#!/bin/bash
# $Id: makelmdz_fcm 4186 2022-06-24 15:31:38Z acozic $
# This is a script in Bash.

# FH : on ne cr\'ee plus le fichier arch.mk qui est suppos\'e exister par
# FH : ailleurs.
# FH : ulterieurement, ce fichier sera pr\'e-existant pour une s\'erie
# FH : de configurations en versions optimis\'ees et debug qui seront
# FH : li\'es (ln -s) avec arch.mk en fonction de l'architecture.
# FH : Pour le moment, cette version est en test et on peut cr\'eer les
# FH : arch.mk en lan\c{}cant une premi\`ere fois makegcm.
#
##set -x
set -e
########################################################################
# options par defaut pour la commande make
########################################################################

dim="96x72x19"
physique=lmd
filtre=filtrez
grille=reg
couple=false
veget=false
inlandsis=false
rrtm=false
rad="old"
dust=false
strataer=false
chimie=false
parallel=none
paramem="mem"
compil_mod=prod
io=ioipsl
LIBPREFIX=""
cosp=false
cosp2=false
cospv2=false
job=1
full=''
libphy=false
isotopes=false
isoverif=false
diagiso=false
isotrac=false
force_compile=false

arch_defined="FALSE"
arch_path="arch"
arch_default_path="arch"

LMDGCM=`/bin/pwd`
LIBOGCM=$LMDGCM/libo
LIBFGCM=$LMDGCM/libf
DYN_COMMON_PATH=$LIBFGCM/dyn3d_common
# path for optional packages, but default set to ".void_dir"
FILTRE_PATH=$LMDGCM/.void_dir
DYN_PHYS_PATH=$LMDGCM/.void_dir
DYN_PHYS_SUB_PATH=$LMDGCM/.void_dir
PHY_COMMON_PATH=$LMDGCM/.void_dir
RAD_PATH=$LMDGCM/.void_dir
INLANDSIS_PATH=$LMDGCM/.void_dir
DUST_PATH=$LMDGCM/.void_dir
STRATAER_PATH=$LMDGCM/.void_dir
COSP_PATH=$LMDGCM/.void_dir
fcm_path=$LMDGCM/tools/fcm/bin

########################################################################
#  Quelques initialisations de variables du shell.
########################################################################

CPP_KEY="IN_LMDZ" 
INCLUDE=""
LIB=""
adjnt=""
COMPIL_FFLAGS="%PROD_FFLAGS"
PARA_FFLAGS=""
PARA_LD=""
EXT_SRC=""

########################################################################
# lecture des options de mymake
########################################################################

while (($# > 0))
  do
  case $1 in
      "-h") cat <<fin
Usage :
makelmdz_fcm [options] -arch nom_arch exec
[-h]                       : brief help
[-d [[IMx]JMx]LM]          : IM, JM, LM are the dimensions in x, y, z (default: $dim)
[-p PHYS]                  : set of physical parametrizations (in libf/phyPHYS), (default: lmd)
[-prod / -dev / -debug]    : compilation mode production (default) / developement / debug
[-c false/MPI1/OMCT]       : coupling with ocean model : MPI1/OMCT/false (default: false)
[-v false/orchidee2.0/orchidee1.9/true] : version of the vegetation model to include (default: false)
          false       : no vegetation model
          orchidee2.1 : compile using ORCHIDEE 2.1 (or more recent version)
          orchidee2.0 : compile using ORCHIDEE 2.0
          orchidee1.9 : compile using ORCHIDEE up to the version including OpenMP in ORCHIDEE : tag 1.9-1.9.5(version AR5)-1.9.6
          true        : (obsolete; for backward compatibility) use ORCHIDEE tag 1.9-1.9.6
[-chimie INCA/false]       : with INCA chemistry model or without (default: false)
[-cosp true/false]    : compile with/without cosp package (default: false)
[-cosp2 true/false]    : compile with/without cosp2 package (default: false)
[-cospv2 true/false]    : compile with/without cospv2 package (default: false)
[-inlandsis true/false]  : compile with/without inlandsis package (default: false)
[-rrtm true/false]    : compile with/without rrtm package (default: false)
[-rad old/rrtm/ecrad]    : compile with old/rrtm/ecrad radiatif code (default: old)
[-dust true/false]    : compile with/without the dust package by Boucher and co (default: false)
[-strataer true/false]    : compile with/without the strat aer package by Boucher and co (default: false)
[-isotopes true/false]    : compile with/without water isotopes in the physics
[-isoverif true/false]    : compile with/without verifications for water isotopes in the physics
[-diagiso true/false]    : compile with/without special diagnostics for water isotopes in the physics
[-isotrac true/false]    : compile with/without tracers of water isotopes in the physics
[-parallel none/mpi/omp/mpi_omp] : parallelism (default: none) : mpi, openmp or mixted mpi_openmp
[-g GRI]                   : grid configuration in dyn3d/GRI_xy.h  (default: reg, inclues a zoom)
[-io ioipsl/mix/xios]                   : Input/Output library (default: ioipsl)
[-include INCLUDES]        : extra include path to add
[-cpp CPP_KEY]             : additional preprocessing definitions
[-adjnt]                   : adjoint model, not operational ...
[-mem]                     : reduced memory dynamics (obsolete flag; always on in parallel mode)
[-filtre NOMFILTRE]        : use filtre from libf/NOMFILTRE (default: filtrez)
[-link LINKS]              : additional links with other libraries
[-j n]                     : active parallel compiling on ntask
[-full]                    : full recompiling 
[-libphy]                  : only compile physics package (no dynamics or main program)
[-fcm_path path]           : path to the fcm tool (default: tools/fcm/bin)
[-ext_src path]            : path to an additional set of routines to compile with the model
[-arch_path path]          : path to architecture files (default: $arch_default_path)
[-force_compile]           : recompile although there seems to be an on-going compilation
 -arch nom_arch            : target architecture 
 exec                      : executable to build
fin
	  exit;;

      "-d")
	  dim=$2 ; shift ; shift ;;
      
      "-p")
	  physique="$2" ;  shift ; shift ;;

      "-g")
	  grille="$2" ; shift ; shift ;;

      "-c")
	  couple="$2" ; shift ; shift ;;

      "-prod")
	  compil_mod="prod" ; shift ;;

      "-dev")
	  compil_mod="dev" ; shift ;;

      "-debug")
	  compil_mod="debug" ; shift ;;

      "-io")
	  io="$2" ; shift ; shift ;;

      "-v")
	  veget="$2" ; shift ; shift ;;

      "-inlandsis")
          inlandsis="$2" ; shift ; shift ;;

      "-rrtm")
          rrtm="$2" ; if [ "$2" = "false" ] ; then rad="old" ; else rad="rrtm" ; fi ; shift ; shift ;;

      "-rad")
          rad="$2" ; shift ; shift ;;

      "-dust")
	  dust="$2" ; shift ; shift ;;

      "-strataer")
	  strataer="$2" ; shift ; shift ;;

      "-chimie")
	  chimie="$2" ; shift ; shift ;;

      "-isotopes")
	  isotopes="$2" ; shift ; shift ;;

      "-isoverif")
	  isoverif="$2" ; shift ; shift ;;

      "-diagiso")
	  diagiso="$2" ; shift ; shift ;;

      "-isotrac")
	  isotrac="$2" ; shift ; shift ;;

      "-parallel")
	  parallel="$2" ; shift ; shift ;;
      
      "-include")
	  INCLUDE="$INCLUDE -I$2" ; shift ; shift ;;

      "-cpp")
	  CPP_KEY="$CPP_KEY $2" ; shift ; shift ;;

      "-adjnt")
	  echo "not operational ... work to be done here ";exit
	  opt_dep="$opt_dep adjnt" ; adjnt="-ladjnt -ldyn3d "
	  optim="$optim -Dadj" ; shift ;;

      "-cosp")
          cosp="$2" ; shift ; shift ;;

      "-cosp2")
          cosp2="$2" ; shift ; shift ;;

      "-cospv2")
          cospv2="$2" ; shift ; shift ;;
      
      "-mem")
          echo "option -mem is obsolete (now always on in parallel)"
          paramem="mem" ; shift ;;

      "-filtre")
	  filtre=$2 ; shift ; shift ;;

      "-link")
	  LIB="$LIB $2" ; shift ; shift ;;

      "-fcm_path")
	  fcm_path=$2 ; shift ; shift ;;

      "-ext_src")
	  EXT_SRC=$2 ; shift ; shift ;;

      "-j")
	  job=$2 ; shift ; shift ;;

      "-full")
	  full="-full" ; shift ;;

      "-libphy")
	  libphy="true" ; shift ;;

      "-arch")
	  arch=$2 ; arch_defined="TRUE" ; shift ; shift ;;

      "-arch_path")
	  arch_path=$2 ; arch_path_defined="TRUE"; shift ; shift ;;

      "-force_compile")
	  force_compile=true ; shift ;;

      *)
	  code="$1" ; shift ;;
  esac
done

###############################################################
# path to fcm 
###############################################################
# handle case when provided path to fcm was given as a relative
# path (from makelmdz_fcm script directory) and not an absolute path
if [[ ${fcm_path:0:1} != "/" ]] ; then
  # prepend with makelmdz_fcm location
  fcm_path=$(cd $(dirname $0) ; pwd)"/"${fcm_path}
fi

# add fcm_path to PATH
export PATH=${fcm_path}:${PATH}

echo "Path to fcm:"
echo ${fcm_path}

###############################################################
# lecture des chemins propres \`a l'architecture de la machine #
###############################################################
rm -f .void_file
echo > .void_file
rm -rf .void_dir
mkdir .void_dir

if [[ "$arch_defined" == "TRUE" ]]
then
  rm -f arch.path
  rm -f arch.fcm
  rm -f arch.env

  if test -f $arch_path/arch-${arch}.path
  then
    ln -s $arch_path/arch-${arch}.path arch.path
  elif test -f $arch_default_path/arch-${arch}.path
  then
    ln -s $arch_default_path/arch-${arch}.path arch.path
  fi
        
  if test -f $arch_path/arch-${arch}.fcm
  then
    ln -s $arch_path/arch-${arch}.fcm arch.fcm
  elif test -f $arch_default_path/arch-${arch}.fcm
  then
    ln -s $arch_default_path/arch-${arch}.fcm arch.fcm
  fi

  if test -f $arch_path/arch-${arch}.env
  then
    ln -s $arch_path/arch-${arch}.env arch.env
  elif test -f $arch_default_path/arch-${arch}.env
  then
    ln -s $arch_default_path/arch-${arch}.env arch.env
  else
    ln -s .void_file arch.env
  fi
  # source architecture PATH and ENV files
  source arch.env
  source arch.path
else
  echo "You must define a target architecture"
  exit 1
fi

########################################################################
# Definition des clefs CPP, des chemins des includes et modules
#  et des libraries
########################################################################

if [[ "$compil_mod" == "prod" ]]
then
  COMPIL_FFLAGS="%PROD_FFLAGS"
elif [[ "$compil_mod" == "dev" ]]
then
  COMPIL_FFLAGS="%DEV_FFLAGS"
elif [[ "$compil_mod" == "debug" ]]
then
  COMPIL_FFLAGS="%DEBUG_FFLAGS"
fi

phys_root=$physique
if [[ "${physique:0:3}" == "lmd" ]] ; then phys_root=lmd ; fi
if [[ "${physique:0:4}" == "mars" ]] ; then phys_root=mars ; fi
if [[ "${physique:0:3}" == "std" ]] ; then phys_root=std ; fi
if [[ "${physique:0:5}" == "venus" ]] ; then phys_root=venus ; fi
if [[ "${physique:0:5}" == "titan" ]] ; then phys_root=titan ; fi
if [[ "${physique:0:3}" == "dev" ]] ; then phys_root=dev ; fi

if [[ "$physique" != "nophys" ]]
then
   #We'll use some physics
   CPP_KEY="$CPP_KEY CPP_PHYS"
   if [[ "${phys_root}" == "lmd" ]]
   then
   #For lmd physics, default planet type is Earth
   CPP_KEY="$CPP_KEY CPP_EARTH"
   fi
   # set physics common utilities path
   PHY_COMMON_PATH="${LIBFGCM}/phy_common"
   # set the dyn/phys interface path
   DYN_PHYS_PATH="${LIBFGCM}/dynphy_lonlat"
   DYN_PHYS_SUB_PATH="${LIBFGCM}/dynphy_lonlat/phy${phys_root}"
fi

if [[ "$filtre" == "filtrez" ]]
then
   FILTRE_PATH=${LIBFGCM}/$filtre
fi

if [[ "$chimie" == "INCA" ]]
then
   CPP_KEY="$CPP_KEY INCA"
   INCLUDE="$INCLUDE -I${INCA_INCDIR}"
   LIB="$LIB -L${INCA_LIBDIR} -lchimie"
fi

if [[ "$isotopes" == "true" ]]
then
   CPP_KEY="$CPP_KEY ISO"
fi

if [[ "$isoverif" == "true" ]]
then
   CPP_KEY="$CPP_KEY ISOVERIF"
fi

if [[ "$diagiso" == "true" ]]
then
   CPP_KEY="$CPP_KEY DIAGISO"
fi

if [[ "$isotrac" == "true" ]]
then
   CPP_KEY="$CPP_KEY ISOTRAC"
fi

if [[ "$couple" != "false" ]]
then
    if [[ "$couple" == "MPI1" ]]
    then
	CPP_KEY="$CPP_KEY CPP_COUPLE"
	export OASIS_INCDIR=$LMDGCM/../../prism/X64/build/lib/psmile.MPI1
	export OASIS_LIBDIR=$LMDGCM/../../prism/X64/lib
	INCLUDE="$INCLUDE -I${OASIS_INCDIR}"
	LIB="$LIB -L${OASIS_LIBDIR} -lpsmile.MPI1 -lmpp_io"
    else
	CPP_KEY="$CPP_KEY CPP_COUPLE CPP_OMCT"
	INCLUDE="$INCLUDE -I${OASIS_INCDIR}"
	LIB="$LIB -L${OASIS_LIBDIR} -lpsmile.MPI1 -lscrip -lmct -lmpeu"
    fi
fi

if [[ "$parallel" == "mpi" ]]
then
   CPP_KEY="$CPP_KEY CPP_PARA CPP_MPI"
   PARA_FFLAGS="%MPI_FFLAGS"
   PARA_LD="%MPI_LD"
elif [[ "$parallel" == "omp" ]]
then
   CPP_KEY="$CPP_KEY CPP_PARA CPP_OMP"
   PARA_FFLAGS="%OMP_FFLAGS"
   PARA_LD="%OMP_LD"
elif [[ "$parallel" == "mpi_omp" ]]
then
   CPP_KEY="$CPP_KEY CPP_PARA CPP_MPI CPP_OMP"
   PARA_FFLAGS="%MPI_FFLAGS %OMP_FFLAGS"
   PARA_LD="%MPI_LD %OMP_LD"
fi

if [[ ( "$parallel" == "omp" || "$parallel" == "mpi_omp" ) \
   && "$compil_mod" == "debug" ]]
then
    echo "Usually, parallelization with OpenMP requires some optimization."
    echo "We suggest switching to \"-dev\"."
fi

if [ "$veget" = "true" -o "$veget" = "orchidee1.9" -o "$veget" = "orchidee2.0" -o "$veget" = "orchidee2.1" ]
then
#NB: option 'true': for backward compatibility. To be used with ORCHIDEE tag 1.9-1.9.6
#    For this case, cpp flag ORCHIDEE_NOOPENMP must be added to the makelmdz_fcm arguments
#    option orchidee1.9 : Compile with ORCHIDEE version up to the inclusion of OpenMP in ORCHIDEE : tag 1.9-1.9.5(version AR5)-1.9.6
   INCLUDE="${INCLUDE} -I${ORCH_INCDIR}"
   CPP_KEY="$CPP_KEY CPP_VEGET"
# temporary, for Orchidee versions 1.9.* (before openmp activation)
   if [[ "$veget" == "orchidee1.9" ]] ; then
      CPP_KEY="$CPP_KEY ORCHIDEE_NOOPENMP"
   fi
   if [[ "$veget" == "orchidee2.0" ]] ; then
      orch_libs="sechiba parameters stomate parallel orglob orchidee"
      CPP_KEY="$CPP_KEY ORCHIDEE_NOUNSTRUCT"
   elif [[ "$veget" == "orchidee2.1" ]] ; then
      orch_libs="sechiba parameters stomate parallel orglob orchidee"
   else
      orch_libs="sechiba parameters stomate parallel orglob"
   fi
   LIB="${LIB} -L${ORCH_LIBDIR}"
   for lib in ${orch_libs} ; do
      if [ -f ${ORCH_LIBDIR}/lib${LIBPREFIX}$lib.a ] ; then
         LIB="${LIB} -l${LIBPREFIX}$lib "
      fi
   done
elif [[ "$veget" != "false" ]] ; then
   echo "Option -v $veget does not exist"
   echo "Use ./makelmdz_fcm -h for more information"
   exit 
fi

if [[ "$inlandsis" == "true" ]]
then
   CPP_KEY="$CPP_KEY CPP_INLANDSIS"
   INLANDSIS_PATH="$LIBFGCM/%PHYS/inlandsis"
fi


if [[ "$rad" == "rrtm" ]]
then
   CPP_KEY="$CPP_KEY CPP_RRTM"
   RAD_PATH="$LIBFGCM/%PHYS/rrtm"
fi
if [[ "$rad" == "ecrad" ]]
then
   CPP_KEY="$CPP_KEY CPP_ECRAD"
   RAD_PATH="$LIBFGCM/%PHYS/ecrad"
fi

if [[ "$dust" == "true" ]]
then
   CPP_KEY="$CPP_KEY CPP_Dust"
   DUST_PATH="$LIBFGCM/%PHYS/Dust"
fi

if [[ "$strataer" == "true" ]]
then
   CPP_KEY="$CPP_KEY CPP_StratAer"
   STRATAER_PATH="$LIBFGCM/%PHYS/StratAer"
fi

if [[ $io == ioipsl ]]
then
   CPP_KEY="$CPP_KEY CPP_IOIPSL"
   INCLUDE="$INCLUDE -I${IOIPSL_INCDIR}"
   LIB="$LIB -L${IOIPSL_LIBDIR} -l${LIBPREFIX}ioipsl"
elif [[ $io == mix ]]
then
   # For now, xios implies also using ioipsl
   CPP_KEY="$CPP_KEY CPP_IOIPSL CPP_XIOS"
   INCLUDE="$INCLUDE -I${IOIPSL_INCDIR} -I${XIOS_INCDIR}"
   LIB="$LIB -L${IOIPSL_LIBDIR} -l${LIBPREFIX}ioipsl -L${XIOS_LIBDIR} -l${LIBPREFIX}stdc++ -l${LIBPREFIX}xios -l${LIBPREFIX}stdc++"
elif [[ $io == xios ]]
then
   # For now, xios implies also using ioipsl
   CPP_KEY="$CPP_KEY CPP_IOIPSL CPP_XIOS CPP_IOIPSL_NO_OUTPUT"
   INCLUDE="$INCLUDE -I${IOIPSL_INCDIR} -I${XIOS_INCDIR}"
   LIB="$LIB -L${IOIPSL_LIBDIR} -l${LIBPREFIX}ioipsl -L${XIOS_LIBDIR} -l${LIBPREFIX}stdc++ -l${LIBPREFIX}xios -l${LIBPREFIX}stdc++"
fi

if [[ "$cosp" == "true" ]]
then
   CPP_KEY="$CPP_KEY CPP_COSP"
   COSP_PATH="$LIBFGCM/phylmd/cosp"
#   LIB="${LIB} -l${LIBPREFIX}cosp"
fi

if [[ "$cosp2" == "true" ]]
then
   CPP_KEY="$CPP_KEY CPP_COSP2"
   COSP_PATH="$LIBFGCM/phylmd/cosp2"
#   LIB="${LIB} -l${LIBPREFIX}cosp2"
fi

if [[ "$cospv2" == "true" ]]
then
   CPP_KEY="$CPP_KEY CPP_COSPV2"
   COSP_PATH="$LIBFGCM/phylmd/cospv2"
#   LIB="${LIB} -l${LIBPREFIX}cosp2"
fi



INCLUDE="$INCLUDE ${NETCDF_INCDIR}"
LIB="$LIB ${NETCDF_LIBDIR}"

########################################################################
# calcul du nombre de dimensions
########################################################################


dim_full=$dim
dim=`echo $dim | sed -e 's/[^0-9]/ /g'` 
set $dim
dimc=$#
echo calcul de la dimension
echo dim $dim
echo dimc $dimc


########################################################################
# Gestion des dimensions du modele.
# on cree ou remplace le fichier des dimensions
########################################################################

cd $LIBFGCM/grid
if [[ -f dimensions.h ]]
then
    if [[ $force_compile == true ]]
    then
	\rm -f $LIBFGCM/grid/dimensions.h
    else
	echo "WARNING: you are probably already compiling the model somewhere else."
	echo "Wait until the first compilation is finished before launching this one."
	echo "If you are sure that you are not compiling elsewhere, "
	echo "run makelmdz_fcm with option -force_compile"
	exit 1
    fi
fi


cd $LIBFGCM/grid/dimension
./makdim $dim
cat $LIBFGCM/grid/dimensions.h
cd $LMDGCM


########################################################################
# Differentes dynamiques (3d, 2d, 1d)
########################################################################

dimension=`echo $dim | wc -w`
echo dimension $dimension

if (( $dimension == 3 ))
then
  cd $LIBFGCM/grid
  \rm fxyprim.h
  cp -p fxy_${grille}.h fxyprim.h
#else
#  echo "Probleme dans les dimensions de la dynamique !!"
#  echo "Non reactive pour l'instant !!!"
fi

if (( $dimension == 1 ))
then
  CPP_KEY="$CPP_KEY CPP_1D"
##in 1D, add dyn3d to include path (because main prog is in physics)
  INCLUDE="$INCLUDE -Ilibf/dyn3d -Ilibf/dyn3d_common"
## no filtre in 1d:
  FILTRE_PATH=$LMDGCM/.void_dir
## no need to compile all routines in dyn3d_common either:
  DYN_COMMON_PATH=$LMDGCM/.void_dir
## no need to compile all routines in dynlmdz_phy... ;
## (because key ones are included in 1D main program)
  DYN_PHYS_PATH=$LMDGCM/.void_dir
  DYN_PHYS_SUB_PATH=$LMDGCM/.void_dir
fi

######################################################################
#   Traitement special pour le nouveau rayonnement de Laurent Li.
#   ---> YM desactive pour le traitemement en parallele
######################################################################

#if [[ -f $libf/phy$physique/raddim.h ]]
#then
# if [[ -f $libf/phy$physique/raddim.$dimh.h ]]
#then
#  \rm -f $libf/phy$physique/raddim.h
#  cp -p $libf/phy$physique/raddim.$dimh.h $libf/phy$physique/raddim.h
#  echo $libf/phy$physique/raddim.$dimh.h 
#  cat $libf/phy$physique/raddim.h
# else
#  echo On peut diminuer la taille de l executable en creant
#  echo le fichier $libf/phy$physique/raddim.$dimh.h
#  \cp -p $libf/phy$physique/raddim.defaut.h $libf/phy$physique/raddim.h
# fi
#fi

######################################################################
# Gestion du filtre qui n'existe qu'en 3d.
######################################################################

if (( `expr $dimc \> 2` == 1 ))
then
   filtre="FILTRE=$filtre"
else
   filtre="FILTRE= L_FILTRE= "
fi
echo MACRO FILTRE $filtre

echo $dimc



######################################################################
# Creation du suffixe de la configuration
######################################################################


SUFF_NAME=_${dim_full}
SUFF_NAME=${SUFF_NAME}_phy${physique}_${rad}

if [[ "$parallel" != "none" ]]
then
  SUFF_NAME=${SUFF_NAME}_para
  DYN=dyn${dimc}d${paramem}
  if [[ "$paramem" == "mem" ]]
  then
      SUFF_NAME=${SUFF_NAME}_${paramem}
  else
      echo "The version of the dynamics in dyn3dpar is no longer updated."
      echo "You should use option \"-mem\"."
      exit 1
  fi
else
  SUFF_NAME=${SUFF_NAME}_seq
  if (( $dimension == 1 ))
  then
    # dynamics-related routines in"dyn1d" subdirectory of phy${physique} 
    DYN=phy${physique}/dyn1d
  else
    DYN=dyn${dimc}d
  fi
fi

if [[ $veget != "false" ]]
then
  SUFF_NAME=${SUFF_NAME}_orch
fi

if [[ $dust == "true" ]]
then
  SUFF_NAME=${SUFF_NAME}_spla
fi

if [[ $couple != "false" ]]
then
  SUFF_NAME=${SUFF_NAME}_couple
fi

if [[ $chimie == "INCA" ]]
then
  SUFF_NAME=${SUFF_NAME}_inca
fi

if [[ "$isotopes" == "true" ]]
then
  SUFF_NAME=${SUFF_NAME}_iso
fi
if [[ "$isoverif" == "true" ]]
then
  SUFF_NAME=${SUFF_NAME}_isoverif
fi
if [[ "$isotrac" == "true" ]]
then
  SUFF_NAME=${SUFF_NAME}_isotrac
fi
if [[ "$diagiso" == "true" ]]
then
  SUFF_NAME=${SUFF_NAME}_diagiso
fi

if [[ $libphy == "true" ]]
then
  # special case where we compile only the physics
  DYN=$LMDGCM/.void_dir
  DYN_COMMON_PATH=$LMDGCM/.void_dir
  FILTRE_PATH=$LMDGCM/.void_dir
  DYN_PHYS_PATH=$LMDGCM/.void_dir
  DYN_PHYS_SUB_PATH=$LMDGCM/.void_dir
  #and there is no main program to generate
  code=""
  SUFF_NAME=""
else
  SUFF_NAME=${SUFF_NAME}.e
fi

cd $LMDGCM
config_fcm="config.fcm"
rm -f $config_fcm
touch $config_fcm
rm -f bin/${code}${SUFF_NAME}.e
rm -f arch.fcm
rm -f arch.opt

echo "%ARCH          $arch"          >> $config_fcm
echo "%INCDIR        $INCLUDE"       >> $config_fcm 
echo "%LIB           $LIB"           >> $config_fcm
echo "%ROOT_PATH     $PWD"           >> $config_fcm
echo "%LIBF          $LIBFGCM"       >> $config_fcm
echo "%LIBO          $LIBOGCM"       >> $config_fcm
echo "%DYN           $DYN"           >> $config_fcm
echo "%DYN_COMMON    $DYN_COMMON_PATH" >> $config_fcm
echo "%PHY_COMMON    $PHY_COMMON_PATH" >> $config_fcm
echo "%FILTRE        $FILTRE_PATH"   >> $config_fcm
echo "%PHYS          phy${physique}" >> $config_fcm
echo "%DYN_PHYS      $DYN_PHYS_PATH" >> $config_fcm
echo "%DYN_PHYS_SUB  $DYN_PHYS_SUB_PATH" >> $config_fcm
echo "%RAD           $RAD_PATH"     >> $config_fcm
echo "%DUST          $DUST_PATH"     >> $config_fcm
echo "%STRATAER      $STRATAER_PATH" >> $config_fcm
echo "%INLANDSIS     $INLANDSIS_PATH" >> $config_fcm
echo "%COSP          $COSP_PATH"     >> $config_fcm
echo "%CPP_KEY       $CPP_KEY"       >> $config_fcm
echo "%EXEC          $code"          >> $config_fcm
echo "%SUFF_NAME     $SUFF_NAME"     >> $config_fcm
echo "%COMPIL_FFLAGS $COMPIL_FFLAGS" >> $config_fcm
echo "%PARA_FFLAGS   $PARA_FFLAGS"   >> $config_fcm
echo "%PARA_LD       $PARA_LD"       >> $config_fcm
echo "%EXT_SRC       $EXT_SRC"       >> $config_fcm



ln -s arch/arch-${arch}.fcm arch.fcm
if test -f arch/arch-${arch}.opt &&  [ $compil_mod = "prod" ]
  then
  ln -s arch/arch-${arch}.opt arch.opt
else
  ln -s .void_file arch.opt
fi

set +e

rm -f $LIBOGCM/${arch}${SUFF_NAME}/.config/fcm.bld.lock
./build_gcm ${fcm_path} -j $job $full
build_status=$?

err=$?
# Check error message from fcm build
if [ $err != 0 ] ; then
  exit 1
fi

rm -rf tmp_src
rm -rf config
ln -s $LIBOGCM/${arch}${SUFF_NAME}/.config config
ln -s $LIBOGCM/${arch}${SUFF_NAME}/.config/ppsrc tmp_src


if [[ -r $LIBFGCM/grid/dimensions.h ]]
then
  # Cleanup: remove dimension.h file
  \rm -f $LIBFGCM/grid/dimensions.h
fi

exit $build_status