diff --git a/config.yaml b/config.yaml index 1b2560f0..1da974b9 100644 --- a/config.yaml +++ b/config.yaml @@ -1,112 +1,85 @@ -# PBS configuration - -# If submitting to a different project to your default, uncomment line below -# and replace PROJECT_CODE with appropriate code. This may require setting shortpath -# project: PROJECT_CODE - -# Force payu to always find, and save, files in this scratch project directory -# shortpath: /scratch/PROJECT_CODE - -queue: normal -walltime: 3:00:00 -jobname: 1deg_jra55_ryf -mem: 1000GB - -# Sync options for automatically copying data from ephemeral scratch space to -# longer term storage -sync: - enable: False # set path below and change to true - path: null # Set to location on /g/data or a remote server and path (rsync syntax) - -# Modules for loading model executables -modules: - use: - - /g/data/vk83/modules - load: - - access-om2/2025.12.000 - - model-tools/fre-nctools/2024.05-1 - -# Model configuration -name: common -model: access-om2 -input: - - /g/data/vk83/configurations/inputs/access-om2/remapping_weights/JRA55/global.1deg/2020.05.30/JRA55_MOM1_conserve2nd.nc - - /g/data/vk83/configurations/inputs/access-om2/remapping_weights/JRA55/global.1deg/2020.05.30/JRA55_MOM1_patch.nc - - /g/data/vk83/configurations/inputs/access-om2/remapping_weights/JRA55/global.1deg/2020.05.30/rmp_jra55_cice_1st_conserve.nc - - /g/data/vk83/configurations/inputs/access-om2/remapping_weights/JRA55/global.1deg/2020.05.30/rmp_jra55_cice_2nd_conserve.nc - - /g/data/vk83/configurations/inputs/access-om2/remapping_weights/JRA55/global.1deg/2020.05.30/rmp_jra55_cice_patch.nc -submodels: - - name: atmosphere - model: yatm - exe: yatm.exe - input: - - /g/data/vk83/configurations/inputs/access-om2/remapping_weights/JRA55/global.1deg/2020.05.30/rmp_jrar_to_cict_CONSERV.nc - - /g/data/vk83/configurations/inputs/JRA-55/RYF/v1-4/data - ncpus: 1 - - - name: ocean - model: mom - exe: mom5_access_om - input: - - /g/data/vk83/configurations/inputs/access-om2/ocean/grids/mosaic/global.1deg/2020.05.30/grid_spec.nc - - /g/data/vk83/configurations/inputs/access-om2/ocean/grids/mosaic/global.1deg/2020.05.30/ocean_hgrid.nc - - /g/data/vk83/configurations/inputs/access-om2/ocean/grids/mosaic/global.1deg/2020.05.30/ocean_mosaic.nc - - /g/data/vk83/configurations/inputs/access-om2/ocean/grids/bathymetry/global.1deg/2020.10.22/topog.nc - - /g/data/vk83/configurations/inputs/access-om2/ocean/grids/bathymetry/global.1deg/2020.10.22/ocean_mask.nc - - /g/data/vk83/configurations/inputs/access-om2/ocean/grids/vertical/global.1deg/2020.10.22/ocean_vgrid.nc - - /g/data/vk83/configurations/inputs/access-om2/ocean/processor_masks/global.1deg/216.16x15/2020.05.30/ocean_mask_table - - /g/data/vk83/configurations/inputs/access-om2/ocean/chlorophyll/global.1deg/2020.05.30/chl.nc - - /g/data/vk83/configurations/inputs/access-om2/ocean/initial_conditions/global.1deg/2020.10.22/ocean_temp_salt.res.nc - - /g/data/vk83/configurations/inputs/access-om2/ocean/tides/global.1deg/2020.05.30/tideamp.nc - - /g/data/vk83/configurations/inputs/access-om2/ocean/tides/global.1deg/2020.05.30/roughness_amp.nc - - /g/data/vk83/configurations/inputs/access-om2/ocean/tides/global.1deg/2020.05.30/roughness_cdbot.nc - - /g/data/vk83/configurations/inputs/access-om2/ocean/surface_salt_restoring/global.1deg/2020.05.30/salt_sfc_restore.nc - ncpus: 216 - - - name: ice - model: cice5 - exe: cice_auscom_360x300_24x1_24p.exe - input: - - /g/data/vk83/configurations/inputs/access-om2/ice/grids/global.1deg/2024.04.17/grid.nc - - /g/data/vk83/configurations/inputs/access-om2/ice/grids/global.1deg/2024.04.17/kmt.nc - - /g/data/vk83/configurations/inputs/access-om2/ice/initial_conditions/global.1deg/2020.05.30/i2o.nc - - /g/data/vk83/configurations/inputs/access-om2/ice/initial_conditions/global.1deg/2020.05.30/o2i.nc - - /g/data/vk83/configurations/inputs/access-om2/ice/initial_conditions/global.1deg/2020.05.30/u_star.nc - - /g/data/vk83/configurations/inputs/access-om2/ice/initial_conditions/global.1deg/2020.05.30/monthly_sstsss.nc - ncpus: 24 - -# Collation collate: - restart: true - walltime: 1:00:00 + exe: mppnccombine mem: 30GB ncpus: 4 queue: normal - exe: mppnccombine - -# Misc -runlog: true -stacksize: unlimited -restart_freq: 5YS -mpi: - flags: - - --mca io ompio --mca io_ompio_num_aggregators 1 -qsub_flags: -W umask=027 + restart: true + walltime: 3600 env: - UCX_LOG_LEVEL: 'error' - + UCX_LOG_LEVEL: error +input: +- /g/data/vk83/configurations/inputs/access-om2/remapping_weights/JRA55/global.1deg/2020.05.30/JRA55_MOM1_conserve2nd.nc +- /g/data/vk83/configurations/inputs/access-om2/remapping_weights/JRA55/global.1deg/2020.05.30/JRA55_MOM1_patch.nc +- /g/data/vk83/configurations/inputs/access-om2/remapping_weights/JRA55/global.1deg/2020.05.30/rmp_jra55_cice_1st_conserve.nc +- /g/data/vk83/configurations/inputs/access-om2/remapping_weights/JRA55/global.1deg/2020.05.30/rmp_jra55_cice_2nd_conserve.nc +- /g/data/vk83/configurations/inputs/access-om2/remapping_weights/JRA55/global.1deg/2020.05.30/rmp_jra55_cice_patch.nc +jobname: 1deg_jra55_ryf manifest: reproduce: - exe: True - -# set number of cores per node (28 for normalbw, 48 for normal on gadi) + exe: false +mem: 1000GB +model: access-om2 +modules: + load: + - access-om2/pr133-4 + - model-tools/fre-nctools/2024.05-1 + use: + - /g/data/vk83/modules + - /g/data/vk83/prerelease/modules +mpi: + flags: + - --mca io ompio --mca io_ompio_num_aggregators 1 +name: common +payu_minimum_version: 1.2.1 platform: - nodesize: 48 - -# sweep and resubmit on specific errors - see https://github.com/payu-org/payu/issues/241#issuecomment-610739771 + nodesize: 48 +qsub_flags: -W umask=027 +queue: normal +restart_freq: 5YS +runlog: true +stacksize: unlimited +submodels: +- exe: yatm.exe + input: + - /g/data/vk83/configurations/inputs/access-om2/remapping_weights/JRA55/global.1deg/2020.05.30/rmp_jrar_to_cict_CONSERV.nc + - /g/data/vk83/configurations/inputs/JRA-55/RYF/v1-4/data + model: yatm + name: atmosphere + ncpus: 1 +- exe: mom5_access_om + input: + - /g/data/vk83/configurations/inputs/access-om2/ocean/grids/mosaic/global.1deg/2020.05.30/grid_spec.nc + - /g/data/vk83/configurations/inputs/access-om2/ocean/grids/mosaic/global.1deg/2020.05.30/ocean_hgrid.nc + - /g/data/vk83/configurations/inputs/access-om2/ocean/grids/mosaic/global.1deg/2020.05.30/ocean_mosaic.nc + - /g/data/vk83/configurations/inputs/access-om2/ocean/grids/bathymetry/global.1deg/2020.10.22/topog.nc + - /g/data/vk83/configurations/inputs/access-om2/ocean/grids/bathymetry/global.1deg/2020.10.22/ocean_mask.nc + - /g/data/vk83/configurations/inputs/access-om2/ocean/grids/vertical/global.1deg/2020.10.22/ocean_vgrid.nc + - /g/data/vk83/configurations/inputs/access-om2/ocean/processor_masks/global.1deg/216.16x15/2020.05.30/ocean_mask_table + - /g/data/vk83/configurations/inputs/access-om2/ocean/chlorophyll/global.1deg/2020.05.30/chl.nc + - /g/data/vk83/configurations/inputs/access-om2/ocean/initial_conditions/global.1deg/2020.10.22/ocean_temp_salt.res.nc + - /g/data/vk83/configurations/inputs/access-om2/ocean/tides/global.1deg/2020.05.30/tideamp.nc + - /g/data/vk83/configurations/inputs/access-om2/ocean/tides/global.1deg/2020.05.30/roughness_amp.nc + - /g/data/vk83/configurations/inputs/access-om2/ocean/tides/global.1deg/2020.05.30/roughness_cdbot.nc + - /g/data/vk83/configurations/inputs/access-om2/ocean/surface_salt_restoring/global.1deg/2020.05.30/salt_sfc_restore.nc + model: mom + name: ocean + ncpus: 216 +- exe: cice_auscom_360x300_24x1_24p.exe + input: + - /g/data/vk83/configurations/inputs/access-om2/ice/grids/global.1deg/2024.04.17/grid.nc + - /g/data/vk83/configurations/inputs/access-om2/ice/grids/global.1deg/2024.04.17/kmt.nc + - /g/data/vk83/configurations/inputs/access-om2/ice/initial_conditions/global.1deg/2020.05.30/i2o.nc + - /g/data/vk83/configurations/inputs/access-om2/ice/initial_conditions/global.1deg/2020.05.30/o2i.nc + - /g/data/vk83/configurations/inputs/access-om2/ice/initial_conditions/global.1deg/2020.05.30/u_star.nc + - /g/data/vk83/configurations/inputs/access-om2/ice/initial_conditions/global.1deg/2020.05.30/monthly_sstsss.nc + model: cice5 + name: ice + ncpus: 24 +sync: + enable: false + path: null userscripts: - error: tools/resub.sh - run: rm -f resubmit.count - sync: /g/data/vk83/apps/om2-scripts/concatenate_ice/concat_ice_daily.sh - -payu_minimum_version: 1.2.1 + error: tools/resub.sh + run: rm -f resubmit.count + sync: /g/data/vk83/apps/om2-scripts/concatenate_ice/concat_ice_daily.sh +walltime: 10800