wiki:DevelopmentActivities/ORCHIDEE-CNP/howtoUse

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Version 112 (modified by dgoll, 3 weeks ago) (diff)
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HOWTO install/compile/run ORCHIDEE-CNP for stand-alone use with libIGCM.

This howto is based on the information which can be found in the ORCHIDEE wiki regarding the trunk version of ORCHIDEE. Please check the wiki for information regarding the respective commands listed here.

last update: 2024/31/05 by D.Goll

WARNING: the following assumes you run on obelix

If you want to run on ada, please see the additional modification needed on the MICT wiki https://forge.ipsl.jussieu.fr/orchidee/wiki/DevelopmentActivities/Branches/ORCHIDEE-MICT-IMBALANCE-P/SimulationsonAda.

For other machines, we currently have no support available.

0. preparation

You need to ensure the right modules are loaded in order to run ORCHIDEE on obelix. To do so, add the following lines to your ~/.profile file (create the file if it doesn't exist):

module purge
module load openmpi/2.1.5
module load gcc/8.3.0
module load intel-fcomp/2020
module load hdf5/1.8.9p
module load netcdf/4p

The modules need to be same ones as in the ARCH/arch.env ( see point 1.5 below )

1. install libIGCM & ORCHIDEE-CN-P

1.1 where to install

You should install the model NOT in the home directory; it is even too small to handle diagnostics like "out_execution" or "out_orchidee". You can use , for example, your work directory: curie:

/ccc/work/cont003/dsm/<userID>

or project storage space; here an example for the IMBALANCE-P project on obelix:

/home/surface3/dgoll

1.2 install libIGCM & trunk ORCHIDEE

The latest version of libIGCM can be used ( Last Changed Rev: 6657 ).

svn co http://forge.ipsl.jussieu.fr/igcmg/svn/modipsl/trunk modipsl
cd modipsl/util
./model ORCHIDEE_trunk

Since 2022, you are asked for a username and password during the installation which are

username: icmc_users
# Ask a collegue for the passwd or send an email to orchidee-help@listes.ipsl.fr

REMARK (likely outdated ; not needed, but it still works) : The default libIGCM system has some efficiency flaws (i.e. it copies boundary files for ORCHIDEE input, instead of using links). To use links instead of hard copy you can take a few simple steps to make libIGCM more efficient. See description here http://forge.ipsl.jussieu.fr/orchidee/wiki/DevelopmentActivities/ORCHIDEE-CNP/LibIGCMmod01

1.3 Exchange the trunk ORCHIDEE with ORCHIDEE-CN-P

for ORCHIDEE-CNP v1.2 (with CENTURY soil model):

cd ../modeles
rm -fr ORCHIDEE
svn co svn://forge.ipsl.jussieu.fr/orchidee/branches/ORCHIDEE-CN-P/ORCHIDEE ORCHIDEE
cd ../util ; ./ins_make

for ORCHIDEE-CNP v1.3 (with MIMICS soil model): Mind the HEAD is not functional ( as I likely missed to add some new files during svn upload )So you need to use an older revision (8311) instead.

cd ../modeles
rm -fr ORCHIDEE
svn co -r 8311 svn://forge.ipsl.jussieu.fr/orchidee/branches/ORCHIDEE-CN-P-MIMICS/ORCHIDEE ORCHIDEE

cp /home/surface3/common/CNP_files/bugfix_newdriver/field_def_orchidee.xml ORCHIDEE/src_xml/
cp /home/surface3/common/CNP_files/bugfix_newdriver/file_def_orchidee_mimics_spinup.xml ORCHIDEE/src_xml/
cd ../util ; ./ins_make

1.4 Adjust IOIPSL

ORCHIDEE-CNP r4512 and newer

for ORCHIDEE newer than r4512 you need to use a modified version of IOIPSL. Follow the description here:

https://forge.ipsl.jussieu.fr/orchidee/wiki/DevelopmentActivities/Branches/ORCHIDEE-MICT-IMBALANCE-P/Compile#After8.4.0rev4057

for ORCHIDEE-CNP before r4512

adjust IOIPSL to be able to write more variables into the output by increase the value of max_var by 50 in modeles/IOIPSL/src/restcom.f90

 &  max_var=550, max_file=50, max_dim=NF90_MAX_VAR_DIMS

1.5 Exchange simulation configuration folder

You need to exchange the simulation configuration folder (ORCHIDEE_OL). The folder comes with example simulation setups. Ask your supervisor for recent configurations.

Exchange ORCHIDEE_OL folder :

cd modipsl/config
rm -rf ORCHIDEE_OL
svn co svn://forge.ipsl.jussieu.fr/orchidee/branches/ORCHIDEE-CN-P-MIMICS/ORCHIDEE_OL ORCHIDEE_OL
cd ../util ; ./ins_make
cd ../ORCHIDEE_OL
cp /home/surface3/common/CNP_files/bugfix_newdriver/Makefile ./

Add the ARCH/arch.env file for the modules required by ORCHIDEE-CNP:

cp -r /home/surface3/common/CNP_files/bugfix_newdriver/ARCH/ ./

2. Compilation of ORCHIDEE-CNP

2.1 compile orchidee

A: on obelix

Compile ORCHIDEE-CNP ( it is important to compile in the same environment as its execution. Therefore, we need to load the environment from the ARCH folder using source. ):

cd ../config/ORCHIDEE_OL
source ARCH/arch.env
gmake with_xios

B: other machines

are not supported at the moment

DEVELOPER INFORMATION 2.3 Re-compile after code modifications

When you re-compile ORCHIDEE after you changed the code, the compiler will only recompile the modules(?)/subroutines(?) which you modified. Sometimes this doesn't work properly and your executable will crash. You will have no indications that the crash is connected to the compilations. Thus, it is a good idea to prophylactically to a full clean before you compile the code: First to this in modeles/ORCHIDEE/:

./makeorchidee_fcm -clean

then this in config/ORCHIDEE_OL

make clean

Now, you can compile the model as described in 2.2

3. Run ORCHIDEE

Please find some basic information how to run the model here:

http://forge.ipsl.jussieu.fr/orchidee/wiki/DevelopmentActivities/ORCHIDEE-CNP/howtoUse/RunningCNP

3.3 MISC

ensemble configuration

WARNING: These scripts are broken and are not maintained anymore for the CNP version. you must use the OOL_SEC_STO to run site simulations or your own scripts. http://forge.ipsl.jussieu.fr/orchidee/wiki/DevelopmentActivities/ORCHIDEE-CNP/howtoFLUXNET

Attachments (3)

FLXnet.png (35.5 KB) - added by dgoll 8 years ago. fluxnet scheme with spinup_analytic
fluxnet_sequence.png (26.3 KB) - added by dgoll 8 years ago. the sequence of simulations of the FLUXNET configuration
get_ORCNP.ksh (1.7 KB) - added by dgoll 7 years ago. script which gets ORCHIDEE-CN-P and thus all needed adjustments

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