs_orb_switch=true, use orbital calculations according to ifs_orb_mode # ifs_orb_mode="fixed_year", or "variable_year", or "fixed_parameters" # fixed_year: calculate the orbital parameters at ifs_orb_iyear, e.g.,1850 # variable_year: calculate orbital parameters annually start from ifs_orb_iyear # fixed_parameters: prescribe orbital parameters for given year case "${ifs_grid}" in T159*) ifs_orb_switch=true ;; *) ifs_orb_switch=false ;; esac ifs_orb_mode="variable_year" ifs_orb_iyear=$(date -u -d "${run_start_date}" +%Y) # Relaxation of soil moisture (Wilhelm May, LU; October 2017) # # LRXSM: Parameter indicating the levels to be nudged # # LRXSM = 0: no nudging # LRXSM = 12: 4xdaily data and 3 levels (excluding level 1) # LRXSM = 13: 4xdaily data and 4 levels # # LRXSMTx: time scale of the relaxation for level X (in hours) # # LRXSMTx = 0: actual values relpaced by external ones # LRXSMTx = 24: 1 day # LRXSMTx = 120: 5 days # # LRXSMS: indicates when the relaxation is done # # LRXSMS = 0: before the time step # LRXSMS = 1: after the time step # has_config soilnudg && ifs_lrxsm=13 || ifs_lrxsm=0 ifs_lrxsmt1=96 ifs_lrxsmt2=72 ifs_lrxsmt3=48 ifs_lrxsmt4=24 ifs_lrxsms=1 # IFS tuning parameters variant= has_config tm5:chem && variant=-AerChem ifs_tuning_parameter_file=${ctrl_file_dir}/ifs-tuning-parameters-${ifs_grid}${variant}.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) # cmip6 vegetation from an EC-Earth3-Veg (interactive LPJ-Guess) run # (currently available only for T255) # custom_exp vegetation from any EC-Earth3-Veg run exp # (must contain same variables as era20c & cmip6 and located in icmcl_exp folder) # none don't create an ICMCL file with vegetation data (this is set # automatically if LPJG is used with feedback) # ifs_veg_source="cmip6" has_config lpjg:fdbck && ifs_veg_source="none" case ${ifs_veg_source} in "ifs" ) # Use Lambert-Beer to compute effective vegetation cover n_compute_eff_veg_fraction=2 ;; "era20c" ) # LPJG vegetation is provided as effective cover # Don't use Lambert-Beer n_compute_eff_veg_fraction=0 case "${ifs_grid}" in T159L*) veg_version=v29 ;; T255L*) veg_version=v16 ;; *) error "Vegetation from off-line LPJ-Guess not available for ${ifs_grid}" ;; esac ;; "cmip6" ) # LPJG vegetation is provided as effective cover # Don't use Lambert-Beer n_compute_eff_veg_fraction=0 case "${ifs_grid}" in T255L*) veg_version=v32 ;; *) error "Vegetation from CMIP6 EC-Earth3-Veg not available for ${ifs_grid}" ;; esac ;; "custom_"* ) # LPJG vegetation is provided as effective cover # Don't use Lambert-Beer n_compute_eff_veg_fraction=0 veg_version=${ifs_veg_source:7} if [ ! -d ${ini_data_dir}/ifs/${ifs_grid}/icmcl_${veg_version} ] then error "requested IFS_VEG_SOURCE = ${ifs_veg_source} but not found in ${ini_data_dir}/ifs/${ifs_grid}/icmcl_${veg_version}" fi ;; "none" ) # LPJG with feedback n_compute_eff_veg_fraction=0 ! has_config lpjg:fdbck && error "IFS requires an offline source of vegetation" ;; * ) error "Vegetation from ${ifs_veg_source} not implemented" ;; esac # use DMI land ice physics and varying snow albedo case "${ifs_grid}" in T159*) ifs_landice=true ;; *) ifs_landice=false ;; esac # ----------------------------------------------------------------------------- # *** NEMO/LIM configuration # ----------------------------------------------------------------------------- # This is only needed if the experiment is started from an existing set of NEMO # restart files nem_restart_file_path=${start_dir}/nemo-rst nem_restart_offset=0 nem_res_hor=$(echo ${nem_grid} | sed 's:ORCA\([0-9]\+\)L[0-9]\+:\1:') nem_config=${nem_grid} has_config lim3 && nem_config=${nem_config}_LIM3 if has_config pisces tm5:co2 then nem_config=${nem_config}_CarbonCycle elif has_config pisces then nem_config=${nem_config}_PISCES fi # TODO - nemo standalone configs are not accounted for in this script, but this would set the required nem_config ! has_config ifs && nem_config=${nem_config}_standalone nem_exe_file=${ecearth_src_dir}/nemo-3.6/CONFIG/${nem_config}/BLD/bin/nemo.exe #nem_numproc=388 nem_numproc=86 # Thermal conductivity of snow, see comment in ctrl/namelist.lim3.ref.sh case "${ifs_grid}" in T159L* ) nem_rn_cdsn=0.25 ;; * ) nem_rn_cdsn=0.27 ;; esac # ----------------------------------------------------------------------------- # *** Runoff mapper configuration # ----------------------------------------------------------------------------- rnf_exe_file=${ecearth_src_dir}/runoff-mapper/bin/runoff-mapper.exe rnf_numproc=1 # ----------------------------------------------------------------------------- # *** LPJ-GUESS configuration # ----------------------------------------------------------------------------- lpjg_time_step_sec=86400 lpjg_numproc=32 has_config lpjg && lpjg_on=1 has_config lpjg:fdbck && lpjg_fdbck=1 has_config tm5:co2 && lpjg_fdbck_tm5=1 || lpjg_fdbck_tm5=0 export lpjg_fixNdepafter=-1 export lpjg_fixLUafter=-1 info '!!!! CMIP FIX YEAR SETTINGS:' info "ifs_cmip_fixyear: $ifs_cmip_fixyear" info "lpjg_fixNDepAfter: $lpjg_fixNdepafter" info "lpjg_fixLUAfter: $lpjg_fixLUafter" info '!!!!' lpjg_res=T${ifs_res_hor} lpjg_exe_file=${ecearth_src_dir}/lpjg/build/guess_${lpjg_res} # ----------------------------------------------------------------------------- # *** AMIP-reader configuration # ----------------------------------------------------------------------------- amip_exe_file=${ecearth_src_dir}/amip-forcing/bin/amip-forcing.exe amip_numproc=1 # ----------------------------------------------------------------------------- # *** TM5 configuration # ----------------------------------------------------------------------------- if $(has_config tm5) then # With TM5, NPRTRV is set to 1 in the namelist. To avoid some out-of-bound # arrays in IFS, we must limit the number of cores for IFS if (( ifs_numproc > (ifs_res_hor+1) )) then error "too much cores requested for IFS, max is $((ifs_res_hor+1))" fi # TM5 settings has_config tm5:co2 && tmversion="co2" || tmversion="cb05" has_config tm5:co2 && export tm5_co2=1 || export tm5_co2=0 export tm5_exch_nlevs=10 tm5_time_step_sec=3600 export tm5_numproc_x=2 export tm5_numproc_y=45 tm5_numproc=$(( tm5_numproc_x * tm5_numproc_y )) export tm5_emiss_fixyear=0 # limited number of levels for feedback (aerosols, currently set to lmax_conv in TM5) case ${tm5_exch_nlevs} in 34) export tm5_exch_nlevs_cutoff=23 ;; 10) export tm5_exch_nlevs_cutoff=10 ;; 4) export tm5_exch_nlevs_cutoff=4 ;; *) error "not supported number of levels for TM5" esac # executable tm5_exe_file=${ecearth_src_dir}/tm5mp/build-${tmversion}-ml${tm5_exch_nlevs}/appl-tm5-${tmversion}.x # path to initial conditions, modify as needed tm5_restart_file_path=${ini_data_dir}/tm5/restart/${tmversion}-ml${tm5_exch_nlevs} # fields sent back to IFS has_config tm5:o3fb && tm5_to_ifs=O3 || tm5_to_ifs= has_config tm5:ch4fb && tm5_to_ifs=${tm5_to_ifs},CH4 has_config tm5:aerfb && tm5_to_ifs=${tm5_to_ifs},"\ N2,SU2,BC2,OC2,N3,SU3,BC3,OC3,SS3,DU3,\ N4,SU4,BC4,OC4,SS4,DU4,N5,BC5,OC5,N6,DU6,N7,DU7,\ NO3,MSA,\ AOD_01,AOD_02,AOD_03,AOD_04,AOD_05,AOD_06,AOD_07,AOD_08,AOD_09,AOD_10,AOD_11,AOD_12,AOD_13,AOD_14,\ SSA_01,SSA_02,SSA_03,SSA_04,SSA_05,SSA_06,SSA_07,SSA_08,SSA_09,SSA_10,SSA_11,SSA_12,SSA_13,SSA_14,\ ASF_01,ASF_02,ASF_03,ASF_04,ASF_05,ASF_06,ASF_07,ASF_08,ASF_09,ASF_10,ASF_11,ASF_12,ASF_13,ASF_14" has_config tm5:co2fb && tm5_to_ifs=${tm5_to_ifs},CO2 export tm5_to_ifs=$(echo ${tm5_to_ifs} | sed "s/^,//") # coupled to LPJ-Guess and/or PISCES? has_config tm5:co2 lpjg && export cpl_tm_guess=T || export cpl_tm_guess=F has_config tm5:co2 pisces && export cpl_tm_pisces=T || export cpl_tm_pisces=F fi # ----------------------------------------------------------------------------- # *** OASIS configuration # ----------------------------------------------------------------------------- # Restart files for the coupling fields (note 8 character limit in OASIS) # rstas.nc : atmosphere single-category fields # rstam.nc : atmosphere multi-category fields # rstos.nc : ocean single-category fields # rstom.nc : ocean multi-category fields oas_rst_ifs_nemo="rstas.nc rstos.nc" oas_rst_ifs_lpjg="vegin.nc lpjgv.nc" # Met fields from IFS to TM (always required) oas_rst_ifs_tm5="r_hum.nc r_g2d.nc r_udr.nc r_div.nc r_vor.nc \ r_ddr.nc r_tmp.nc r_dmf.nc r_s2d.nc r_umf.nc" has_config tm5:chem && \ oas_rst_ifs_tm5=${oas_rst_ifs_tm5}' r_cc_.nc r_clw.nc r_cco.nc r_ciw.nc r_ccu.nc' has_config tm5:o3fb || has_config tm5:ch4fb && oas_rst_ifs_tm5=$oas_rst_ifs_tm5' o3ch4.nc' has_config tm5:aerfb && oas_rst_ifs_tm5=$oas_rst_ifs_tm5' C???????' # C-cycle configuration has_config tm5:co2 lpjg && oas_rst_ifs_tm5=$oas_rst_ifs_tm5' l_co2.nc rlpjg.nc' has_config tm5:co2 pisces && oas_rst_ifs_tm5=$oas_rst_ifs_tm5' o_co2.nc pisce.nc' has_config tm5:co2fb && oas_rst_ifs_tm5=$oas_rst_ifs_tm5' co2mx.nc' # final list of files depends on the activated components - this is used in save_ic as well #oas_rst_files="${oas_rst_ifs_nemo} ${oas_rst_ifs_tm5} vegin.nc lpjgv.nc" oas_rst_files="" has_config ifs nemo && oas_rst_files+=" ${oas_rst_ifs_nemo}" has_config ifs lpjg && oas_rst_files+=" ${oas_rst_ifs_lpjg}" has_config ifs tm5 && oas_rst_files+=" ${oas_rst_ifs_tm5}" # Decide whether the OASIS weight files for interpolation should be linked from # the setup directory (true) or not (false). In the latter case, the weights # are re-computed at the start of the run. oas_link_weights=true # Flux correction for runoff (not calving) sent from Oasis to ocean. # 1.07945 is computed to compensate for a P-E=-0.016 mm/day (valid for std res) case "${ifs_grid}" in T159L* ) has_config nemo && oas_mb_fluxcorr=1.08652 ;; * ) has_config nemo && oas_mb_fluxcorr=1.07945 ;; esac # ----------------------------------------------------------------------------- # *** XIOS configuration # ----------------------------------------------------------------------------- xio_exe_file=${ecearth_src_dir}/xios-2.5/bin/xios_server.exe xio_numproc=1 #xio_numproc=9 # ----------------------------------------------------------------------------- # *** Extra initial conditions saved during the run # ----------------------------------------------------------------------------- if has_config save_ic then source ./libsave_ic.sh declare -a save_ic_date save_ic_date1 save_ic_sec save_ic_day save_ic_ppt_file save_ic_nemo_ts oas_rst_files="${oas_rst_ifs_nemo} ${oas_rst_ifs_tm5} vegin.nc lpjgv.nc" fi # ----------------------------------------------------------------------------- # *** Carbon cycle configuration # ----------------------------------------------------------------------------- # set to true to write co2 fluxes sent to TM5 ccycle_debug_fluxes=true # ============================================================================= # *** 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} if $special_restart then force_run_from_scratch=false echo 'rsync -av --delete ${run_dir}/../${special_restart_from}/ --exclude log --exclude output --exclude restart --exclude="${special_restart_from}_*" --exclude="srf*" --exclude="restart_*" --exclude="debug.*" --ex clude="output.*" ${run_dir}' rsync -av --delete ${run_dir}/../${special_restart_from}/ --exclude log --exclude output --exclude restart --exclude="${special_restart_from}_*" --exclude="srf*" --exclude="restart_*" --exclude="debug.*" --exclude="output.*" ${run_dir} cp -f ${nem_exe_file} ${run_dir} cp -f ${ifs_exe_file} ${run_dir} cp -f ${rnf_exe_file} ${run_dir} cp -f ${xio_exe_file} ${run_dir} special_year=${special_restart_date:0:4} sed -i "/$special_year/q" ${run_dir}/ece.info . ${run_dir}/ece.info special_restart_leg=$(printf %03d $((leg_number+1))) special_restart_leg_oasis=$(printf %03d $((leg_number+2))) # PUT HERE THE INSTRUCTIONS TO COPY THE restart files rsync -av ${run_dir}/../../archive/${special_restart_from}/restart/ifs/${special_restart_leg}/ ${run_dir} rsync -av ${run_dir}/../../archive/${special_restart_from}/restart/oasis/${special_restart_leg_oasis}/ ${run_dir} cd ${run_dir}/../../archive/${special_restart_from}/restart/nemo/${special_restart_leg} for f in *.nc; do nf=${exp_name}${f:4} cp $f ${run_dir}/$nf done cd - cd ${run_dir} for f in ${exp_name}_????????_restart_???_????.nc; do nf=${f:14} ln -s $f $nf done cd - rm -f ${run_dir}/ICMCL${special_restart_from}INIT mv ${run_dir}/ICMGG${special_restart_from}INIUA ${run_dir}/ICMGG${exp_name}INIUA mv ${run_dir}/ICMGG${special_restart_from}INIT ${run_dir}/ICMGG${exp_name}INIT mv ${run_dir}/ICMSH${special_restart_from}INIT ${run_dir}/ICMSH${exp_name}INIT fi else force_run_from_scratch=false special_restart=false 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 # Check if legs are integer multiples of full years if LPJG is used if has_config lpjg then if [[ $(date +%m%d%T -u -d "${leg_start_date}") != "010100:00:00" || \ $(date +%m%d%T -u -d "${leg_start_date} + ${rst_freq}") != "010100:00:00" ]] then error "LPJ-GUESS runs must start on Jan 1 and end on Dec 31. Multi-year legs are allowed." fi fi if [ $(date -u -d "${leg_end_date}" +%s) -ge $(date -u -d "${run_end_date}" +%s) ] 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 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() ${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 if $(has_config amip) then cp ${amip_exe_file} . ln -s ${amip_exe_file} $(basename ${amip_exe_file}).lnk fi if $(has_config nemo) then 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 fi if $(has_config lpjg) then cp ${lpjg_exe_file} . ln -s ${lpjg_exe_file} $(basename ${lpjg_exe_file}).lnk fi if $(has_config tm5) then cp ${tm5_exe_file} . ln -s ${tm5_exe_file} $(basename ${tm5_exe_file}).lnk fi # --------------------------------------------------------------------- # *** 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 LPJ-GUESS # --------------------------------------------------------------------- if $(has_config lpjg) then # Check for valid grid if [ $lpjg_res != "T255" -a $lpjg_res != "T159" ] then error "LPJG-gridlist doesn't exist for ifs-grid: ${ifs_grid}" fi # Initial data - saved state for LPJ-GUESS (.bin format) lpjgstartdir=$(printf "lpjg_state_%04d" $leg_start_date_yyyy) ln -sf ${ini_data_dir}/lpjg/ini_state/${lpjg_res}/${lpjgstartdir} ${run_dir}/${lpjgstartdir} # Control files (i.e. .ins, landuse, N deposition, soil type files etc.) cp -f ${ecearth_src_dir}/lpjg/data/ins/*.ins . # activate the new litterfall scheme for C4MIP - for the coupled model this is done when both pisces and lpjg are activated has_config pisces lpjg && echo -e "!override for EC-Earth-CC in runscript\nifpftlitterfall 1\ncalc_phen_after_restart 0" >> global.ins mkdir -p ${run_dir}/landuse fi # --------------------------------------------------------------------- # *** Files needed for NEMO (linked) # --------------------------------------------------------------------- if $(has_config nemo) then # 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 # Copying the time independent NEMO files for the matching ORCA grid in order to facilitate cmorisation: for f in \ bathy_meter.nc subbasins.nc do mkdir -p output/nemo/ofx-data [ -f ${ini_data_dir}/nemo/initial/${nem_grid}/$f ] && cp -f ${ini_data_dir}/nemo/initial/${nem_grid}/$f output/nemo/ofx-data/ 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 -s ${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 TOP/PISCES if $(has_config pisces) then ln -fs ${ini_data_dir}/nemo/pisces/dust_INCA_ORCA_R1.nc ln -fs ${ini_data_dir}/nemo/pisces/ndeposition_Duce_ORCA_R1.nc ln -fs ${ini_data_dir}/nemo/pisces/pmarge_etopo_ORCA_R1.nc ln -fs ${ini_data_dir}/nemo/pisces/river_global_news_ORCA_R1.nc ln -fs ${ini_data_dir}/nemo/pisces/Solubility_T62_Mahowald_ORCA_R1.nc ln -fs ${ini_data_dir}/nemo/pisces/par_fraction_gewex_clim90s00s_ORCA_R1.nc ln -fs ${ini_data_dir}/nemo/pisces/DIC_GLODAP_annual_ORCA_R1.nc ln -fs ${ini_data_dir}/nemo/pisces/Alkalini_GLODAP_annual_ORCA_R1.nc ln -fs ${ini_data_dir}/nemo/pisces/O2_WOA2009_monthly_ORCA_R1.nc ln -fs ${ini_data_dir}/nemo/pisces/PO4_WOA2009_monthly_ORCA_R1.nc ln -fs ${ini_data_dir}/nemo/pisces/Si_WOA2009_monthly_ORCA_R1.nc ln -fs ${ini_data_dir}/nemo/pisces/DOC_PISCES_monthly_ORCA_R1.nc ln -fs ${ini_data_dir}/nemo/pisces/Fer_PISCES_monthly_ORCA_R1.nc ln -fs ${ini_data_dir}/nemo/pisces/NO3_WOA2009_monthly_ORCA_R1.nc # create co2 concentration file atcco2.txt if required if { [ $ifs_cmip_fixyear -gt 0 ] || [[ "${ifs_A4xCO2}" = "TRUE" ]]; } && [[ "${bgc_1PCTCO2}" = "FALSE" ]] then rm -f atcco2.txt elif [[ "${bgc_1PCTCO2}" = "TRUE" ]] then cp -f ${ini_data_dir}/nemo/pisces/mole-fraction-of-carbon-dioxide-in-air_1pctCO2_1849-2016.txt atcco2.txt else # determine scenario-name and co2-file middle-fix case $(echo ${ifs_cmip6_scenario} | tr '[:upper:]' '[:lower:]') in hist*) pis_scen="ssp585"; pis_sco2_mfix="REMIND-MAGPIE-ssp585-1-2-1";; ssp2-4.5*) pis_scen="ssp245"; pis_sco2_mfix="MESSAGE-GLOBIOM-ssp245-1-2-1";; ssp5-3.4*) pis_scen="ssp534os"; pis_sco2_mfix="REMIND-MAGPIE-ssp534-over-1-2-1";; ssp5-8.5*) pis_scen="ssp585"; pis_sco2_mfix="REMIND-MAGPIE-ssp585-1-2-1";; *) error "Scenario ${ifs_cmip6_scenario} not defined for PISCES" ;; esac # concatenate historic and scenario (2015+) co2 concentration file pis_sco2_pfix="${ini_data_dir}/nemo/pisces/mole-fraction-of-carbon-dioxide-in-air_input4MIPs_GHGConcentrations" cat ${pis_sco2_pfix}_CMIP_UoM-CMIP-1-2-0_gr1-GMNHSH_1849-2014.txt ${pis_sco2_pfix}_ScenarioMIP_UoM-${pis_sco2_mfix}_gr1-GMNHSH_2015-2500.txt > atcco2.txt fi fi #linking surface boundary conditions for CFCs (even if CFCs are not included) ln -fs ${ini_data_dir}/nemo/cfc/CFCs_CDIAC_extension_1637_2019.dat CFCs_CDIAC.dat if $(has_config pisces:start_from_restart) then # Same three options as for nemo:start_from_restart if ls -U ${nem_restart_file_path}/restart_trc.nc > /dev/null 2>&1 then ln -s ${nem_restart_file_path}/restart_trc.nc ./ elif ls -U ${nem_restart_file_path}/restart_trc_????.nc > /dev/null 2>&1 then ln -s ${nem_restart_file_path}/restart_trc_????.nc ./ else for f in ${nem_restart_file_path}/????_????????_restart_trc_????.nc do ln -s $f $(echo $f | sed 's/.*_\(restart_trc_....\.nc\)/\1/') done fi fi fi # --------------------------------------------------------------------- # *** Files needed for the Runoff mapper (linked) # --------------------------------------------------------------------- has_config rnfmapper && \ ln -s ${ini_data_dir}/runoff-mapper/runoff_maps.nc # ------------------------------------------------------------------------- # *** File and dir needed for TM5 # ------------------------------------------------------------------------- if $(has_config tm5) then tm5_istart=9 case ${tm5_istart} in 33|32) ln -s \ ${tm5_restart_file_path}/TM5_restart_${leg_start_date_yyyymmdd}_0000_glb300x200.nc ;; 31) ln -s ${tm5_restart_file_path}/tm5_save.hdf ;; 5) ln -s ${tm5_restart_file_path}/tm5_mmix.hdf ;; 2|9) ;; *) error "Unsupported initial fields option (TM5): ${tm5_istart}" ;; esac # spectral info ln -s ${ini_data_dir}/tm5/TM5_INPUT/T${ifs_res_hor}_info.txt # Profiling dir for TM5 mkdir -p ${run_dir}/tm5_profile fi # --------------------------------------------------------------------- # *** Files needed for OASIS (linked) # --------------------------------------------------------------------- # Name table file ln -s ${ini_data_dir}/oasis/cf_name_table.txt # -- Get grid definition and weight files for IFS/NEMO or IFS/AMIP coupling has_config nemo && \ oas_grid_dir=${ini_data_dir}/oasis/T${ifs_res_hor}-ORCA${nem_res_hor} && \ mycp='cp' has_config amip && \ oas_grid_dir=${ini_data_dir}/oasis/AMIP && \ mycp='cdo -f nc copy' # to enforce nc format, needed for 'cdo merge' to work (have nc4c with Primavera files) # Grid definition files if $(has_config tm5) then ${mycp} ${oas_grid_dir}/areas.nc gcm_areas.nc ${mycp} ${oas_grid_dir}/grids.nc gcm_grids.nc ${mycp} ${oas_grid_dir}/masks.nc gcm_masks.nc else ln -s ${oas_grid_dir}/areas.nc ln -s ${oas_grid_dir}/grids.nc ln -s ${oas_grid_dir}/masks.nc fi # 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 if $(has_config nemo) then case ${nem_res_hor} in 1) oas_ogrd=O1t0 ;; 025) oas_ogrd=Ot25 ;; *) error "Unsupported horizontal resolution (NEMO): ${nem_res_hor}" ;; esac fi if ${oas_link_weights} then for f in ${oas_grid_dir}/rmp_????_to_????_GAUSWGT.nc do ln -s $f done fi if $(has_config ifs nemo) then for f in ${oas_rst_ifs_nemo} do cp ${oas_grid_dir}/rst/$f . done fi # -- Get grid definition, weight and restart files for TM5 coupling if $(has_config tm5) then oas_grid_dir=${ini_data_dir}/oasis/T${ifs_res_hor}-TM5-LPJG cp ${oas_grid_dir}/tm5_areas.nc . cp ${oas_grid_dir}/tm5_grids.nc . cp ${oas_grid_dir}/tm5_masks.nc . if ${oas_link_weights} then for f in ${oas_grid_dir}/rmp_????_to_????_*.nc do ln -s $f done fi # -- Get restart files for TM5-IFS/LPJG/PISCES for f in ${oas_rst_ifs_tm5} do cp ${oas_grid_dir}/rst/${tm5_exch_nlevs}-levels/$f . done # -- Merge grid definition files cdo merge gcm_areas.nc tm5_areas.nc areas.nc cdo merge gcm_grids.nc tm5_grids.nc grids.nc cdo merge gcm_masks.nc tm5_masks.nc masks.nc fi 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,diad_T}.nc # TM5 restart file type tm5_istart=33 if [ $tm5_istart -eq 31 ] && $(has_config tm5) then ln -sf save_${leg_start_date_yyyymmdd}00_glb300x200.hdf tm5_save.hdf fi fi # ! $leg_is_restart #-------------------------------------------------------------------------- # *** Surface restoring and ocean nudging options #-------------------------------------------------------------------------- if $(has_config nemo:ocenudg) ; then ln -fs ${ini_data_dir}/nemo/oce_nudg/temp_sal*.nc ./ fi 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]} elif has_config nemo then info "nemo original domain decomposition (not using ELPiN)" fi # ------------------------------------------------------------------------- # *** Initial conditions saved during the run # ------------------------------------------------------------------------- ${do_save_ic} && save_ic_prepare_output # ------------------------------------------------------------------------- # *** Create some control files # ------------------------------------------------------------------------- # Create TM5 runtime rcfile tm5_start_date=$(date -u -d "${leg_start_date}" +%F\ %T) tm5_end_date=$(date -u -d "${leg_end_date}" +%F\ %T) if $(has_config tm5) then cp -f ${ctrl_file_dir}/tm5-config-run.rc ${run_dir} ${ecearth_src_dir}/tm5mp/setup_tm5 --no-compile \ --time-start="${tm5_start_date}" --time-final="${tm5_end_date}" \ --istart=${tm5_istart} ${run_dir}/tm5-config-run.rc fi # IFS frequency output for namelist if [ -f postins/pptdddddd0300 ] then ifs_output_freq=$(( 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, AMIP namelist and OASIS namcouple files has_config ifs && . ${ctrl_file_dir}/namelist.ifs.sh > fort.4 has_config nemo && . ${ctrl_file_dir}/namelist.nemo.ref.sh > namelist_ref has_config ifs nemo && . ${ctrl_file_dir}/namelist.nemo-${nem_grid}-coupled.cfg.sh > namelist_cfg has_config lim3 && . ${ctrl_file_dir}/namelist.lim3.ref.sh > namelist_ice_ref has_config lim3 && . ${ctrl_file_dir}/namelist.lim3-${nem_grid}.cfg.sh > namelist_ice_cfg has_config rnfmapper && . ${ctrl_file_dir}/namelist.runoffmapper.sh > namelist.runoffmapper has_config amip && . ${ctrl_file_dir}/namelist.amip.sh > namelist.amip has_config pisces && . ${ctrl_file_dir}/namelist.nemo.top.ref.sh > namelist_top_ref has_config pisces && . ${ctrl_file_dir}/namelist.nemo.top.cfg.sh > namelist_top_cfg has_config pisces && . ${ctrl_file_dir}/namelist.nemo.pisces.ref.sh > namelist_pisces_ref has_config pisces && . ${ctrl_file_dir}/namelist.nemo.pisces.cfg.sh > namelist_pisces_cfg has_config nemo && . ${ctrl_file_dir}/namelist.nemo.age.ref.sh > namelist_age_ref has_config nemo && . ${ctrl_file_dir}/namelist.nemo.age.cfg.sh > namelist_age_cfg #include CFCs namelist even if CFCs are not included has_config nemo && . ${ctrl_file_dir}/namelist.nemo.cfc.ref.sh > namelist_cfc_ref has_config nemo && . ${ctrl_file_dir}/namelist.nemo.cfc.cfg.sh > namelist_cfc_cfg # C-cycle - overwrite coupled nemo namelist has_config pisces tm5:co2 && \ . ${ctrl_file_dir}/namelist.nemo-${nem_grid}-carboncycle.cfg.sh > namelist_cfg lucia=0 . ${ctrl_file_dir}/namcouple.sh > namcouple # ------------------------------------------------------------------------- # *** LPJ-GUESS initial data # ------------------------------------------------------------------------- if $(has_config lpjg) then # LPJG runtime rcfile - update with leg dates . ${ctrl_file_dir}/namelist.lpjg.sh > lpjg_steps.rc # determine lpjg scenario-name and co2-file middle-fix case $(echo ${ifs_cmip6_scenario} | tr '[:upper:]' '[:lower:]') in hist*) lpjg_scen="ssp370"; lu_src="AIM" ; lpjg_sco2_mfix="AIM-ssp370-1-2-1" ; lu_file_posfix="2018_10_08.txt";; ssp1-1.9*) lpjg_scen="ssp119"; lu_src="IMAGE" ; lpjg_sco2_mfix="IMAGE-ssp119-1-2-1" ; lu_file_posfix="2019_03_13.txt";; ssp1-2.6*) lpjg_scen="ssp126"; lu_src="IMAGE" ; lpjg_sco2_mfix="IMAGE-ssp126-1-2-1" ; lu_file_posfix="2018_10_08.txt";; ssp2-4.5*) lpjg_scen="ssp245"; lu_src="MESSAGE"; lpjg_sco2_mfix="MESSAGE-GLOBIOM-ssp245-1-2-1"; lu_file_posfix="2018_10_08.txt";; ssp3-7.0*) lpjg_scen="ssp370"; lu_src="AIM" ; lpjg_sco2_mfix="AIM-ssp370-1-2-1" ; lu_file_posfix="2018_10_08.txt";; ssp4-3.4*) lpjg_scen="ssp434"; lu_src="GCAM" ; lpjg_sco2_mfix="GCAM4-ssp434-1-2-1" ; lu_file_posfix="2018_10_08.txt";; ssp5-3.4*) lpjg_scen="ssp534os"; lu_src="MAGPIE"; lpjg_sco2_mfix="REMIND-MAGPIE-ssp534-over-1-2-1" ; lu_file_posfix="2019_05_10.txt";; ssp5-8.5*) lpjg_scen="ssp585"; lu_src="MAGPIE" ; lpjg_sco2_mfix="REMIND-MAGPIE-ssp585-1-2-1" ; lu_file_posfix="2018_10_08.txt";; *) error "Scenario ${ifs_cmip6_scenario} not defined for LPJ-GUESS" ;; esac lpjg_scenario_new="historical + $lpjg_sco2_mfix" lpjg_scenario_info=${run_dir}/lpjg_scenario.info if [ -f $lpjg_scenario_info ] then source $lpjg_scenario_info if [ "$lpjg_scenario_new" = "$lpjg_scenario" ] then lpjg_copy_rte=false else lpjg_copy_rte=true fi else lpjg_copy_rte=true fi # copy RTE only if necessary (at beginning of a run or when scenario changes) if $lpjg_copy_rte then # write info about installed scenarios to file echo "lpjg_scenario=\"historical + $lpjg_sco2_mfix\"" > $lpjg_scenario_info # set file prefixes depending on scenario lu_file_prefix="1850_2100_luh2_Hist_ScenarioMIP_UofMD" lu_file_midfix="2_1_f" lu_path="${ini_data_dir}/lpjg/landuse/${lpjg_res}/${lpjg_scen}" # copy and reference-link landuse, gross transitions, crops, n-fertilisation for inp in lu gross crop nfert do if [ $inp == "crop" -o $inp == "nfert" ] then lu_src_file="${lu_path}/${inp}_rfirr_${lu_file_prefix}_${lu_src}_${lpjg_scen}_${lu_file_midfix}_${lpjg_res}_${lu_file_posfix}" else lu_src_file="${lu_path}/${inp}_${lu_file_prefix}_${lu_src}_${lpjg_scen}_${lu_file_midfix}_${lpjg_res}_${lu_file_posfix}" fi cp -f $lu_src_file ${run_dir}/landuse/${inp}_luh2.txt ln -fs $lu_src_file ${run_dir}/landuse/${inp}_luh2.txt.lnk done # nitrogen deposition files mkdir -p ${run_dir}/ndep for inp in drynhx2 drynoy2 wetnhx2 wetnoy2 do ndep_src_file="${ini_data_dir}/lpjg/ndep/${lpjg_res}/${lpjg_scen}/${lpjg_scen}_${lpjg_res}_${inp}.nc" cp -f $ndep_src_file ${run_dir}/ndep/${inp}.nc ln -fs $ndep_src_file ${run_dir}/ndep/${inp}.nc.lnk done # concatenate historic and scenario (2015+) co2 concentration file # hist co2 file lpjg_hco2_file="${ini_data_dir}/ifs/cmip6-data/mole-fraction-of-carbon-dioxide-in-air_input4MIPs_GHGConcentrations_CMIP_UoM-CMIP-1-2-0_gr1-GMNHSH_0000-2014.nc" # scenario co2 file lpjg_sco2_file="${ini_data_dir}/ifs/cmip6-data/mole-fraction-of-carbon-dioxide-in-air_input4MIPs_GHGConcentrations_ScenarioMIP_UoM-${lpjg_sco2_mfix}_gr1-GMNHSH_2015-2500.nc" # combined file lpjg_co2_file="${run_dir}/mole_fraction_of_carbon_dioxide_in_air_input4MIPs_lpjg.nc" rm -f $lpjg_co2_file cdo mergetime $lpjg_hco2_file $lpjg_sco2_file $lpjg_co2_file fi # Populate or update LPJG run directories for (( n=1; n<=${lpjg_numproc}; n++ )) do # if run from scratch or number of procs has been extended if ! $leg_is_restart || [ ! -d ${run_dir}/run${n} ] then # Make output directories mkdir -p ${run_dir}/run${n}/output # Copy *.ins, lpjg_steps.rc and OASIS-MCT restart files cp ${run_dir}/*.ins ${run_dir}/run${n} # Copy output control files cp ${output_control_files_dir}/lpjg_cmip6_output.ins ${run_dir}/run${n} ln -s ${output_control_files_dir}/lpjg_cmip6_output.ins ${run_dir}/run${n}/lpjg_cmip6_output.ins.lnk cp ${ini_data_dir}/lpjg/oasismct/ghg*.txt ${run_dir}/run${n} cp ${ini_data_dir}/lpjg/oasismct/${lpjg_res}/ece_gridlist_${lpjg_res}.txt ${run_dir}/run${n}/ece_gridlist.txt ln -s ${ini_data_dir}/lpjg/oasismct/${lpjg_res}/ece_gridlist_${lpjg_res}.txt ${run_dir}/run${n}/ece_gridlist.txt.lnk # Data only needed by master if [ $n == 1 ] then cp ${ini_data_dir}/lpjg/oasismct/${lpjg_res}/*.nc ${run_dir} cp ${ini_data_dir}/lpjg/oasismct/lpjgv.txt ${run_dir}/run${n} fi fi # Refresh output-dirs after they hav been removed at end of the last leg mkdir -p ${run_dir}/run${n}/output/CMIP6 mkdir -p ${run_dir}/run${n}/output/CRESCENDO done if $leg_is_restart then lpjg_restart_dir="restart/lpjg/$(printf %03d $((leg_number-1)))" lpjg_rst_state="${lpjg_restart_dir}/lpjg_state_${leg_start_date_yyyy}" if [ -d "$lpjg_rst_state" ] then ln -sf $lpjg_rst_state else echo "lpjg restart dir $lpjg_rst_state not available" exit -1 fi # get oasis restart files oasis_restart_dir="restart/oasis/$(printf %03d $((leg_number)))" cp -f ${oasis_restart_dir}/*.nc ${run_dir}/ fi fi # ------------------------------------------------------------------------- # *** Create ICMCL file with vegetation fields # not needed if LPJG is used with feedback # ------------------------------------------------------------------------- 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"|"cmip6"|"custom_"* ) # Vegetation from a LPJG run (off-line or EC-Earth3-Veg) 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 case ${ifs_veg_source} in 'era20c' ) # no scenario needed with era20c icmcl_scenario="" ;; 'custom_'* ) # no scenario implemented yet with custom_dir icmcl_scenario="" ;; 'cmip6' ) # select scenario, use SSP3-7.0 as default # if not otherwise specified icmcl_scenario="historical" if ( [ $ifs_cmip_fixyear -le 0 ] && [ $yr -ge 2015 ] ) || \ [ $ifs_cmip_fixyear -ge 2015 ] then [[ ${ifs_cmip6_scenario} =~ ^SSP ]] \ && icmcl_scenario=${ifs_cmip6_scenario} \ || if [ ${ifs_covid19^^} == TRUE ] then icmcl_scenario='SSP2-4.5' else icmcl_scenario='SSP3-7.0' fi fi ;; esac if [ $ifs_cmip_fixyear -le 0 ] || [[ ${ifs_veg_source} == custom_* ]] then cat ${ini_data_dir}/ifs/${ifs_grid}/icmcl_${veg_version}/${icmcl_scenario}/icmcl_$yr.grb >> ICMCL${exp_name}INIT else # Fixed year forcing, requires cdo! (only when not using ifs_veg_source=custom_exp*) # 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_${veg_version}/${icmcl_scenario}/icmcl_${ifs_cmip_fixyear}.grb ${tempfile} cat ${tempfile} >> ICMCL${exp_name}INIT fi done ;; "none" ) info "no ICMCL file is created" ;; * ) 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 && $(has_config nemo) && ! $special_restart then ns=$(printf %08d $(( leg_start_sec / nem_time_step_sec - nem_restart_offset ))) for (( n=0 ; n/dev/null then echo "*WARNING* Overwriting OASIS restart (${oasis_restart_file})" cp -f ${oasis_restart_file} . fi done rcf_restart_file=restart/ifs/${leg_nb_3d}/rcf if [ -f "${rcf_restart_file}" ] then if ! diff -q rcf ${rcf_restart_file} >/dev/null then echo "*WARNING* Overwriting IFS rcf file (${rcf_restart_file})" cp -f ${rcf_restart_file} . fi fi fi # ------------------------------------------------------------------------- # *** Start the run # ------------------------------------------------------------------------- export DR_HOOK_IGNORE_SIGNALS='-1' export CPLNG='active' # Use the launch function from the platform configuration file has_config nemo && \ cmd="${xio_numproc} ${xio_exe_file} -- \ ${nem_numproc} ${nem_exe_file} -- \ ${ifs_numproc} ${ifs_exe_file} -v ecmwf -e ${exp_name}" || \ cmd="${ifs_numproc} ${ifs_exe_file} -v ecmwf -e ${exp_name}" has_config lpjg && cmd=${cmd}" -- ${lpjg_numproc} ${lpjg_exe_file} guess.ins -parallel" has_config tm5 && cmd=${cmd}" -- ${tm5_numproc} ${tm5_exe_file} tm5-run.rc" has_config amip && cmd=${cmd}" -- ${amip_numproc} ${amip_exe_file}" has_config nemo && cmd=${cmd}" -- ${rnf_numproc} ${rnf_exe_file}" t1=$(date +%s) launch $cmd t2=$(date +%s) tr=$(date -d "0 -$t1 sec + $t2 sec" +%T) # ------------------------------------------------------------------------- # *** Check for signs of success # Note the tests provide no guarantee that things went fine! They are # just based on the IFS, NEMO and TM5 log files. More tests (e.g. checking # restart files) could be implemented. # ------------------------------------------------------------------------- # Checking for IFS success if [ -f ifs.stat ] then if [ "$(awk 'END{print $3}' ifs.stat)" == "CNT0" ] then info "Leg successfully completed according to IFS log file 'ifs.stat'." else error "Leg not completed according to IFS log file 'ifs.stat'." fi else error "IFS log file 'ifs.stat' not found after run." fi # Check for NEMO success if $(has_config nemo) then if [ -f ocean.output ] then if [ "$(sed -n '/New day/h; ${g;s:.*\([0-9/]\{10\}\).*:\1:;p;}' ocean.output)" == "$(date -u -d "${leg_end_date} - 1 day" +%Y/%m/%d)" ] then info "Leg successfully completed according to NEMO log file 'ocean.output'." else error "Leg not completed according to NEMO log file 'ocean.output'." fi else error "NEMO log file 'ocean.output' not found after run." fi fi # Check for TM5 success if $(has_config tm5) then if [ -f tm5.ok ] then info "Leg successfully completed according to existing TM5 file 'tm5.ok'." else error "Leg not completed according to non-existing TM5 file 'tm5.ok'." fi fi # ------------------------------------------------------------------------- # *** Post-process initial conditions saved during the run if requested # ------------------------------------------------------------------------- ${do_save_ic} && save_ic_postproc # ------------------------------------------------------------------------- # *** Move IFS output files to archive directory # ------------------------------------------------------------------------- outdir="${archive_dir}/output/ifs/$(printf %03d $((leg_number)))" mkdir -p ${outdir} prv_leg=$(printf %03d $((leg_number-1))) # This takes care of a special IFS feature: The output for the last time # step of each leg is written at the first time step of the new leg. The # following code makes sure that the output is appended to the appropriate # file. Since GRIB files are just streams, its done with a simple cat # command. for f in ICMSH${exp_name}+?????? ICMGG${exp_name}+?????? do if [ -f output/ifs/${prv_leg}/${f} ] then cat ${f} >> output/ifs/${prv_leg}/${f} rm -f ${f} else mv ${f} ${outdir} fi done # ------------------------------------------------------------------------- # *** Move NEMO output files to archive directory # ------------------------------------------------------------------------- if $(has_config nemo) then outdir="${archive_dir}/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 ptrc_T bioscalar \ 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_T_SFC 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 fi # ------------------------------------------------------------------------- # *** Move LPJ-GUESS output files to archive directory # ------------------------------------------------------------------------- if $(has_config lpjg) then outdir="output/lpjg/$(printf %03d $((leg_number)))" if [ -d ${outdir} ] then rm -rf ${outdir} fi mkdir -p ${outdir} # LPJG run directories # concatenate *.out (or compressed *.out.gz) files from each run* into output dir flist=$(cd ${run_dir}/run1/output && find *.out.gz -type f 2>/dev/null || true) if [ "$flist" = "" ] then lpjg_compress_output=false flist=$(cd ${run_dir}/run1/output && find *.out -type f 2>/dev/null) else lpjg_compress_output=true fi mkdir ${outdir}/CMIP6 for (( n=1; n<=${lpjg_numproc}; n++ )) do for ofile in $flist do if $lpjg_compress_output then [ $n == 1 ] && gzip -c ${run_dir}/run${n}/output/`basename ${ofile} .gz`.hdr > ${outdir}/$ofile cat ${run_dir}/run${n}/output/${ofile} >> ${outdir}/$ofile else if (( n == 1 )) then cat ${run_dir}/run${n}/output/${ofile} > ${outdir}/$ofile else awk '(FNR!=1){print $0}' ${run_dir}/run${n}/output/${ofile} >> ${outdir}/$ofile fi fi done rm -rf ${run_dir}/run${n}/output done # move monthly file if available if [ -f ${run_dir}/LPJ-GUESS_monthlyoutput.txt ] then mv ${run_dir}/LPJ-GUESS_monthlyoutput.txt ${outdir} fi fi # ------------------------------------------------------------------------- # *** Move TM5 output files to archive directory # ------------------------------------------------------------------------- if $(has_config tm5) then outdir="output/tm5/$(printf %03d $((leg_number)))" mkdir -p ${outdir} set +e mv budget_??????????_??????????_global.hdf ${outdir} mv j_statistics_??????????_??????????.hdf ${outdir} mv mmix_??????????_??????????_glb???x???.hdf ${outdir} mv aerocom?_TM5_*_????????_daily.nc ${outdir} mv aerocom?_TM5_*_??????_monthly.nc ${outdir} mv AOD_????_??_??.nc ${outdir} mv -f TM5MP_${exp_name}_griddef.nc ${outdir} mv TM5MP_${exp_name}_TP_????_??_??.nc ${outdir} mv TM5MP_${exp_name}_vmr3_????_??_??.nc ${outdir} mv general_TM5_${exp_name}_??????????_hourly.nc ${outdir} mv general_TM5_${exp_name}_??????_monthly.nc ${outdir} mv *EC-Earth3-*_${exp_name}_*.nc ${outdir} set -e # move profiling files if any if [ "$(ls -A ${run_dir}/tm5_profile)" ] then outdir="output/tm5/profile_$(printf %03d $((leg_number)))" mkdir -p ${outdir} for f in ${run_dir}/tm5_profile/* do test -f ${f} && mv $f ${outdir} done fi fi # ------------------------------------------------------------------------- # *** Move IFS restart files to archive directory # ------------------------------------------------------------------------- if $leg_is_restart then outdir="${archive_dir}/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 ccycle debug output files to archive directory # ------------------------------------------------------------------------- if ${ccycle_debug_fluxes} && $(has_config tm5:co2) then outdir="output/tm5/$(printf %03d $((leg_number)))" mkdir -p ${outdir} if $(has_config lpjg) then for f in CNAT CANT CNPP ; do mv TM5_Land${f}_*.nc ${outdir} rm -f GUE_${f}_*.nc run1/GUE_${f}_*.nc #gf=`ls -1 GUE_${f}_*.nc | head -n 1` #cdo mergetime ${gf} run1/${gf} ${outdir}/${gf} done fi if $(has_config pisces) then mv TM5_OceCFLX_*.nc ${outdir} rm -f O_CO2FLX_*.nc #mv O_CO2FLX_*.nc ${outdir} fi fi # ------------------------------------------------------------------------- # *** Move LPJ-GUESS restart files to archive directory # ------------------------------------------------------------------------- if $(has_config lpjg) then outdir="restart/lpjg/$(printf %03d $((leg_number)))" if [ -d ${outdir} ] then rm -rf ${outdir} fi mkdir -p ${outdir} state_dir="./lpjg_state_$(printf %04d $((leg_end_date_yyyy)))" mv ${state_dir} ${outdir} # LPJG writes into run1 dir, so mv to main rundir mv -f run1/lpjgv.nc . has_config tm5:co2 lpjg && mv -f run1/rlpjg.nc . # remove restart link if $leg_is_restart then old_state_dir="./lpjg_state_$(printf %04d $((leg_start_date_yyyy)))" if [ -L $old_state_dir ] then rm -f "$old_state_dir" fi fi fi # ------------------------------------------------------------------------- # *** Move NEMO restart files to archive directory # ------------------------------------------------------------------------- if $leg_is_restart && $(has_config nemo) then outdir="${archive_dir}/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 if has_config pisces then mv ${exp_name}_${ns}_restart_trc_????.nc ${outdir} fi fi # ------------------------------------------------------------------------- # *** Move TM5 restart file to archive directory # ------------------------------------------------------------------------- if $leg_is_restart && $(has_config tm5) then outdir="restart/tm5/$(printf %03d $((leg_number)))" mkdir -p ${outdir} case ${tm5_istart} in 33|32) f=TM5_restart_${leg_start_date_yyyymmdd}_0000_glb300x200.nc ;; 31) f=save_${leg_start_date_yyyymmdd}00_glb300x200.hdf ;; esac mv $f ${outdir} fi # ------------------------------------------------------------------------- # *** Copy OASIS restart files to archive directory # NOTE: These files are copied and not moved as they are used in the # next leg! # Note also that the OASIS restart files present at the end of # the leg correspond to the start of the next leg! # ------------------------------------------------------------------------- outdir="${archive_dir}/restart/oasis/$(printf %03d $((leg_number+1)))" mkdir -p ${outdir} for f in ${oas_rst_files} do test -f ${f} && cp ${f} ${outdir} done # ------------------------------------------------------------------------- # *** Copy rcf files to the archive directory (of the next leg!) # ------------------------------------------------------------------------- outdir="${archive_dir}/restart/ifs/$(printf %03d $((leg_number+1)))" mkdir -p ${outdir} for f in rcf do test -f ${f} && cp ${f} ${outdir} done # ------------------------------------------------------------------------- # *** Move log files to archive directory # ------------------------------------------------------------------------- outdir="${archive_dir}/log/$(printf %03d $((leg_number)))" mkdir -p ${outdir} for f in \ ifs.log ifs.stat fort.4 ocean.output \ time.step solver.stat guess.log run1/guess0.log \ amip.log namelist.amip \ nout.000000 debug.root.?? \ ctm.tm5.log.0 do test -f ${f} && mv ${f} ${outdir} done has_config pisces && cp ocean.carbon ${outdir} for f in ctm.tm5.log.* do if [[ -f ${f} ]] then [[ -s ${f} ]] && mv ${f} ${outdir} || \rm -f ${f} fi done # ------------------------------------------------------------------------- # *** Write the restart control file # ------------------------------------------------------------------------- # Compute CPMIP performance sypd="$(cpmip_sypd $leg_length_sec $(($t2 - $t1)))" ncores=0 has_config nemo && (( ncores+=${nem_numproc} )) || : has_config ifs && (( ncores+=${ifs_numproc} )) || : has_config xios && (( ncores+=${xio_numproc} )) || : has_config rnfmapper && (( ncores+=${rnf_numproc} )) || : has_config lpjg && (( ncores+=${lpjg_numproc} )) || : has_config tm5 && (( ncores+=${tm5_numproc} )) || : has_config amip && (( ncores+=${amip_numproc} )) || : chpsy="$(cpmip_chpsy $leg_length_sec $(($t2 - $t1)) $ncores)" 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 special_restart=false done # loop over legs # ----------------------------------------------------------------------------- # *** Platform dependent finalising of the run # ----------------------------------------------------------------------------- finalise exit 0