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Installation sur Adastra

Avec les compilateurs natifs Cray et en s'inpirant du travail de Adam Blaker et Andrew Coward : https://github.com/hpc-uk/build-instructions/blob/main/apps/NEMO/

Plus bas le back-up en utilisant intel.

Les modules

module load cpe/22.11
module load cray-hdf5-parallel/1.12.2.1
module load cray-netcdf-hdf5parallel/4.9.0.1

Compilation xios

Download xios

svn co https://forge.ipsl.jussieu.fr/ioserver/svn/XIOS3/branches/xios-3.0-beta

backup : svn co http://forge.ipsl.jussieu.fr/ioserver/svn/XIOS/trunk@2430 xios-trunk-2430

Arch files

  • arch-Cray_Adastra.env :
module load cpe/22.11
module load cray-hdf5-parallel/1.12.2.1
module load cray-netcdf-hdf5parallel/4.9.0.1
  • arch-Cray_Adastra.fcm :
%CCOMPILER      CC
%FCOMPILER      ftn
%LINKER         ftn

%BASE_CFLAGS
%PROD_CFLAGS    -O3 -D BOOST_DISABLE_ASSERTS
%DEV_CFLAGS     -g -traceback
%DEBUG_CFLAGS   -DBZ_DEBUG -g -traceback -fno-inline

%BASE_FFLAGS    -D__NONE__
%PROD_FFLAGS    -O3
%DEV_FFLAGS     -g -O2 -traceback
%DEBUG_FFLAGS   -g -traceback

%BASE_INC       -D__NONE__
%BASE_LD        -lstdc++

%CPP            cpp -EP
%FPP            cpp -P
%MAKE           gmake
  • arch-Cray_Adastra.path :
NETCDF_INCDIR="-I${NETCDF_DIR}/include"
NETCDF_LIBDIR="-L${NETCDF_DIR}/lib"
NETCDF_LIB="-lnetcdf -lnetcdff"

MPI_INCDIR=""
MPI_LIBDIR=""
MPI_LIB=""

HDF5_INCDIR="-I${HDF5_DIR}/include"
HDF5_LIBDIR="-L${HDF5_DIR}/lib"
HDF5_LIB="-lhdf5_hl -lhdf5 -lz -lcurl"

OASIS_INCDIR=""
OASIS_LIBDIR=""
OASIS_LIB=""

Compile

./make_xios --full --arch Cray_Adastra

Compilation d'un NEMO case

Download

commit=389a917643f84804f6c7c6cb61c33007bc9a7b20
git clone https://forge.nemo-ocean.eu/nemo/nemo.git NEMO4
cd NEMO4
git checkout $commit

Arch file

  • arch-X64_ADASTRA-Cray_xios3.fcm :
%NCDF_HOME           $NETCDF_DIR
%HDF5_HOME           $HDF5_DIR
%XIOS_HOME           /lus/work/CT1/ige2071/aalbert/DEV/xios-3.0-beta

%NCDF_INC            -I%NCDF_HOME/include -I%HDF5_HOME/include
%NCDF_LIB            -L%HDF5_HOME/lib -L%NCDF_HOME/lib -lnetcdff -lnetcdf -lhdf5_hl -lhdf5 -lz
%XIOS_INC            -I%XIOS_HOME/inc
%XIOS_LIB            -L%XIOS_HOME/lib -lxios

%CPP                 cpp -Dkey_nosignedzero
%FC                  ftn
%FCFLAGS             -em -s integer32 -s real64 -O0 -hflex_mp=intolerant -N1023
%FFLAGS              -em -s integer32 -s real64 -O0 -hflex_mp=intolerant -N1023
%LD                  CC -Wl,"--allow-multiple-definition"
%FPPFLAGS            -P -traditional
%LDFLAGS             -lmpifort_cray
%AR                  ar
%ARFLAGS             -r
%MK                  gmake
%USER_INC            %XIOS_INC %NCDF_INC
%USER_LIB            %XIOS_LIB %NCDF_LIB

%CC                  cc -Wl,"--allow-multiple-definition"
%CFLAGS              -O0 -Wl,"--allow-multiple-definition"
bld::tool::fc_modsearch -J

Compile

  • add key_xios3 and key_vco_1d3d in CPP.keys of WED025_TEST test case
./makenemo -n WED025_TEST -r WED025 -m X64_ADASTRA-Cray-xios3 -j 1

Installation DCM

Download

  • DCM :
git clone -b 4.2 [email protected]:meom-group/DCM.git DCM_4.2
  • NEMOREF :
cd DCM_4.2/DCMTOOLS/NEMOREF
commit=9a594bcd355bc02a5d2647899e3863a1da682166
git clone https://forge.nemo-ocean.eu/nemo/nemo.git NEMO4
cd NEMO4
git checkout $commit

Customize

Following DCM's tutorial

Same but using intel

Les modules

module load intel/2022.1.0
module load cray-hdf5-parallel/1.12.2.1
module load cray-parallel-netcdf/1.12.3.1

Compilation xios

Download xios

svn co http://forge.ipsl.jussieu.fr/ioserver/svn/XIOS/trunk@2430 xios-trunk-2430

Arch files

  • arch-intel_Adastra.env :
module load intel/2022.1.0
module load cray-hdf5-parallel/1.12.2.1
module load cray-parallel-netcdf/1.12.3.1
  • arch-intel_Adastra.fcm :
%CCOMPILER      mpiicc
%FCOMPILER      mpiifort
%LINKER         mpiifort  -nofor-main

%BASE_CFLAGS    -diag-disable 1125 -diag-disable 279 -std=c++11
%PROD_CFLAGS    -O3 -D BOOST_DISABLE_ASSERTS
%DEV_CFLAGS     -g -traceback
%DEBUG_CFLAGS   -DBZ_DEBUG -g -traceback -fno-inline

%BASE_FFLAGS    -D__NONE__
%PROD_FFLAGS    -O3
%DEV_FFLAGS     -g -O2 -traceback
%DEBUG_FFLAGS   -g -traceback

%BASE_INC       -D__NONE__
%BASE_LD        -lstdc++

%CPP            mpiicc -EP
%FPP            cpp -P
%MAKE           gmake
  • arch-intel_Adastra.path :

⚠️ Problem : netcdf and hdf not compiled with yet!! ⚠️

NETCDF_INCDIR="-I${NETCDF_DIR}/include"
NETCDF_LIBDIR="-L${NETCDF_DIR}/lib"
NETCDF_LIB="-lnetcdf -lnetcdff"

MPI_INCDIR=""
MPI_LIBDIR=""
MPI_LIB=""

HDF5_INCDIR="-I${HDF5_DIR}/include"
HDF5_LIBDIR="-L${HDF5_DIR}/lib"
HDF5_LIB="-lhdf5_hl -lhdf5 -lz -lcurl"

OASIS_INCDIR=""
OASIS_LIBDIR=""
OASIS_LIB=""

Compile

./make_xios --full --arch intel_Adastra