Changeset 4849

Timestamp:

Mar 18, 2024, 5:53:12 PM (8 months ago)

Author:

abarral

Message:

 

File:

• BOL/script_install_new (copied) (copied from BOL/script_install/install_lmdz.sh) (77 diffs)

BOL/script_install_new

@@ -1 +1 @@
 #!/bin/bash
-
-#set -vx
+set -eu  # error on command failure, and on unset variables
+export LC_ALL=C  # standardize awk format
 
 ###########################################################################
@@ -36 +36 @@
 ###########################################################################
 
-echo install_lmdz.sh DEBUT `date`
-set -e
+echo install_lmdz.sh DEBUT "$(date)"
 
 ################################################################
@@ -48 +47 @@
 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 .
+    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
+        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
+        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
@@ -63 +62 @@
 
 # 04_2021 : tester si r4 marche encore !
-#real=r4
-real=r8
+real="r8"  # ou "r4"
 
 
@@ -71 +69 @@
 #########################################################################
 svn=""
-#version=trunk
-version=20231022.trunk
+version="20231022.trunk"
 
 getlmdzor=1
@@ -83 +80 @@
 pclinux=1
 pcmac=0 # default: not on a Mac
-compiler=gfortran
-if [ `gfortran -dumpversion | cut -d. -f1` -ge 10 ] ; then allow_arg_mismatch="-fallow-argument-mismatch" ; fi
+compiler="gfortran"
+if [[ $(gfortran -dumpversion | cut -d. -f1) -ge 10 ]]; then allow_arg_mismatch="-fallow-argument-mismatch"; fi
 SCM=0
 # surface/vegetation scheme treatment
@@ -91 +88 @@
 # - CMIP6: orchidee version used in CMIP exercise, rev 5661
 # - number: orchidee version number
-veget=NONE
+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
+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=
+physiq=""
 
 ## parallel can take the values none/mpi/omp/mpi_omp
-parallel=mpi_omp
-parallel=none
-idris_acct=lmd
-trusting=testing
+parallel="mpi_omp"
+parallel="none"
+idris_acct="lmd"
+trusting="testing"
 OPT_GPROF=""
 OPT_MAKELMDZ=""
@@ -117 +114 @@
 
 ## compile with oldrad/rrtm/ecrad radiatif code (Default=rrtm)
-rad=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
+#Compilation with Cosp (cosp=NONE/v1/v2; default=NONE)
+cosp="NONE"
 opt_cosp=""
 
 # Check if on a Mac
-if [ `uname` = "Darwin" ]
-then
+if [[ $(uname) = "Darwin" ]]; then
     pcmac=1
     export MAKE=make
 fi
-#echo "pcmac="$pcmac
 
 env_file=""
+optim=""
 
 #########################################################################
@@ -197 +193 @@
 
 ........fin
-              exit ;;
-        "-v") version=$2 ; shift ; shift ;;
-        "-r") svn=$2 ; shift ; shift ;;
+              exit 1;;
+        "-v") version=$2; shift; shift;;
+        "-r") svn=$2; shift; shift;;
         "-compiler") compiler=$2
                      case $compiler in
-                         "gfortran"|"ifort"|"pgf90") compiler=$2 ; shift
-                                                     shift ;;
+                         "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 ;;
+                            exit 1
+                     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
+                     "none"|"v1"|"v2") cosp=$2; shift; shift;;
+                     *) echo Only none v1 v2 for cosp option; exit 1
+                 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") if [[ $2 = "false" ]]; then
                      rad="oldrad"
                  else
                      rad="rrtm"
                  fi
-                 shift ; shift ;;
+                 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 ;;
+                    "oldrad"|"rrtm"|"ecrad") rad=$2; shift; shift;;
+                    *) echo "Only oldrad rrtm ecrad for rad option"; exit 1
+                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
+                         "none"|"mpi"|"omp"|"mpi_omp") parallel=$2; shift
+                                                       shift;;
+                         *) echo "Only none mpi omp mpi_omp for the parallel option"
+                            exit 1
+                     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 1
     esac
 done
@@ -256 +250 @@
 #opt_rad=""
 #case $rad in
-#   rrtm) opt_rad="-rad rrtm" ;;
-#   ecrad) opt_rad="-rad ecrad" ;;
+#   rrtm) opt_rad="-rad rrtm";;
+#   ecrad) opt_rad="-rad ecrad";;
 #esac
 
@@ -264 +258 @@
 opt_cosp=""
 case $cosp in
-    v1) opt_cosp="-cosp true" ;;
-    v2) opt_cosp="-cospv2 true" ;;
+    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
+if [[ $veget != 'NONE' && $veget != "CMIP6" ]]; then
     re='^[0-9]+$'
-    if ! [[ $veget =~ $re ]] ; then
+    if ! [[ $veget =~ $re ]]; then
         echo 'Valeur de l option veget non valable'
-        exit
+        exit 1
     fi
 fi
 
 #Define veget-related suffix for gcm name
-if [ "$veget" = 'NONE' ] ; then
+if [[ $veget = 'NONE' ]]; then
     suff_orc=''
     #For use with tutorial, orchidee_rev is also defined (will be
@@ -289 +282 @@
 
 
-if [ $parallel = none ] ; then
+if [[ $parallel = none ]]; then
     sequential=1; suff_exe='_seq'
 else
@@ -296 +289 @@
 
 #Chemin pour placer le modele
-if [ "$MODEL" = "" ] ; then MODEL=./LMDZ$version$svn$optim ; fi
+if [[ $MODEL = "" ]]; then MODEL=./LMDZ$version$svn$optim; fi
 
 
@@ -302 +295 @@
 
 
-if [ $compiler = g95 ] ; then echo g95 is not supported anymore ; exit ; fi
+if [[ $compiler = g95 ]]; then echo g95 is not supported anymore; exit 1; fi
 
 ################################################################
@@ -308 +301 @@
 ################################################################
 
-hostname=`hostname`
-if [ "$pclinux" = 1 ] ; then o_ins_make="-t g95" ; else o_ins_make="" ; fi
+hostname=$(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 ;
+    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 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" ;
+             arch=X64_JEANZAY;;
+
+    cicla|camel)   compiler="gfortran";
                    module purge
                    module load gnu/10.2.0
@@ -341 +334 @@
                    module load svn/1.14.0
 
-                   if [ $parallel != none ] ; then
+                   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 [ $parallel = none -o -f /usr/bin/mpif90 ] ; then
-                 path_mpi=`which mpif90 | sed -e s:/mpif90::` ;
-                 if [ -d /usr/lib64/openmpi ] ; then
+                       path_mpi=$root_mpi/bin;
+                       par_comp=${path_mpi}/mpif90;
+                       mpirun=${path_mpi}/mpirun;
+                   fi;
+                   arch="local" ;
+                   make="make";
+                   o_ins_make="-t g95";;
+
+    *)       if [[ $parallel = none || -f /usr/bin/mpif90 ]]; then
+                 path_mpi=$(which mpif90 | sed -e s:/mpif90::);
+                 if [[ -d /usr/lib64/openmpi ]]; then
                      root_mpi="/usr/lib64/openmpi"
                  else
@@ -359 +352 @@
                  fi
              else
-                 echo "Cannot find mpif90" ;
-                 if [ $parallel = none ] ; then exit ; fi ;
-             fi ;
-             if [ $parallel != none ] ; then
+                 echo "Cannot find mpif90";
+                 if [[ $parallel = none ]]; then exit 1; 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=${path_mpi}/mpirun ;
-             arch=local  ;
-             make=make ;
+             par_comp=${path_mpi}/mpif90;
+             mpirun=${path_mpi}/mpirun;
+             arch="local" ;
+             make="make";
              o_ins_make="-t g95"
 esac
 
 # Flags for parallelism:
-if [ $parallel != none ] ; then
+if [[ $parallel != none ]]; then
     # MPI_LD are the flags needed for linking with MPI
     MPI_LD="-L${root_mpi}/lib -lmpi"
-    if [ "$compiler" = "gfortran" ] ; then
+    if [[ "$compiler" = "gfortran" ]]; then
         # MPI_FLAGS are the flags needed for compilation with MPI
         MPI_FLAGS="-fcray-pointer"
@@ -385 +378 @@
         # OMP_LD are the flags needed for linking with OpenMP
         OMP_LD="-fopenmp"
-    elif [ "$compiler" = "ifort" ] ; then
+    elif [[ "$compiler" = "ifort" ]]; then
         MPI_FLAGS=""
         OMP_FLAGS="-openmp"
@@ -404 +397 @@
 #####################################################################
 
-if [ "$compiler" = "gfortran" ] ; then
+if [[ "$compiler" = "gfortran" ]]; then
     gfortran=gfortran
-    gfortranv=`gfortran --version | \
-   head -1 | awk ' { print $NF } ' | awk -F. ' { print $1 * 10 + $2 } '`
-    if [ $gfortranv -le 43 ] ; then
-        echo ERROR : Your gfortran compiler is too old
-        echo 'Please choose a new one (ifort) and change the line'
-        echo compiler=xxx
-        echo in the install_lmdz.sh script and rerun it
-        if [ `which gfortran44 | wc -w` -ne 0 ] ; then
+    gfortranv=$(gfortran --version | \
+   head -1 | awk ' { print $NF } ' | awk -F. ' { print $1 * 10 + $2 } ')
+    if [[ $gfortranv -le 43 ]]; then
+        \cat <<EOF
+ERROR : Your gfortran compiler is too old
+Please choose a new one (ifort) and change the line
+compiler=xxx
+in the install_lmdz.sh script and rerun it
+EOF
+        if [[ $(which gfortran44 | wc -w) -ne 0 ]]; then
             gfortran=gfortran44
         else
-            echo gfotran trop vieux ; exit
+            echo gfotran trop vieux; exit 1
         fi
     fi
@@ -424 +419 @@
 
 ## if also compiling XIOS, parallel must be mpi_omp
-if [ "$with_xios" = "y" -a "$parallel" != "mpi_omp" ] ; then
+if [[ "$with_xios" = "y" && "$parallel" != "mpi_omp" ]]; then
     echo "Error, you must set -parallel mpi_omp if you want XIOS"
-    exit
-fi
-
-if [ "$with_xios" = "y" ] ; then
+    exit 1
+fi
+
+if [[ "$with_xios" = "y" ]]; then
     opt_makelmdz_xios="-io xios"
 fi
 
-if [ "$cosp" = "v2" -a "$with_xios" = "n" ] ; then
+if [[ "$cosp" = "v2" && "$with_xios" = "n" ]]; then
     echo "Error, Cospv2 cannot run without Xios"
-    exit
+    exit 1
 fi
 
@@ -446 +441 @@
 export F77=$compiler
 export CPPFLAGS=
-OPTIMNC=$OPTIM
+OPTIMNC=""
 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
+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
+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  $allow_arg_mismatch"
@@ -462 +457 @@
    fmod='I '
    OPTPREC="$OPTPREC -cpp -ffree-line-length-0"
-   if [ $real = r8 ] ; then OPTPREC="$OPTPREC -fdefault-real-8 -DNC_DOUBLE" ; fi
+   if [[ $real = r8 ]]; then OPTPREC="$OPTPREC -fdefault-real-8 -DNC_DOUBLE"; fi
    export F90FLAGS=" -ffree-form $OPTIMNC"
    export FFLAGS=" $OPTIMNC"
@@ -469 +464 @@
    export fpp_flags="-P -C -traditional -ffreestanding"
 
-elif [ $compiler = mpif90 ] ; then
+elif [[ $compiler = mpif90 ]]; then
     OPTIM='-O3'
     OPTDEB="-g3 -Wall -fbounds-check -ffpe-trap=invalid,zero,overflow -O0 -fstack-protector-all"
@@ -475 +470 @@
     BASE_LD="$BASE_LD -lblas"
     fmod='I '
-    if [ $real = r8 ] ; then
+    if [[ $real = r8 ]]; then
         OPTPREC="$OPTPREC -fdefault-real-8 -DNC_DOUBLE -fcray-pointer"
     fi
@@ -483 +478 @@
     export CXX=g++
 
-elif [ $compiler = pgf90 ] ; then
+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
+    if [[ $real = r8 ]]; then OPTPREC="$OPTPREC -r8 -DNC_DOUBLE"; fi
     export CPPFLAGS="-DpgiFortran"
     export CC=pgcc
@@ -498 +493 @@
     compile_with_fcm=1
 
-elif [[ $compiler = ifort || $compiler = mpiifort ]] ; then
+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
+    if [[ $real = r8 ]]; then OPTPREC="$OPTPREC -real-size 64 -DNC_DOUBLE"; fi
     export CPP="icc -E"
     export FFLAGS="-O2 -ip -fpic -mcmodel=large"
@@ -515 +510 @@
     #compile_with_fcm=1
 else
-    echo unexpected compiler $compiler ; exit
+    echo "unexpected compiler $compiler"; exit 1
 fi
 
 OPTIMGCM="$OPTIM $OPTPREC"
 
-hostname=`hostname`
+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
+if [[ ${hostname:0:5} = jean- ]]; then
     netcdf=0 # no need to recompile netcdf, alreday available
     check_linux=0
@@ -533 +528 @@
     compiler="mpiifort"
     fmod='module '
-    if [ $real = r8 ] ; then OPTPREC="$OPTPREC -i4 -r8 -DNC_DOUBLE" ; fi
+    if [[ $real = r8 ]]; then OPTPREC="$OPTPREC -i4 -r8 -DNC_DOUBLE"; fi
     OPTIM="-auto -align all -O2 -fp-model strict -xHost "
     OPTIMGCM="$OPTIM $OPTPREC"
@@ -540 +535 @@
 
 
-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 '################################################################'
+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
+    #### 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"
+    if [[ $(which bash) = "" ]]; then
+        echo "no bash; we will use ksh"
         use_shell="ksh"
-        if [ "`which ksh`" = "" ] ; then
+        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
+            exit 1
+        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 1
         fi
     done
 
-    if [ $pclinux = 1 ] ; then
-        cd $MODEL
+    if [[ $pclinux = 1 ]]; then
+        cd "$MODEL"
         cat <<eod > tt.f90
 print*,'coucou'
 end
 eod
-        $compiler tt.f90 -o a.out
+        $compiler tt.f90 || a.out
         ./a.out >| tt
-        if [ "`cat tt | sed -e 's/ //g' `" != "coucou" ] ; then
-            echo problem installing with compiler $compiler ; exit ; fi
+        if [[ $(< tt sed -e 's/ //g' ) != "coucou" ]]; then
+            echo "problem installing with compiler $compiler"; exit 1; fi
         \rm tt a.out tt.f90
     fi
@@ -584 +579 @@
 
 ###########################################################################
-if [ $getlmdzor = 1 -a ! -d $MODEL/modipsl ] ; then
+if [[ $getlmdzor = 1 && ! -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
+   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
 
@@ -603 +598 @@
 ###########################################################################
 
-if [ $netcdf = 0 ] ; then
+if [[ $netcdf = 0 ]]; then
     ncdfdir=/usr
 
 else
-    cd $MODEL
+    cd "$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
+      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
 
@@ -619 +614 @@
         n) script_install_netcdf=install_netcdf4_hdf5_seq.bash
            ncdfdir=netcdf4_hdf5_seq
-           opt_=$opt1 ;;
+           opt_=$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
+           opt_="$opt2 -MPI $root_mpi";;
+        *) echo with_xios=$with_xios, should be n or y; exit 1
     esac
-    if [ $netcdf = 1 ] ; then
+    if [[ $netcdf = 1 ]]; then
        ncdfdir=$MODEL/$ncdfdir
     else
-       mkdir -p $netcdf ; ncdfdir=$netcdf/$ncdfdir
+       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
+    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_ >> $netcdflog 2>&1
+        # shellcheck disable=SC2086
+        ./$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
+    # la librairie est parfois rang�e dans lib64 et non dans lib
     # par certains compilateurs
-    if [ ! -e lib -a -d lib64 ] ; then ln -s lib64 lib; fi
+    if [[ ! -e lib && -d lib64 ]]; then ln -s lib64 lib; fi
     #----------------------------------------------------------------------------
 
-    echo install_lmdz.sh netcdf_OK `date`
+    echo install_lmdz.sh netcdf_OK "$(date)"
 
 fi
@@ -660 +656 @@
 EOF
 
-$compiler -I$ncdfdir/include test_netcdf90.f90 -L$ncdfdir/lib -lnetcdff \
-          -lnetcdf -Wl,-rpath=$ncdfdir/lib && ./a.out
-    
-if (($? == 0))
+if $compiler -I"$ncdfdir"/include test_netcdf90.f90 -L"$ncdfdir"/lib -lnetcdff \
+          -lnetcdf -Wl,-rpath="$ncdfdir"/lib && ./a.out
 then
     rm test_netcdf90.f90 a.out
@@ -677 +671 @@
 fi
 
-#=========================================================================
 if [[ ! -f $MODEL/modipsl/lib/libioipsl.a ]]
 then
-    if [ $ioipsl = 1 ] ; then
-        #=====================================================================
-        echo OK ioipsl=$ioipsl
-        echo '##########################################################'
-        echo 'Installing MODIPSL, the installation package manager for the '
-        echo 'IPSL models and tools'
-        echo '##########################################################'
-        echo `date`
-
-        cd $MODEL/modipsl
+    if [[ $ioipsl = 1 ]]; then
+        cat <<EOF
+OK ioipsl=$ioipsl
+##########################################################
+Installing MODIPSL, the installation package manager for the
+IPSL models and tools
+##########################################################
+$(date)
+EOF
+        cd "$MODEL/modipsl"
         \rm -rf lib/*
         cd util
         cp AA_make.gdef AA_make.orig
         F_C="$compiler -c "
-        if [ "$compiler" = "$gfortran" -o "$compiler" = "mpif90" ]
+        if [[ $compiler = "$gfortran" || $compiler = "mpif90" ]]
         then
             F_C="$compiler -c -cpp "
         fi
-        if [ "$compiler" = "pgf90" ] ; then F_C="$compiler -c -Mpreprocess" ; fi
+        if [[ "$compiler" = "pgf90" ]]; then F_C="$compiler -c -Mpreprocess"; fi
         sed -e 's/^\#.*.g95.*.\#.*.$/\#/' AA_make.gdef > tmp
         sed -e "s:F_L = g95:F_L = $compiler:" \
@@ -710 +703 @@
             tmp >| AA_make.gdef
 
-        if [ $pcmac == 1 ]
+        if [[ $pcmac == 1 ]]
         then
             cp AA_make.gdef tmp
@@ -718 +711 @@
 
         # We use lines for g95 even for the other compilers to run ins_make
-        if [ "$use_shell" = "ksh" ] ; then
-            ./ins_make $o_ins_make
+        if [[ "$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
+            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'
@@ -730 +723 @@
 
             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 $MODEL/modipsl/modeles/IOIPSL/src
-        ioipsllog=`pwd`/ioipsl.log
+            ./ins_make.bash "$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
+        echo "log file : $ioipsllog   $(date)"
+
+        if [[ "$use_shell" = "bash" ]]; then
             cp Makefile Makefile.ksh
             sed -e s:/bin/ksh:/bin/bash:g Makefile.ksh > Makefile
         fi
-        ### if [ "$pclinux" = 1 ] ; then
+        ### if [[ "$pclinux" = 1 ]]; then
         # Build IOIPSL modules and library
         $make clean
-        $make > $ioipsllog 2>&1
-        if [ "$compiler" = "$gfortran" -o "$compiler" = "mpif90" ] ; then
+        $make > "$ioipsllog" 2>&1
+        if [[ $compiler = "$gfortran" || $compiler = "mpif90" ]]; then
             # copy module files to lib
-            cp -f *.mod ../../../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 
+        # 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
+        elif [[ -d $MODEL/modipsl/modeles/IOIPSL/rebuild ]]; then
               rebuild_dir=$MODEL/modipsl/modeles/IOIPSL/rebuild
         fi
-        if [ $rebuild_dir != "" ] ; then
-            cd $rebuild_dir     
+        if [[ $rebuild_dir != "" ]]; then
+            cd "$rebuild_dir"
             # adapt Makefile & rebuild script if in bash
-            if [ "$use_shell" = "bash" ] ; then
+            if [[ "$use_shell" = "bash" ]]; then
                 cp Makefile Makefile.ksh
                 sed -e s:/bin/ksh:/bin/bash:g Makefile.ksh > Makefile
@@ -775 +767 @@
             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
+            $make > "$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
+            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 $o_ins_make
+            ./ins_make "$o_ins_make"
             # Compile IOIPSL on jean-zay
-            cd $MODEL/modipsl/modeles/IOIPSL/src
+            cd "$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
+            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
+            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 ]
+        echo "install_lmdz.sh ioipsl_OK $(date)"
+    fi # of if [[ $ioipsl = 1 ]]
 fi # of if [[ ! -f $MODEL/modipsl/lib/libioipsl.a ]]
 
 #=========================================================================
-if [ "$with_xios" = "y" ] ; then
+if [[ "$with_xios" = "y" ]]; then
     echo '##########################################################'
     echo 'Compiling XIOS'
     echo '##########################################################'
-    cd $MODEL/modipsl/modeles
-    xioslog=`pwd`/xios.log
+    cd "$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 [ $mysvn -ge 4619 ] ; then 
+#    mysvn=`svnversion LMDZ | egrep || "[0-9]+" 2>/dev/null`
+    mysvn=$(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
@@ -835 +827 @@
         svn update
         cd ..
-        echo "Compiling XIOS, start" `date` \
-             "(it takes about 20 min on Jean-Zay)"
+        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 $arch > xios.log 2>&1
+        ./install_xios.bash -prefix "$MODEL/modipsl/modeles" \
+                            -netcdf "$ncdfdir" -hdf5 "$ncdfdir" \
+                            -MPI "$root_mpi" -arch $arch > xios.log 2>&1
     fi # of case Jean-Zay
-    if [ -f XIOS/lib/libxios.a ] ; then
+    if [[ -f XIOS/lib/libxios.a ]]; then
         echo "XIOS library successfully generated"
-        echo install_lmdz.sh XIOS_OK `date`
+        echo install_lmdz.sh XIOS_OK "$(date)"
     fi
 fi
@@ -852 +843 @@
 #============================================================================
 veget_version=false
-if [ "$veget" != 'NONE' ] ; then
-    cd $MODEL/modipsl/modeles/ORCHIDEE
-    set +e ; svn upgrade ; set -e
-    if [ "$veget" = "CMIP6" ] ; then
+if [[ "$veget" != 'NONE' ]]; then
+    cd "$MODEL/modipsl/modeles/ORCHIDEE"
+    set +e; svn upgrade; set -e
+    if [[ "$veget" = "CMIP6" ]]; then
         veget_version=orchidee2.0
         orchidee_rev=6592
@@ -861 +852 @@
         veget_version=orchidee2.1
         orchidee_rev=$veget
-        if [ $veget -lt 4465 ] ; then
+        if [[ $veget -lt 4465 ]]; then
             echo 'Stopping, ORCHIDEE version too old, script needs work on ' \
                  'the CPP flags to pass to makelmdz'
@@ -868 +859 @@
         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 $2}'`
+        orcbranch=$(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 [  $? -gt 0 ] ; then
-            echo 'Cannot update ORCHIDEE as not on the right branch for ' \
-                 'ORCHIDEE'
-            exit
+        svn switch -r "$veget" --accept theirs-full "svn://forge.ipsl.jussieu.fr/orchidee/$orcbranch"
+        if ! (svn log -r "$veget" | grep "$veget"); then
+            echo 'Cannot update ORCHIDEE as not on the right branch for ORCHIDEE'
+            exit 1
         fi
         set -e
-        set +e ; svn update -r $veget ; set -e
+        set +e; svn update -r "$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 [ "$optim" = "-debug" ] ; then opt_orc="-debug" ; fi
-
-    orchideelog=`pwd`/orchidee.log
+    opt_orc="-prod"; if [[ "$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`
+    echo "Start of the first compilation of orchidee, in sequential mode: $(date)"
+    echo "log file : $orchideelog"
+
+    ORCHPATH=$(pwd)
+    export ORCHPATH=$ORCHPATH
     xios_orchid="-noxios"
-    if [ "$with_xios" = "y" ] ; then
+    if [[ "$with_xios" = "y" ]]; then
         xios_orchid="-xios"
     fi
-    if [ -d tools ] ; then
+    if [[ -d tools ]]; then
         ###################################################################
         # Pour les experts qui voudraient changer de version d'orchidee.
@@ -906 +895 @@
 
         # Correctif suite debug Jean-Zay
-        if [ -f src_global/time.f90 ] ; then
+        if [[ -f src_global/time.f90 ]]; then
             sed -i -e 's/CALL tlen2itau/\!CALL tlen2itau/' src_global/time.f90
         fi
         ###################################################################
-        if [ "$veget_version" == "false" ] ; then
+        if [[ "$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             $ARFLAGS":1 \
+        sed -e s:"%COMPILER        .*.$:%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="${ORCHDIR}/../XIOS/lib -lxios"' >> arch-local.path
+        cat <<EOF > arch-local.path
+NETCDF_LIBDIR="-L$ncdfdir/lib -lnetcdff -lnetcdf"
+NETCDF_INCDIR="$ncdfdir/include"
+IOIPSL_INCDIR="$ORCHPATH/../../lib"
+IOIPSL_LIBDIR="$ORCHPATH/../../lib"
+XIOS_INCDIR="\$ORCHDIR/../XIOS/inc"
+XIOS_LIBDIR="\$ORCHDIR/../XIOS/lib -lxios"
+EOF
         cd ../
 
@@ -936 +926 @@
              -arch $arch
         ./makeorchidee_fcm -j 8 $xios_orchid $opt_orc -parallel none \
-                           -arch $arch > $orchideelog 2>&1
+                           -arch $arch > "$orchideelog" 2>&1
         pwd
-    else # of "if [ -d tools ]"
-        if [ -d src_parallel ] ; then
+    else # of "if [[ -d tools ]]"
+        if [[ -d src_parallel ]]; then
             liste_src="parallel parameters global stomate sechiba driver"
-            if [ "$veget_version" == "false" ] ; then
+            if [[ "$veget_version" == "false" ]]; then
                 veget_version=orchidee2.0
             fi
         fi
-        for d in $liste_src ; do
+        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 $src_d ; exit
+            echo src_d "$src_d"
+            echo ls; ls
+            if [[ ! -d $src_d ]]; then
+                echo "Problem orchidee : no $src_d"; exit 1
             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
+            cd "$src_d"; \rm -f -- *.mod make; $make clean
+            $make > "$orchideelog" 2>&1
+            if [[ "$compiler" = "$gfortran" || "$compiler" = "mpif90" ]]; then
+                cp -f -- *.mod ../../../lib
             fi
             cd ..
         done
-    fi # of "if [ -d tools ]"
-    echo install_lmdz.sh orchidee_compil_seq_OK `date`
-fi # of if [ "$veget" != 'NONE' ]
+    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
+if [[ -d $MODEL/modipsl/modeles/LMD* ]]; then
     echo '###############################################################'
     echo 'Preparing LMDZ compilation : arch file, svn switch if needed...'
     echo '###############################################################'
-    cd $MODEL/modipsl/modeles/LMD*
-    LMDZPATH=`pwd`
+    cd "$MODEL/modipsl/modeles/"LMD*
+    LMDZPATH=$(pwd)
 else
     echo "ERROR: No LMD* directory !!!"
-    exit
+    exit 1
 fi
 
@@ -984 +974 @@
 
 
-cd $MODEL/modipsl/modeles/LMDZ*
-lmdzlog=`pwd`/lmdz.log
+cd "$MODEL/modipsl/modeles"/LMDZ*
+lmdzlog=$(pwd)/lmdz.log
 
 ##################################################################
@@ -991 +981 @@
 ##################################################################
 
-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
+set +e; svn upgrade; set -e
+
+if [[ $svn = "last" ]]; then svnopt=""; else svnopt="-r $svn"; fi
+if [[ $svn != "" ]]; then
+    if set +e; svn info | grep -q 'https:'; then
         svn switch --relocate https://svn.lmd.jussieu.fr/LMDZ \
             http://svn.lmd.jussieu.fr/LMDZ
     fi
-    svn update $svnopt
+    svn update "$svnopt"
     set -e
 fi
@@ -1012 +1001 @@
 #---------------------------------------------------------------------
 
-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 [[ "$pclinux" = "1" && ! -f arch/arch-local.path ]] ; then
+set +e; mysvn=$(svnversion . | grep -E || "[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):
@@ -1022 +1011 @@
     # 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$LMDGCM/../../lib' >> arch-local.path
+    if [[ "$mysvn" -gt 4425 ]]; then
+      cat <<EOF > arch-local.path
+NETCDF_LIBDIR="-L$ncdfdir/lib"
+NETCDF_LIB="-lnetcdff -lnetcdf\"
+NETCDF_INCDIR=-I$ncdfdir/include
+NETCDF95_INCDIR=-I\$LMDGCM/../../include
+NETCDF95_LIBDIR=-L\$LMDGCM/../../lib
+NETCDF95_LIB=-lnetcdf95
+IOIPSL_INCDIR=-I\$LMDGCM/../../lib
+IOIPSL_LIBDIR=-L\$LMDGCM/../../lib
+IOIPSL_LIB=-lioipsl
+XIOS_INCDIR=-I\$LMDGCM/../XIOS/inc
+XIOS_LIBDIR=-L\$LMDGCM/../XIOS/lib
+XIOS_LIB="-lxios -lstdc++"
+ORCH_INCDIR=-I\$LMDGCM/../../lib
+ORCH_LIBDIR=-L\$LMDGCM/../../lib
+EOF
     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
+      cat <<EOF > arch-local.path
+NETCDF_LIBDIR="-L$ncdfdir/lib -lnetcdff -lnetcdf"
+NETCDF_INCDIR=-I$ncdfdir/include
+NETCDF95_INCDIR=\$LMDGCM/../../include
+NETCDF95_LIBDIR=\$LMDGCM/../../lib
+IOIPSL_INCDIR=\$LMDGCM/../../lib
+IOIPSL_LIBDIR=\$LMDGCM/../../lib
+XIOS_INCDIR=\$LMDGCM/../XIOS/inc
+XIOS_LIBDIR=\$LMDGCM/../XIOS/lib
+ORCH_INCDIR=\$LMDGCM/../../lib
+ORCH_LIBDIR=\$LMDGCM/../../lib
+EOF
     fi 
 
-    if [ $pcmac == 1 ] ; then
+    if [[ $pcmac == 1 ]]; then
         BASE_LD="$BASE_LD -Wl,-rpath,${ncdfdir}/lib"
     else
@@ -1058 +1050 @@
     # 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 \
+    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
 
@@ -1075 +1067 @@
     #echo "bld::tool::SHELL   $whereisthatshell" >> bld.cfg
 
-fi # of if [ "$pclinux" = 1 ]
+fi # of if [[ "$pclinux" = 1 ]]
 #---------------------------------------------------------------------
 # Option de compilation du rayonnement : depend de $mysvn ><= r4185
@@ -1082 +1074 @@
 
 case $rad in
-    oldrad) iflag_rrtm=0 ; NSW=2 ; opt_rad="" ;;
-    rrtm)   iflag_rrtm=1 ; NSW=6
-            if [ $mysvn -le 4185 ] ; then
+    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
+            fi;;
+    ecrad)  iflag_rrtm=2; NSW=6; opt_rad="-rad ecrad";;
+    *) echo "Only oldrad rrtm ecrad for rad option"; exit 1
 esac
 
-if [ $mysvn -le 4185 -a $rad = "ecrad" ] ; then
-    echo "ecrad only available for LMDZ rev starting with 4186 " ; exit
+if [[ $mysvn -le 4185 && $rad = "ecrad" ]]; then
+    echo "ecrad only available for LMDZ rev starting with 4186 "; exit 1
 fi
 
@@ -1100 +1092 @@
 
 
-if [[ ! -f libf/misc/netcdf95.F90 &&  ! -d $MODEL/NetCDF95-0.3 ]]
-then
-    cd $MODEL
+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
@@ -1109 +1100 @@
     mkdir build
     cd build
-    cmake .. -DCMAKE_BUILD_TYPE=Release -DCMAKE_PREFIX_PATH=$ncdfdir \
-          -DCMAKE_INSTALL_PREFIX=$MODEL/modipsl
+    cmake .. -DCMAKE_BUILD_TYPE=Release -DCMAKE_PREFIX_PATH="$ncdfdir" \
+          -DCMAKE_INSTALL_PREFIX="$MODEL/modipsl"
     make install
-    cd $MODEL/modipsl/modeles/LMDZ*
+    cd "$MODEL/modipsl/modeles/"LMDZ*
 fi
 
@@ -1118 +1109 @@
 echo "Preparing script compile.sh for LMDZ compilation"
 echo "It will only be run automatically if bench=1/tuto"
-echo Here bench=$bench
+echo "Here bench=$bench"
 echo '##################################################################'
 
-if [ "$env_file" != "" ] ; then
+if [[ $env_file != "" ]]; then
     mv arch/arch-${arch}.env arch/arch-${arch}.orig
-    \cp -f $env_file arch/arch-${arch}.env
-fi
-
-if [ $compile_with_fcm = 1 ] ; then
+    \cp -f "$env_file" arch/arch-${arch}.env
+fi
+
+if [[ $compile_with_fcm = 1 ]]; then
     makelmdz="makelmdz_fcm $optim -arch $arch -j 8 "
 else
@@ -1133 +1124 @@
 
 # sequential compilation
-if [ "$sequential" = 1 ] ; then
+if [[ "$sequential" = 1 ]]; then
     echo Sequential compilation command, saved in compile.sh:
     echo "./$makelmdz $optim $OPT_MAKELMDZ $optim $opt_rad $opt_cosp " \
@@ -1140 +1131 @@
          "-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`
+    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
+if [[ $parallel != "none" ]]; then
     echo '##########################################################'
     echo ' Parallel compile '
     echo '##########################################################'
     echo "(after saving the sequential libs and binaries)"
-    cd $MODEL/modipsl
+    cd "$MODEL/modipsl"
     tar cf sequential.tar bin/ lib/
     #
     # Orchidee
     #
-    cd $ORCHPATH
-    if [ -d src_parallel -a $veget != 'NONE' ] ; then
+    cd "$ORCHPATH"
+    if [[ -d src_parallel && $veget != 'NONE' ]]; then
         cd arch
         sed  \
-            -e s:"%COMPILER.*.$":"%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              $OMP_LD":1 \
+            -e s:"%COMPILER.*.$:%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 "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 $arch > compile_orc.sh
+             -parallel "$parallel" -arch $arch > compile_orc.sh
         echo ./makeorchidee_fcm -j 8 $xios_orchid $opt_orc \
-             -parallel $parallel -arch $arch >> compile_orc.sh
+             -parallel "$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 [ $veget != 'NONE' ] ; then
+                           -parallel "$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' ]
+        exit 1
+    fi #�of [ -d src_parallel && $veget != 'NONE' ]
 
     # LMDZ
-    cd $LMDZPATH
-    if [ $arch = local ] ; then
+    cd "$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              $OMP_LD":1 \
+        sed -e s:"%COMPILER.*.$:%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              $OMP_LD":1 \
             arch-local.fcm > tmp.fcm
         mv tmp.fcm arch-local.fcm
@@ -1214 +1205 @@
     fi
     rm -f compile.sh
-    echo resol=${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 resol="$grid_resolution" >> compile.sh
+    if [[ ${hostname:0:5} = jean- && "$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 $parallel gcm
+        echo ./"$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 $parallel gcm
+        echo ./"$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" ]
+    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" ]]
 
 
@@ -1253 +1243 @@
 # 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
+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
+    if [[ -f $exe ]]; then gcm=$exe; fi
 done
 
-if [ "$gcm" = "" ] ; then
-    if [ $bench = 1 ] ; then
+if [[ "$gcm" = "" ]]; then
+    if [[ $bench = 1 ]]; then
         echo 'Compilation failed !! Cannot run the benchmark;'
-        exit
+        exit 1
     else
         echo 'Compilation not done (only done when bench=1)'
@@ -1270 +1260 @@
 else
     echo '##########################################################'
-    echo 'Compilation successfull !! ' `date`
+    echo "Compilation successfull !!  $(date)"
     echo '##########################################################'
-    echo The executable is $gcm
+    echo "The executable is $gcm"
 fi
 
@@ -1279 +1269 @@
 ##################################################################
 
-if [ $bench = tuto ] ; then
-    myget Training/tutorial.tar ; tar xf tutorial.tar ; cd TUTORIAL
+if [[ $bench = tuto ]]; then
+    myget Training/tutorial.tar; tar xf tutorial.tar; cd TUTORIAL
     ./init.sh
 
-elif [[ $bench = 1 && ! -d BENCH${grid_resolution} ]] ; then
+elif [[ $bench = 1 && ! -d BENCH${grid_resolution} ]]; then
     # TOUTE CETTE SECTION DEVRAIT DISPARAITRE POUR UNE COMMANDE
     # OU DES BENCHS PAR MOTS CLES COMME tuto
@@ -1291 +1281 @@
     echo '##########################################################'
 
-    \rm -rf BENCH${grid_resolution}
+    \rm -rf "BENCH${grid_resolution}"
     bench=bench_lmdz_${grid_resolution}
-    echo install_lmdz.sh before bench download  `date`
+    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}
+    myget "3DBenchs/$bench.tar.gz"
+    echo "install_lmdz.sh after bench download  $(date)"
+    tar xf "$bench.tar.gz"
+
+    if [[ "$cosp" = "v1" || "$cosp" = "v2" ]]; then
+        cd "BENCH${grid_resolution}"
         # copier les fichiers namelist input et output our COSP
         cp ../DefLists/cosp*_input_nl.txt .
@@ -1310 +1300 @@
     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_${physiq}
+    if [[ -n "$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
@@ -1323 +1313 @@
     fi
 
-    if [ "$with_xios" = "y" ] ; then
-        cd BENCH${grid_resolution}
+    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
+        echo "A FAIRE : Copier les *xml en fonction de l option cosp"
         cp ../DefLists/field_def_cosp*.xml .
         cp ../DefLists/file_def_hist*xml .
@@ -1341 +1331 @@
         for histfile in file_def_hist*xml
         do
-            if [ "$histfile" = "file_def_histday_lmdz.xml" ] ; then
+            if [[ "$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"@' $histfile \
+                    "$histfile" > tmp
+                \mv -f tmp "$histfile"
+                sed -e 's@output_level="_AUTO_"@output_level="5"@' "$histfile" \
                     > tmp
-                \mv -f tmp $histfile
+                \mv -f tmp "$histfile"
                 sed -e 's@compression_level="2"@compression_level="0"@' \
-                    $histfile > tmp
-                \mv -f tmp $histfile
+                    "$histfile" > tmp
+                \mv -f tmp "$histfile"
             else
                 sed -e 's@enabled="_AUTO_"@type="one_file" enabled=".FALSE."@' \
-                    $histfile > tmp
-                \mv -f tmp $histfile
+                    "$histfile" > tmp
+                \mv -f tmp "$histfile"
             fi
         done
@@ -1362 +1352 @@
 
         #activer les sorties pour Cosp
-        if [ "$cosp" = "v1" ] ; then
+        if [[ "$cosp" = "v1" ]]; then
             sed -i'' -e 's@enabled=".FALSE."@enabled=".TRUE."@' \
                      -e 's@output_level="_AUTO_"@output_level="5"@' \
@@ -1368 +1358 @@
                      file_def_histdayCOSP_lmdz.xml
         fi
-        if [ "$cosp" = "v2" ] ; then
+        if [[ "$cosp" = "v2" ]]; then
             sed -e 's@compression_level="2"@compression_level="0"@' file_def_histdayCOSPv2_lmdz.xml
-            for type_ in hf day mth ; do
+            for type_ in hf day mth; do
                 file=file_def_hist${type_}COSP
                 sed -i'' -e 's@src="./'${file}'_lmdz.xml"@src="./'${file}'v2_lmdz.xml"@' context_lmdz.xml
@@ -1381 +1371 @@
 
     # Cas Bensh avec ecrad
-    if [ "$rad" = "ecrad" ] ; then
-        cd BENCH${grid_resolution}
+    if [[ "$rad" = "ecrad" ]]; then
+        cd "BENCH${grid_resolution}"
         cp  ../DefLists/namelist_ecrad .
         cp -r ../libf/phylmd/ecrad/data .
@@ -1389 +1379 @@
 
     # Adjusting bench physiq.def to radiative code chosen
-    cd BENCH${grid_resolution}
+    cd "BENCH${grid_resolution}"
     sed -e 's/iflag_rrtm=.*.$/iflag_rrtm='$iflag_rrtm'/' \
         -e 's/NSW=.*.$/NSW='$NSW'/' physiq.def > tmpdef
@@ -1395 +1385 @@
     cd ..
 
-    cp $gcm BENCH${grid_resolution}/gcm.e
-
-    cd BENCH${grid_resolution}
+    cp "$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 [ "$grid_resolution" = "48x36x39" ] ; then
+    if [[ "$grid_resolution" = "48x36x39" ]]; then
         echo On ne touche pas au bench.sh
         # But we have to adapt "run_local.sh" for $mpirun
@@ -1407 +1397 @@
         mv -f tmp run_local.sh
         chmod u=rwx run_local.sh
-    elif [ "${parallel:0:3}" = "mpi" ] ; then
+    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
+        if [[ "${parallel:4:3}" = "omp" ]]; then
             echo "export OMP_NUM_THREADS=2" >> bench.sh
         fi
-        if [ "$cosp" = "v1" -o "$cosp" = "v2" ] ; then
-            if [ ${hostname:0:5} = jean- ] ; then
+        if [[ "$cosp" = "v1" || "$cosp" = "v2" ]]; then
+            if [[ ${hostname:0:5} = jean- ]]; then
                    chmod +x ../arch.env
                 ../arch.env        
@@ -1424 +1414 @@
             echo "ulimit -s unlimited" >> bench.sh
         fi
-        if [ ${hostname:0:5} = jean- ] ; then
+        if [[ ${hostname:0:5} = jean- ]]; then
             . ../arch/arch-${arch}.env
-            echo "srun -n 2 -A $idris_acct@cpu gcm.e > listing  2>&1" \
+            echo "srun -n 2 && $idris_acct@cpu gcm.e > listing  2>&1" \
                  >> bench.sh
         else
@@ -1432 +1422 @@
         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
+        cat <<EOF >> bench.sh
+if [[ -f reb.sh ]]; then
+  ./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
+fi
+EOF
     else
         echo "./gcm.e > listing  2>&1" > bench.sh
     fi
     # Getting orchidee stuff
-    if [ $veget == 'CMIP6' ] ; then
+    if [[ $veget == 'CMIP6' ]]; then
         #echo 'myget 3DBenchs/BENCHorch11.tar.gz'
         #myget 3DBenchs/BENCHorch11.tar.gz
@@ -1450 +1442 @@
         sed -e "s:VEGET=n:VEGET=y:" config.def > tmp
         mv -f tmp config.def
-        if [ "$with_xios" = "y" ] ; then
+        if [[ "$with_xios" = "y" ]]; then
             cp ../../ORCHIDEE/src_xml/context_orchidee.xml .
             echo '<context id="orchidee" src="./context_orchidee.xml"/>' \
@@ -1457 +1449 @@
             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
+            if [[ -f ../../ORCHIDEE/src_xml/context_input_orchidee.xml ]]; then
                    cp ../../ORCHIDEE/src_xml/context_input_orchidee.xml .
                    echo '<context id="orchidee" ' \
@@ -1492 +1484 @@
     echo EXECUTION DU BENCH
     set +e
-    date ; ./bench.sh > out.bench 2>&1 ; date
+    date; ./bench.sh > out.bench 2>&1; date
     set -e
     tail listing
 
 
-    echo '##########################################################'
-    echo 'Simulation finished in' `pwd`
-    echo 'You have compiled with:'
+    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'
+    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 "You may re-run it with : "
+        echo "cd  $(pwd) ; ./bench.sh"
         #  echo 'ulimit -s unlimited'
         #  echo 'export OMP_NUM_THREADS=2'
@@ -1521 +1513 @@
 #################################################################
 
-if [ $SCM = 1 ] ; then
-    cd $MODEL
+if [[ $SCM = 1 ]]; then
+    cd "$MODEL"
     myget 1D/1D.tar.gz
     tar xf 1D.tar.gz
     cd 1D
-    if [ $rad = oldrad ] ; then
+    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
+    echo "Running 1D/run.sh, log in $(pwd)/run1d.log"
+    ./run.sh > "$(pwd)/run1d.log" 2>&1
 fi
 
@@ -1538 +1530 @@
 # sauvegarde des options veget pour utilisation eventuelle tutorial_prod
 #################################################################
-cd $MODEL/modipsl/modeles
+cd "$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='$suff_orc >> surface_env
+cat <<EOF >surface_env
+veget=$veget
+opt_veget="-v $veget_version"
+orchidee_rev=$orchidee_rev
+suforch=$suff_orc
+EOF