Pluto Dynamico - Revision history

Aurelien.falco: Redirected page to Pluto DYNAMICO

2024-12-03T17:43:39Z

Redirected page to Pluto DYNAMICO

Aurelien.falco at 13:34, 28 November 2024

2024-11-28T13:34:34Z

Aurelien.falco: /* Installation guide */

2024-11-27T15:09:42Z

‎Installation guide

Aurelien.falco: /* Where to get example files? */

2024-11-26T14:58:27Z

‎Where to get example files?

Aurelien.falco at 14:54, 26 November 2024

2024-11-26T14:54:43Z

Aurelien.falco at 14:32, 26 November 2024

2024-11-26T14:32:53Z

Aurelien.falco at 14:32, 26 November 2024

2024-11-26T14:32:31Z

Aurelien.falco: Created tutorial to convert lat lon simulation to icosa for Pluto.

2024-11-26T14:05:58Z

Created tutorial to convert lat lon simulation to icosa for Pluto.

New page

This page follows a manual for installing Pluto [[The DYNAMICO dynamical core|Dynamico]] (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 ).

The first step is to compile DYNAMICO using the LMDZ-PLUTO physics. Please refer to [[DYNAMICO with LMDZ physics]] for this step.

1. Install the LMDZ Pluto PCM and newstart
a) make sure you have the datafir and all of the *.def files.
b) create start.nc and startfi.nc

2. Compile start2archive
a) run : makelmdz_fcm -arch <archive> -d <dimensions (lonxlatxalt)> -p pluto start2archive to create start_archive
b) run start2archive.e
c) Copy start archive to your folder
<pre>
cp start_archive.nc dynamico_runs
</pre>
d) Convert the start archive to netCDF4
<pre>
nccopy -k 4 start_archive.nc start_archive_nc4.nc
</pre>

3. Follow [[DYNAMICO with LMDZ physics]], to compile '''icosa_lmdz.exe'''.

4. Create an initial conditions files for dynamico by running a dynamico simulation without an initial physics file (startphy_file=false).
a) In run.def change to run_length=1500, etat_isothermal_temp=200, etat=isothermal and startphy_file=false
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

5. Change the lat x lon files to the icosa grid.
a) Compile the files in LMDZ.PLUTO/util/startarchive2icosa with the '''compile''' script, which will create '''start_archive2icosa''' and '''rearrange_startphy'''. Copy all the files in your simulation folder, but WARNING: there are some xml files that could overwrite your own files (like iodef.xml).
b) Create a '''surface_nc4.nc''' based on your topography (could be a symbolic link)
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) run '''icosa_finalize.bash'''
g) TODO 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

6. update the tracer name in startfi for each tracer for example: ncrename -v ccn_number_surf,ccn_number startfi.nc

7. Run Dynamico simulation
a) change the iodef.xml to the one in '''deftank/dynamico'''
b) change in run.def etat0=start_file and add etat0_start_file_colocated=true

[[Category:DYNAMICO]]
[[Category:Pluto-DYNAMICO]]

← Older revision		Revision as of 17:43, 3 December 2024
Line 1:		Line 1:
−	~~This page is a guide to install and run Pluto [[The DYNAMICO dynamical core\|Dynamico]].~~	+	#redirect[[Pluto DYNAMICO]]
−
−	~~== Installation guide ==~~
−
−	~~You should first follow how to install [[The DYNAMICO dynamical core\|Dynamico]], then the [[DYNAMICO with LMDZ physics]] guides.~~
−	Finally, follow [[LMDZ to DYNAMICO start files]] to convert your usual LMDZ [[The start.nc and startfi.nc input files\|start files]] to DYNAMICO start files (you will need the files in '''LMDZ.PLUTO/util/start_archive2icosa''' for that).
−
−	~~Once you have completed all of these steps, you can run an example DYNAMICO simulation (with a DYNAMCIO startfi) using the .def and .xml files in '''deftank/dynamico'''.~~
−
−	~~== Where to get example files? ==~~
−
−	* LMDZ.PLUTO/deftank/dynamico
−	* LMDZ.PLUTO/util/start_archive2icosa
−
−	~~[[Category:DYNAMICO]]~~
−	~~[[Category:Pluto-Model]]~~
−	[[~~Category:~~Pluto-DYNAMICO]]

← Older revision		Revision as of 13:34, 28 November 2024
Line 14:		Line 14:

	[[Category:DYNAMICO]]		[[Category:DYNAMICO]]
		+	[[Category:Pluto-Model]]
	[[Category:Pluto-DYNAMICO]]		[[Category:Pluto-DYNAMICO]]

@@ Line 4: / Line 4: @@
 You should first follow how to install [[The DYNAMICO dynamical core|Dynamico]], then the [[DYNAMICO with LMDZ physics]] guides.
-Finally, follow [[LMDZ to DYNAMICO start files]] to convert your usual LMDZ [[The start.nc and startfi.nc input files|start files]] to DYNAMICO start files. You will need the files in '''LMDZ.PLUTO/util/start_archive2icosa''' for that.
+Finally, follow [[LMDZ to DYNAMICO start files]] to convert your usual LMDZ [[The start.nc and startfi.nc input files|start files]] to DYNAMICO start files (you will need the files in '''LMDZ.PLUTO/util/start_archive2icosa''' for that).
-Once you have completed all of these steps, you can run an example DYNAMICO simulation (with a DYNAMCIO startfi) using the *.def and *.xml files in '''datadir/dynamico'''.
+Once you have completed all of these steps, you can run an example DYNAMICO simulation (with a DYNAMCIO startfi) using the *.def and *.xml files in '''deftank/dynamico'''.
 == Where to get example files? ==

@@ Line 10: / Line 10: @@
 == Where to get example files? ==
-- LMDZ.PLUTO/deftank/dynamico
+* LMDZ.PLUTO/deftank/dynamico
-- LMDZ.PLUTO/util/start_archive2icosa
+* LMDZ.PLUTO/util/start_archive2icosa
 [[Category:DYNAMICO]]
 [[Category:Pluto-DYNAMICO]]

@@ Line 1: / Line 1: @@
 This page is a guide to install and run Pluto [[The DYNAMICO dynamical core|Dynamico]].
 You should first follow how to install [[The DYNAMICO dynamical core|Dynamico]], then the [[DYNAMICO with LMDZ physics]] guides.
@@ Line 5: / Line 7: @@
 Once you have completed all of these steps, you can run an example DYNAMICO simulation (with a DYNAMCIO startfi) using the *.def and *.xml files in '''datadir/dynamico'''.
 [[Category:DYNAMICO]]
 [[Category:Pluto-DYNAMICO]]

← Older revision		Revision as of 14:32, 26 November 2024
Line 1:		Line 1:
−	This page ~~follows~~ a ~~manual for installing~~ Pluto [[The DYNAMICO dynamical core\|Dynamico]].	+	This page is a guide to install and run Pluto [[The DYNAMICO dynamical core\|Dynamico]].

	You should first follow how to install [[The DYNAMICO dynamical core\|Dynamico]], then the [[DYNAMICO with LMDZ physics]] guides.		You should first follow how to install [[The DYNAMICO dynamical core\|Dynamico]], then the [[DYNAMICO with LMDZ physics]] guides.