#!/usr/bin/env bash #============================================================== # # B A R A K U D A # # An OCEAN MONITORING python environment for NEMO # # L. Brodeau, 2009-2017 # #=============================================================== export script=barakuda [ -z ${BARAKUDA_ROOT+x} ] && export BARAKUDA_ROOT=${PWD} # Display available configs: list_conf="`\ls ${BARAKUDA_ROOT}/configs/config_*.sh | sed -e "s|${BARAKUDA_ROOT}/configs\/config_||g" -e s/'.sh'/''/g`" # User configs, potentially in the directory from which barakuda.sh is called: list_conf+=" `\ls ./config_*.sh 2>/dev/null | sed -e "s|.\/config_||g" -e s/'.sh'/''/g`" # Important bash functions: . ${BARAKUDA_ROOT}/src/bash/bash_functions.bash barakuda_init while getopts C:R:f:y:c:FeEh option ; do case $option in C) export CONFIG=${OPTARG} ;; R) export EXP=${OPTARG} ;; f) export IFREQ_SAV_YEARS=${OPTARG} ;; y) export YEAR0=${OPTARG} ; export LFORCE_YINI=true ;; c) export EXPREF=${OPTARG} ;; F) export LFORCEDIAG=true ;; e) export ISTAGE=2 ;; E) export ISTAGE=2 ; export l_clim_diag=true ;; h) barakuda_usage; exit ;; \?) barakuda_usage; exit ;; esac done barakuda_check # Time to source the config file: if [ -f ./config_${CONFIG}.sh ]; then # sourcing local configuration file if present: fconfig=./config_${CONFIG}.sh else # sourcing barakuda-distribution configuration file: fconfig=${BARAKUDA_ROOT}/configs/config_${CONFIG}.sh fi if [ -f ${fconfig} ]; then echo "Sourcing configuration file: ${fconfig} !" . ${fconfig} else echo "ERROR: cannot find file ${fconfig} !"; exit fi echo # If auto-submit experiment (ece_exp=10) then overides a few functions with: if [ ${ece_exp} -ge 10 ]; then echo "Sourcing ${BARAKUDA_ROOT}/src/bash/bash_functions_autosub.bash" . ${BARAKUDA_ROOT}/src/bash/bash_functions_autosub.bash fi # If 3D fieds are annual averaged then overides a few functions with: if [ ! "${ANNUAL_3D}" = "" ]; then . ${BARAKUDA_ROOT}/src/bash/bash_functions_1y.bash fi # List of CDFTOOLS executables needed for the diagnostics: export L_EXEC="cdfmaxmoc.x cdfmoc.x cdfvT.x cdftransportiz.x cdficeflux.x cdficediags.x cdfmhst.x cdfsigtrp.x" barakuda_setup echo echo " SETTINGS: " echo " *** CONFIG = ${CONFIG} " echo " *** NEMO_OUT_D = ${NEMO_OUT_D} " echo " *** CLIM_DIR = ${CLIM_DIR} " echo " *** TMP_DIR = ${TMP_DIR} " echo " *** GRID = ${ORCA} " echo " *** EXP = ${EXP} " echo " *** CPREF = ${CPREF} " echo " *** IFREQ_SAV_YEARS = ${IFREQ_SAV_YEARS} " echo " *** NCDF_DIR = ${NCDF_DIR} " echo if [ ${ISTAGE} -eq 1 ]; then barakuda_first_last_years ; # look at NEMO files to know what are first and last years available... echo ${IFREQ_SAV_YEARS} > ${DIAG_D}/numb_year_per_file.info echo ${YEAR_INI} > ${DIAG_D}/first_year.info else # -> this is stage 2 (plot generation) ISTAGE=2 ! barakuda_init_plot fi cyear_ini=`printf "%04d" ${YEAR_INI}` cyear_end=`printf "%04d" ${YEAR_END}` # For proper python executables and scripts to be found: #export PATH=${PYBRKD_EXEC_PATH}:${BARAKUDA_ROOT}/src/bash:${PYTHON_HOME}/bin:${PATH} export PATH=${PYBRKD_EXEC_PATH}:${BARAKUDA_ROOT}/src/bash:${PATH} # setup over ###################################################################################### jyear=${YEAR_INI} fcompletion=${DIAG_D}/last_year_done.info if [ -f ${fcompletion} ]; then jyear=`cat ${fcompletion}`; ((jyear++)); fi cd ${TMP_DIR}/ barakuda_import_mesh_mask ; # Importing mesh_mask (+basin) files... if [ ${ISTAGE} -eq 1 ]; then # Importing cdftools executables: for ex in ${L_EXEC}; do rsync -v ${BARAKUDA_ROOT}/cdftools_light/bin/${ex} . ; done fi # L O O P A L O N G Y E A R S # ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lcontinue=true if ${LFORCEDIAG}; then lcontinue=false; fi while ${lcontinue}; do export cyear=`printf "%04d" ${jyear}` cpf="" if [ ${ISTAGE} -eq 1 ]; then iy=$(((${jyear}-${YEAR_INI})/${IFREQ_SAV_YEARS}+1+${YEAR_INI}-${YEAR_INI_F})) dir_ece=`printf "%03d" ${iy}` echo " *** ${cyear} => dir_ece = ${dir_ece}" cpf="${dir_ece}/" fi i_get_file=0 if [ $((${jyear}%${IFREQ_SAV_YEARS})) -eq 0 ]; then barakuda_check_year_is_complete ; # lcontinue might be updated to false! fi echo; echo export CRT1M=${CPREF}${cyear}${cmmdd1}_${cyear}${cmmdd2} if ${l_y2_j}; then export CRT1M=${CPREF}${cyear}${cmmdd1}_`printf "%04d" $((${jyear}+1))`${cmmdd2} ; fi if ${lcontinue}; then echo "Yeah! Year ${jyear} is saved..."; echo if [ ${ISTAGE} -eq 2 ]; then echo; echo "You cannot create figures and HTML pages yet!" echo " => finish treating the results first by launching barakuda.sh without the '-e' switch." exit fi echo; echo echo "*********************************************************************" echo " Experiment ${EXP}: Will generate diagnostics and data for year ${cyear}..." echo "*********************************************************************" echo; echo barakuda_import_files # Monthly files to work with for current year: ft1m=${CRT1M}_grid_T.nc fu1m=${CRT1M}_grid_U.nc fv1m=${CRT1M}_grid_V.nc fj1m=${CRT1M}_${FILE_ICE_SUFFIX}.nc ; # can be icemod or grid_T .... ff1m=${CRT1M}_${FILE_FLX_SUFFIX}.nc ; # file with surface fluxes # # Annual files to work with for current year: CRT1Y=`echo ${CRT1M} | sed -e s/"_${TSTAMP}_"/"_${ANNUAL_3D}_"/g` ft1y=${CRT1Y}_grid_T.nc fu1y=${CRT1Y}_grid_U.nc fv1y=${CRT1Y}_grid_V.nc fj1y=${CRT1Y}_${FILE_ICE_SUFFIX}.nc ff1y=${CRT1Y}_${FILE_FLX_SUFFIX}.nc CFG3D=${CRT1M} # # Files that contain the 3D fields (might be monthly or annaual sometimes (when "${ANNUAL_3D}" = "1y") ft3d=${ft1m} fu3d=${fu1m} fv3d=${fv1m} if [ "${ANNUAL_3D}" = "1y" ]; then [[ ${NEMO_SAVED_FILES_3D} =~ (^|[[:space:]])"grid_U"($|[[:space:]]) ]] \ && CFG3D=${CRT1Y}; ft3d=${ft1y}; fu3d=${fu1y}; fv3d=${fv1y} \ || echo "...default" echo "" fi fvt=${CFG3D}_VT.nc # -- time to compute diagnostics -- # ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ # If coupled EC-Earth simu, attempting to compute ocean-averaged fluxes from IFS too (E, P, E-P) # ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ if [ ${ece_exp} -eq 2 ] && [ ${NBL} -eq 75 ] && [ ${i_do_ifs_flx} -eq 1 ]; then echo; echo; echo "Fluxes of freshwater at the surface from IFS..." echo " *** CALLING: extract_ifs_surf_fluxes.sh &" ${BARAKUDA_ROOT}/src/bash/misc_ifs/extract_ifs_surf_fluxes.sh & pid_flxl=$! ; echo fi # ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ # Computing time-series of spatially-averaged variables # ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ if [ ${i_do_mean} -eq 1 ]; then # echo; echo "3D-averaging for time series" echo " *** CALLING: mean_3d.py ${ft1m} ${jyear} T &" mean_3d.py ${ft1m} ${jyear} T & pid_mn3dt=$! ; echo # echo " *** CALLING: mean_3d.py ${ft1m} ${jyear} S &" mean_3d.py ${ft1m} ${jyear} S & pid_mn3ds=$! ; echo # echo; echo "2D-averaging for time series" echo " *** CALLING: mean_2d.py ${ft1m} ${jyear} &" mean_2d.py ${ft1m} ${jyear} & pid_mn2d=$! ; echo # echo; echo "2D-integration of some surface fluxes over basins" echo " *** CALLING: flux_int_basins.py ${ff1m} ${jyear} &" flux_int_basins.py ${ff1m} ${jyear} & pid_ssf=$! ; echo # fi # ~~~~~~~~~~~~~~~~~~~~~~~~~~ # Creating VT file if needed # ~~~~~~~~~~~~~~~~~~~~~~~~~~ if [ ${i_do_trsp} -gt 0 ] || [ ${i_do_mht} -eq 1 ]; then if [ ! -f ${fvt} ]; then echo; echo; echo " *** CALLING: ./cdfvT.x ${CFG3D} ${NN_T} ${NN_S} ${NN_U} ${NN_V} ${NN_U_EIV} ${NN_V_EIV} &" ./cdfvT.x ${CFG3D} ${NN_T} ${NN_S} ${NN_U} ${NN_V} ${NN_U_EIV} ${NN_V_EIV} & pid_vtvt=$! ; echo fi fi # ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ # 2D maps of NEMO - OBS for SST and SSS (for movies) # ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ if [ ${i_do_movi} -eq 1 ]; then echo; echo; echo "2D maps of NEMO - OBS for SST and SSS (for movies)" echo " *** CALLING: prepare_movies.py ${ft1m} ${jyear} sst &" prepare_movies.py ${ft1m} ${jyear} sst & pid_movt=$! ; echo echo " *** CALLING: prepare_movies.py ${ft1m} ${jyear} sss &" prepare_movies.py ${ft1m} ${jyear} sss & pid_movs=$! ; echo echo " *** CALLING: prepare_movies.py ${ft1m} ${jyear} mld &" prepare_movies.py ${ft1m} ${jyear} mld & pid_movm=$! ; echo echo " *** CALLING: prepare_movies.py ${fj1m} ${jyear} ice &" prepare_movies.py ${fj1m} ${jyear} ice & pid_movi=$! ; echo fi # ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ # Computing time-series of spatially-averaged variables # on boxes (saving the variable on 2D box too... # ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ if [ ${i_do_ssx_box} -eq 1 ]; then echo; echo; echo "Box monthly values" echo " *** CALLING: ssx_boxes ${ft1m} ${jyear} ${NN_SST} ${NN_SSS} &" ssx_boxes.py ${ft1m} ${jyear} ${NN_SST} ${NN_SSS} & pid_boxa=$! ; echo fi #~~~~~~~ # MOC #~~~~~~~ if [ ${i_do_amoc} -eq 1 ]; then echo; echo; echo "MOC" rm -f moc.nc *.tmp echo " *** CALLING: ./cdfmoc.x ${fv3d} ${NN_V} ${NN_V_EIV} &" ./cdfmoc.x ${fv3d} ${NN_V} ${NN_V_EIV} & pid_amoc=$! ; echo fi #~~~~~~~~~~~~~~~~~~~~~~~~~~~ # Transport by sigma-class #~~~~~~~~~~~~~~~~~~~~~~~~~~~ if [ ${i_do_sigt} -eq 1 ]; then echo; echo if [ ! -f ./dens_section.dat ]; then if [ -f ${DENSITY_SECTION_FILE} ]; then echo "Copying ${DENSITY_SECTION_FILE} to here: `pwd` !"; cp ${DENSITY_SECTION_FILE} ./dens_section.dat else echo; echo "WARNING: Can't do Transport by sigma-class: ${DENSITY_SECTION_FILE} is missing!!!" fi fi echo " *** CALLING: ./cdfsigtrp.x ${ft3d} ${fu3d} ${fv3d} 24.8 28.6 19 ${jyear} ${DIAG_D} ${NN_T} ${NN_S} ${NN_U} ${NN_V} &"; echo ./cdfsigtrp.x ${ft3d} ${fu3d} ${fv3d} 24.8 28.6 19 ${jyear} ${DIAG_D} ${NN_T} ${NN_S} ${NN_U} ${NN_V} & pid_sigt=$! ; echo fi echo echo " Gonna wait for level #1 to be done !" wait ${pid_vtvt} #wait echo " .... diag level #1 done...." ; echo echo # ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ # Meridional heat and salt transport # ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ if [ ${i_do_mht} -eq 1 ]; then echo; echo; echo "Meridional transport of heat and salt" fo=${DIAG_D}/merid_transport_T_S_${CONFEXP}.nc if [ ! -f ${fvt} ]; then echo "WARNING: file ${fvt} is not here, skipping meridional transports section" else rm -f merid_heat_trp.dat merid_salt_trp.dat echo " *** CALLING: ./cdfmhst.x ${fvt} ${fo} ${jyear} &" ./cdfmhst.x ${fvt} ${fo} ${jyear} & pid_mhst=$! ; echo fi fi # ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ # VOLUME, HEAT and SALT transports through specified section # ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ if [ ${i_do_trsp} -gt 0 ]; then echo; echo; echo "Transports of volume, heat and salt through different sections" if [ -z ${TRANSPORT_SECTION_FILE} ]; then echo "Please specify which TRANSPORT_SECTION_FILE to use into the config file!" ; exit fi if [ ! -f ./transportiz.dat ]; then check_if_file ${TRANSPORT_SECTION_FILE} cp ${TRANSPORT_SECTION_FILE} ./transportiz.dat fi if [ ${i_do_trsp} -eq 1 ]; then z1_trsp="" ; z2_trsp=""; fi if [ ! -f ${fvt} ]; then echo "WARNING: file ${fvt} is not here, skipping transport section!" else # Breaking transportiz file in several files so we can go parallel! rm -f transportiz_*.dat break_downn_section_file.py ./transportiz.dat 2 ; # => Max. 2 sections per file list=`\ls transportiz_*.dat` for fs in ${list}; do echo " *** CALLING: ./cdftransportiz.x ${fs} ${CFG3D} ${NN_U} ${NN_V} ${NN_U_EIV} ${NN_V_EIV} ${jyear} ${DIAG_D} ${z1_trsp} ${z2_trsp} &" ./cdftransportiz.x ${fs} ${CFG3D} ${NN_U} ${NN_V} ${NN_U_EIV} ${NN_V_EIV} ${jyear} ${DIAG_D} ${z1_trsp} ${z2_trsp} & echo done fi fi # ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ # Solid freshwater transport through sections due to sea-ice drift # ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ if [ ${i_do_ice} -gt 0 ] && [ ${i_do_trsp_ice} -eq 1 ]; then echo; echo; echo "Solid freshwater transport through sections due to sea-ice drift" if [ -z ${TRANSPORT_SECTION_FILE_ICE} ]; then echo "Please specify which TRANSPORT_SECTION_FILE_ICE to use into the config file!" ; exit fi if [ ! -f ./transport_ice.dat ]; then check_if_file ${TRANSPORT_SECTION_FILE_ICE} cp ${TRANSPORT_SECTION_FILE_ICE} ./transport_ice.dat fi # # Breaking transportiz file in several files so we can go parallel! rm -f transport_ice_*.dat break_downn_section_file.py ./transport_ice.dat 2 ; # => Max. 2 sections per file list=`\ls transport_ice_*.dat` for fs in ${list}; do echo " *** CALLING: ./cdficeflux.x ${fs} ${fj1m} ${NN_ICEF} ${NN_ICEU} ${NN_ICEV} ${NN_ICET} ${jyear} ${DIAG_D} &" ./cdficeflux.x ${fs} ${fj1m} ${NN_ICEF} ${NN_ICEU} ${NN_ICEV} ${NN_ICET} ${jyear} ${DIAG_D} & echo done fi #~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ # Deep Mixed Volume (DMV) on a given box #~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ if [ ! -z ${i_do_dmv} ] && [ ${i_do_dmv} -gt 0 ]; then if [ -z ${FILE_DEF_BOXES} ]; then echo "Please specify a FILE_DEF_BOXES to use into the config file!" ; exit fi echo " *** CALLING: dmv.py ${ft1m} ${cyear} &" dmv.py ${ft1m} ${cyear} & pid_dmvl=$! ; echo fi # ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ # Budget and other stuffs on a given rectangular box! # It provides time-series depending only on time (not depth) # budget_rectangle_box.py # ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ if [ ${i_do_bb} -gt 0 ]; then echo; echo; echo "Budget and other stuffs on rectangular boxes!" if [ -z ${FILE_DEF_BOXES} ]; then echo "Please specify a FILE_DEF_BOXES to use into the config file!" ; exit fi echo " *** CALLING: budget_rectangle_box.py ${cyear} 100 uv &" budget_rectangle_box.py ${cyear} 100 uv & pid_bbbb=$! ; echo fi echo " Gonna wait for level #2 to be done !" wait ${pid_amoc} ; # moc needs to be done to call cdfmaxmoc.x ... echo echo " .... diag level #2 done...." ; echo ; echo #~~~~~~~~~~~ # Max AMOC #~~~~~~~~~~~ if [ ${i_do_amoc} -eq 1 ]; then if [ -z "${LMOCLAT}" ]; then echo "AMOC => specify latitude bands with variable LMOCLAT into the config file!!!"; exit fi for clat in ${LMOCLAT}; do cslat=`echo ${clat} | sed -e s/'-'/' '/g` echo " *** ./cdfmaxmoc.x moc.nc atl ${cslat} 500 1500 ${jyear} ${DIAG_D}" ./cdfmaxmoc.x moc.nc atl ${cslat} 500 1500 ${jyear} ${DIAG_D} done fi #~~~~~~~~~ # SEA-ICE #~~~~~~~~~ if [ ${i_do_ice} -eq 1 ]; then echo; echo; echo "Sea-ice extent and volume..." ; rm -f tmp_ice.nc echo "ncks -A -v ${NN_ICEF} ${fj1m} -o tmp_ice.nc" ncks -A -v ${NN_ICEF} ${fj1m} -o tmp_ice.nc ncrename -v ${NN_ICEF},ice_frac tmp_ice.nc coic="" if [ -z ${NN_ICET} ]; then coic="oic" ; # means only ice concentration available! else echo "ncks -A -v ${NN_ICET} ${fj1m} -o tmp_ice.nc" ncks -A -v ${NN_ICET} ${fj1m} -o tmp_ice.nc ncrename -v ${NN_ICET},ice_thic tmp_ice.nc fi echo " *** CALLING: ./cdficediags.x tmp_ice.nc ${jyear} ${DIAG_D} ${coic} &" ./cdficediags.x tmp_ice.nc ${jyear} ${DIAG_D} ${coic} & fi #~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ # Temperature and Salinity on cross meridional/zonal sections #~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ if [ ${i_do_sect} -eq 1 ]; then check_if_file ${TS_SECTION_FILE} lst_sec=`cat ${TS_SECTION_FILE} | grep -v -E '(^#|EOF)' | awk -F ' ' '{print $1}'` echo; echo; echo "Cross-sections on specified transects:" echo "${lst_sec}"; echo echo " *** CALLING: cross_sections.py ${ft3d} ${jyear} &" cross_sections.py ${ft3d} ${jyear} & echo fi #~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ # Vertical profiles of T,S and density horizontally averaged # on rectangular boxes defined into FILE_DEF_BOXES # => creates time-series function of time and depth #~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ if [ ${i_do_box_TS_z} -gt 0 ]; then if [ -z ${FILE_DEF_BOXES} ]; then echo "Please specify a FILE_DEF_BOXES to use into the config file!" ; exit fi echo " *** CALLING: prof_TS_z_box.py ${cyear} &" prof_TS_z_box.py ${cyear} & echo;echo fi # --- end of stuffs that can be launched in bg --- echo echo " Waiting for backround jobs for current year (${jyear}) !" wait ${pid_mn3dt} ${pid_mn3ds} ${pid_movt} ${pid_movs} ${pid_movm} ${pid_movi} ${pid_mn2d} ${pid_ssf} ${pid_flxl} wait echo " Done waiting for year ${cyear} !" if [ ${i_do_movi} -eq 1 ]; then rsync -rv movies ${DIAG_D}/ ; fi rm -f *.tmp broken_line_* tmp_ice.nc rm -f ${CRT1M}_*.nc ${CRT1Y}_*.nc ; #debug echo echo " ---- DIAGS ARE DONE FOR YEAR ${cyear} ! ---" echo "${cyear}" > ${fcompletion} echo; echo fi ; # if ${lcontinue}; then #if ${LFORCE_YEND}; then # if [ ${jyear} -eq ${YEARN} ]; then lcontinue=false; fi #fi wait ((jyear++)) # end loop years... done ; # while ${lcontinue}; do # PREPARING HTML PAGE # ~~~~~~~~~~~~~~~~~~~ l_pclim=false if [ ${ISTAGE} -eq 2 ]; then rm -rf ${DIAG_D}/${EXP} y1=`cat ${DIAG_D}/first_year.info` y2=`cat ${DIAG_D}/last_year_done.info` nby=$((${y2}-${y1}+1)) # Agreement between last year from output files and 'fcompletion' file: ydum=`cat ${fcompletion}` if [ -z ${YEARN} ]; then # (if YEARN is not set...) if [ ! ${ydum} -eq ${YEAR_END} ]; then echo; echo "###################################################################" echo "ERROR: in ${fcompletion} last_year = ${ydum}" echo " and from stored files files last_year = ${YEAR_END} !" echo "###################################################################" echo exit fi fi echo; echo; echo "EXP ${EXP}: creating plots"; echo #cd ${BARAKUDA_ROOT}/ cd ${DIAG_D}/ echo if [ ${i_do_movi} -eq 1 ]; then if [ "${iffmpeg_x264}" = "1" ]; then # FFMPEG compiled with x264 mp4 support is available on host: cd movies/ for cc in dsst dsss mld icen ices; do hh=520 ; # height of image in pixels if [ "${cc}" = "icen" ]; then hh=576; fi if [ "${cc}" = "ices" ]; then hh=456; fi echo " *** CALLING: images2mp4.sh ${cc} ${FIG_FORM} ${hh} 8 &" images2mp4.sh ${cc} ${FIG_FORM} ${hh} 8 & echo done cd ${DIAG_D}/ else # Faling back on GIF, with 'convert' of imageMagick: idelay=$((120-${nby}*8)) if [ ${idelay} -lt 10 ]; then idelay=10; fi rm -f *_${CONFEXP}.gif for cc in dsst dsss mld icen ices; do echo " *** CALLING: convert -delay ${idelay} -loop 0 movies/${cc}_*.png ${cc}_${CONFEXP}.gif &" convert -delay ${idelay} -loop 0 movies/${cc}_*.png ${cc}_${CONFEXP}.gif & echo done fi fi # 1D plots to perform # ~~~~~~~~~~~~~~~~~~~ DIAG_1D_LIST="" if [ ${i_do_mean} -eq 1 ]; then DIAG_1D_LIST="${DIAG_1D_LIST} 3d_so mean_sos 3d_thetao mean_tos mean_zos" if [ ! "${NN_MLD}" = "X" ]; then DIAG_1D_LIST="${DIAG_1D_LIST} mean_mld"; fi if [ ! "${NN_QNET}" = "X" ]; then DIAG_1D_LIST="${DIAG_1D_LIST} mean_htf"; fi if [ ! "${NN_FWF}" = "X" ]; then DIAG_1D_LIST="${DIAG_1D_LIST} mean_fwf"; fi fi if [ ${i_do_amoc} -eq 1 ]; then DIAG_1D_LIST="${DIAG_1D_LIST} amoc"; fi if [ ${i_do_ice} -eq 1 ]; then DIAG_1D_LIST="${DIAG_1D_LIST} seaice"; fi if [ ${i_do_trsp} -gt 0 ] || [ ${i_do_trsp_ice} -eq 1 ]; then DIAG_1D_LIST="${DIAG_1D_LIST} transport_sections" ; fi dy=$((${YEAR_END}-${YEAR_INI}+1)) ; export YF2=$((${YEAR_END}+1)) # Doing 1D plots # ~~~~~~~~~~~~~~ echo ; echo; echo "Going to perform the following 1D plots:" echo " => ${DIAG_1D_LIST}"; echo for fd in ${DIAG_1D_LIST}; do echo " *** CALLING: plot_time_series.py ${fd}" plot_time_series.py ${fd} ; echo echo done echo ; echo ; echo if [ ${i_do_mean} -eq 1 ]; then # 5-month-running mean SST anomaly over Nino region 3.4 graph: echo " *** CALLING: plot_enso.py Nino34_${CONFEXP}.nc ${NN_SST}" plot_enso.py Nino34_${CONFEXP}.nc ${NN_SST} echo; echo # Hovmuller of temperature and salinity echo " *** CALLING: plot_hovm_tz.py" plot_hovm_tz.py echo; echo if [ ${nby} -ge 70 ]; then # AMO aka 11-year-running mean SST anomaly over North Atlantic (0-70N) echo " *** CALLING: plot_amo.py mean_SST_NAtl_${CONFEXP}.nc ${NN_SST}" plot_amo.py mean_SST_NAtl_${CONFEXP}.nc ${NN_SST} echo; echo fi fi if [ ${i_do_sigt} -eq 1 ]; then # Transport by sigma-class echo " *** CALLING: plot_trsp_sigma.py" plot_trsp_sigma.py echo; echo; echo fi if [ ${i_do_mht} -eq 1 ]; then # # Hovmullers of advective meridional heat/salt transport echo; echo echo " *** CALLING: plot_hovm_merid_trsp.py" plot_hovm_merid_trsp.py echo; echo; echo # fi echo; echo; echo if ${l_clim_diag} ; then ########################################################################### # Climatology over X years (12-month file average of X consecutive years) # => has to be built with the 'build_clim.sh' script ########################################################################### echo; echo; echo "Checking for presence of ${DIAG_D}/clim/last_clim..." if [ -f ${DIAG_D}/clim/last_clim ]; then cat ${DIAG_D}/clim/last_clim export CLIM_PER=`cat ${DIAG_D}/clim/last_clim` ftcli=${DIAG_D}/clim/mclim_${CONFEXP}_${CLIM_PER}_grid_T.nc4 ficli=${DIAG_D}/clim/mclim_${CONFEXP}_${CLIM_PER}_${FILE_ICE_SUFFIX}.nc4 fcsbc=${DIAG_D}/clim/mclim_${CONFEXP}_${CLIM_PER}_${FILE_FLX_SUFFIX}.nc4 fclvt=${DIAG_D}/clim/aclim_${CONFEXP}_${CLIM_PER}_VT.nc4 fcmoc=${DIAG_D}/clim/aclim_${CONFEXP}_${CLIM_PER}_MOC.nc4 fcpsi=${DIAG_D}/clim/aclim_${CONFEXP}_${CLIM_PER}_PSI.nc4 fccrl=${DIAG_D}/clim/aclim_${CONFEXP}_${CLIM_PER}_TCURL.nc4 iclyear=`echo ${CLIM_PER} | sed -e s/'-'/' '/g` else echo; echo "ERROR => you set l_clim_diag to true (probably by using '-E') but no file 'last_clim' was found in:" echo " ${DIAG_D}/clim/" echo " => then use '-e' instead!"; echo exit fi echo; echo; echo "Checking for presence of ${ftcli}..." if [ -f ${ftcli} ]; then echo; echo; echo "~~~~~~~~~~~~~~~~~~~~~~~~~~~" echo "* Climatologies found !!!" echo "~~~~~~~~~~~~~~~~~~~~~~~~~~~" echo echo " => for years ${CLIM_PER}" ; echo " => using ${ftcli}" list_comp_2d="OBS" l_pclim=true lcomp_to_exp=false if [ ! -z ${EXPREF} ]; then lcomp_to_exp=true list_comp_2d="OBS ${EXPREF}" # Must check if climatology for exp ${EXPREF} is there: fclim_ref=`echo "${ftcli}" | sed -e "s|${EXP}|${EXPREF}|g"` check_if_file ${fclim_ref} echo "Going to compare also against exp ${fclim_ref}!" echo fi echo; echo for ff in ${F_T_OBS_3D_12} ${F_S_OBS_3D_12} ${F_SST_OBS_12}; do check_if_file ${ff} "name:${ff}"; done if [ ${i_do_ice} -gt 0 ]; then check_if_file ${F_ICE_OBS_12} "name:${F_ICE_OBS_12}" ; fi echo; echo ####################################### # Diags that don't imply a comparison # ####################################### export COMP2D="OBS" # Lat-Depth AMOC # ~~~~~~~~~~~~~~ if [ -f ${fcmoc} ]; then echo; echo echo " Ploting lat-depth MOC !" cd ${DIAG_D}/ export DIRS_2_EXP="${DIRS_2_EXP} moc" rm -rf moc; mkdir moc; cd moc/ echo; echo; echo " *** CALLING: moc.py ${iclyear}" moc.py ${iclyear} & cd ../ echo fi # March Mixed layer depth in Nordic Seas # ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ if [ `ipresent_var_in_ncf ${ftcli} ${NN_MLD}` -eq 1 ]; then echo; echo echo " Performing 2D mapping of March Mixed layer depth in Nordic Seas" cd ${DIAG_D}/ export DIRS_2_EXP="${DIRS_2_EXP} mld" rm -rf mld; mkdir mld; cd mld/ echo; echo; echo " *** CALLING: mld.py ${iclyear}"; echo mld.py ${iclyear} & cd ../ echo fi # Sea-ice extent stereographic polar projection South and North # ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ if [ ${i_do_ice} -gt 0 ] && [ `ipresent_var_in_ncf ${ficli} ${NN_ICEF}` -eq 1 ]; then echo; echo echo " Performing 2D Sea-ice extent stereographic polar projection South and North" cd ${DIAG_D}/ export DIRS_2_EXP="${DIRS_2_EXP} sea_ice" rm -rf sea_ice; mkdir sea_ice; cd sea_ice/ echo; echo; echo " *** CALLING: ice.py ${iclyear}"; echo ice.py ${iclyear} & cd ../ echo fi # Sea-surface height # ~~~~~~~~~~~~~~~~~~ if [ `ipresent_var_in_ncf ${ftcli} ${NN_SSH}` -eq 1 ]; then echo; echo; echo " SSH map" export DIRS_2_EXP="${DIRS_2_EXP} ssh" cd ${DIAG_D}/ rm -rf ssh; mkdir ssh; cd ssh/ echo " *** CALLING: ssh.py ${iclyear}"; echo ssh.py ${iclyear} & cd ../ ; echo else echo; echo "WARNING: did not find ${NN_SSH} into ${ftcli} !!!!"; echo fi # Wind-stress module and curl # ~~~~~~~~~~~~~~~~~~~~~~~~~~~ if [ -f ${fccrl} ]; then echo; echo; echo " Wind-stress module and curl maps" if [ -x ${NN_TAUM} ]; then echo "ERROR: define variable NN_TAUM in ${fconfig}! ('X' if not present in NEMO output)"; exit; fi export DIRS_2_EXP="${DIRS_2_EXP} wind" cd ${DIAG_D}/ rm -rf wind; mkdir wind; cd wind/ echo " *** CALLING: wind.py ${iclyear}"; echo wind.py ${iclyear} & cd ../ ; echo else echo echo "WARNING: did not find file ${fccrl} !!!" echo " or did not find ${NN_TAUM} into ${fcsbc} !!!!" echo fi # Zonally-averaged surface heat fluxes # ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lolo if [ -f ${fcsbc} ]; then echo; echo; echo " Zonally-averaged surface heat fluxes" if [ -x ${NN_QSOL} ]; then echo "ERROR: define variable NN_QSOL in ${fconfig}! ('X' if not present in NEMO output)"; exit; fi export DIRS_2_EXP="${DIRS_2_EXP} sfluxes" cd ${DIAG_D}/ rm -rf sfluxes; mkdir sfluxes; cd sfluxes/ echo " *** CALLING: sfluxes.py ${iclyear}"; echo sfluxes.py ${iclyear} & cd ../ ; echo else echo echo "WARNING: did not find file ${fcsbc} !!!" echo " or did not find ${NN_QSOL} into ${fcsbc} !!!!" echo fi ################################################## # Diags that imply a comparison against "COMP2D" # ################################################## cd ${DIAG_D}/ rm -rf temp_sal for COMP2D in ${list_comp_2d}; do export COMP2D=${COMP2D} echo; echo; echo "Clim. comparisons against ${COMP2D}" if [ "${COMP2D}" = "${EXPREF}" ]; then export F_T_OBS_3D_12=${fclim_ref}; check_if_file ${F_T_OBS_3D_12} "name:F_T_OBS_3D_12" export F_S_OBS_3D_12=${fclim_ref}; check_if_file ${F_S_OBS_3D_12} "name:F_S_OBS_3D_12" export F_SST_OBS_12=${fclim_ref} ; check_if_file ${F_SST_OBS_12} "name:F_SST_OBS_12" if [ ${i_do_ice} -gt 0 ]; then export F_ICE_OBS_12=${fclim_ref} ; check_if_file ${F_ICE_OBS_12} "name:F_ICE_OBS_12"; fi fi # Temperature and Salinity # ~~~~~~~~~~~~~~~~~~~~~~~~ echo; echo echo " Creating maps and cross-sections (i_do_sect) of Temperature and Salinity" cd ${DIAG_D}/ export DIRS_2_EXP="${DIRS_2_EXP} temp_sal" DIRS_2_EXP_RREF="${DIRS_2_EXP_RREF} temp_sal" mkdir -p temp_sal; cd temp_sal/ echo; echo; echo " *** CALLING: temp_sal.py ${iclyear} &"; echo temp_sal.py ${iclyear} & cd ../ echo done ; # for COMP2D in ${list_comp_2d}; do wait else echo; echo echo " No Climatologies found ..."; echo " => you can use 'build_clim.sh' to build a climato of your experiment" echo; echo fi fi ; # if ${l_clim_diag} wait # Time for HTML stuff! export HTML_DIR=${DIAG_D}/${EXP} mkdir -p ${HTML_DIR} cd ${DIAG_D}/ # Moving all figures to HTML_DIR: for fp in ${FIG_FORM} svg mp4 gif; do mv -f *.${fp} ${HTML_DIR}/ >/dev/null 2>/dev/null ; done mv -f ./merid_transport/*.${FIG_FORM} ${HTML_DIR}/ >/dev/null 2>/dev/null mv -f ${DIAG_D}/movies/movie_*.mp4 ${HTML_DIR}/ >/dev/null 2>/dev/null # Sign with logo? #cd ${HTML_DIR}/ #list=`\ls *.png` #for ff in ${list}; do # sign_image ${ff} n_${ff} # mv -f n_${ff} ${ff} #done cd ${DIAG_D}/ . ${BARAKUDA_ROOT}/src/bash/build_html.bash wait # Building main index.html build_index_html # If climatology built, sub 2D html pages if ${l_pclim}; then build_sub_html fi #================================================================== wait ; # likely waiting for the creation of the GIFs.... echo; echo cp ${BARAKUDA_ROOT}/src/html/conf_*.html ${HTML_DIR}/ if [ ${ece_exp} -eq 0 ]; then cp -L ${BARAKUDA_ROOT}/src/html/logo.*g ${HTML_DIR}/ else cp -L ${BARAKUDA_ROOT}/src/html/logo_ece.svg ${HTML_DIR}/logo.svg cp -L ${BARAKUDA_ROOT}/src/html/logo_ece.png ${HTML_DIR}/logo.png fi mv -f index.html namelist*.html ${HTML_DIR}/ cp -r ${DIRS_2_EXP} ${HTML_DIR}/ >/dev/null 2>/dev/null echo; echo; echo if [ ${ihttp} -eq 1 ]; then echo "Preparing to export to remote host!"; echo send_dir=`basename ${HTML_DIR}` tar cvf ${send_dir}.tar ${send_dir} ssh ${RUSER}@${RHOST} "mkdir -p ${RWWWD}" scp ${send_dir}.tar ${RUSER}@${RHOST}:${RWWWD}/ ssh ${RUSER}@${RHOST} "cd ${RWWWD}/; rm -rf ${send_dir}; tar xf ${send_dir}.tar 2>/dev/null; rm -f ${send_dir}.tar; \ chmod -R a+r ${send_dir}; cd ${send_dir}/" echo; echo echo "Diagnostic page installed on http://${RHOST}${RWWWD}/${send_dir}/ !" echo "( Also browsable on local host in ${DIAG_D}/${send_dir} )" rm -f ${send_dir}.tar else if [ ${ihttp} -eq 0 ]; then echo "Diagnostic page installed in ${HTML_DIR}/" echo " => you can view it with a web browser..." else echo "Error: \"ihttp\" must be either 0 or 1 !" fi fi echo; echo rm -rf *.eps else echo echo "Diagnostics built and saved! (${DIAG_D})" echo "Re-Run \"${script}.sh\" adding the \"-e\" or \"-E\" switch to create figure and HTML page..." echo fi #rm -rf ${TMP_DIR} 2>/dev/null ; #debug echo