Creating mesh_mask.nc file

NEMO and CICE
1

Hi,

I am planning on running a HadGEM3 simulation with nudged SSTs. A Met Office colleague has pointed me to the man page for how to do this. It is here https://www.nemo-ocean.eu/doc/node29.html

I have a working HadGEM suite (which is an ssp245 suite with ozone redistribution) u-dt414 running on archer2. I have run the model for 1 day, with the nn_msh=1 in app/nemo_cice/rose-app.conf

When the model runs, it outputs 127 mesh_mask_0*.nc files which I now need to put back together into 1 mesh_mask.nc file for using nemo’s DMP_TOOLS .

I have found a couple of really useful blogs to help me do this which I will link to below.

I am doing my best to follow their suggestions but I feel like I am reinventing the wheel as these compiling steps are executed when the suite runs. My goal is to run ./rebuild_nemo with the mesh_mask option. Could I have some help short cutting the instructions on the blog? Specifically, can I use the .exe that is compiled and stored here: cylc-run/u-dt414/share/fcm_make_ocean/build-ocean/bin/nemo-cice.exe

Or do I need to compile the model manually as the blogs suggests?

Thanks in advance,

Penny
2

Hi Pen,

In theory, XIOS should do that for you. You should not need to merge on your the output files. Have you tried another suite?

3

Penny

I believe rebuild_nemo will combine the mask files into one (see tools/REBUILD_NEMO · 4.2.0 · NEMO Workspace / Nemo · GitLab )

There is a centrally built rebuild_nemo here:

/work/y07/shared/umshared/nemo/utils/src/REBUILD_NEMO/rebuild_nemo

Grenville

4

Thanks for the comments. I was able to getting it running for my N96 suite (with ORCA 1 degree) with the following:

I found the compiler I needed here:
/work/n01/shared/acc/arch-X86_ARCHER2-Cray.fcm

Which I was then able to rebuild nemo using
./maketools -m X86_ARCHER2-Cray -n REBUILD_NEMO

and put the mesh files together using:
./rebuild_nemo mesh_mask 128

Penny

1 Like
5

Glad it’s worked - any reason you could not use

/work/y07/shared/umshared/nemo/utils/src/REBUILD_NEMO/rebuild_nemo

Grenville

6

Hi Grenville,

The instructions online suggested I compile and run the build scripts with the code and compiler I use to run the model. This rebuild file was created in 2016 so I thought a new build was a good plan. I also had to compile other tools, so it was not much extra overhead.

Penny