code_saturne User's Forum

Hello,

I am now running code_saturne 3.1.0 on a PBS system cluster. The GUI is not supported so I am having to run things via the command line. This is the procedure I have been following (provided by the Cluster Wiki) I have emboldened my comments below to try and make it easier to read:

module load xe-code-saturne/3.1.0

1 Create a study with a case

2 Copy the mesh in MESH

3 Copy the usersubroutines in SRC

4 Go to DATA and copy REFERENCE/cs_user_scripts.py in DATA

5 Edit cs_user_scripts.py and:-

- At L.128, change domain.mesh_input from None to the mesh path, using quotes

- At L.251, set the number of processors for the simulation

- At L.297, type mpi_env.mpiexec = 'aprun '

- At L.311, type mpi_env.mpiexec_n = ' -n '

6 Save and close cs_user_scripts.py

7 At the case level, type code_saturne run --initialize

8 In RESU should be created a directory which name is based on the date code_saturne run --initialize was run. Go to this directory, edit run_solver.sh and adapt the following to your case (using PBS instructions):

#-------------------------------------------------------------------------------
#
#PBS -A budget
#PBS -N casename
#PBS -l mppwidth=nprocs
#PBS -l mppnppn=ncores
#PBS -l walltime=hours:minutes:00
#PBS -j oe
#

9 The job is then submitted typing qsub run_solver

However, I get an error saying that c_s cannot read my mesh:

/usr/local/packages/nag/saturne/SATURNE_3.1.0_GNU_XE6/SATURNE_3.1.0/SATURNE_3.1.0/saturne-3.1.0/src/base/cs_io.c:702: Fatal error.

Error reading file: "mesh_input".
File format is not the correct version.
The first 64 bytes expected contain:
"Code_Saturne I/O, BE, R0"
The first 64 bytes read contain:
"‰HDF

"

From reading past forum posts Yvan said that this was cause by hardcoding the mesh path in cs_userscripts. However if I leave that function empty then it wont compile - saying mesh cannot be found.

Any ideas?

Thanks in advance for your help!

Susan

Hello,

You (or the Wiki you started from) confused: domain.mesh_input (previously preprocessed mesh) and domain.meshes (meshes to preprocess).

Best regards,

Yvan

Hi Yvan,

Thanks that solved it

Get different errors now but it seems cs has been installed without MED support so that is another, fingers crossed, an easy fix!

Thanks again

Susan