1deg jra55do iaf.cherrypicks

MOM_input

@@ -189,7 +189,7 @@ MINIMUM_DEPTH = 0.5
                                 ! MINIMUM_DEPTH."
 
 ! === module MOM_fixed_initialization ===
-INPUTDIR = "./input/"
+INPUTDIR = "./INPUT/"
                                 ! "The directory in which input files are found."
 
 CHANNEL_CONFIG = global_1deg

README.md

@@ -14,4 +14,4 @@ information.
 
 ## Requirements
 
-This configuration requires payu v1.0.29 or greater to run correctly.
+This configuration requires [Payu](https://github.com/payu-org/payu) > v1.1.3 to run.

config.yaml

@@ -17,8 +17,9 @@ walltime: 01:00:00
 jobname: 1deg_jra55do_iaf
 
 model: access-om3
-exe: /g/data/ik11/spack/0.21.2/opt/linux-rocky8-cascadelake/intel-2021.10.0/access-om3-69f719964a27e23deae3923d60af01a081cc3fc0_main-fkzzqnp/bin/access-om3-MOM6-CICE6
-input: 
+
+exe: access-om3-MOM6-CICE6
+input:
     - /g/data/vk83/experiments/inputs/access-om3/share/meshes/global.1deg/2024.01.25/access-om2-1deg-ESMFmesh.nc
     - /g/data/vk83/experiments/inputs/access-om3/share/meshes/global.1deg/2024.01.25/access-om2-1deg-nomask-ESMFmesh.nc
     - /g/data/vk83/experiments/inputs/access-om3/share/meshes/share/2024.01.25/JRA55do-ESMFmesh.nc
@@ -48,5 +49,13 @@ metadata:
     enable: false
 
 userscripts:
-    setup: ./setup_cice_restarts.sh
-    archive: ./archive_cice_restarts.sh
+    setup: /usr/bin/bash /g/data/vk83/apps/om3-scripts/payu_config/setup.sh
+    archive: /usr/bin/bash /g/data/vk83/apps/om3-scripts/payu_config/archive.sh
+
+modules:
+    use:
+        - /g/data/ik11/spack/0.21.2/modules/access-om3/0.x.0/linux-rocky8-cascadelake
+        - /g/data/hh5/public/modules
+    load:
+        - access-om3/63ed4a4777aeac0c62720ddbe7f85e4ed16f82eb_main
+        - conda/analysis3-24.01

datm_in

@@ -8,8 +8,8 @@
   flds_preso3 = .false.
   flds_wiso = .false.
   iradsw = 1
-  model_maskfile = "./input/access-om2-1deg-nomask-ESMFmesh.nc"
-  model_meshfile = "./input/access-om2-1deg-nomask-ESMFmesh.nc"
+  model_maskfile = "./INPUT/access-om2-1deg-nomask-ESMFmesh.nc"
+  model_meshfile = "./INPUT/access-om2-1deg-nomask-ESMFmesh.nc"
   nx_global = 360
   ny_global = 300
   restfilm = "null"

drof_in

@@ -1,7 +1,7 @@
 &drof_nml
   datamode = "copyall"
-  model_maskfile = "./input/access-om2-1deg-nomask-ESMFmesh.nc"
-  model_meshfile = "./input/access-om2-1deg-nomask-ESMFmesh.nc"
+  model_maskfile = "./INPUT/access-om2-1deg-nomask-ESMFmesh.nc"
+  model_meshfile = "./INPUT/access-om2-1deg-nomask-ESMFmesh.nc"
   nx_global = 360
   ny_global = 300
   restfilm = "null"

ice_in

@@ -5,27 +5,28 @@
   dumpfreq = "y"
   dump_last = .true.
   histfreq = "d", "m", "x", "x", "x"
+  hist_suffix = "", "m", "x", "x", "x" !limited to one character due to https://github.com/COSIMA/access-om3/issues/201
   hist_time_axis = "middle"
   history_deflate = 1
   history_chunksize = 180, 150
   history_precision = 8
   restart_deflate = 1
-  ice_ic = "./input/iced.1900-01-01-10800.nc"
+  ice_ic = "./INPUT/iced.1900-01-01-10800.nc"
   lcdf64 = .false.
   npt = 35040
   pointer_file = './rpointer.ice'
   print_global = .false.
 /
 &grid_nml
-  bathymetry_file = "./input/topog.nc"
+  bathymetry_file = "./INPUT/topog.nc"
   grid_atm = "A"
-  grid_file = "./input/grid.nc"
+  grid_file = "./INPUT/grid.nc"
   grid_format = "nc"
   grid_ice = "B"
   grid_ocn = "A"
   grid_type = "tripole"
   kcatbound = 0
-  kmt_file = "./input/kmt.nc"
+  kmt_file = "./INPUT/kmt.nc"
   nblyr = 1
   ncat = 5
   nfsd = 1
@@ -173,4 +174,4 @@
   f_taubx = 'x' , f_tauby = 'x'
   f_Tref = 'x', f_Qref = 'x'
   f_uocn = 'x' , f_vocn = 'x'
-/
+/

input.nml

@@ -20,3 +20,9 @@
     cf_compliance = .true.
 /
 
+&fms2_io_nml
+    ncchksz = 4194304
+    netcdf_default_format = "netcdf4"
+    deflate_level = 4
+    shuffle = .true.
+/

manifests/exe.yaml

@@ -2,7 +2,7 @@ format: yamanifest
 version: 1.0
 ---
 work/access-om3-MOM6-CICE6:
-  fullpath: /g/data/ik11/spack/0.21.2/opt/linux-rocky8-cascadelake/intel-2021.10.0/access-om3-69f719964a27e23deae3923d60af01a081cc3fc0_main-fkzzqnp/bin/access-om3-MOM6-CICE6
+  fullpath: /g/data/ik11/spack/0.21.2/opt/linux-rocky8-cascadelake/intel-2021.10.0/access-om3-63ed4a4777aeac0c62720ddbe7f85e4ed16f82eb_main-xekfuu4/bin/access-om3-MOM6-CICE6
   hashes:
-    binhash: 2b81c015c844fe20b7f03eb463c2badf
-    md5: bf9a7bdcc4c1e6fa94dc248431b9aa3d
+    binhash: c844e55e3f2b6cf2721df80c4188bcd4
+    md5: 4c1c67bc68526dd70db43175f117c1a5

nuopc.runconfig

@@ -116,12 +116,12 @@ ALLCOMP_attributes::
      hostname = gadi
      ice_ncat = 5
      mediator_present = true
-     mesh_atm = ./input/access-om2-1deg-nomask-ESMFmesh.nc
+     mesh_atm = ./INPUT/access-om2-1deg-nomask-ESMFmesh.nc
      mesh_glc = UNSET
-     mesh_ice = ./input/access-om2-1deg-ESMFmesh.nc
+     mesh_ice = ./INPUT/access-om2-1deg-ESMFmesh.nc
      mesh_lnd = UNSET
-     mesh_mask = ./input/access-om2-1deg-ESMFmesh.nc
-     mesh_ocn = ./input/access-om2-1deg-ESMFmesh.nc
+     mesh_mask = ./INPUT/access-om2-1deg-ESMFmesh.nc
+     mesh_ocn = ./INPUT/access-om2-1deg-ESMFmesh.nc
      model_version = unknown
      ocn2glc_coupling = .false.
      ocn2glc_levels = 1:10:19:26:30:33:35
@@ -329,7 +329,7 @@ OCN_attributes::
 
 ROF_attributes::
      Verbosity = off
-     mesh_rof = ./input/access-om2-1deg-nomask-ESMFmesh.nc
+     mesh_rof = ./INPUT/access-om2-1deg-nomask-ESMFmesh.nc
 ::
 
 WAV_attributes::
@@ -361,18 +361,6 @@ ATM_modelio::
      pio_typename = netcdf
 ::
 
-LND_modelio::
-     diro = ./log
-     logfile = lnd.log
-     pio_async_interface = .false.
-     pio_netcdf_format = 64bit_offset
-     pio_numiotasks = -99
-     pio_rearranger = 2
-     pio_root = 1
-     pio_stride = 48
-     pio_typename = netcdf
-::
-
 ICE_modelio::
      diro = ./log
      logfile = ice.log
@@ -388,37 +376,25 @@ ICE_modelio::
 OCN_modelio::
      diro = ./log
      logfile = ocn.log
-     pio_async_interface = .false.
-     pio_netcdf_format = 64bit_offset
-     pio_numiotasks = -99
-     pio_rearranger = 2
-     pio_root = 1
-     pio_stride = 48
-     pio_typename = netcdf
+     pio_async_interface = .false. #not used
+     pio_netcdf_format = 64bit_offset #not used
+     pio_numiotasks = -99 #not used
+     pio_rearranger = 2 #not used
+     pio_root = 1 #not used
+     pio_stride = 48 #not used
+     pio_typename = netcdf #not used, set in input.nml
 ::
 
 ROF_modelio::
      diro = ./log
      logfile = rof.log
-     pio_async_interface = .false.
-     pio_netcdf_format = 64bit_offset
-     pio_numiotasks = -99
-     pio_rearranger = 2
-     pio_root = 1
-     pio_stride = 48
-     pio_typename = netcdf
-::
-
-GLC_modelio::
-     diro = ./log
-     logfile = glc/log
-     pio_async_interface = .false.
-     pio_netcdf_format = 64bit_offset
-     pio_numiotasks = -99
-     pio_rearranger = 2
-     pio_root = 1
-     pio_stride = 48
-     pio_typename = netcdf
+     pio_async_interface = .false. #not used
+     pio_netcdf_format = 64bit_offset #not used
+     pio_numiotasks = -99 #not used
+     pio_rearranger = 2 #not used
+     pio_root = 1 #not used
+     pio_stride = 48 #not used
+     pio_typename = netcdf #not used
 ::
 
 WAV_modelio::
@@ -433,18 +409,6 @@ WAV_modelio::
      pio_typename = netcdf
 ::
 
-ESP_modelio::
-     diro = ./log
-     logfile = esp.log
-     pio_async_interface = .false.
-     pio_netcdf_format = 64bit_offset
-     pio_numiotasks = -99
-     pio_rearranger = -99
-     pio_root = -99
-     pio_stride = -99
-     pio_typename = nothing
-::
-
 DRV_modelio::
      diro = ./log
      logfile = drv.log