Installation error

starkolis · July 1, 2024, 9:05pm

Hey, guys!

Can someone help me with this error. I am using 1) intel/19.0.5 3) hdf5/1.10.6/intel-19.0.5-mvapich-2.3.3 5) netcdf-fortran/4.5.2/intel-19.0.5-mvapich-2.3.3 7) gcc/9.3.0
2) mvapich2/2.3.3/intel-19.0.5 4) netcdf-c/4.7.3/intel-19.0.5-mvapich-2.3.3 6) python/3.8.5-anaconda

get_psource_ts_.f(1721): error #5082: Syntax error, found IDENTIFIER ‘GOT_TSRC’ when expecting one of: ( % [ . = =>
if (mynode.eq.0) write(stdout,3) got_tsrc(itrc)=.false.
-----------------------------------------------^
get_psource_ts_.f(1721): error #6458: This name must be the name of a variable with a derived type (structure type). [WRITE]
if (mynode.eq.0) write(stdout,3) got_tsrc(itrc)=.false.
-------------------------------^
get_psource_ts_.f(1721): error #6303: The assignment operation or the binary expression operation is invalid for the data types of the two operands.
if (mynode.eq.0) write(stdout,3) got_tsrc(itrc)=.false.
--------------------------------------------------------------^
get_psource_ts_.f(2075): remark #6375: Because of COMMON, the alignment of object is inconsistent with its type - potential performance impact. [BLK_ORIGIN_DATE_IN_SEC]
REAL(kind=8) :: blk_origin_date_in_sec
----------------------^
compilation aborted for get_psource_ts_.f (code 1)
make: *** [get_psource_ts.o] Error 1

sjullien · July 3, 2024, 10:45am

It seems that your are using intel for fortran, but gcc for c. You should rather use icc. Maybe also your anaconda env may create some issues…

starkolis · July 10, 2024, 9:31pm

set source, compilation and run directories

SOURCE=/work/liangjh/packages/croco-v2.0.0/OCEAN/
SCRDIR=./Compile
RUNDIR=pwd
ROOT_DIR=$SOURCE/…

determine operating system

OS=uname
echo “OPERATING SYSTEM IS: $OS”

compiler options

export CC=icc
export FC=ifort
export F90=ifort
export F77=ifort
export MPIF90=mpiifort

set MPI directories if needed

MPIF90=“/home/packages/compilers/intel/mpi/2021.5.1/bin/mpif90”
MPILIB=“-L/home/packages/compilers/intel/mpi/2021.5.1/lib/ -lmpi -limf -lm”
MPIINC=“-I/home/packages/compilers/intel/mpi/2021.5.1/include”

set NETCDF directories

#-----------------------------------------------------------

Use :

#-lnetcdf : version netcdf-3.6.3 –
#-lnetcdff -lnetcdf : version netcdf-4.1.2 –
#-lnetcdff : version netcdf-fortran-4.2-gfortran –
#-----------------------------------------------------------

#NETCDFLIB=“-L/usr/local/lib -lnetcdf”
#NETCDFINC=“-I/usr/local/include”
NETCDFLIB=$(nf-config --flibs)
NETCDFINC=-I$(nf-config --includedir)

/home/packages/compilers/intel/mpi/2021.5.1/bin/mpif90 -c -O2 -mcmodel=medium -fdefault-integer-8 -fdefault-real-8 -I/usr/local/packages/netcdf-fortran/4.5.3/bchyu67/include -I/home/packages/compilers/intel/mpi/2021.5.1/include get_vbc_.f -o get_vbc.o
get_vbc_.f:666:32:

       bustr(i,j)=SIGN(1.D0, bustr(i,j))*
                            1

Error: ‘b’ argument of ‘sign’ intrinsic at (1) must be the same type and kind as ‘a’
get_vbc_.f:674:32:

       bvstr(i,j)=SIGN(1.D0, bvstr(i,j))*
                            1

Error: ‘b’ argument of ‘sign’ intrinsic at (1) must be the same type and kind as ‘a’
gmake: *** [Makedefs:15: get_vbc.o] Error 1

smaishal · July 11, 2024, 7:25am

instate of this if i write following. what i get?
MPIF90=“mpiifort”
MPILIB=“”
MPIINC=“”

and compiler
export CC=mpiicc
export FC=mpiifort

starkolis · July 11, 2024, 1:32pm

Thank you so much for the quick response.

OPERATING SYSTEM IS: Linux
file namelist_pisces exists in Run directory
Mustang namelist directory MUSTANG_NAMELIST exists
Unknown Fortran Compiler

smaishal · July 11, 2024, 2:00pm

OK. then unset FC using : unset FC unset CC unset MPIF90
after that
export CC=mpiicc
export FC=mpiifort
and source intel compiler if it needed, you can ask Linux which compiler is CC and FC.
using this following command:
which mpiicc
which mpiifort
I hope you will find your Fortran Compiler is known.
and get your own intel compiler

and jump to Solved Jump to solution

starkolis · July 11, 2024, 2:21pm

Thank you so much, I can find the compiler just fine.
which mpiicc
/home/packages/compilers/intel/mpi/2021.5.1/bin/mpiicc
which mpiifort
/home/packages/compilers/intel/mpi/2021.5.1/bin/mpiifort

Going through the script jobcomp, you have only options for ifort, gfortran, and pgfortran.
if [[ $FC == ifort || $FC == ifc ]] ; then
elif [[ $FC == gfortran ]] ; then
elif [[ $FC == pgfortran || $FC == nvfortran ]] ; then

starkolis · July 11, 2024, 2:34pm

should I change it to #

Set compilation options

if [[ $OS == Linux || $OS == Darwin ]] ; then # ===== LINUX =====
if [[ $FC == ifort || $FC == ifc || $FC == mpiifort ]] ; then
CPP1=“cpp -traditional -DLinux -DIfort”
CFT1=mpiifort
FFLAGS1=“-O2 -mcmodel=medium -fno-alias -i4 -r8 -fp-model precise”

smaishal · July 11, 2024, 2:47pm

check your qopenmp is already there. don’t change too much.
as I said before I am sticks to there.
send your cppdefs.h jobcomp.sh for testing CROCO 2.0.
tomorrow I will send you, how it’s gone.

starkolis · July 11, 2024, 3:47pm

I can not upload the attachments since I am a new user.

starkolis · July 11, 2024, 3:49pm

Here is my jobcom.sh file.

#!/bin/bash
####################################################

COMPILATION JOB

####################################################

This script assumes default compilation options, to

change those options :

it can either be edited to add your own options

or take into account the following

environment variables for compilation choices :

CROCO_NETCDFLIB : netcdf library

CROCO_NETCDFINC : netcdf include

CROCO_PRISM_ROOT_DIR : OASIS-MCT directory

CROCO_XIOS_ROOT_DIR : XIOS directory

CROCO_CFT1 : compiler

CROCO_FFLAGS1 : compilation otpions

Note that environment variables overwrite hard-coded

options

set source, compilation and run directories

SOURCE=./
SCRDIR=./Compile
RUNDIR=pwd
ROOT_DIR=$SOURCE/…

determine operating system

OS=uname
echo “OPERATING SYSTEM IS: $OS”

compiler options

export CC=icc
export FC=ifort
export F90=ifort
export F77=ifort
export MPIF90=mpiifort

set MPI directories if needed

#MPIF90=‘/home/packages/compilers/intel/compiler/2022.0.2/linux/bin/mpif90’
MPILIB=‘-L/home/packages/compilers/intel/mpi/2021.5.1/lib -lmpi’
MPIINC=‘-I/home/packages/compilers/intel/mpi/2021.5.1/include’

#MPIF90=‘/home/packages/compilers/intel/compiler/2022.0.2/linux/bin/mpif90’
#MPILIB=‘-L/home/packages/compilers/intel/compiler/2022.0.2/linux/lib -lmpi’
#MPIINC=‘-I/home/packages/compilers/intel/compiler/2022.0.2/linux/include’

#MPIF90=‘/usr/local/packages/mpich/3.4.2/s3bq4iw/bin/mpif90’
#MPILIB=‘-L/usr/local/packages/mpich/3.4.2/s3bq4iw/lib -lmpi’
#MPIinc=‘-I/usr/local/packages/mpich/3.4.2/s3bq4iw/include’

#MPIF90=‘/usr/local/packages/mvapich2/2.3.7/intel-2021.5.0/bin/mpif90’
#MPILIB=‘-L/usr/local/packages/mvapich2/2.3.7/intel-2021.5.0/lib -lmpi’
#MPIinc=‘-I/usr/local/packages/mvapich2/2.3.7/intel-2021.5.0/include’

#MPIF90=‘/usr/local/packages/openmpi/4.1.3/intel-2021.5.0/bin/mpif90’
#MPILIB=‘-L/usr/local/packages/openmpi/4.1.3/intel-2021.5.0/lib -lmpi’
#MPIinc=‘-I/usr/local/packages/openmpi/4.1.3/intel-2021.5.0/include’

set NETCDF directories

#-----------------------------------------------------------

Use :

#-lnetcdf : version netcdf-3.6.3 –
#-lnetcdff -lnetcdf : version netcdf-4.1.2 –
#-lnetcdff : version netcdf-fortran-4.2-gfortran –
#-----------------------------------------------------------

#NETCDFLIB=“-L/usr/local/lib -lnetcdf”
#NETCDFINC=“-I/usr/local/include”
#NETCDFLIB=$(nf-config --flibs)
#NETCDFINC=-I$(nf-config --includedir)
#NETCDFLIB=“-L/usr/local/packages/netcdf-fortran/4.5.3/bchyu67/lib -lnetcdff -L/usr/local/packages/netcdf-c/4.8.1/uqu66fh/lib -lnetcdff”
#NETCDFINC=“-I/usr/local/packages/netcdf-fortran/4.5.3/bchyu67/include -I/usr/local/packages/netcdf-c/4.8.1/uqu66fh/include”

NETCDFLIB=$(nf-config --flibs)
NETCDFINC=-I$(nf-config --includedir)

#NETCDFLIB=“-L/usr/local/packages/netcdf-fortran/4.6.1/6jdhy7f/lib -lnetcdf -L/usr/local/packages/netcdf-c/4.9.2/uki3wlx/lib -lnetcdf”
#NETCDFINC=“-I/usr/local/packages/netcdf-fortran/4.6.1/6jdhy7f/include -I/usr/local/packages/netcdf-c/4.9.2/uki3wlx/include”

set OASIS-MCT (or OASIS3) directories if needed

PRISM_ROOT_DIR=…/…/…/oasis3-mct/compile_oa3-mct

set XIOS directory if needed

if coupling with OASIS3-MCT is activated :

=> you need to use XIOS compiled with the “–use_oasis oasis3_mct” flag

#-----------------------------------------------------------
XIOS_ROOT_DIR=$HOME/xios

END OF USER’S MODIFICATIONS

####################################################

Use GNU Make command, else make

MAKE=gmake
MAKE=make
which $MAKE > /dev/null 2>&1 || MAKE=make

clean scratch area

rm -rf $SCRDIR
mkdir $SCRDIR

AGRIF sources directory

AGRIF_SRC=${ROOT_DIR}/AGRIF

copy SOURCE code

ls ${SOURCE}/.F > /dev/null 2>&1 && \cp ${SOURCE}/.F $SCRDIR
ls ${SOURCE}/.F90 > /dev/null 2>&1 && \cp ${SOURCE}/.F90 $SCRDIR
ls ${SOURCE}/.h > /dev/null 2>&1 && \cp ${SOURCE}/.h $SCRDIR
ls ${SOURCE}/.py > /dev/null 2>&1 && \cp ${SOURCE}/.py $SCRDIR
ls ${SOURCE}/Make* > /dev/null 2>&1 && \cp ${SOURCE}/Make* $SCRDIR
ls ${SOURCE}/jobcomp > /dev/null 2>&1 && \cp ${SOURCE}/jobcomp $SCRDIR
ls ${SOURCE}/amr.in > /dev/null 2>&1 && \cp ${SOURCE}/amr.in $SCRDIR
ls ${AGRIF_SRC} > /dev/null 2>&1 && \cp -r ${AGRIF_SRC} $SCRDIR
ls ${ROOT_DIR}/XIOS/.F > /dev/null 2>&1 && \cp ${ROOT_DIR}/XIOS/.F $SCRDIR
ls ${ROOT_DIR}/PISCES/* > /dev/null 2>&1 && \cp -r ${ROOT_DIR}/PISCES/* $SCRDIR
ls ${ROOT_DIR}/PISCES/SED/* > /dev/null 2>&1 && \cp ${ROOT_DIR}/PISCES/SED/* $SCRDIR
ls ${ROOT_DIR}/PISCES/kRGB61* > /dev/null 2>&1 && \cp ${ROOT_DIR}/PISCES/kRGB61* $RUNDIR
ls ${ROOT_DIR}/MUSTANG/* > /dev/null 2>&1 && \cp -r ${ROOT_DIR}/MUSTANG/* $SCRDIR
ls ${ROOT_DIR}/OBSTRUCTION/* > /dev/null 2>&1 && \cp -r ${ROOT_DIR}/OBSTRUCTION/* $SCRDIR

if [[ -e “namelist_pisces_ref” ]] ; then
echo " file namelist_pisces exists in Run directory"
else
\cp -f ${ROOT_DIR}/PISCES/namelist_pisces* $RUNDIR
echo " file namelist_pisces copied from source directory"
fi

if [[ -d MUSTANG_NAMELIST ]]; then
echo " Mustang namelist directory MUSTANG_NAMELIST exists"
else
mkdir -p $RUNDIR/MUSTANG_NAMELIST
\cp -rf ${ROOT_DIR}/MUSTANG/MUSTANG_NAMELIST/txt $RUNDIR/MUSTANG_NAMELIST/.
echo " file paratxt copied from source directory"
fi

overwrite with local files

ls *.F90 > /dev/null 2>&1 && \cp -f *.F90 $SCRDIR
ls *.F > /dev/null 2>&1 && \cp -f *.F $SCRDIR
ls *.h > /dev/null 2>&1 && \cp -f *.h $SCRDIR
ls .h90 > /dev/null 2>&1 && \cp -f .h90 $SCRDIR
ls Make > /dev/null 2>&1 && \cp -f Make $SCRDIR
ls jobcomp > /dev/null 2>&1 && \cp -f jobcomp $SCRDIR

Change directory

cd $SCRDIR

generates LDFLAGS1 according to users notifications

LDFLAGS1=“${CROCO_NETCDFLIB-$NETCDFLIB}”
CPPFLAGS1=“${CROCO_NETCDFINC-$NETCDFINC} -ICROCOFILES/AGRIF_INC”

Set compilation options

if [[ $OS == Linux || $OS == Darwin ]] ; then # ===== LINUX =====
if [[ $FC == ifort || $FC == ifc ]] ; then
CPP1=“cpp -traditional -DLinux -DIfort”
CFT1=ifort
FFLAGS1=“-O0 -g -i4 -r8 -traceback”

FFLAGS1="-O0 -g -i4 -r8 -traceback -check bounds \

-check uninit -CA -CB -CS -ftrapuv -fpe1"

	LDFLAGS1="$LDFLAGS1"
elif [[ $FC == gfortran ]] ; then
	CPP1="cpp -traditional -DLinux"
	CFT1=gfortran
	FFLAGS1="-O2 -mcmodel=medium -fdefault-real-8 -fdefault-double-8 -std=legacy"

FFLAGS1="-O0 -g -fdefault-real-8 -fdefault-double-8 -std=legacy -fbacktrace \

-ffpe-trap=invalid,zero,overflow -fbounds-check -finit-real=nan -finit-integer=8888"

	LDFLAGS1="$LDFLAGS1"
elif [[ $FC == pgfortran || $FC == nvfortran ]] ; then
	CPP1="cpp  -traditional -DLinux -DXLF"
	CFT1=$FC
	FFLAGS1="-g -fast -r8 -i4 -mcmodel=medium -Mbackslash"
#FFLAGS1="-g -O0 -C -Kieee -r8 -i4 -traceback"
if [[ $HOSTNAME == "jean-zay"* ]]; then
	CPP1=$CPP1" -DJEANZAY"
fi
else
	echo "Unknown Fortran Compiler"
	exit
fi

elif [[ $OS == CYGWIN_NT-10.0 ]] ; then # ======== CYGWIN =======
CPP1=“cpp -traditional -DLinux”
CFT1=“gfortran”
FFLAGS1=“-O4 -fdefault-real-8 -fdefault-double-8 -march=native -mtune=native”
elif [[ $OS == AIX ]] ; then # ===== IBM =====
CPP1=“cpp”
CFT1=“xlf95 -I$HOME/include/”
MAKEAGRIF=“Makefile.ibm.64”
FFLAGS1=“-q64 -qwarn64 -qfixed -qrealsize=8 -qintsize=8 -qhot
-qalias=noaryovrlp -qthreaded -O3 -qarch=pwr4 -qtune=pwr4 -qunroll=yes”
else
echo “Unknown Operating System”
exit
fi

Netcdf for netcdf.mod in F90

FFLAGS1=“$FFLAGS1 $NETCDFINC”

determine if AGRIF compilation is required

unset COMPILEAGRIF
echo “Checking COMPILEAGRIF…”
if $($CPP1 testkeys.F | grep -i -q agrifisdefined) ; then
echo " => AGRIF activated"
COMPILEAGRIF=TRUE
FFLAGS1=“$FFLAGS1 -IAGRIF”
LDFLAGS1=“-LAGRIF -lagrif $LDFLAGS1”

we use the AGRIF Makedefs.generic definition

cp -f Makedefs.generic.AGRIF Makedefs.generic

fi

determine if MPI compilation is required

unset COMPILEMPI
echo “Checking COMPILEMPI…”
if $($CPP1 testkeys.F | grep -i -q mpiisdefined) ; then
echo " => MPI activated"
COMPILEMPI=TRUE
LDFLAGS1=“$LDFLAGS1 $MPILIB”
CPPFLAGS1=“$CPPFLAGS1 $MPIINC”
FFLAGS1=“$FFLAGS1 $MPIINC”
CFT1=“${MPIF90}”
fi

Take environment variables for compiler and options

FFLAGS1=${CROCO_FFLAGS1-$FFLAGS1}
CFT1=${CROCO_CFT1-$CFT1}

- Determine if XIOS librairies is required

- if it is the case :

=> if XIOS compiled with oasis, add the OASIS inc. files and librairies

=> pre-processing (using cpp) of the xml files required by XIOS

unset COMPILEXIOS
echo “Checking COMPILEXIOS…”
XIOS_ROOT_DIR=${CROCO_XIOS_ROOT_DIR-$XIOS_ROOT_DIR}
if $($CPP1 testkeys.F | grep -i -q xiosisdefined) ; then
echo " => XIOS activated"
COMPILEXIOS=TRUE
LDFLAGS1=“$LDFLAGS1 $XIOS_ROOT_DIR/lib/libxios.a -lstdc++ -lnetcdff -lnetcdf”
CPPFLAGS1=“$CPPFLAGS1 -I$XIOS_ROOT_DIR/inc”
FFLAGS1=“$FFLAGS1 -I$XIOS_ROOT_DIR/inc”

    ln -fs $XIOS_ROOT_DIR/bin/xios_server.exe $RUNDIR/.

fi

determine if OASIS librairies are required

unset COMPILEOASIS
echo “Checking COMPILEOASIS…”
PRISM_ROOT_DIR=${CROCO_PRISM_ROOT_DIR-$PRISM_ROOT_DIR}
if $($CPP1 testkeys.F | grep -i -q oacplisdefined) ; then
echo " => OASIS activated"
CHAN=MPI1
LIBPSMILE=“${PRISM_ROOT_DIR}/lib/libpsmile.${CHAN}.a
${PRISM_ROOT_DIR}/lib/libmct.a
${PRISM_ROOT_DIR}/lib/libmpeu.a
${PRISM_ROOT_DIR}/lib/libscrip.a”
PSMILE_INCDIR=“-I${PRISM_ROOT_DIR}/build/lib/psmile.${CHAN}
-I${PRISM_ROOT_DIR}/build/lib/mct”
COMPILEOASIS=TRUE
LDFLAGS1=“$LDFLAGS1 $LIBPSMILE $NETCDFLIB”
CPPFLAGS1=“$CPPFLAGS1 ${PSMILE_INCDIR} $NETCDFINC”
FFLAGS1=“$FFLAGS1 ${PSMILE_INCDIR} $NETCDFINC”
fi

prepare and compile the library

if [[ $COMPILEAGRIF ]] ; then

Find the default C compiler

CC1=$(echo -e 'dummy_target:\n\t@echo $(CC)' | $MAKE -f - dummy_target)
CFLAGS1=$(echo -e 'dummy_target:\n\t@echo $(CFLAGS)' | $MAKE -f - dummy_target)

Test if the C compiler is the GNU Compiler

if True add ‘-fcommon’ to CFLAGS

if command -v "$CC1" >/dev/null && "$CC1" -v 2>&1 | grep -q "gcc version"; then
echo "Using the GNU C compiler. Adding -fcommon to CFLAGS"
CFLAGS1="$CFLAGS1 -fcommon"
fi

compile the AGRIF librairy

if [[ $COMPILEMPI ]] ; then
	$MAKE -C AGRIF FC="$CFT1" CPP="$CPP1" CPPFLAGS="-DAGRIF_MPI $MPIINC" FFLAGS="$FFLAGS1" CFLAGS="$CFLAGS1"
else
	$MAKE -C AGRIF FC="$CFT1" CPP="$CPP1" FFLAGS="$FFLAGS1" CFLAGS="$CFLAGS1"
fi
if [[ $OS == Darwin ]] ; then          # DARWIN

run RANLIB on Darwin system

	ranlib AGRIF/libagrif.a
fi

mkdir CROCOFILES
mkdir -p CROCOFILES/AGRIF_MODELFILES
mkdir -p CROCOFILES/AGRIF_INC
$CPP1 amr.in | grep -v -e ! -e '#' -e % -e '*' > CROCOFILES/amr.scrum
mv AGRIF/conv CROCOFILES/.
for i in *.h *.h90 ; do
	echo $i
	cat cppdefs.h $i | cpp -P | grep -v -e ! -e '#' -e % -e '*' > CROCOFILES/$i
done
mv -f CROCOFILES/private_scratch_AMR.h CROCOFILES/private_scratch.h

fi

determine if OPENMP compilation is needed

unset COMPILEOMP
echo “Checking COMPILEOMP…”
if $($CPP1 testkeys.F | grep -i -q openmp) ; then
COMPILEOMP=TRUE
if [[ $OS == Linux || $OS == Darwin ]] ; then
if [[ $FC == gfortran ]] ; then
FFLAGS1=“$FFLAGS1 -fopenmp”
elif [[ $FC == ifort || $FC == ifc ]] ; then
INTEL_VERSION=$(ifort --version 2>&1 | grep -oP “(\d+)” | head -n1)
# Compare the version with 18
if [[ “$INTEL_VERSION” -gt 18 ]]; then
FFLAGS1=“$FFLAGS1 -qopenmp”
else
FFLAGS1=“$FFLAGS1 -openmp”
fi
else
FFLAGS1=“$FFLAGS1 -openmp”
fi
elif [[ $OS == CYGWIN_NT-10.0 ]] ; then
FFLAGS1==“$FFLAGS1 -fopenmp”
elif [[ $OS == AIX ]] ; then
FFLAGS1=“$FFLAGS1 -qsmp=omp”
CFT1=“xlf95_r”
fi
fi

determine if OPENACC compilation is needed

unset COMPILEOPENACC
echo “Checking COMPILEOPENACC…”
if $($CPP1 testkeys.F | grep -i -q openaccisdefined) ; then
COMPILEOPENACC=TRUE
if [[ $FC == pgfortran || $FC == nvfortran ]] ; then
FFLAGS1=“$FFLAGS1 -acc -Minfo=accel”
fi
fi

rewrite Makedefs according to previous flags

with openmp flags if needed

rm -f Makedefs
echo ‘s?$(FFLAGS1)?’$FFLAGS1’?g’ > flags.tmp
echo ‘s?$(LDFLAGS1)?’$LDFLAGS1’?g’ >> flags.tmp
echo ‘s?$(CPP1)?’$CPP1’?g’ >> flags.tmp
echo ‘s?$(CFT1)?’$CFT1’?g’ >> flags.tmp
echo ‘s?$(CPPFLAGS1)?’$CPPFLAGS1’?g’ >> flags.tmp
sed -f flags.tmp Makedefs.generic > Makedefs
rm -f flags.tmp

compile croco

$MAKE depend || exit 1
$MAKE || exit 2

[[ -f croco ]] && mv croco $RUNDIR
[[ -f partit ]] && mv partit $RUNDIR
[[ -f ncjoin ]] && mv ncjoin $RUNDIR

starkolis · July 11, 2024, 3:52pm

cppdef.h

!=============================================== ! CROCO is a branch of ROMS developped ! Ifremer, CNRS and Univ. Toulouse III ! The two other branches from UCLA (Shchepetkin ! and Rutgers University (Arango et al) ! CROCO specific routines (nesting) are !
! CROCO website : /*
This is “cppdefs.h”: MODEL CONFIGURATION ==== == ============ ===== ============= /
/
SELECT ACADEMIC TEST CASES
/
#undef BASIN #undef CANYON #undef EQUATOR #undef INNERSHELF #undef SINGLE_COLUMN #undef RIVER #undef OVERFLOW #undef SEAMOUNT #undef SHELFRONT #undef SOLITON #undef THACKER #undef UPWELLING #undef VORTEX #undef INTERNAL #undef IGW #undef JET #undef SHOREFACE #undef RIP #undef SANDBAR #undef SWASH #undef TANK #undef MOVING_BATHY #undef ACOUSTIC #undef GRAV_ADJ #undef ISOLITON #undef KH_INST #undef TS_HADV_TEST #undef DUNE #undef SED_TOY #undef TIDAL_FLAT #undef ESTUARY #undef KILPATRICK #undef SEAGRASS /*
… OR REALISTIC CONFIGURATIONS
/
#undef COASTAL #define REGIONAL =======================
at IRD, INRIA,
in France
et al)
are under MIT/X style license.
under CeCILL-C license.
rel="noopener nofollow ugc">http://www.croco-ocean.org
=======================
FILE
====
/ Basin Example /
/ Canyon Example /
/ Equator Example /
/ Inner Shelf Example /
/ 1DV vertical mixing Example /
/ River run-off Example /
/ Gravitational/Overflow Example /
/ Seamount Example /
/ Shelf Front Example /
/ Equatorial Rossby Wave Example /
/ Thacker wetting-drying Example /
/ Upwelling Example /
/ Baroclinic Vortex Example /
/ Internal Tide Example /
/ COMODO Internal Tide Example /
/ Baroclinic Jet Example /
/ Shoreface Test Case on a Planar Beach /
/ Rip Current Test Case /
/ Bar-generating Flume Example /
/ Swash Test Case on a Planar Beach /
/ Tank Example /
/ Moving Bathymetry Example /
/ Acoustic wave Example /
/ Graviational Adjustment Example /
/ Internal Soliton Example /
/ Kelvin-Helmholtz Instability Example /
/ Horizontal tracer advection Example /
/ Dune migration Example /
/ 1DV sediment toy Example /
/ 2DV tidal flat Example /
/ 3D tidal estuary Example /
/ 2D sst front*/
/* 2DV over seagrass using OBSTRUCTION module*/
/ COASTAL Applications /
/ REGIONAL Applications */

#if defined REGIONAL
/*
!====================================================================
! REGIONAL (realistic) Configurations
!====================================================================
!
!----------------------
! BASIC OPTIONS
!----------------------
!
/
/ Configuration Name */

define BENGUELA_LR

                  /* Parallelization */

undef OPENMP

define MPI

                  /* Non-hydrostatic option */

undef NBQ

undef CROCO_QH

                  /* Nesting */

undef AGRIF

undef AGRIF_2WAY

                  /* OA and OW Coupling via OASIS (MPI) */

undef OA_COUPLING

undef OW_COUPLING

ifdef OW_COUPLING

undef OW_COUPLING_FULL

undef WAVE_SMFLUX

endif

                  /* Wave-current interactions */

undef MRL_WCI

                  /* Open Boundary Conditions */

define TIDES

define OBC_EAST

undef OBC_WEST

undef OBC_NORTH

define OBC_SOUTH

                  /* Applications */

define BIOLOGY

undef FLOATS

undef STATIONS

undef PASSIVE_TRACER

undef SEDIMENT

undef MUSTANG

undef BBL

                  /* I/O server */

undef XIOS

                  /* Calendar */

undef USE_CALENDAR

                  /* dedicated croco.log file */

define LOGFILE

/*
!-------------------------------------------------
! PRE-SELECTED OPTIONS
!
! ADVANCED OPTIONS ARE IN CPPDEFS_DEV.H
!-------------------------------------------------
/
/ Parallelization */

ifdef MPI

define PARALLEL_FILES

undef NC4PAR

undef MPI_NOLAND

undef MPI_TIME

endif

undef AUTOTILING

                  /* Non-hydrostatic options */

ifdef NBQ

define W_HADV_TVD

define W_VADV_TVD

endif

                  /* Grid configuration */

define CURVGRID

define SPHERICAL

define MASKING

undef WET_DRY

define NEW_S_COORD

                  /* Model dynamics */

define SOLVE3D

define UV_COR

define UV_ADV

                  /* Equation of State */

define SALINITY

define NONLIN_EOS

                  /* Surface Forcing */

/*
! Bulk flux algorithms (options)
! by default : COARE3p0 paramet with GUSTINESS effects
!
! To change bulk param, define one the following keys (exclusive) :
! - define BULK_ECUMEV0 : ECUME_v0 param
! - define BULK_ECUMEV6 : ECUME_v6 param
! - define BULK_WASP : WASP param
! Note : gustiness effects can be added for all params
! by defining BULK_GUSTINESS
*/

undef ABL1D

ifdef ABL1D

define BULK_FLUX

undef ANA_ABL_LSDATA

undef ANA_ABL_VGRID

define STRESS_AT_RHO_POINTS

define ABL_NUDGING

define ABL_NUDGING_DYN

define ABL_NUDGING_TRA

undef ABL_DYN_RESTORE_EQ

undef SFLUX_CFB

else

define BULK_FLUX

endif

ifdef BULK_FLUX

undef BULK_ECUMEV0

undef BULK_ECUMEV6

undef BULK_WASP

define BULK_GUSTINESS

define BULK_LW

undef SST_SKIN

undef ANA_DIURNAL_SW

undef ONLINE

ifdef ONLINE

undef AROME

undef ERA_ECMWF

endif

undef READ_PATM

ifdef READ_PATM

define OBC_PATM

endif

else

define QCORRECTION

define SFLX_CORR

undef SFLX_CORR_COEF

define ANA_DIURNAL_SW

endif

undef SFLUX_CFB

undef SEA_ICE_NOFLUX

                  /* Lateral Forcing */

undef CLIMATOLOGY

ifdef CLIMATOLOGY

define ZCLIMATOLOGY

define M2CLIMATOLOGY

define M3CLIMATOLOGY

define TCLIMATOLOGY

define ZNUDGING

define M2NUDGING

define M3NUDGING

define TNUDGING

undef ROBUST_DIAG

endif

define FRC_BRY

ifdef FRC_BRY

define Z_FRC_BRY

define M2_FRC_BRY

define M3_FRC_BRY

define T_FRC_BRY

endif

                  /* Lateral Momentum Advection (default UP3) */

undef UV_HADV_UP3

undef UV_HADV_UP5

define UV_HADV_WENO5

undef UV_HADV_TVD

                  /* Lateral Explicit Momentum Mixing */

define UV_VIS2

ifdef UV_VIS2

define UV_VIS_SMAGO

endif

                  /* Vertical Momentum Advection */

undef UV_VADV_SPLINES

define UV_VADV_WENO5

undef UV_VADV_TVD

                  /* Lateral Tracer Advection (default UP3) */

undef TS_HADV_UP3

undef TS_HADV_RSUP3

define TS_HADV_UP5

undef TS_HADV_WENO5

                  /* Lateral Explicit Tracer Mixing */

define TS_DIF2

undef TS_DIF4

define TS_MIX_S

                  /* Vertical Tracer Advection  */

undef TS_VADV_SPLINES

undef TS_VADV_AKIMA

define TS_VADV_WENO5

                  /* Sponge layers for UV and TS */

define SPONGE

                  /* Semi-implicit Vertical Tracer/Mom Advection */

undef VADV_ADAPT_IMP

                  /* Bottom friction in fast 3D step */

define LIMIT_BSTRESS

undef BSTRESS_FAST

                  /* Vertical Mixing */

undef BODYFORCE

undef BVF_MIXING

undef LMD_MIXING

define GLS_MIXING

ifdef LMD_MIXING

define LMD_SKPP

define LMD_BKPP

define LMD_RIMIX

define LMD_CONVEC

define LMD_NONLOCAL

undef LMD_DDMIX

undef LMD_LANGMUIR

endif

                  /* Wave-current interactions */

ifdef OW_COUPLING

define MRL_WCI

define BBL

endif

ifdef MRL_WCI

ifndef OW_COUPLING

undef WAVE_OFFLINE

define ANA_WWAVE

undef WKB_WWAVE

endif

undef WAVE_ROLLER

define WAVE_STREAMING

define WAVE_FRICTION

define WAVE_RAMP

ifdef WKB_WWAVE

undef WKB_OBC_NORTH

undef WKB_OBC_SOUTH

define WKB_OBC_WEST

undef WKB_OBC_EAST

endif

                  /* Bottom Forcing */

define ANA_BSFLUX

define ANA_BTFLUX

                  /* Point Sources - Rivers */

define PSOURCE

define PSOURCE_NCFILE

ifdef PSOURCE_NCFILE

define PSOURCE_NCFILE_TS

endif

                  /* Open Boundary Conditions */

ifdef TIDES

define SSH_TIDES

define UV_TIDES

define POT_TIDES

undef TIDES_MAS

define TIDERAMP

endif

define OBC_M2CHARACT

undef OBC_M2ORLANSKI

define OBC_M3ORLANSKI

define OBC_TORLANSKI

undef OBC_M2SPECIFIED

undef OBC_M3SPECIFIED

undef OBC_TSPECIFIED

                  /* Input/Output */

define AVERAGES

define AVERAGES_K

undef OUTPUTS_SURFACE

undef HOURLY_VELOCITIES

                 /* Exact restart */

undef EXACT_RESTART

                  /* Parallel reproducibility or restartabilty test */

undef RVTK_DEBUG

undef RVTK_DEBUG_PERFRST

if defined RVTK_DEBUG && !defined RVTK_DEBUG_PERFRST

! Parallel reproducibility test

undef RVTK_DEBUG_ADVANCED

define XXXRVTK_DEBUG_READ

elif defined RVTK_DEBUG && defined RVTK_DEBUG_PERFRST

! Restartability test

define EXACT_RESTART

undef RVTK_DEBUG_ADVANCED

define XXXRVTK_DEBUG_READ

endif

! RVTK test (Restartability or Parallel reproducibility)

if defined RVTK_DEBUG && defined BULK_FLUX && defined ONLINE

define BULK_MONTH_1DIGIT

endif

/*
! Diagnostics
!--------------------------------------------
! 3D Tracer & momentum balance
! 2D Mixing layer balance
! Depth-mean vorticity and energy balance
! Eddy terms
!--------------------------------------------
!
*/

undef DO_NOT_OVERWRITE

undef RESTART_DIAGS

define DIAGNOSTICS_TS

undef DIAGNOSTICS_UV

ifdef DIAGNOSTICS_TS

undef DIAGNOSTICS_TS_ADV

undef DIAGNOSTICS_TS_MLD

endif

undef DIAGNOSTICS_TSVAR

ifdef DIAGNOSTICS_TSVAR

define DIAGNOSTICS_TS

define DIAGNOSTICS_TS_ADV

endif

undef DIAGNOSTICS_VRT

undef DIAGNOSTICS_EK

ifdef DIAGNOSTICS_EK

undef DIAGNOSTICS_EK_FULL

undef DIAGNOSTICS_EK_MLD

endif

undef DIAGNOSTICS_BARO

undef DIAGNOSTICS_PV

undef DIAGNOSTICS_DISS

ifdef DIAGNOSTICS_DISS

define DIAGNOSTICS_PV

endif

undef DIAGNOSTICS_EDDY

undef TENDENCY

ifdef TENDENCY

define DIAGNOSTICS_UV

endif

/*
! Applications:
!---------------------------------
! Biology, floats, Stations,
! Passive tracer, Sediments, BBL
!---------------------------------
!
Quasi-monotone lateral advection scheme (WENO5)
for passive/biology/sediment tracers
*/

if defined PASSIVE_TRACER || defined BIOLOGY || defined SEDIMENT \

                                           || defined MUSTANG

define BIO_HADV_WENO5

endif

                  /*   Choice of Biology models   */

ifdef BIOLOGY

undef PISCES

undef BIO_NChlPZD

undef BIO_N2ChlPZD2

define BIO_BioEBUS

                  /*   Biology options    */

ifdef PISCES

undef DIURNAL_INPUT_SRFLX

define key_pisces

define key_ligand

undef key_pisces_quota

undef key_pisces_light

undef key_sediment

endif

ifdef BIO_NChlPZD

define OXYGEN

endif

ifdef BIO_BioEBUS

define NITROUS_OXIDE

endif

                  /*   Biology diagnostics    */

define DIAGNOSTICS_BIO

if defined DIAGNOSTICS_BIO && defined PISCES

define key_trc_diaadd

endif

                  /*   Lagrangian floats model    */

ifdef FLOATS

undef FLOATS_GLOBAL_ATTRIBUTES

undef IBM

undef RANDOM_WALK

ifdef RANDOM_WALK

define DIEL_MIGRATION

define RANDOM_VERTICAL

define RANDOM_HORIZONTAL

endif

                  /*   Stations recording    */

ifdef STATIONS

define ALL_SIGMA

endif

                  /*   USGS Sediment model     */

ifdef SEDIMENT

define SUSPLOAD

define BEDLOAD

define MORPHODYN

endif

                  /*   MUSTANG Sediment model     */

ifdef MUSTANG

undef key_MUSTANG_V2

undef key_MUSTANG_bedload

undef MORPHODYN

define key_sand2D

define MUSTANG_CORFLUX

undef key_tauskin_c_upwind

undef WAVE_OFFLINE

endif

#elif defined COASTAL
/*
!====================================================================
! COASTAL (realistic) Configurations
!====================================================================
!
!----------------------
! BASIC OPTIONS
!----------------------
!
/
/ Configuration Name */

define VILAINE

                  /* Parallelization */

undef OPENMP

undef MPI

                  /* Open Boundary Conditions */

define TIDES

undef OBC_EAST

define OBC_WEST

undef OBC_NORTH

define OBC_SOUTH

                  /* Applications */

undef BIOLOGY

undef FLOATS

undef STATIONS

undef PASSIVE_TRACER

undef SEDIMENT

undef BBL

define MUSTANG

                  /* I/O server */

undef XIOS

                 /* Custion IO */

define ZETA_DRY_IO

define FILLVAL

                  /* Calendar */

undef USE_CALENDAR

                  /* dedicated croco.log file */

undef LOGFILE

/*!
!-------------------------------------------------
! PRE-SELECTED OPTIONS
!
! ADVANCED OPTIONS ARE IN CPPDEFS_DEV.H
!-------------------------------------------------
/
/ Parallelization */

ifdef MPI

define NC4PAR

undef MPI_NOLAND

undef MPI_TIME

endif

undef AUTOTILING

                  /* Non-hydrostatic options */

ifdef NBQ

define W_HADV_WENO5

define W_VADV_WENO5

endif

                  /* Grid configuration */

define ANA_INITIAL

define CURVGRID

define SPHERICAL

define MASKING

define WET_DRY

define NEW_S_COORD

                  /* Model dynamics */

define SOLVE3D

define UV_COR

define UV_ADV

                  /* Equation of State */

define SALINITY

define NONLIN_EOS

                  /* Lateral Momentum Advection (default UP3) */

undef UV_HADV_UP3

define UV_HADV_WENO5

                  /* Lateral Explicit Momentum Mixing */

define UV_VIS2

ifdef UV_VIS2

define UV_VIS_SMAGO

endif

                  /* Vertical Momentum Advection  */

undef UV_VADV_SPLINES

define UV_VADV_WENO5

                  /* Lateral Tracer Advection (default UP3) */

undef TS_HADV_UP3

define TS_HADV_WENO5

                  /* Lateral Explicit Tracer Mixing */

define TS_DIF2

define TS_MIX_S

                  /* Vertical Tracer Advection  */

undef TS_VADV_SPLINES

define TS_VADV_WENO5

                  /* Sponge layers for UV and TS */

define SPONGE

                  /* Semi-implicit Vertical Tracer/Mom Advection */

undef VADV_ADAPT_IMP

                  /* Bottom friction in fast 3D step */

define LIMIT_BSTRESS

undef BSTRESS_FAST

                  /* Vertical Mixing */

define GLS_MIXING

                  /* Surface Forcing */

define BULK_FLUX

ifdef BULK_FLUX

undef ECUMEv0

undef ECUMEv6

undef WASP

define GUSTINESS

undef BULK_LW

undef SST_SKIN

undef ANA_DIURNAL_SW

define ONLINE

ifdef ONLINE

define AROME

undef ERA_ECMWF

endif

define READ_PATM

ifdef READ_PATM

define OBC_PATM

endif

else

undef QCORRECTION

undef SFLX_CORR

undef SFLX_CORR_COEF

undef ANA_DIURNAL_SW

endif

undef ANA_SSFLUX

define ANA_STFLUX

                  /* Lateral Forcing */

undef ANA_BRY

define FRC_BRY

ifdef FRC_BRY

define Z_FRC_BRY

define M2_FRC_BRY

undef M3_FRC_BRY

define T_FRC_BRY

endif

                  /* Bottom Forcing */

define ANA_BSFLUX

define ANA_BTFLUX

                  /* Point Sources - Rivers */

define PSOURCE

undef PSOURCE_MASS

define PSOURCE_NCFILE

ifdef PSOURCE_NCFILE

define PSOURCE_NCFILE_TS

endif

                  /* Open Boundary Conditions */

ifdef TIDES

define M2FILTER_NONE

define SSH_TIDES

define UV_TIDES

undef POT_TIDES

define TIDES_MAS

ifndef UV_TIDES

define OBC_REDUCED_PHYSICS

endif

define TIDERAMP

endif

define OBC_M2CHARACT

define OBC_M3ORLANSKI

define OBC_TORLANSKI

                  /* Input/Output */

undef AVERAGES

undef AVERAGES_K

undef OUTPUTS_SURFACE

undef HOURLY_VELOCITIES

/*
! Applications:
!---------------------------------
! Biology, floats, Stations,
! Passive tracer, Sediments, BBL
!---------------------------------
!
Quasi-monotone lateral advection scheme (WENO5)
for passive/biology/sediment tracers
*/

if defined PASSIVE_TRACER || defined BIOLOGY || defined SEDIMENT \

                        || defined SUBSTANCE || defined MUSTANG

define BIO_HADV_WENO5

endif

                  /*     USGS Sediment model     */

ifdef SEDIMENT

define SUSPLOAD

define BEDLOAD

define MORPHODYN

endif

                  /*   MUSTANG Sediment model     */

ifdef MUSTANG

undef key_MUSTANG_V2

undef key_MUSTANG_bedload

undef MORPHODYN

define key_sand2D

define MUSTANG_CORFLUX

undef key_tauskin_c_upwind

define WAVE_OFFLINE

undef key_MUSTANG_specif_outputs

endif

/*
!
!==========================================================
! IDEALIZED CONFIGURATIONS
!==========================================================
!
/
#elif defined BASIN
/
! Basin Example
! ===== =======
*/

undef OPENMP

undef MPI

define UV_ADV

define UV_COR

define UV_VIS2

define SOLVE3D

define TS_DIF2

define BODYFORCE

define ANA_GRID

define ANA_INITIAL

define ANA_SMFLUX

define ANA_STFLUX

define ANA_BTFLUX

define NO_FRCFILE

undef RVTK_DEBUG

#elif defined CANYON
/*
! Canyon Example
! ====== =======
*/

undef OPENMP

undef MPI

define CANYON_STRAT

define UV_ADV

define UV_COR

define SOLVE3D

define EW_PERIODIC

define ANA_GRID

define ANA_INITIAL

define ANA_SMFLUX

define ANA_STFLUX

define ANA_BTFLUX

define NO_FRCFILE

undef RVTK_DEBUG

#elif defined EQUATOR
/*
! Equator Example
! ======= =======
! Boccaletti, G., R.C. Pacanowski, G.H. Philander and A.V. Fedorov, 2004,
! The Thermal Structure of the Upper Ocean, J.Phys.Oceanogr., 34, 888-902.
*/

undef OPENMP

undef MPI

define UV_ADV

define UV_COR

define UV_VIS2

define SOLVE3D

define TS_DIF2

define ANA_GRID

define ANA_INITIAL

define ANA_SMFLUX

define ANA_STFLUX

define ANA_SRFLUX

define ANA_SSFLUX

define ANA_BTFLUX

define ANA_BSFLUX

define QCORRECTION

define ANA_SST

define LMD_MIXING

define LMD_RIMIX

define LMD_CONVEC

define NO_FRCFILE

undef RVTK_DEBUG

#elif defined INNERSHELF
/*
! Inner Shelf Example
! ===== ===== =======
*/

undef OPENMP

undef MPI

undef NBQ

define INNERSHELF_EKMAN

define INNERSHELF_APG

define SOLVE3D

define UV_COR

define ANA_GRID

define ANA_INITIAL

define AVERAGES

define ANA_SSFLUX

define ANA_SRFLUX

define ANA_STFLUX

define ANA_BSFLUX

define ANA_BTFLUX

define ANA_SMFLUX

define NS_PERIODIC

define OBC_WEST

define SPONGE

ifndef INNERSHELF_EKMAN

define UV_ADV

define SALINITY

define NONLIN_EOS

define LMD_MIXING

undef GLS_MIXING

ifdef LMD_MIXING

define LMD_SKPP

define LMD_BKPP

define LMD_RIMIX

define LMD_CONVEC

endif

undef WAVE_MAKER_INTERNAL

ifdef WAVE_MAKER_INTERNAL

define ANA_BRY

define Z_FRC_BRY

define M2_FRC_BRY

define M3_FRC_BRY

define T_FRC_BRY

endif

define NO_FRCFILE

undef RVTK_DEBUG

#elif defined SINGLE_COLUMN
/*
! Single Column Example
! ====== ====== =======
!
! Seven sets up are encompassed :
*/

define KATO_PHILIPS /* erosion of linear strat by constant wind stress */

undef WILLIS_DEARDORFF /* erosion of linear strat by constant surf buoyancy loss */

undef DIURNAL_CYCLE /* erosion of linear strat by constant surf buoyancy loss */

undef FORCED_EKBBL /* forced Ekman bottom boundary layer */

undef FORCED_DBLEEK /* forced Ekman bottom and surface boundary layers */

undef FORCED_NONROTBBL /* non rotating forced bottom boundary layer : Prandt layer */

undef FORCED_OSCNONROTBBL /* non rotating oscillatory forced bottom boundary layer */

undef OPENMP

undef MPI

define UV_ADV

define NEW_S_COORD

define UV_COR

define SOLVE3D

undef LMD_MIXING

define GLS_MIXING

define ANA_GRID

define ANA_INITIAL

define ANA_SMFLUX

define ANA_SRFLUX

define ANA_STFLUX

define ANA_BTFLUX

define EW_PERIODIC

define NS_PERIODIC

undef RVTK_DEBUG

#elif defined INTERNAL
/*
! Internal Tide Example
! ======== ==== =======
!
! Di Lorenzo, E, W.R. Young and S.L. Smith, 2006, Numerical and anlytical estimates of M2
! tidal conversion at steep oceanic ridges, J. Phys. Oceanogr., 36, 1072-1084.
*/

undef OPENMP

undef MPI

define SOLVE3D

define UV_COR

define UV_ADV

define BODYTIDE

define ANA_GRID

define ANA_INITIAL

define ANA_BTFLUX

define ANA_SMFLUX

define ANA_SRFLUX

define ANA_STFLUX

define ANA_VMIX

define EW_PERIODIC

define NS_PERIODIC

ifdef INTERNALSHELF

undef EW_PERIODIC

define OBC_EAST

define OBC_WEST

define SPONGE

define ANA_SSH

define ANA_M2CLIMA

define ANA_M3CLIMA

define ANA_TCLIMA

define ZCLIMATOLOGY

define M2CLIMATOLOGY

define M3CLIMATOLOGY

define TCLIMATOLOGY

define M2NUDGING

define M3NUDGING

define TNUDGING

endif

define NO_FRCFILE

undef RVTK_DEBUG

#elif defined IGW
/*
! COMODO Internal Tide Example
! ====== ======== ==== =======
!
! Pichon, A., 2007: Tests academiques de maree, Rapport interne n 21 du 19 octobre 2007,
! Service Hydrographique et Oceanographique de la Marine.
*/

define EXPERIMENT3

undef OPENMP

undef MPI

undef NBQ

define NEW_S_COORD

define TIDES

define TIDERAMP

define SSH_TIDES

define UV_TIDES

define SOLVE3D

define UV_ADV

define UV_COR

define UV_VIS2

undef VADV_ADAPT_IMP

define SPHERICAL

define CURVGRID

define ANA_INITIAL

define ANA_VMIX

define ANA_SMFLUX

define ANA_STFLUX

define ANA_SRFLUX

define ANA_SSFLUX

define ANA_BTFLUX

define ANA_BSFLUX

define NS_PERIODIC

define OBC_EAST

define OBC_WEST

undef SPONGE

define ANA_SSH

define ANA_M2CLIMA

define ANA_M3CLIMA

define ANA_TCLIMA

define ZCLIMATOLOGY

define M2CLIMATOLOGY

define M3CLIMATOLOGY

define TCLIMATOLOGY

define M2NUDGING

define M3NUDGING

define TNUDGING

undef ONLINE_ANALYSIS

undef RVTK_DEBUG

#elif defined RIVER
/*
! River run-off test problem
! ==========================
*/

undef OPENMP

undef MPI

define SOLVE3D

define UV_ADV

define UV_COR

define NONLIN_EOS

define SALINITY

define ANA_GRID

define MASKING

define ANA_INITIAL

define ANA_SMFLUX

define ANA_STFLUX

define ANA_SSFLUX

define ANA_SRFLUX

define ANA_BTFLUX

define ANA_BSFLUX

define LMD_MIXING

define LMD_SKPP

define LMD_BKPP

define LMD_RIMIX

define LMD_CONVEC

define PSOURCE

undef PSOURCE_MASS

define ANA_PSOURCE

define NS_PERIODIC

undef FLOATS

ifdef FLOATS

define RANDOM_WALK

ifdef RANDOM_WALK

define DIEL_MIGRATION

define RANDOM_VERTICAL

define RANDOM_HORIZONTAL

endif

define NO_FRCFILE

undef RVTK_DEBUG

#elif defined SEAMOUNT
/*
! Seamount Example
! ======== =======
*/

undef OPENMP

undef MPI

define UV_ADV

define UV_COR

define SOLVE3D

define SALINITY

define NONLIN_EOS

define ANA_GRID

define ANA_INITIAL

define ANA_SMFLUX

define ANA_STFLUX

define ANA_SSFLUX

define ANA_SRFLUX

define ANA_BTFLUX

define ANA_BSFLUX

define NO_FRCFILE

undef RVTK_DEBUG

#elif defined SHELFRONT
/*
! Shelf Front Example
! ===== ===== =======
*/

undef OPENMP

undef MPI

define UV_ADV

define UV_COR

define SOLVE3D

define SALINITY

define ANA_GRID

define ANA_INITIAL

define ANA_SMFLUX

define ANA_STFLUX

define ANA_SSFLUX

define ANA_SRFLUX

define ANA_BTFLUX

define ANA_BSFLUX

define EW_PERIODIC

define NO_FRCFILE

undef RVTK_DEBUG

#elif defined SOLITON
/*
! Equatorial Rossby Wave Example
! ========== ====== ==== =======
*/

undef OPENMP

undef MPI

define UV_COR

define UV_ADV

define ANA_GRID

define ANA_INITIAL

define AVERAGES

define EW_PERIODIC

define ANA_SMFLUX

define ANA_BTFLUX

define NO_FRCFILE

undef RVTK_DEBUG

#elif defined THACKER
/*
! Thacker Example
! ======= =======
!
! Thacker, W., (1981), Some exact solutions to the nonlinear
! shallow-water wave equations. J. Fluid Mech., 107, 499-508.
*/

undef OPENMP

undef MPI

define THACKER_2DV

define SOLVE3D

define UV_COR

define UV_ADV

undef UV_VIS2

define WET_DRY

define NEW_S_COORD

define ANA_GRID

define ANA_INITIAL

define ANA_BTFLUX

define ANA_SMFLUX

define ANA_SRFLUX

define ANA_STFLUX

define NO_FRCFILE

undef RVTK_DEBUG

#elif defined OVERFLOW
/*
! Gravitational/Overflow Example
! ====================== =======
*/

undef OPENMP

undef MPI

define UV_ADV

define UV_COR

define UV_VIS2

define TS_DIF2

define TS_MIX_GEO

define SOLVE3D

define ANA_GRID

define ANA_INITIAL

define ANA_SMFLUX

define ANA_STFLUX

define ANA_BTFLUX

define NO_FRCFILE

undef RVTK_DEBUG

#elif defined UPWELLING
/*
! Upwelling Example
! ========= =======
*/

undef OPENMP

undef MPI

define SOLVE3D

define UV_COR

define UV_ADV

define ANA_GRID

define ANA_INITIAL

define AVERAGES

define SALINITY

define NONLIN_EOS

define ANA_SSFLUX

define ANA_SRFLUX

define ANA_STFLUX

define ANA_BSFLUX

define ANA_BTFLUX

define ANA_SMFLUX

define LMD_MIXING

define LMD_SKPP

define LMD_BKPP

define LMD_RIMIX

define LMD_CONVEC

define EW_PERIODIC

define NO_FRCFILE

undef RVTK_DEBUG

#elif defined VORTEX
/*
! Baroclinic Vortex Example (TEST AGRIF)
! ========== ====== ======= ===== ======
*/

undef OPENMP

undef MPI

undef AGRIF

undef AGRIF_2WAY

undef NBQ

define SOLVE3D

define UV_COR

define UV_ADV

define ANA_STFLUX

define ANA_SMFLUX

define ANA_BSFLUX

define ANA_BTFLUX

define ANA_VMIX

define OBC_EAST

define OBC_WEST

define OBC_NORTH

define OBC_SOUTH

define SPONGE

define ZCLIMATOLOGY

define M2CLIMATOLOGY

define M3CLIMATOLOGY

define TCLIMATOLOGY

define ZNUDGING

define M2NUDGING

define M3NUDGING

define TNUDGING

define NO_FRCFILE

undef RVTK_DEBUG

#elif defined JET
/*
! Baroclinic JET Example
! ========== === =======
*/

define ANA_JET

undef MPI

undef NBQ

define SOLVE3D

define UV_COR

define UV_ADV

define UV_VIS2

ifdef ANA_JET

define ANA_GRID

define ANA_INITIAL

endif

define ANA_STFLUX

define ANA_SMFLUX

define ANA_BSFLUX

define ANA_BTFLUX

define ANA_VMIX

define EW_PERIODIC

define CLIMATOLOGY

ifdef CLIMATOLOGY

define ZCLIMATOLOGY

define M2CLIMATOLOGY

define M3CLIMATOLOGY

define TCLIMATOLOGY

define ZNUDGING

define M2NUDGING

define M3NUDGING

define TNUDGING

define ROBUST_DIAG

define ZONAL_NUDGING

ifdef ANA_JET

define ANA_SSH

define ANA_M2CLIMA

define ANA_M3CLIMA

define ANA_TCLIMA

endif

define LMD_MIXING

ifdef LMD_MIXING

undef ANA_VMIX

define ANA_SRFLUX

undef LMD_KPP

define LMD_RIMIX

define LMD_CONVEC

endif

define NO_FRCFILE

undef RVTK_DEBUG

#elif defined SHOREFACE
/*
! PLANAR BEACH Example
! ====== ===== =======
!
! Uchiyama, Y., McWilliams, J.C. and Shchepetkin, A.F. (2010):
! Wave-current interaction in an oceanic circulation model with a
! vortex force formalism: Application to the surf zone.
! Ocean Modelling Vol. 34:1-2, pp.16-35.
*/

undef OPENMP

undef MPI

define SOLVE3D

define UV_ADV

undef MASKING

define WET_DRY

define NEW_S_COORD

define ANA_GRID

define ANA_INITIAL

define ANA_SMFLUX

define ANA_STFLUX

define ANA_SSFLUX

define ANA_SRFLUX

define ANA_SST

define ANA_BTFLUX

define NS_PERIODIC

define OBC_WEST

define SPONGE

define MRL_WCI

ifdef MRL_WCI

undef WAVE_OFFLINE

ifndef WAVE_OFFLINE

define WKB_WWAVE

define WKB_OBC_WEST

define WAVE_FRICTION

undef WAVE_ROLLER

undef MRL_CEW

endif

define LMD_MIXING

define LMD_SKPP

define LMD_BKPP

undef BBL

undef SEDIMENT

ifdef SEDIMENT

define SUSPLOAD

define BEDLOAD

define TCLIMATOLOGY

define TNUDGING

define ANA_TCLIMA

endif

undef RVTK_DEBUG

#elif defined SANDBAR
/*
! SANDBAR Example
! ======= =======
!
! Roelvink, J. A. and Reniers, A. (1995). Lip 11d delta flume experiments
! – data report. Technical report, Delft, The Netherlands, Delft Hydraulics
*/

define SANDBAR_OFFSHORE /* LIP-1B */

undef SANDBAR_ONSHORE /* LIP-1C */

undef OPENMP

undef MPI

undef NBQ

define SOLVE3D

define UV_ADV

define NEW_S_COORD

define ANA_GRID

define ANA_INITIAL

define ANA_SMFLUX

define ANA_STFLUX

define ANA_SSFLUX

define ANA_SRFLUX

define ANA_SST

define ANA_BTFLUX

define OBC_WEST

define SPONGE

define WET_DRY

ifndef NBQ /* ! NBQ */

define MRL_WCI

ifdef MRL_WCI

define WKB_WWAVE

define MRL_CEW

define WKB_OBC_WEST

define WAVE_ROLLER

define WAVE_FRICTION

define WAVE_BREAK_TG86

define WAVE_BREAK_SWASH

define WAVE_STREAMING

undef WAVE_RAMP

endif

define GLS_MIXING

define GLS_KOMEGA

undef LMD_MIXING

ifdef LMD_MIXING

define LMD_SKPP

define LMD_BKPP

define LMD_VMIX_SWASH

endif

define BBL

else /* NBQ */

define MPI

define NBQ_PRECISE

define WAVE_MAKER

define UV_ADV

define UV_HADV_WENO5

define UV_VADV_WENO5

define W_HADV_WENO5

define W_VADV_WENO5

define GLS_MIXING_3D

define GLS_KOMEGA

define ANA_BRY

define Z_FRC_BRY

define M2_FRC_BRY

define M3_FRC_BRY

define T_FRC_BRY

define AVERAGES

define AVERAGES_K

define DIAGNOSTICS_EDDY

endif /* NBQ */

define SEDIMENT

ifdef SEDIMENT

define SUSPLOAD

ifndef NBQ

define BEDLOAD

endif

define MORPHODYN

define TCLIMATOLOGY

define TNUDGING

define ANA_TCLIMA

endif

undef STATIONS

ifdef STATIONS

define ALL_SIGMA

endif

undef DIAGNOSTICS_TS

ifdef DIAGNOSTICS_TS

define DIAGNOSTICS_TS_ADV

endif

define NO_FRCFILE

undef RVTK_DEBUG

smaishal · July 11, 2024, 4:04pm

too many things are just un-commented.
Screenshot 2024-07-11 9.33.58 PM
still CROCO is not working ?

starkolis · July 11, 2024, 4:40pm

If I make the changes that I referred to it compiles just fine with mpiifort.