Confusing link to initial conditions files when they are not used

[anton-seaice]

Its been highlighted, that our current configurations are confusing in how the ocean_temp_salt.res.nc file is handled.

We provide some initial ocean conditions for MOM5 in the ocean_temp_salt file. This is in a config.yaml inputs section:

https://github.com/ACCESS-NRI/access-om2-configs/blob/fce24e35bdf35720a15b6b03fa3616d3486f50b4/config.yaml#L51C1-L51C126

As the model runs, it writes new versions of this file. These are uncollated restart files and so have the same name but with a number appended (e.g. ocean_temp_salt.res.nc.0000 and 0001 ....).

After the model is run, subsequent payu setup operations will add both the original initial conditions and the latest restart file to the work directory. Thankfully the model uses the correct one, however the behavior is confusing. Its been suggested that initial conditions could go in the restart: section of config.yaml, and then would only be loaded the for the initial run of an experiment.

The same issue presumably applies for other initial conditions files:

https://github.com/ACCESS-NRI/access-om2-configs/blob/fce24e35bdf35720a15b6b03fa3616d3486f50b4/config.yaml#L64C1-L67C117

and probably some bgc initial conditions too

[access-hive-bot]

This issue has been mentioned on ACCESS Hive Community Forum. There might be relevant details there:

https://forum.access-hive.org.au/t/payu-collation-not-working-in-access-om2-1deg/4068/11