Mesh import error on cluster

[st268]

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

[Yvan Fournier]

Hello,

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

Best regards,

Yvan

[st268]

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