WikiPrint - from Polar Technologies

Porting on RedHat8

After maintenance of April 11 and 12 all the Irene machines of the TGCC will change OS (it will go from redhat7 to redhat8)

How to install your environment on redhat8 (skl and rome)

We suggest the user to use the igcmg environment (in bash) with a copy of the bashrc in his HOME. 

ryyy999@irene: cp ~igcmg/MachineEnvironment/irene_next/bashrc  ~/.bashrc
ryyy999@irene: cp ~igcmg/MachineEnvironment/irene_next/bashrc_irene_next ~/.bashrc_irene_next

Additionally, you can complete the example of bashrc_irene_next file to create your favorite environment (alias, module load ...).

We strongly advice you to add the line module switch dfldatadir dfldatadir/genXXXX in your own .bashrc_irene_next.

WARNING : if you have a ~/.profile file, it's better to remove it to avoid any problem during the execution of a simulation with libIGCM

In this environment is specified:

WARNING : You cannot load in the same time the intel environment for compilation and models computation, AND ferret software. There are not compatible. It's why by default we propose an environment for post processing. The computation environment will be loaded by modipsl and libIGCM during the compilation and the running time.

Modifications need to be done in models

LMDZ

modify %BASE_LD in LMDZ/arch/arch-X64_IRENE.fcm 

%BASE_LD   -i4 -r8 -auto -L/ccc/products/mkl-20.0.0/system/default/20.0.0/mkl/lib/intel64 -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread

ORCHIDEE

If you are working with a version older than rev 7792, you need to apply modifications described ​here.

INCA

If you are working with a version older than rev 1050, you need to modify lunout parameter to use standard output file. For this in INCA/src/INCA_MOD/print_inca.F90 remove all lines from 

   IF (is_ok_mpi) THEN
       WRITE(num_mpi,'(I4.4)') mpi_rank
    ENDIF


(...)

stop 'print_inca'
endif

add line 

 lunout = 6

XIOS

If you are working with a version on XIOS/branchs/xios-2.5, you need to modify XIOS/arch/arch-X64_IRENE.fcm 

%BASE_CFLAGS    -std=gnu++98 -diag-disable 1125 -diag-disable 279 -D__XIOS_EXCEPTION

Modifications for V6.2 configurations

Compilation and computation

Modify ARCH/arch-X64_IRENE.env 

# Compile and running environnemnet at Irene Skylake 
  
module purge
module load intel/20.0.0
module load mpi/openmpi/4.1.4
module load flavor/hdf5/parallel
module load hdf5/1.12.0
module load netcdf-fortran/4.5.3
module load mkl/20.0.0
module load feature/bridge/heterogenous_mpmd
module load c++/gnu/8.3.0
module load c/gnu/8.3.0

post-processing

Modify libIGCM/libIGCM_sys/libIGCM_sys_irene.ksh or libIGCM_sys_irene-amd.ksh to source new env_atlas_irene file. 

if [ X${TaskType} = Xcomputing ] ; then
  IGCM_debug_Print 1 "Modules will be loaded later in IGCM_sys_activ_variables."
else
  module purge > /dev/null 2>&1
  . $( ccc_home -u igcmg)/MachineEnvironment/irene_next/env_atlas_irene > /dev/null 2>&1

  export PCMDI_MP=/ccc/work/cont003/igcmg/igcmg/PCMDI-MP
  export UVCDAT_ANONYMOUS_LOG=FALSE
fi

Modification for v6.1 configurations and older ones

compilation

For older configurations you may have to source the arch.env file for all the models other than XIOS (applies to IPSLCM5A2 but could be needed for other old configurations).

In that case add . ${arch_path}/arch-X64_IRENE.env; before the command that changes the directory in every models rules except for xios where the previous changes are enough.

gmake clean

Computation