#!/bin/bash #set -vx ########################################################################### # Author : Laurent Fairhead et Frédéric Hourdin # Usage : install_lmdz.sh -help # # bash installation script of the LMDZ model on different computer types : # Linux PC, "mesocentre" (IPSL-UPMC, IPSL-X), super-computer (IDRIS) # # The model is downloaded in the following directory tree # $MODEL/modipsl/modeles/... # using the "modipsl" infrastructure created by the "IPSL" # for coupled (atmosphere/ocean/vegetation/chemistry) climate modeling # activities. # Here we only download atmospheric (LMDZ) and vegetation (ORCHIDEE) # components. # # The sources of the models can be found in the "modeles" directory. # In the present case, LMDZ, ORCHIDEE, and IOIPSL or XIOS (handling of # input-outputs using the NetCDF library). # # The script downloads various source files (including a version of NetCDF) # and utilities, compiles the model, and runs a test simulation in a # minimal configuration. # # Prerequisites : pgf90/gfortran, bash or ksh, wget , gunzip, tar, ... # # Modif 18/11/2011 # changes for option real 8. # We compile with -r8 (or equivalent) and -DNC_DOUBLE for the GCM # but with -r4 for netcdf. Variable real must be set to # r4 or r8 at the beginning of the script below. # ########################################################################### echo install_lmdz.sh DEBUT `date` set -e ################################################################ # Choice of installation options ################################################################ ################################################################ # A function to fetch files either locally or on the internet ################################################################ function myget { #1st and only argument should be file name # Path on local computer where to look for the datafile if [ -f /u/lmdz/WWW/LMDZ/pub/$1 ] ; then \cp -f -p /u/lmdz/WWW/LMDZ/pub/$1 . elif [ -f ~/LMDZ/pub/$1 ] ; then \cp -f -p ~/LMDZ/pub/$1 . else wget --no-check-certificate -nv http://lmdz.lmd.jussieu.fr/pub/$1 save_pub_locally=0 if [ $save_pub_locally = 1 ] ; then # saving wget files on ~/LMDZ/pub dir=~/LMDZ/pub/`dirname $1` ; mkdir -p $dir cp -r `basename $1` $dir fi fi } # 04_2021 : tester si r4 marche encore ! #real=r4 real=r8 ######################################################################### # Valeur par défaut des parametres ######################################################################### svn="" #version=trunk version=20231022.trunk getlmdzor=1 netcdf=1 # 1: for automatic installation; # or 0: do not install NetCDF and look for it in standard locations; # or absolute path: look for NetCDF there check_linux=1 ioipsl=1 bench=1 pclinux=1 pcmac=0 # default: not on a Mac compiler=gfortran if [ `gfortran -dumpversion | cut -d. -f1` -ge 11 ] ; then allow_arg_mismatch="-fallow-argument-mismatch" ; fi SCM=0 # surface/vegetation scheme treatment # controlled by the single variable veget which can have the following values # - NONE: bucket scheme (default) # - CMIP6: orchidee version used in CMIP exercise, rev 5661 # - number: orchidee version number veget=NONE # choose the resolution for the bench runs # grid_resolution= 32x24x11 or 48x36x19 for tests (test without ORCHIDEE) # 96x71x19 standard configuration grid_resolution=144x142x79 grid_resolution=96x95x39 grid_resolution=48x36x19 grid_resolution=32x32x39 # choose the physiq version you want to test #physiq=NPv6.0.14splith physiq= ## parallel can take the values none/mpi/omp/mpi_omp parallel=mpi_omp parallel=none idris_acct=lmd trusting=testing OPT_GPROF="" OPT_MAKELMDZ="" MODEL="" ## also compile XIOS? (and more recent NetCDF/HDF5 libraries) Default=no with_xios="n" opt_makelmdz_xios="" ## compile with oldrad/rrtm/ecrad radiatif code (Default=rrtm) rad=rrtm ## compile_with_fcm=1 : use makelmdz_fcm (1) or makelmdz (0) compile_with_fcm=1 #Compilation with Cosp (cosp=NONE/v1/v2 ; default=NONE) cosp=NONE opt_cosp="" # Check if on a Mac if [ `uname` = "Darwin" ] then pcmac=1 export MAKE=make fi #echo "pcmac="$pcmac env_file="" ######################################################################### # Options interactives ######################################################################### while (($# > 0)) do case $1 in "-h") cat <<........fin $0 [ -v version ] [ -r svn_release ] [ -parallel PARA ] [ -d GRID_RESOLUTION ] [ -bench 0/1 ] [-name LOCAL_MODEL_NAME] [-gprof] [-opt_makelmdz] [-rad RADIATIF] -v "version" like 20150828.trunk see http://www.lmd.jussieu.fr/~lmdz/Distrib/LISMOI.trunk -r "svn_release" : either the svn release number or "last" -compiler gfortran|ifort|pgf90 (default: gfortran) -parallel PARA : can be mpi_omp (mpi with openMP) or none (for sequential) -d GRID_RESOLUTION should be among the available benchs if -bench 1 among which : 48x36x19, 48x36x39 if wanting to run a bench simulation in addition to compilation default : 48x36x19 -bench activating the bench or not (0/1). Default 1 -testing/unstable -name LOCAL_MODEL_NAME : default = LMDZversion.release -netcdf 0, 1 or PATH 0: do not download NetCDF, look for it in standard locations 1: download and compile NetCDF PATH: full path to an existing installed NetCDF library -xios also download and compile the XIOS library (requires the NetCDF4-HDF5 library, also installed by default) (requires to also have -parallel mpi_omp) -gprof to compile with -pg to enable profiling with gprof -cosp to run without our with cospv1 or cospv2 [none/v1/v2] -rad RADIATIF can be oldrad, rrtm or ecrad radiatif code -nofcm to compile without fcm -SCM install 1D version automatically -debug compile everything in debug mode -opt_makelmdz to call makelmdz or makelmdz_fcm with additional options -physiq to choose which physics package to use -env_file specify an arch.env file to overwrite the existing one -veget surface model to run [NONE/CMIP6/xxxx] ........fin exit ;; "-v") version=$2 ; shift ; shift ;; "-r") svn=$2 ; shift ; shift ;; "-compiler") compiler=$2 case $compiler in "gfortran"|"ifort"|"pgf90") compiler=$2 ; shift shift ;; *) echo "Only gfortran , ifort or pgf90 for the " \ "compiler option" exit esac ;; "-d") grid_resolution=$2 ; shift ; shift ;; "-gprof") OPT_GPROF="-pg" ; shift ;; "-unstable"|"-testing") trusting=`echo $1 | cut -c2-` ; shift ;; "-cosp") cosp=$2 case $cosp in "none"|"v1"|"v2") cosp=$2 ; shift ; shift ;; *) echo Only none v1 v2 for cosp option ; exit esac ;; "-nofcm") compile_with_fcm=0 ; echo This option will be reactivated soon '(promesse du 8dec2022)' ; exit 1 ; shift ;; "-SCM") SCM=1 ; shift ;; "-opt_makelmdz") OPT_MAKELMDZ="$2" ; shift ; shift ;; "-rrtm") rrtm="$2" if [ "$2" = "false" ] ; then rad="oldrad" else rad="rrtm" fi shift ; shift ;; "-rad") rad=$2 case $rad in "oldrad"|"rrtm"|"ecrad") rad=$2 ; shift ; shift ;; *) echo Only oldrad rrtm ecrad for rad option ; exit esac ;; "-parallel") parallel=$2 case $parallel in "none"|"mpi"|"omp"|"mpi_omp") parallel=$2 ; shift shift ;; *) echo Only none mpi omp mpi_omp for the parallel \ option exit esac ;; "-bench") bench=$2 ; shift ; shift ;; "-debug") optim=-debug ; shift ;; "-name") MODEL=$2 ; shift ; shift ;; "-netcdf") netcdf=$2 ; shift ; shift ;; "-physiq") physiq=$2 ; shift ; shift ;; "-xios") with_xios="y" ; shift ;; "-env_file") env_file=$2 ; shift ; shift ;; "-veget") veget=$2 ; shift ; shift ;; *) bash install_lmdz.sh -h ; exit esac done # Option de compilation du rayonnement : depend de $mysvn ><= r4185, # sera donc definie plus bas #opt_rad="" #case $rad in # rrtm) opt_rad="-rad rrtm" ;; # ecrad) opt_rad="-rad ecrad" ;; #esac # Option de compilation pour Cosp opt_cosp="" case cosp in v1) opt_cosp="-cosp true" ;; v2) opt_cosp="-cospv2 true" ;; esac # Check on veget version #if [ "$veget" != 'NONE' -a "$veget" != "CMIP6" -a "$veget" != +([0-9]) ] ; then if [ $veget != 'NONE' -a $veget != "CMIP6" ] ; then re='^[0-9]+$' if ! [[ $veget =~ $re ]] ; then echo 'Valeur de l option veget non valable' exit fi fi #Define veget-related suffix for gcm name if [ "$veget" = 'NONE' ] ; then suff_orc='' #For use with tutorial, orchidee_rev is also defined (will be #written in surface_env at the end of the script) orchidee_rev='' else suff_orc='_orch' fi if [ $parallel = none ] ; then sequential=1; suff_exe='_seq' else sequential=0; suff_exe='_para_mem' fi #Chemin pour placer le modele if [ "$MODEL" = "" ] ; then MODEL=./LMDZ$version$svn$optim ; fi arch=local if [ $compiler = g95 ] ; then echo g95 is not supported anymore ; exit ; fi ################################################################ # Specificite des machines ################################################################ hostname=`hostname` if [ "$pclinux" = 1 ] ; then o_ins_make="-t g95" ; else o_ins_make="" ; fi case ${hostname:0:5} in jean-) compiler="mpiifort" ; par_comp="mpiifort" ; o_ins_make="-t jeanzay" ; make=gmake ; module purge module load intel-compilers/19.0.4 ; #module load intel-mpi/19.0.4 ; #module load intel-mkl/19.0.4 ; module load hdf5/1.10.5-mpi ; module load netcdf/4.7.2-mpi ; module load netcdf-fortran/4.5.2-mpi ; module load subversion/1.9.7 ; module load cmake export NETCDF_LIBDIR=./ export NETCDFFORTRAN_INCDIR=./ export NETCDFFORTRAN_LIBDIR=./ arch=X64_JEANZAY ;; cicla|camel) compiler="gfortran" ; module purge module load gnu/10.2.0 module load openmpi/4.0.5 module load hdf5/1.10.7-mpi module load netcdf-c/4.7.4-mpi module load netcdf-fortran/4.5.3-mpi netcdf=/net/nfs/tools/PrgEnv/linux-scientific6-x86_64/gcc-10.2.0/netcdf-fortran-4.5.3-k3drgfqok3lip62hnm3tsyof4cjen5sk module load svn/1.14.0 if [ $parallel != none ] ; then root_mpi=/net/nfs/tools/meso-sl6/openmpi/4.0.5-gcc-10.2.0 path_mpi=$root_mpi/bin ; par_comp=${path_mpi}/mpif90 ; mpirun=${path_mpi}/mpirun ; fi ; arch=local ; make=make ; o_ins_make="-t g95" ;; *) if [ $parallel = none -o -f /usr/bin/mpif90 ] ; then path_mpi=`which mpif90 | sed -e s:/mpif90::` ; if [ -d /usr/lib64/openmpi ] ; then root_mpi="/usr/lib64/openmpi" else root_mpi="/usr" fi else echo "Cannot find mpif90" ; if [ $parallel = none ] ; then exit ; fi ; fi ; if [ $parallel != none ] ; then root_mpi=$(which mpif90 | sed -e s:/bin/mpif90::) path_mpi=$(which mpif90 | sed -e s:/mpif90::) export LD_LIBRARY_PATH=${root_mpi}/lib:$LD_LIBRARY_PATH fi par_comp=${path_mpi}/mpif90 ; mpirun=${path_mpi}/mpirun ; arch=local ; make=make ; o_ins_make="-t g95" esac # Flags for parallelism: if [ $parallel != none ] ; then # MPI_LD are the flags needed for linking with MPI MPI_LD="-L${root_mpi}/lib -lmpi" if [ "$compiler" = "gfortran" ] ; then # MPI_FLAGS are the flags needed for compilation with MPI MPI_FLAGS="-fcray-pointer" # OMP_FLAGS are the flags needed for compilation with OpenMP OMP_FLAGS="-fopenmp -fcray-pointer" # OMP_LD are the flags needed for linking with OpenMP OMP_LD="-fopenmp" elif [ "$compiler" = "ifort" ] ; then MPI_FLAGS="" OMP_FLAGS="-openmp" OMP_LD="-openmp" else # pgf90 MPI_FLAGS="" OMP_FLAGS="-mp" OMP_LD="-mp" fi fi ##################################################################### # Test for old gfortran compilers # If the compiler is too old (older than 4.3.x) we test if the # temporary gfortran44 patch is available on the computer in which # case the compiler is changed from gfortran to gfortran44 # Must be aware than parallelism can not be activated in this case ##################################################################### if [ "$compiler" = "gfortran" ] ; then gfortran=gfortran gfortranv=`gfortran --version | \ head -1 | awk ' { print $NF } ' | awk -F. ' { print $1 * 10 + $2 } '` if [ $gfortranv -le 43 ] ; then echo ERROR : Your gfortran compiler is too old echo 'Please choose a new one (ifort) and change the line' echo compiler=xxx echo in the install_lmdz.sh script and rerun it if [ `which gfortran44 | wc -w` -ne 0 ] ; then gfortran=gfortran44 else echo gfotran trop vieux ; exit fi fi compiler=$gfortran fi ##################################################################### ## if also compiling XIOS, parallel must be mpi_omp if [ "$with_xios" = "y" -a "$parallel" != "mpi_omp" ] ; then echo "Error, you must set -parallel mpi_omp if you want XIOS" exit fi if [ "$with_xios" = "y" ] ; then opt_makelmdz_xios="-io xios" fi if [ "$cosp" = "v2" -a "$with_xios" = "n" ] ; then echo "Error, Cospv2 cannot run without Xios" exit fi echo '################################################################' echo Choix des options de compilation echo '################################################################' export FC=$compiler export F90=$compiler export F77=$compiler export CPPFLAGS= OPTIMNC=$OPTIM BASE_LD="$OPT_GPROF" OPTPREC="$OPT_GPROF" ARFLAGS="rs" if [ "`lsb_release -i -s`" = "Ubuntu" ] ; then if [ "`lsb_release -r -s | cut -d. -f1`" -ge 16 ] ; then ARFLAGS="rU" fi fi if [ "$compiler" = "$gfortran" ] ; then OPTIM="-O3 $allow_arg_mismatch" OPTDEB="-g3 -Wall -fbounds-check -ffpe-trap=invalid,zero,overflow -O0 -fstack-protector-all -fbacktrace -finit-real=snan $allow_arg_mismatch" OPTDEV="-Wall -fbounds-check $allow_arg_mismatch" fmod='I ' OPTPREC="$OPTPREC -cpp -ffree-line-length-0" if [ $real = r8 ] ; then OPTPREC="$OPTPREC -fdefault-real-8 -DNC_DOUBLE" ; fi export F90FLAGS=" -ffree-form $OPTIMNC" export FFLAGS=" $OPTIMNC" export CC=gcc export CXX=g++ export fpp_flags="-P -C -traditional -ffreestanding" elif [ $compiler = mpif90 ] ; then OPTIM='-O3' OPTDEB="-g3 -Wall -fbounds-check -ffpe-trap=invalid,zero,overflow -O0 -fstack-protector-all" OPTDEV="-Wall -fbounds-check" BASE_LD="$BASE_LD -lblas" fmod='I ' if [ $real = r8 ] ; then OPTPREC="$OPTPREC -fdefault-real-8 -DNC_DOUBLE -fcray-pointer" fi export F90FLAGS=" -ffree-form $OPTIMNC" export FFLAGS=" $OPTIMNC" export CC=gcc export CXX=g++ elif [ $compiler = pgf90 ] ; then OPTIM='-O2 -Mipa -Munroll -Mnoframe -Mautoinline -Mcache_align' OPTDEB='-g -Mdclchk -Mbounds -Mchkfpstk -Mchkptr -Minform=inform -Mstandard -Ktrap=fp -traceback' OPTDEV='-g -Mbounds -Ktrap=fp -traceback' fmod='module ' if [ $real = r8 ] ; then OPTPREC="$OPTPREC -r8 -DNC_DOUBLE" ; fi export CPPFLAGS="-DpgiFortran" export CC=pgcc export CFLAGS="-O2 -Msignextend" export CXX=pgCC export CXXFLAGS="-O2 -Msignextend" export FFLAGS="-O2 $OPTIMNC" export F90FLAGS="-O2 $OPTIMNC" compile_with_fcm=1 elif [[ $compiler = ifort || $compiler = mpiifort ]] ; then OPTIM="-O2 -fp-model strict -ip -align all " OPTDEV="-p -g -O2 -traceback -fp-stack-check -ftrapuv -check" OPTDEB="-g -no-ftz -traceback -ftrapuv -fp-stack-check -check" fmod='module ' if [ $real = r8 ] ; then OPTPREC="$OPTPREC -real-size 64 -DNC_DOUBLE" ; fi export CPP="icc -E" export FFLAGS="-O2 -ip -fpic -mcmodel=large" export FCFLAGS="-O2 -ip -fpic -mcmodel=large" export CC=icc export CFLAGS="-O2 -ip -fpic -mcmodel=large" export CXX=icpc export CXXFLAGS="-O2 -ip -fpic -mcmodel=large" export fpp_flags="-P -traditional" # Pourquoi forcer la compilation fcm. Marche mieux sans #compile_with_fcm=1 else echo unexpected compiler $compiler ; exit fi OPTIMGCM="$OPTIM $OPTPREC" hostname=`hostname` ########################################################################## # If installing on known machines such as Jean-Zay at IDRIS, # don't check for available software and don't install netcdf if [ ${hostname:0:5} = jean- ] ; then netcdf=0 # no need to recompile netcdf, alreday available check_linux=0 pclinux=0 ioipsl=0 # no need to recompile ioipsl, already available #netcdf="/smplocal/pub/NetCDF/4.1.3" compiler="mpiifort" fmod='module ' if [ $real = r8 ] ; then OPTPREC="$OPTPREC -i4 -r8 -DNC_DOUBLE" ; fi OPTIM="-auto -align all -O2 -fp-model strict -xHost " OPTIMGCM="$OPTIM $OPTPREC" fi ########################################################################## mkdir -p $MODEL echo $MODEL MODEL=`( cd $MODEL ; pwd )` # to get absolute path, if necessary if [ "$check_linux" = 1 ] ; then echo '################################################################' echo Check if required software is available echo '################################################################' #### Ehouarn: test if the required shell is available #### Maj FH-LF-AS 2021-04 : default=bash ; if bash missing, use ksh use_shell="bash" # default if [ "`which bash`" = "" ] ; then echo "no bash ; we will use ksh" use_shell="ksh" if [ "`which ksh`" = "" ] ; then echo "bash (or ksh) needed!! Install it!" exit fi fi for logiciel in wget tar gzip make $compiler gcc cmake m4 c++ ; do if [ "`which $logiciel`" = "" ] ; then echo You must first install $logiciel on your system exit fi done if [ $pclinux = 1 ] ; then cd $MODEL cat < tt.f90 print*,'coucou' end eod $compiler tt.f90 -o a.out ./a.out >| tt if [ "`cat tt | sed -e 's/ //g' `" != "coucou" ] ; then echo problem installing with compiler $compiler ; exit ; fi \rm tt a.out tt.f90 fi fi ########################################################################### if [ $getlmdzor = 1 -a ! -d $MODEL/modipsl ] ; then ########################################################################### echo '##########################################################' echo Download a slightly modified version of LMDZ echo '##########################################################' cd $MODEL getlog=`pwd`/get.log echo logfile : $getlog myget src_archives/$trusting/modipsl.$version.tar.gz >> get.log 2>&1 echo install_lmdz.sh wget_OK `date` gunzip modipsl.$version.tar.gz >> get.log 2>&1 tar xf modipsl.$version.tar >> get.log 2>&1 \rm modipsl.$version.tar fi ########################################################################### echo Installing Netcdf ########################################################################### if [ $netcdf = 0 ] ; then ncdfdir=/usr else cd $MODEL case $compiler in gfortran) opt1="-compiler gnu" ; opt2="-CC gcc -FC gfortran -CXX g++" ;; ifort) opt1="-compiler intel" ; opt2="-CC icc -FC ifort -CXX icpc" ;; pgf90) opt1="-compiler pgf90" ; opt2="-CC pgcc -FC pgf90 -CXX pgCC" ;; *) echo "unexpected compiler $compiler" for netcdf ; exit 1 esac case $with_xios in n) script_install_netcdf=install_netcdf4_hdf5_seq.bash ncdfdir=netcdf4_hdf5_seq opt_=$opt1 ;; y) script_install_netcdf=install_netcdf4_hdf5.bash ncdfdir=netcdf4_hdf5 opt_="$opt2 -MPI $root_mpi" ;; *) echo with_xios=$with_xios, should be n or y ; exit 1 esac if [ $netcdf = 1 ] ; then ncdfdir=$MODEL/$ncdfdir else mkdir -p $netcdf ; ncdfdir=$netcdf/$ncdfdir fi echo Repertoire netcdf $ncdfdir if [ ! -d $ncdfdir ] ; then netcdflog=`pwd`/netcdf.log echo '----------------------------------------------------------' echo Compiling the Netcdf library echo '----------------------------------------------------------' echo log file : $netcdflog myget script_install/$script_install_netcdf >> $netcdflog 2>&1 chmod u=rwx $script_install_netcdf ./$script_install_netcdf -prefix $ncdfdir $opt_ >> $netcdflog 2>&1 fi #---------------------------------------------------------------------------- # LF rajout d'une verrue, pour une raison non encore expliquee, # la librairie est parfois rangée dans lib64 et non dans lib # par certains compilateurs if [ ! -e lib -a -d lib64 ] ; then ln -s lib64 lib; fi #---------------------------------------------------------------------------- echo install_lmdz.sh netcdf_OK `date` fi cat >test_netcdf90.f90 < tmp sed -e "s:F_L = g95:F_L = $compiler:" \ -e "s:F_C = g95 -c -cpp:F_C = $F_C": \ -e 's/g95.*.w_w.*.(F_D)/g95 w_w = '"$OPTIMGCM"'/' \ -e 's:g95.*.NCDF_INC.*.$:g95 NCDF_INC= '"$ncdfdir"'/include:' \ -e 's:g95.*.NCDF_LIB.*.$:g95 NCDF_LIB= -L'"$ncdfdir"'/lib -lnetcdff -lnetcdf:' \ -e 's:g95 L_O =:g95 L_O = -Wl,-rpath='"$ncdfdir"'/lib:' \ -e "s:-fmod=:-$fmod:" -e 's/-fno-second-underscore//' \ -e 's:#-Q- g95 M_K = gmake:#-Q- g95 M_K = make:' \ tmp >| AA_make.gdef if [ $pcmac == 1 ] then cp AA_make.gdef tmp sed -e 's/rpath=/rpath,/g' tmp > AA_make.gdef fi # We use lines for g95 even for the other compilers to run ins_make if [ "$use_shell" = "ksh" ] ; then ./ins_make $o_ins_make else # bash sed -e s:/bin/ksh:/bin/bash:g ins_make > ins_make.bash if [ "`grep jeanzay AA_make.gdef`" = "" ] ; then # Bidouille pour compiler sur ada des vieux modipsl.tar echo 'Warning jean-zay not in AA_make.gdef' echo 'Think about updating' exit 1 fi chmod u=rwx ins_make.bash ./ins_make.bash $o_ins_make fi # of if [ "$use_shell" = "ksh" ] echo install_lmdz.sh MODIPSL_OK `date` cd $MODEL/modipsl/modeles/IOIPSL/src ioipsllog=`pwd`/ioipsl.log echo '##########################################################' echo 'Compiling IOIPSL, the interface library with Netcdf' echo '##########################################################' echo `date` echo log file : $ioipsllog if [ "$use_shell" = "bash" ] ; then cp Makefile Makefile.ksh sed -e s:/bin/ksh:/bin/bash:g Makefile.ksh > Makefile fi ### if [ "$pclinux" = 1 ] ; then # Build IOIPSL modules and library $make clean $make > $ioipsllog 2>&1 if [ "$compiler" = "$gfortran" -o "$compiler" = "mpif90" ] ; then # copy module files to lib cp -f *.mod ../../../lib fi # Build IOIPSL tools (ie: "rebuild", if present) # For IOIPSLv_2_2_2, "rebuild" files are in IOIPSL/tools rebuild_dir="" if [ -f $MODEL/modipsl/modeles/IOIPSL/tools/rebuild ] ; then rebuild_dir=$MODEL/modipsl/modeles/IOIPSL/tools elif [ -d $MODEL/modipsl/modeles/IOIPSL/rebuild ] ; then rebuild_dir=$MODEL/modipsl/modeles/IOIPSL/rebuild fi if [ $rebuild_dir != "" ] ; then cd $rebuild_dir # adapt Makefile & rebuild script if in bash if [ "$use_shell" = "bash" ] ; then cp Makefile Makefile.ksh sed -e s:/bin/ksh:/bin/bash:g Makefile.ksh > Makefile cp rebuild rebuild.ksh sed -e 's:/bin/ksh:/bin/bash:g' \ -e 's:print -u2:echo:g' \ -e 's:print:echo:g' rebuild.ksh > rebuild fi $make clean $make > $ioipsllog 2>&1 fi ### fi # of if [ "$pclinux" = 1 ] which is commented out else # of if [ $ioipsl = 1 ] if [ ${hostname:0:5} = jean- ] ; then cd $MODEL/modipsl cd util if [ "`grep jeanzay AA_make.gdef`" = "" ] ; then echo 'Warning jean-zay not in AA_make.gdef' echo 'Think about updating' exit 1 fi ./ins_make $o_ins_make # Compile IOIPSL on jean-zay cd $MODEL/modipsl/modeles/IOIPSL/src gmake > ioipsl.log # For IOIPSLv_2_2_2, "rebuild" files are in IOIPSL/tools, so "gmake" in IOIPSL/tools is enough # For IOIPSLv_2_2_5, "rebuild" files are in a separate IOIPSL/rebuild folder , while "tools" only contains "FCM" if [ -f $MODEL/modipsl/modeles/IOIPSL/tools/Makefile ] ; then cd $MODEL/modipsl/modeles/IOIPSL/tools gmake > ioipsl.log fi if [ -d $MODEL/modipsl/modeles/IOIPSL/rebuild ] ; then cd $MODEL/modipsl/modeles/IOIPSL/rebuild gmake > ioipsl.log fi fi echo install_lmdz.sh ioipsl_OK `date` fi # of if [ $ioipsl = 1 ] fi # of if [[ ! -f $MODEL/modipsl/lib/libioipsl.a ]] #========================================================================= if [ "$with_xios" = "y" ] ; then echo '##########################################################' echo 'Compiling XIOS' echo '##########################################################' cd $MODEL/modipsl/modeles xioslog=`pwd`/xios.log #wget http://www.lmd.jussieu.fr/~lmdz/Distrib/install_xios.bash myget script_install/install_xios.bash chmod u=rwx install_xios.bash # following will be recalculated later on once LMDZ is updated # mysvn=`svnversion LMDZ | egrep -o "[0-9]+" 2>/dev/null` mysvn=`grep 'Revision: [0-9]' $MODEL/Read*.md | awk ' { print $2 } ' 2>/dev/null` if [ "$svn" != "" ] ; then mysvn=$svn ; fi echo mysvn $mysvn if [ ${hostname:0:5} = jean- ] ; then if [ $mysvn -ge 4619 ] ; then svn co http://forge.ipsl.jussieu.fr/ioserver/svn/XIOS2/branches/xios-2.6 \ XIOS else svn co http://forge.ipsl.jussieu.fr/ioserver/svn/XIOS2/branches/xios-2.5 \ XIOS fi cd XIOS/arch svn update cd .. echo "Compiling XIOS, start" `date` \ "(it takes about 20 min on Jean-Zay)" echo "log file: $xioslog" ./make_xios --prod --arch $arch --job 4 > xios.log 2>&1 else ./install_xios.bash -prefix $MODEL/modipsl/modeles \ -netcdf ${ncdfdir} -hdf5 ${ncdfdir} \ -MPI $root_mpi -arch $arch > xios.log 2>&1 fi # of case Jean-Zay if [ -f XIOS/lib/libxios.a ] ; then echo "XIOS library successfully generated" echo install_lmdz.sh XIOS_OK `date` fi fi #============================================================================ veget_version=false if [ "$veget" != 'NONE' ] ; then cd $MODEL/modipsl/modeles/ORCHIDEE set +e ; svn upgrade ; set -e if [ "$veget" = "CMIP6" ] ; then veget_version=orchidee2.0 orchidee_rev=6592 else # specific orchidee revision newer than CMIP6, on 2_1 or 2_2 branches veget_version=orchidee2.1 orchidee_rev=$veget if [ $veget -lt 4465 ] ; then echo 'Stopping, ORCHIDEE version too old, script needs work on ' \ 'the CPP flags to pass to makelmdz' exit 1 fi set +e # which branch is my version on? orcbranch=`svn log -v -q svn://forge.ipsl.jussieu.fr/orchidee/ -r $veget |grep ORCHIDEE |head -1| sed -e 's:ORCHIDEE/.*$:ORCHIDEE:' | awk '{print $2}'` # switch to that branch echo IF YOU INSTALL ORCHIDEE THE VERY FIRST TIME, ASK for PASSWORD at \ orchidee-help@listes.ipsl.fr svn switch -r $veget --accept theirs-full \ svn://forge.ipsl.jussieu.fr/orchidee/$orcbranch svn log -r $veget | grep $veget if [ $? -gt 0 ] ; then echo 'Cannot update ORCHIDEE as not on the right branch for ' \ 'ORCHIDEE' exit fi set -e set +e ; svn update -r $veget ; set -e fi # Correctif suite debug Jean-Zay sed -i -e 's/9010 FORMAT(A52,F17.14)/9010 FORMAT(A52,F20.14)/' \ src_stomate/stomate.f90 opt_orc="-prod" ; if [ "$optim" = "-debug" ] ; then opt_orc="-debug" ; fi orchideelog=`pwd`/orchidee.log echo '########################################################' echo 'Compiling ORCHIDEE, the continental surface model ' echo '########################################################' echo Start of the first compilation of orchidee, in sequential mode: `date` echo log file : $orchideelog export ORCHPATH=`pwd` xios_orchid="-noxios" if [ "$with_xios" = "y" ] ; then xios_orchid="-xios" fi if [ -d tools ] ; then ################################################################### # Pour les experts qui voudraient changer de version d'orchidee. # Attention : necessite d'avoir le password pour orchidee # Correctif suite debug Jean-Zay if [ -f src_global/time.f90 ] ; then sed -i -e 's/CALL tlen2itau/\!CALL tlen2itau/' src_global/time.f90 fi ################################################################### if [ "$veget_version" == "false" ] ; then veget_version=orchidee2.0 fi cd arch sed -e s:"%COMPILER .*.$":"%COMPILER $compiler":1 \ -e s:"%LINK .*.$":"%LINK $compiler":1 \ -e s:"%FPP_FLAGS .*.$":"%FPP_FLAGS $fpp_flags":1 \ -e s:"%PROD_FFLAGS .*.$":"%PROD_FFLAGS $OPTIM":1 \ -e s:"%DEV_FFLAGS .*.$":"%DEV_FFLAGS $OPTDEV":1 \ -e s:"%DEBUG_FFLAGS .*.$":"%DEBUG_FFLAGS $OPTDEB":1 \ -e s:"%BASE_FFLAGS .*.$":"%BASE_FFLAGS $OPTPREC":1 \ -e s:"%BASE_LD .*.$":"%BASE_LD $BASE_LD":1 \ -e s:"%ARFLAGS .*.$":"%ARFLAGS $ARFLAGS":1 \ arch-gfortran.fcm > arch-local.fcm echo "NETCDF_LIBDIR=\"-L${ncdfdir}/lib -lnetcdff -lnetcdf\"" \ > arch-local.path echo "NETCDF_INCDIR=${ncdfdir}/include" >> arch-local.path echo "IOIPSL_INCDIR=$ORCHPATH/../../lib" >> arch-local.path echo "IOIPSL_LIBDIR=$ORCHPATH/../../lib" >> arch-local.path echo 'XIOS_INCDIR=${ORCHDIR}/../XIOS/inc' >> arch-local.path echo 'XIOS_LIBDIR="${ORCHDIR}/../XIOS/lib -lxios"' >> arch-local.path cd ../ echo ./makeorchidee_fcm -j $xios_orchid $opt_orc -parallel none \ -arch $arch ./makeorchidee_fcm -j 8 $xios_orchid $opt_orc -parallel none \ -arch $arch > $orchideelog 2>&1 pwd else # of "if [ -d tools ]" if [ -d src_parallel ] ; then liste_src="parallel parameters global stomate sechiba driver" if [ "$veget_version" == "false" ] ; then veget_version=orchidee2.0 fi fi for d in $liste_src ; do src_d=src_$d echo src_d $src_d echo ls ; ls if [ ! -d $src_d ] ; then echo Problem orchidee : no $src_d ; exit fi cd $src_d ; \rm -f *.mod make ; $make clean $make > $orchideelog 2>&1 if [ "$compiler" = "$gfortran" -o "$compiler" = "mpif90" ] ; then cp -f *.mod ../../../lib fi cd .. done fi # of "if [ -d tools ]" echo install_lmdz.sh orchidee_compil_seq_OK `date` fi # of if [ "$veget" != 'NONE' ] #============================================================================ # Ehouarn: the directory name LMDZ* depends on version/tar file... if [ -d $MODEL/modipsl/modeles/LMD* ] ; then echo '###############################################################' echo 'Preparing LMDZ compilation : arch file, svn switch if needed...' echo '###############################################################' cd $MODEL/modipsl/modeles/LMD* LMDZPATH=`pwd` else echo "ERROR: No LMD* directory !!!" exit fi ########################################################### # For those who want to use fcm to compile via : # makelmdz_fcm -arch local ..... ############################################################ cd $MODEL/modipsl/modeles/LMDZ* lmdzlog=`pwd`/lmdz.log ################################################################## # Possibly update LMDZ if a specific svn release is requested ################################################################## set +e ; svn upgrade ; set -e if [ "$svn" = "last" ] ; then svnopt="" ; else svnopt="-r $svn" ; fi if [ "$svn" != "" ] ; then set +e ; svn info | grep -q 'https:' if [ $? = 0 ] ; then svn switch --relocate https://svn.lmd.jussieu.fr/LMDZ \ http://svn.lmd.jussieu.fr/LMDZ fi svn update $svnopt set -e fi #--------------------------------------------------------------------- # Retrieve the final svn release number, and adjust compilation # options accordingly # If svn not available, will use the svn writen in $MODEL/Readm*md # For old version it assumes that it is before 4185 (the version # for which the test was introduced #--------------------------------------------------------------------- set +e ; mysvn=`svnversion . | egrep -o "[0-9]+" 2>/dev/null` ; set -e if [ "$mysvn" = "" ] ; then mysvn=`grep 'Revision: [0-9]' $MODEL/Read*.md | awk ' { print $2 } ' 2>/dev/null` ; fi if [ "$mysvn" = "" ] ; then mysvn=4190 ; fi if [[ "$pclinux" = "1" && ! -f arch/arch-local.path ]] ; then # create local 'arch' files (if on Linux PC): cd arch # arch-local.path file # test for version as arch.pth file changed format with rev 4426 if [ "$mysvn" -gt 4425 ] ; then echo "NETCDF_LIBDIR=\"-L${ncdfdir}/lib \"" > arch-local.path echo "NETCDF_LIB=\"-lnetcdff -lnetcdf\"" >> arch-local.path echo "NETCDF_INCDIR=-I${ncdfdir}/include" >> arch-local.path echo 'NETCDF95_INCDIR=-I$LMDGCM/../../include' >> arch-local.path echo 'NETCDF95_LIBDIR=-L$LMDGCM/../../lib' >> arch-local.path echo 'NETCDF95_LIB=-lnetcdf95' >> arch-local.path echo 'IOIPSL_INCDIR=-I$LMDGCM/../../lib' >> arch-local.path echo 'IOIPSL_LIBDIR=-L$LMDGCM/../../lib' >> arch-local.path echo 'IOIPSL_LIB=-lioipsl' >> arch-local.path echo 'XIOS_INCDIR=-I$LMDGCM/../XIOS/inc' >> arch-local.path echo 'XIOS_LIBDIR=-L$LMDGCM/../XIOS/lib' >> arch-local.path echo "XIOS_LIB=\"-lxios -lstdc++\"" >> arch-local.path echo 'ORCH_INCDIR=-I$LMDGCM/../../lib' >> arch-local.path echo 'ORCH_LIBDIR=-L$LMDGCM/../../lib' >> arch-local.path else echo "NETCDF_LIBDIR=\"-L${ncdfdir}/lib -lnetcdff -lnetcdf\"" \ > arch-local.path echo "NETCDF_INCDIR=-I${ncdfdir}/include" >> arch-local.path echo 'NETCDF95_INCDIR=$LMDGCM/../../include' >> arch-local.path echo 'NETCDF95_LIBDIR=$LMDGCM/../../lib' >> arch-local.path echo 'IOIPSL_INCDIR=$LMDGCM/../../lib' >> arch-local.path echo 'IOIPSL_LIBDIR=$LMDGCM/../../lib' >> arch-local.path echo 'XIOS_INCDIR=$LMDGCM/../XIOS/inc' >> arch-local.path echo 'XIOS_LIBDIR=$LMDGCM/../XIOS/lib' >> arch-local.path echo 'ORCH_INCDIR=$LMDGCM/../../lib' >> arch-local.path echo 'ORCH_LIBDIR=$LMDGCM/../../lib' >> arch-local.path fi if [ $pcmac == 1 ] ; then BASE_LD="$BASE_LD -Wl,-rpath,${ncdfdir}/lib" else BASE_LD="$BASE_LD -Wl,-rpath=${ncdfdir}/lib" fi # Arch-local.fcm file (adapted from arch-linux-32bit.fcm) if [ $real = r8 ] ; then FPP_DEF=NC_DOUBLE ; else FPP_DEF="" ; fi sed -e s:"%COMPILER .*.$":"%COMPILER $compiler":1 \ -e s:"%LINK .*.$":"%LINK $compiler":1 \ -e s:"%PROD_FFLAGS .*.$":"%PROD_FFLAGS $OPTIM":1 \ -e s:"%DEV_FFLAGS .*.$":"%DEV_FFLAGS $OPTDEV":1 \ -e s:"%DEBUG_FFLAGS .*.$":"%DEBUG_FFLAGS $OPTDEB":1 \ -e s:"%BASE_FFLAGS .*.$":"%BASE_FFLAGS $OPTPREC":1 \ -e s:"%FPP_DEF .*.$":"%FPP_DEF $FPP_DEF":1 \ -e s:"%BASE_LD .*.$":"%BASE_LD $BASE_LD":1 \ -e s:"%ARFLAGS .*.$":"%ARFLAGS $ARFLAGS":1 \ arch-linux-32bit.fcm > arch-local.fcm cd .. ### Adapt "bld.cfg" (add the shell): #whereisthatshell=$(which ${use_shell}) #echo "bld::tool::SHELL $whereisthatshell" >> bld.cfg fi # of if [ "$pclinux" = 1 ] #--------------------------------------------------------------------- # Option de compilation du rayonnement : depend de $mysvn ><= r4185 #--------------------------------------------------------------------- opt_rad="" case $rad in oldrad) iflag_rrtm=0 ; NSW=2 ; opt_rad="" ;; rrtm) iflag_rrtm=1 ; NSW=6 if [ $mysvn -le 4185 ] ; then opt_rad="-rrtm true" else opt_rad="-rad rrtm" fi ;; ecrad) iflag_rrtm=2 ; NSW=6 ; opt_rad="-rad ecrad" ;; *) echo Only oldrad rrtm ecrad for rad option ; exit esac if [ $mysvn -le 4185 -a $rad = "ecrad" ] ; then echo "ecrad only available for LMDZ rev starting with 4186 " ; exit fi ################################################################## if [[ ! -f libf/misc/netcdf95.F90 && ! -d $MODEL/NetCDF95-0.3 ]] then cd $MODEL myget src_archives/netcdf/NetCDF95-0.3.tar.gz tar -xf NetCDF95-0.3.tar.gz rm NetCDF95-0.3.tar.gz cd NetCDF95-0.3 mkdir build cd build cmake .. -DCMAKE_BUILD_TYPE=Release -DCMAKE_PREFIX_PATH=$ncdfdir \ -DCMAKE_INSTALL_PREFIX=$MODEL/modipsl make install cd $MODEL/modipsl/modeles/LMDZ* fi echo '##################################################################' echo "Preparing script compile.sh for LMDZ compilation" echo "It will only be run automatically if bench=1/tuto" echo Here bench=$bench echo '##################################################################' if [ "$env_file" != "" ] ; then mv arch/arch-${arch}.env arch/arch-${arch}.orig \cp -f $env_file arch/arch-${arch}.env fi if [ $compile_with_fcm = 1 ] ; then makelmdz="makelmdz_fcm $optim -arch $arch -j 8 " else makelmdz="makelmdz $optim -arch $arch" fi # sequential compilation if [ "$sequential" = 1 ] ; then echo Sequential compilation command, saved in compile.sh: echo "./$makelmdz $optim $OPT_MAKELMDZ $optim $opt_rad $opt_cosp " \ "-d ${grid_resolution} -v $veget_version gcm " echo "./$makelmdz $optim $OPT_MAKELMDZ $optim $opt_rad $opt_cosp " \ "-d ${grid_resolution} -v $veget_version gcm " > compile.sh chmod +x ./compile.sh if [ $bench = 1 ] ; then echo install_lmdz.sh start_lmdz_seq_compilation `date` echo log file: $lmdzlog ./compile.sh > $lmdzlog 2>&1 echo install_lmdz.sh end_lmdz_seq_compilation `date` fi fi # fin sequential # compiling in parallel mode if [ $parallel != "none" ] ; then echo '##########################################################' echo ' Parallel compile ' echo '##########################################################' echo "(after saving the sequential libs and binaries)" cd $MODEL/modipsl tar cf sequential.tar bin/ lib/ # # Orchidee # cd $ORCHPATH if [ -d src_parallel -a $veget != 'NONE' ] ; then cd arch sed \ -e s:"%COMPILER.*.$":"%COMPILER $par_comp":1 \ -e s:"%LINK.*.$":"%LINK $par_comp":1 \ -e s:"%MPI_FFLAG.*.$":"%MPI_FFLAGS $MPI_FLAGS":1 \ -e s:"%OMP_FFLAG.*.$":"%OMP_FFLAGS $OMP_FLAGS":1 \ -e s:"%MPI_LD.*.$":"%MPI_LD $MPI_LD":1 \ -e s:"%OMP_LD.*.$":"%OMP_LD $OMP_LD":1 \ arch-local.fcm > tmp.fcm mv tmp.fcm arch-local.fcm cd ../ echo Compiling ORCHIDEE in parallel mode `date` echo logfile $orchideelog echo "NOTE : to recompile it when necessary, use ./compile_orc.sh " \ "in modipsl/modeles/ORCHIDEE" echo ./makeorchidee_fcm -j 8 -clean $xios_orchid $opt_orc \ -parallel $parallel -arch $arch > compile_orc.sh echo ./makeorchidee_fcm -j 8 $xios_orchid $opt_orc \ -parallel $parallel -arch $arch >> compile_orc.sh echo echo Now you must also recompile LMDZ, by running ./compile.sh \ in modeles/LMDZ >> compile_orc.sh chmod u+x compile_orc.sh ./makeorchidee_fcm -j 8 -clean $xios_orchid $opt_orc \ -parallel $parallel -arch $arch > $orchideelog 2>&1 ./makeorchidee_fcm -j 8 $xios_orchid $opt_orc -parallel $parallel \ -arch $arch >> $orchideelog 2>&1 echo End of ORCHIDEE compilation in parallel mode `date` elif [ $veget != 'NONE' ] ; then echo '##########################################################' echo ' Orchidee version too old ' echo ' Please update to new version ' echo '##########################################################' exit fi # of [ -d src_parallel -a $veget != 'NONE' ] # LMDZ cd $LMDZPATH if [ $arch = local ] ; then cd arch sed -e s:"%COMPILER.*.$":"%COMPILER $par_comp":1 \ -e s:"%LINK.*.$":"%LINK $par_comp":1 \ -e s:"%MPI_FFLAG.*.$":"%MPI_FFLAGS $MPI_FLAGS":1 \ -e s:"%OMP_FFLAG.*.$":"%OMP_FFLAGS $OMP_FLAGS":1 \ -e s:"%ARFLAGS.*.$":"%ARFLAGS $ARFLAGS":1 \ -e s@"%BASE_LD.*.$"@"%BASE_LD -Wl,-rpath=${root_mpi}/lib:${ncdfdir}/lib"@1 \ -e s:"%MPI_LD.*.$":"%MPI_LD $MPI_LD":1 \ -e s:"%OMP_LD.*.$":"%OMP_LD $OMP_LD":1 \ arch-local.fcm > tmp.fcm mv tmp.fcm arch-local.fcm cd ../ fi rm -f compile.sh echo resol=${grid_resolution} >> compile.sh if [ ${hostname:0:5} = jean- -a "$cosp" = "v2" ] ; then echo LMDZ compilation command in parallel mode, saved in compile.sh, \ is : echo "(ATTENTION le probleme de cospv2 sur jean-zay en mode prod " \ "n est pas corrige ! )" # ATTENTION le probleme de cospv2 sur jean-zay en mode prod n # est pas corrige echo ./$makelmdz -dev $optim $OPT_MAKELMDZ $opt_rad $opt_cosp \ $opt_makelmdz_xios -d \$resol -v $veget_version -mem \ -parallel $parallel gcm >> compile.sh echo ./$makelmdz -dev $optim $OPT_MAKELMDZ $opt_rad $opt_cosp \ $opt_makelmdz_xios -d \$resol -v $veget_version -mem \ -parallel $parallel gcm else echo ./$makelmdz $optim $OPT_MAKELMDZ $opt_rad $opt_cosp \ $opt_makelmdz_xios -d \$resol -v $veget_version -mem \ -parallel $parallel gcm >> compile.sh echo ./$makelmdz $optim $OPT_MAKELMDZ $opt_rad $opt_cosp \ $opt_makelmdz_xios -d \$resol -v $veget_version -mem \ -parallel $parallel gcm fi chmod +x ./compile.sh if [ $bench = 1 ] ; then echo Compiling LMDZ in parallel mode `date`, LMDZ log file: $lmdzlog ./compile.sh > $lmdzlog 2>&1 fi fi # of if [ $parallel != "none" ] ################################################################## # Verification du succes de la compilation ################################################################## # Recherche de l'executable dont le nom a change au fil du temps ... # suffix contains radiative option starting with revision 4186 if [ $mysvn -ge 4186 ] ; then suff_exe=_${rad}${suff_exe} ; fi gcm="" for exe in gcm.e bin/gcm_${grid_resolution}_phylmd${suff_exe}${suff_orc}.e do if [ -f $exe ] ; then gcm=$exe ; fi done if [ "$gcm" = "" ] ; then if [ $bench = 1 ] ; then echo 'Compilation failed !! Cannot run the benchmark;' exit else echo 'Compilation not done (only done when bench=1)' fi else echo '##########################################################' echo 'Compilation successfull !! ' `date` echo '##########################################################' echo The executable is $gcm fi ################################################################## # Below, we run a benchmark if bench=1 or tuto ################################################################## if [ $bench = tuto ] ; then myget Training/tutorial.tar ; tar xf tutorial.tar ; cd TUTORIAL ./init.sh elif [[ $bench = 1 && ! -d BENCH${grid_resolution} ]] ; then # TOUTE CETTE SECTION DEVRAIT DISPARAITRE POUR UNE COMMANDE # OU DES BENCHS PAR MOTS CLES COMME tuto echo '##########################################################' echo ' Running a test run ' echo '##########################################################' \rm -rf BENCH${grid_resolution} bench=bench_lmdz_${grid_resolution} echo install_lmdz.sh before bench download `date` #wget http://www.lmd.jussieu.fr/~lmdz/Distrib/$bench.tar.gz myget 3DBenchs/$bench.tar.gz echo install_lmdz.sh after bench download `date` tar xf $bench.tar.gz if [ "$cosp" = "v1" -o "$cosp" = "v2" ] ; then cd BENCH${grid_resolution} # copier les fichiers namelist input et output our COSP cp ../DefLists/cosp*_input_nl.txt . cp ../DefLists/cosp*_output_nl.txt . # Activer la cles ok_cosp pour tourner avec COSP sed -e 's@ok_cosp=n@ok_cosp=y@' config.def > tmp \mv -f tmp config.def cd .. fi if [ -n "$physiq" ]; then cd BENCH${grid_resolution} if [ -f physiq.def_${physiq} ]; then cp physiq.def_${physiq} physiq.def echo using physiq.def_${physiq} else echo using standard physiq.def fi cd .. else echo using standard physiq.def fi if [ "$with_xios" = "y" ] ; then cd BENCH${grid_resolution} cp ../DefLists/iodef.xml . cp ../DefLists/context_lmdz.xml . cp ../DefLists/field_def_lmdz.xml . # A raffiner par la suite echo A FAIRE : Copier les *xml en fonction de l option cosp cp ../DefLists/field_def_cosp*.xml . cp ../DefLists/file_def_hist*xml . # adapt iodef.xml to use attached mode sed -e 's@"using_server" type="bool">true@"using_server" type="bool">false@' \ iodef.xml > tmp \mv -f tmp iodef.xml # and convert all the enabled="_AUTO_" (for libIGCM) to enabled=.FALSE. # except for histday for histfile in file_def_hist*xml do if [ "$histfile" = "file_def_histday_lmdz.xml" ] ; then sed -e 's@enabled="_AUTO_"@type="one_file" enabled=".TRUE."@' \ $histfile > tmp \mv -f tmp $histfile sed -e 's@output_level="_AUTO_"@output_level="5"@' $histfile \ > tmp \mv -f tmp $histfile sed -e 's@compression_level="2"@compression_level="0"@' \ $histfile > tmp \mv -f tmp $histfile else sed -e 's@enabled="_AUTO_"@type="one_file" enabled=".FALSE."@' \ $histfile > tmp \mv -f tmp $histfile fi done # and add option "ok_all_xml=y" in config.def echo "### XIOS outputs" >> config.def echo 'ok_all_xml=.true.' >> config.def #activer les sorties pour Cosp if [ "$cosp" = "v1" ] ; then histfile=file_def_histdayCOSP_lmdz.xml sed -e 's@enabled=".FALSE."@enabled=".TRUE."@' $histfile > tmp \mv -f tmp $histfile sed -e 's@output_level="_AUTO_"@output_level="5"@' $histfile > tmp \mv -f tmp $histfile sed -e 's@compression_level="2"@compression_level="0"@' \ $histfile > tmp \mv -f tmp $histfile fi if [ "$cosp" = "v2" ] ; then histfile=file_def_histdayCOSPv2_lmdz.xml sed -e 's@compression_level="2"@compression_level="0"@' \ $histfile > tmp \mv -f tmp $histfile contextfile=context_lmdz.xml sed -e 's@src="./file_def_histdayCOSP_lmdz.xml"@src="./file_def_histdayCOSPv2_lmdz.xml"@' \ $contextfile > tmp \mv -f tmp $contextfile sed -e 's@src="./file_def_histmthCOSP_lmdz.xml"@src="./file_def_histmthCOSPv2_lmdz.xml"@' \ $contextfile > tmp \mv -f tmp $contextfile sed -e 's@src="./file_def_histhfCOSP_lmdz.xml"@src="./file_def_histhfCOSPv2_lmdz.xml"@' \ $contextfile > tmp \mv -f tmp $contextfile fieldfile=field_def_lmdz.xml sed -e 's@field_def_cosp1.xml@field_def_cospv2.xml@' $fieldfile \ > tmp \mv -f tmp $fieldfile fi cd .. fi # Cas Bensh avec ecrad if [ "$rad" = "ecrad" ] ; then cd BENCH${grid_resolution} cp ../DefLists/namelist_ecrad . cp -r ../libf/phylmd/ecrad/data . cd .. fi # Adjusting bench physiq.def to radiative code chosen cd BENCH${grid_resolution} sed -e 's/iflag_rrtm=.*.$/iflag_rrtm='$iflag_rrtm'/' \ -e 's/NSW=.*.$/NSW='$NSW'/' physiq.def > tmpdef \mv tmpdef physiq.def cd .. cp $gcm BENCH${grid_resolution}/gcm.e cd BENCH${grid_resolution} # On cree le fichier bench.sh au besoin # Dans le cas 48x36x39 le bench.sh existe deja en parallele if [ "$grid_resolution" = "48x36x39" ] ; then echo On ne touche pas au bench.sh # But we have to adapt "run_local.sh" for $mpirun sed -e "s@mpirun@$mpirun@g" run_local.sh > tmp mv -f tmp run_local.sh chmod u=rwx run_local.sh elif [ "${parallel:0:3}" = "mpi" ] ; then # Lancement avec deux procs mpi et 2 openMP echo "export OMP_STACKSIZE=800M" > bench.sh if [ "${parallel:4:3}" = "omp" ] ; then echo "export OMP_NUM_THREADS=2" >> bench.sh fi if [ "$cosp" = "v1" -o "$cosp" = "v2" ] ; then if [ ${hostname:0:5} = jean- ] ; then chmod +x ../arch.env ../arch.env echo "ulimit -s 2000000" >> bench.sh else echo "ulimit -s 200000" >> bench.sh fi else echo "ulimit -s unlimited" >> bench.sh fi if [ ${hostname:0:5} = jean- ] ; then . ../arch/arch-${arch}.env echo "srun -n 2 -A $idris_acct@cpu gcm.e > listing 2>&1" \ >> bench.sh else echo "$mpirun -np 2 gcm.e > listing 2>&1" >> bench.sh fi # Add rebuild, using reb.sh if it is there echo 'if [ -f reb.sh ] ; then' >> bench.sh echo ' ./reb.sh histday ; ./reb.sh histmth ; ./reb.sh histhf ; ' \ './reb.sh histins ; ./reb.sh stomate_history ; ' \ './reb.sh sechiba_history ; ./reb.sh sechiba_out_2 ' >> bench.sh echo 'fi' >> bench.sh else echo "./gcm.e > listing 2>&1" > bench.sh fi # Getting orchidee stuff if [ $veget == 'CMIP6' ] ; then #echo 'myget 3DBenchs/BENCHorch11.tar.gz' #myget 3DBenchs/BENCHorch11.tar.gz #tar xvzf BENCHorch11.tar.gz echo 'myget 3DBenchs/BENCHCMIP6.tar.gz' myget 3DBenchs/BENCHCMIP6.tar.gz tar xvzf BENCHCMIP6.tar.gz sed -e "s:VEGET=n:VEGET=y:" config.def > tmp mv -f tmp config.def if [ "$with_xios" = "y" ] ; then cp ../../ORCHIDEE/src_xml/context_orchidee.xml . echo '' \ > add.tmp cp ../../ORCHIDEE/src_xml/field_def_orchidee.xml . cp ../../ORCHIDEE/src_xml/file_def_orchidee.xml . cp ../../ORCHIDEE/src_xml/file_def_input_orchidee.xml . if [ -f ../../ORCHIDEE/src_xml/context_input_orchidee.xml ] ; then cp ../../ORCHIDEE/src_xml/context_input_orchidee.xml . echo '' >> add.tmp fi sed -e '/id="LMDZ"/r add.tmp' iodef.xml > tmp mv tmp iodef.xml sed -e'{/sechiba1/ s/enabled="_AUTO_"/type="one_file" enabled=".TRUE."/}' \ file_def_orchidee.xml > tmp \mv -f tmp file_def_orchidee.xml sed -e 's@enabled="_AUTO_"@type="one_file" enabled=".FALSE."@' \ file_def_orchidee.xml > tmp \mv -f tmp file_def_orchidee.xml sed -e 's@output_level="_AUTO_"@output_level="1"@' \ file_def_orchidee.xml > tmp \mv -f tmp file_def_orchidee.xml sed -e 's@output_freq="_AUTO_"@output_freq="1d"@' \ file_def_orchidee.xml > tmp \mv -f tmp file_def_orchidee.xml sed -e 's@compression_level="4"@compression_level="0"@' \ file_def_orchidee.xml > tmp \mv -f tmp file_def_orchidee.xml sed -e 's@XIOS_ORCHIDEE_OK = n@XIOS_ORCHIDEE_OK = y@' \ orchidee.def > tmp \mv -f tmp orchidee.def fi fi if [[ -f ../arch.env ]] then source ../arch.env fi echo EXECUTION DU BENCH set +e date ; ./bench.sh > out.bench 2>&1 ; date set -e tail listing echo '##########################################################' echo 'Simulation finished in' `pwd` echo 'You have compiled with:' cat ../compile.sh if [ $parallel = "none" ] ; then echo 'You may re-run it with : cd ' `pwd` ' ; gcm.e' echo 'or ./bench.sh' else echo 'You may re-run it with : ' echo 'cd ' `pwd` '; ./bench.sh' # echo 'ulimit -s unlimited' # echo 'export OMP_NUM_THREADS=2' # echo 'export OMP_STACKSIZE=800M' # echo "$mpirun -np 2 gcm.e " fi echo '##########################################################' fi # bench ################################################################# # Installation eventuelle du 1D ################################################################# if [ $SCM = 1 ] ; then cd $MODEL myget 1D/1D.tar.gz tar xf 1D.tar.gz cd 1D if [ $rad = oldrad ] ; then sed -i'' -e 's/^rad=.*$/rad=oldrad/' run.sh sed -i'' -e 's/^rad=.*$/rad=oldrad/' bin/compile fi echo Running 1D/run.sh, log in `pwd`/run1d.log ./run.sh > `pwd`/run1d.log 2>&1 fi ################################################################# # sauvegarde des options veget pour utilisation eventuelle tutorial_prod ################################################################# cd $MODEL/modipsl/modeles #echo surface_env file created in $MODEL echo 'veget='$veget > surface_env #opt_veget="-v $veget_version" #echo 'opt_veget="'$opt_veget\" >> surface_env echo 'opt_veget="'-v $veget_version\" >> surface_env echo 'orchidee_rev='$orchidee_rev >> surface_env echo 'suforch='$suff_orc >> surface_env