TOC(heading=Using libIGCM library with ORCA2_LIM nemo_v3_6, depth=2, libIGCM/setupsimupage, libIGCM/change_BC, libIGCM/postprocessingpage, libIGCM/postalreadyrunpage, libIGCM_nemo_v_3_4/parallelpage_3_4, libIGCM/common_account, libIGCM/suggestpage, libIGCM/appendixpage )?

Using libIGCM library with ORCA2_LIM for nemo_v3_6

Purposes

Through libIGCM give an example of run of configuration ORCA1_LIM3_PISCES with :

• Climatological and Interannual (years from 1948 to 2009) forcing files COREII
• outputs:
  • ocean: 1D 5D 1M 1Y
  • ice: 1M
  • biology: 1D 1M 1Y

• RESTARTS every year
• on Idris ADA machine

Official documentation of Libigcm is :

​https://forge.ipsl.jussieu.fr/igcmg_doc/wiki/Doc

Quick start guide :http://www.nemo-ocean.eu/Using-NEMO/Configurations/

• Create and go into working directory :

 mkdir TP-NEMO-libIGCM ; cd TP-NEMO-libIGCM

• Define the following alias to use SVN :

 alias svn_ano='svn co http://forge.ipsl.jussieu.fr/igcmg/svn/modipsl/trunk modipsl'

• Extract modipsl (modipsl with libIGCM)

 svn_ano

• Extract the model "NEMO_v6":

cd modipsl/util    **
 ./model NEMO_v6

verify NEMOGCM revision in modipsl/util/mod.def file: (fixed revision of NEMO: 5618 )

#-H- NEMO_v6 NEMOGCM for CMIP6 exercise
#-H- NEMO_v6 libIGCM tag libIGCM_v2.6
#-M- NEMO_v6 Christian.Ethe@…
#-C- NEMO_v6 tags/libIGCM_v2.7 HEAD 10 libIGCM .
#-C- NEMO_v6 branches/2015/nemo_v3_6_STABLE/NEMOGCM 5618 7 . modeles
#-C- NEMO_v6 trunk/ORCA1_LIM3_PISCES HEAD 17 . modeles/NEMOGCM/CONFIG
#-C- NEMO_v6 CONFIG/UNIFORM/v6/NEMO_v6 HEAD 8 NEMO_v6 config

(The OFFICIAL repository for the CONFIG ORCA1_LIM3_PISCES is the web site shaconemo: ​https://forge.ipsl.jussieu.fr/shaconemo/wiki/README_ORCA1_LIM3_PISCES )

NOTA BENE : ORA1_LIM3_PISCES configuration is by default (in libIGCM) run with xios_server en detached mode --> so you need to download and compile xios:

• Download XIOS (branch 1.0 revision 703)

(The documentation of xios is available here: ​http://forge.ipsl.jussieu.fr/ioserver/wiki/documentation )

• Compile XIOS (on ADA machine):

 cd $WORKDIR    
 svn co http://forge.ipsl.jussieu.fr/ioserver/svn/XIOS/branchs/xios-1.0 -r 703
 ./make_xios --arch X64_ADA

 (./make_xios -h for help) 

• Compile ORCA1_LIM3_PISCES configuration (Using ./makenemo -h to see help ( to see list of compilers availables, to see options,...))

cd ../modeles/NEMOGCM/CONFIG
 ./makenemo -n ORCA1_LIM3_PISCES -m X64_ADA -j8

-j8 compile with 8 proc for compilation phase
-j0 option create only configuration directory but does not compile it 

• Copy executable nemo.exe (and xios_server.exe if needed in detached mode) in modipsl :

cd ../../../bin
ln -s ../modeles/NEMOGCM/CONFIG/ORCA1_LIM3_PISCES/BLD/bin/nemo.exe nemo.exe
(cp $WORKDIR/XIOS/bin/xios_server.exe xios_server.exe) 

• Create submission directory:

 modipsl/config/NEMO_v6/
	            GENERAL
                    EXPERIMENTS/
                         ORCA1_LIM3_PISCES/
                                         clim/
                                           config.card
                                           COMP/
                                               xios.card
                                               lim3.card
                                               pisces.card
                                               opa9.card
                                         ia/
                                           config.card 
                                           COMP/
                                               xios.card
                                               lim3.card
                                               pisces.card
                                               opa9.card
                         ORCA2_LIM2_PISCES/
                                         clim/
                                           config.card
                                           COMP/
                                               lim2.card
                                               pisces.card
                                               opa9.card                                         
                                        
                         ORCA2_LIM3_PISCES/
                                         clim/
                                           config.card
                                           COMP/
                                               lim3.card
                                               pisces.card
                                               opa9.card
 }}

  modipsl/config/NEMO_v6/ GENERAL [[BR]] EXPERIMENTS[[BR]]

{{{
 cd modipsl/config/NEMO_v6
 cp EXPERIMENTS/ORCA1_LIM3_PISCES/clim/config.card . 
}}}
 * Editing at this point modipsl/config/NEMO_v6/EXPERIMENTS/ORCA1_LIM3_PISCES/clim/'''config.card   (according to iodef.xml file)'''

{{{
 vi modipsl/config/NEMO_v6/EXPERIMENTS/ORCA1_LIM3_PISCES/clim/config.card  
 # Modify  AT LEAST JobName=EXP00

}}}
  '''                   NOTE : for ada ( idris ) machine'''                                                    starting from revision 2021 of trunk of  libigcm it is possible to add in [Post] section of config.card options [[BR]]                                                  [Post] [[BR]]                                                  SpaceName                                                   =PROD   (to have IGCM_OUT on gaya)[[BR]]                                                   PackFrequency                                                   =10Y  (to have pack option; i.e. only one tar file)

 * Editing at this point modipsl/config/NEMO_v6/EXPERIMENTS/ORCA1_LIM3_PISCES/clim/COMP/'''xios.card'''
 * Editing at this point modipsl/config/NEMO_v6/EXPERIMENTS/ORCA1_LIM3_PISCES/clim/COMP/'''opa9.card'''
 * Editing at this point modipsl/config/NEMO_v6/EXPERIMENTS/ORCA1_LIM3_PISCES/clim/COMP/'''lim3.card'''
 * Editing at this point modipsl/config/NEMO_v6/EXPERIMENTS/ORCA1_LIM3_PISCES/clim/COMP/'''pisces.card'''

 * Create Job :

{{{
cd ../../     (back into modipsl directory) 
}}}
{{{
./util/ins_job

ls modipsl/config/NEMO_v6
	GENERAL
        EXPERIMENTS
        EXP00  #new submission directory, config card is now HERE

}}}
***#### OLD VERSION

see : [https://forge.ipsl.jussieu.fr/nemo/wiki/libIGCM/setupsimupage setupsimupage]

 * Submit Job : [[BR]]
{{{
cd ../     (back into modipsl directory) 
}}}
{{{
./util/ins_job
 cd ../config/ORCA2_LIM/IGCM00 
 llsubmit Job_Name
}}}

And also see useful remarks: [https://forge.ipsl.jussieu.fr/nemo/wiki/libIGCM/suggestpage suggestpage]

If you want to switch from climatological to interannual see: [https://forge.ipsl.jussieu.fr/nemo/wiki/libIGCM/change_BC change_BC]

  Simona Flavoni last update: [[Timestamp]]