Difference between revisions of "Mars Dynamico Installation manual"
From Planets
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This page follows a manual for installing Mars Dynamico | This page follows a manual for installing Mars Dynamico | ||
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1. Install the LMDZ Mars GCM and newstart | 1. Install the LMDZ Mars GCM and newstart | ||
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b) Copy from icosa_lmdz/bin/icosa_lmdz.exe to a dynamico_runs folder | b) Copy from icosa_lmdz/bin/icosa_lmdz.exe to a dynamico_runs folder | ||
c) Copy the xml files and the start files and the def files in the dynamico_runs directory and have access to the datadir. | c) Copy the xml files and the start files and the def files in the dynamico_runs directory and have access to the datadir. | ||
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input file start_archive.nc need be converted to NetCDF4 format | input file start_archive.nc need be converted to NetCDF4 format | ||
nccopy -k 4 start_archive.nc start_archive_nc4.nc | nccopy -k 4 start_archive.nc start_archive_nc4.nc | ||
Revision as of 14:20, 13 June 2023
This page follows a manual for installing Mars Dynamico
1. Install the LMDZ Mars GCM and newstart
a) make sure u have the datafir and all of the *.def files. b) create start.nc and startfi.nc
2. Compile start2archive_SSO
a) run : makelmdz_fcm -arch <archive> -d <dimensions (lonxlatxalt)> -p mars start2archive_SSO to create start_archive b) run strart2archice_SSO c) cp start_archive.nc to the dynamico_runs folder
3. Install Dynamico
a) use the following link to access the wiki page of Dynamico https://lmdz-forge.lmd.jussieu.fr/mediawiki/Planets/index.php/The_DYNAMICO_dynamical_core b) git clone https://gitlab.in2p3.fr/ipsl/projets/dynamico/dynamico.git c) install XIOS, follow this link to access the wiki page of XIOS 1. if the make_xios dont work try this : ./make_xios --prod --arch ifort_MESOIPSL --arch_path ../ARCH --job 8 --full d) move back to dynamico folder and run ./make_icosa -parallel <parralel_component> -with_xios -arch <archive> -job 8 if it doesnt work again add the arch path to ../ARCH
4. Create an initial condiations files for dynamico by running a dynamico simulation without the physics.
a) Compile make_icosa_lmdz in trunk/ICOSA_LMDZ
b) Copy from icosa_lmdz/bin/icosa_lmdz.exe to a dynamico_runs folder
c) Copy the xml files and the start files and the def files in the dynamico_runs directory and have access to the datadir.
input file start_archive.nc need be converted to NetCDF4 format
nccopy -k 4 start_archive.nc start_archive_nc4.nc
5. run dynamic.
a) In run_icosa.def change to run_length=1500, etat_isothermal_temp=200, etat=isothermal and startphy_file=false(not start_file)
b) copy datadir to the running directory
c) run icosa_lmdz.exe
d) copy the files outputed by icosa_lmdz.exe
1. cp restartfi.nc startphy_icosa_ref.nc
2. cp restart_icosa.nc start_icosa_ref.nc
6. move to LMDZ.mars/util/startarchive2icosa then change compile script to adapt for the right location of XIOS and run compile u should get start_archive2icosa and rearrange_startphy
a) copy start_archive2icosa and rearrange_startphy to the dynamico_runs folder. b) Create surface_nc4.nc and copy it dynamico_runs folder c) source arch.env d) run ./start_archive2icosa as a job (requires a lot of memory) and make sure that Iodef.xml is the one for compile. e) the script create start_icosa_prefinalize.nc and startfi_prefinalize.nc f) copy icosa_finalize script form /trunk/LMDZ.MARS/util/startarchive2icosa/icosa_finalize.bash to dynamico_runs folder g) change the XIOS and the for startfi0.nc paths in icosa_finalize.bash and run it. It adds and changes variables in the startfiles. h) The scripts outputs startfi.nc and start_icosa.nc
7. update the tracer name in startfi for each tracer for example: ncrename -v ccn_number_surf,ccn_number startfi.nc
8. Run Dynamico simulation
a) change the iodef.xml b) change in run_icosa.def etat0=start_file and add etat0_start_file_colocated=true
