No component log files were created

[yugong]

Hi everyone! I am running a FWHIST case with slurm batch system. However, i cannot find atm.log or lnd.log files under /output/CASENAME/run, but i can find cesm.log and cpl.log under this dir.
A few days ago, I run a same case in another machine without batch system, and I can find atm.log or lnd.log under /output/CASENAME/run
I don't know what makes log file missing.

In the machine with batch system, i create the case with
./create_newcase --case ~/CESM/cases/FWHIST_default --compset FWHIST --res f09_f09_mg17 --user-mods-dir ~/CESM/user_mods_dir/FWHIST_default/
srun ./case.build --skip-provenance-check
./case.submit
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
if without --skip-provenance-check it raised error when buiding as follow:
ERROR: Error gathering provenance information from manage_externals.

manage_externals error message:
ERROR:root:SVN returned invalid XML message

manage_externals output:
Processing externals description file : Externals.cfg (/public/home/elzd_2024_000125/CESM)
Processing externals description file : Externals_CAM.cfg (/public/home/elzd_2024_000125/CESM/components/cam)
Processing externals description file : Externals_CISM.cfg (/public/home/elzd_2024_000125/CESM/components/cism)
Processing externals description file : Externals_CLM.cfg (/public/home/elzd_2024_000125/CESM/components/clm)
Processing externals description file : Externals_POP.cfg (/public/home/elzd_2024_000125/CESM/components/pop)
Checking local status of required & optional components: cam, chem_proc,
ERROR: SVN returned invalid XML message

To solve this, either:

(1) Find and fix the problem: From /public/home/elzd_2024_000125/CESM, try to get this command to work:
manage_externals/checkout_externals --status --verbose --no-logging

(2) If you don't need provenance information, rebuild with --skip-provenance-check

(base) [elzd_2024_000125@login04 FWHIST_default]$ cd ..
(base) [elzd_2024_000125@login04 cases]$ cd ..
(base) [elzd_2024_000125@login04 CESM]$ ./manage_externals/checkout_externals --status --verbose --no-logging
Processing externals description file : Externals.cfg (/public/home/elzd_2024_000125/CESM)
Processing externals description file : Externals_CAM.cfg (/public/home/elzd_2024_000125/CESM/components/cam)
Processing externals description file : Externals_CISM.cfg (/public/home/elzd_2024_000125/CESM/components/cism)
Processing externals description file : Externals_CLM.cfg (/public/home/elzd_2024_000125/CESM/components/clm)
Processing externals description file : Externals_POP.cfg (/public/home/elzd_2024_000125/CESM/components/pop)
Checking local status of required & optional components: cam, chem_proc, ERROR:root:SVN returned invalid XML message

ERROR: SVN returned invalid XML message
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
So, i add --skip-provenance-check after "./case.build" （manage_externals/checkout_externals --status --verbose --no-logging did not help）

In the machine without batch system, I just build with [B]./case.build[/B] . I don't know if the [SIZE=4]--skip-provenance-check[/SIZE] make the log files missing. I have try to add --skip-provenance-check ,and then i can also find log files in this machine.

atm.log file is important for me, but i don't know what makes it missing.

Any suggestion would be appreciated!

 

[yugong]

I find that in cpl.log the program stop at (component_init_cc:mct) : Initialize component atm ， thus there is no atm.log generated. However, why CESM stop? The squeue command shows the job is running, and CESM has been running for 3 hours with 128 pes.

 

[yugong]

It seems that the model is frozen at the step of " Initialize atm component" because of some compiler problem according to CESM1.0.5 stuck at Initialize atm component

Here are my config xml, anyone can give some suggestions? Thanks!

 

[peverley]

Hi,

Did you try what was suggested in the post you linked? To reduce the optimization level? You can adjust the flags in $case_directory/cmake_macros/<compiler>.cmake

Courtney

 

[yugong]

Hi,

Did you try what was suggested in the post you linked? To reduce the optimization level? You can adjust the flags in $case_directory/cmake_macros/<compiler>.cmake

Courtney

Hi Courtney, I have tried to change optimization level, but it did not help. I finally solved this problem by accident through changing the version of netcdf and hdf5. Thank you for your reply!