Merge branch 'ufs-community:develop' into text/autodoc

ufs-community · Sep 26, 2024 · 15542b7 · 15542b7
2 parents 2ba7dbf + 1b01c64
commit 15542b7
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diff --git a/.github/CODEOWNERS b/.github/CODEOWNERS
@@ -3,7 +3,7 @@
 
 # These owners will be the default owners for everything in the repo.
 #*       @defunkt
-*       @mkavulich @gsketefian @JeffBeck-NOAA @RatkoVasic-NOAA @BenjaminBlake-NOAA @ywangwof @chan-hoo @panll @christinaholtNOAA @christopherwharrop-noaa @danielabdi-noaa @mark-a-potts @jkbk2004 @willmayfield @dmwright526 @gspetro-NOAA @natalie-perlin @EdwardSnyder-NOAA @MichaelLueken
+*       @mkavulich @gsketefian @JeffBeck-NOAA @RatkoVasic-NOAA @BenjaminBlake-NOAA @ywangwof @chan-hoo @panll @christinaholtNOAA @christopherwharrop-noaa @danielabdi-noaa @mark-a-potts @jkbk2004 @willmayfield @dmwright526 @gspetro-NOAA @natalie-perlin @EdwardSnyder-NOAA @MichaelLueken @rickgrubin-noaa
 
 # Order is important. The last matching pattern has the most precedence.
 # So if a pull request only touches javascript files, only these owners

diff --git a/Externals.cfg b/Externals.cfg
@@ -12,7 +12,7 @@ protocol = git
 repo_url = https://github.com/ufs-community/ufs-weather-model
 # Specify either a branch name or a hash but not both.
 #branch = develop
-hash = b5a1976
+hash = a1143cc
 local_path = sorc/ufs-weather-model
 required = True
 

diff --git a/doc/UsersGuide/BuildingRunningTesting/ContainerQuickstart.rst b/doc/UsersGuide/BuildingRunningTesting/ContainerQuickstart.rst
@@ -81,7 +81,7 @@ On most Level 1 systems, a container named ``ubuntu20.04-intel-ue-1.4.1-srw-dev.
    * - Hera
      - /scratch1/NCEPDEV/nems/role.epic/containers
    * - Jet
-     - /mnt/lfs4/HFIP/hfv3gfs/role.epic/containers
+     - /mnt/lfs5/HFIP/hfv3gfs/role.epic/containers
    * - NOAA Cloud
      - /contrib/EPIC/containers
    * - Orion/Hercules [#fn]_

diff --git a/doc/UsersGuide/BuildingRunningTesting/RunSRW.rst b/doc/UsersGuide/BuildingRunningTesting/RunSRW.rst
@@ -62,7 +62,7 @@ The SRW App requires input files to run. These include static datasets, initial
    * - Hercules
      - /work/noaa/epic/role-epic/contrib/UFS_SRW_data/|data|/input_model_data/
    * - Jet
-     - /mnt/lfs4/HFIP/hfv3gfs/role.epic/UFS_SRW_data/|data|/input_model_data/
+     - /mnt/lfs5/HFIP/hfv3gfs/role.epic/UFS_SRW_data/|data|/input_model_data/
    * - NOAA Cloud
      - /contrib/EPIC/UFS_SRW_data/|data|/input_model_data/
    * - Orion

diff --git a/modulefiles/build_cheyenne_gnu.lua b/modulefiles/build_cheyenne_gnu.lua
diff --git a/modulefiles/build_cheyenne_intel.lua b/modulefiles/build_cheyenne_intel.lua
diff --git a/modulefiles/build_jet_intel.lua b/modulefiles/build_jet_intel.lua
@@ -5,7 +5,7 @@ the NOAA RDHPC machine Jet using Intel-2021.5.0
 
 whatis([===[Loads libraries needed for building the UFS SRW App on Jet ]===])
 
-prepend_path("MODULEPATH","/mnt/lfs4/HFIP/hfv3gfs/role.epic/spack-stack/spack-stack-1.6.0/envs/unified-env-rocky8/install/modulefiles/Core")
+prepend_path("MODULEPATH","/contrib/spack-stack/spack-stack-1.6.0/envs/unified-env-rocky8/install/modulefiles/Core")
 
 load("stack-intel/2021.5.0")
 load("stack-intel-oneapi-mpi/2021.5.1")

diff --git a/modulefiles/build_noaacloud_intel.lua b/modulefiles/build_noaacloud_intel.lua
@@ -5,11 +5,12 @@ the NOAA cloud using Intel-oneapi
 
 whatis([===[Loads libraries needed for building the UFS SRW App on NOAA cloud ]===])
 
-prepend_path("MODULEPATH", "/contrib/spack-stack/spack-stack-1.6.0/envs/unified-env/install/modulefiles/Core")
+prepend_path("MODULEPATH", "/contrib/spack-stack-rocky8/spack-stack-1.6.0/envs/ue-intel/install/modulefiles/Core")
 prepend_path("MODULEPATH", "/apps/modules/modulefiles")
-prepend_path("PATH", "/contrib/EPIC/bin")
+load("gnu")
 load("stack-intel")
 load("stack-intel-oneapi-mpi")
+unload("gnu")
 load("cmake/3.23.1") 
 
 load("srw_common")
diff --git a/modulefiles/tasks/cheyenne/aqm_ics.local.lua b/modulefiles/tasks/cheyenne/aqm_ics.local.lua
diff --git a/modulefiles/tasks/cheyenne/aqm_lbcs.local.lua b/modulefiles/tasks/cheyenne/aqm_lbcs.local.lua
diff --git a/modulefiles/tasks/cheyenne/fire_emission.local.lua b/modulefiles/tasks/cheyenne/fire_emission.local.lua
diff --git a/modulefiles/tasks/cheyenne/nexus_emission.local.lua b/modulefiles/tasks/cheyenne/nexus_emission.local.lua
diff --git a/modulefiles/tasks/cheyenne/nexus_gfs_sfc.local.lua b/modulefiles/tasks/cheyenne/nexus_gfs_sfc.local.lua
diff --git a/modulefiles/tasks/cheyenne/nexus_post_split.local.lua b/modulefiles/tasks/cheyenne/nexus_post_split.local.lua
diff --git a/modulefiles/tasks/cheyenne/plot_allvars.local.lua b/modulefiles/tasks/cheyenne/plot_allvars.local.lua
diff --git a/modulefiles/tasks/cheyenne/point_source.local.lua b/modulefiles/tasks/cheyenne/point_source.local.lua
diff --git a/modulefiles/tasks/cheyenne/pre_post_stat.local.lua b/modulefiles/tasks/cheyenne/pre_post_stat.local.lua
diff --git a/modulefiles/tasks/cheyenne/python_srw.lua b/modulefiles/tasks/cheyenne/python_srw.lua
diff --git a/modulefiles/tasks/cheyenne/run_vx.local.lua b/modulefiles/tasks/cheyenne/run_vx.local.lua
diff --git a/modulefiles/wflow_cheyenne.lua b/modulefiles/wflow_cheyenne.lua
diff --git a/modulefiles/wflow_noaacloud.lua b/modulefiles/wflow_noaacloud.lua
@@ -10,13 +10,6 @@ load("rocoto")
 
 load("conda")
 
-prepend_path("PATH","/contrib/EPIC/bin")
-
--- Add missing libstdc binary for Azure
-if os.getenv("PW_CSP") == "azure" then
-   setenv("LD_PRELOAD","/opt/nvidia/nsight-systems/2023.1.2/host-linux-x64/libstdc++.so.6")
-end
-
 if mode() == "load" then
    LmodMsgRaw([===[Please do the following to activate conda:
        > conda activate srw_app

diff --git a/tests/WE2E/machine_suites/comprehensive.cheyenne b/tests/WE2E/machine_suites/comprehensive.cheyenne
diff --git a/tests/WE2E/machine_suites/comprehensive.derecho b/tests/WE2E/machine_suites/comprehensive.derecho
@@ -9,9 +9,9 @@
 2020_jan_cold_blast
 community
 custom_ESGgrid
-#custom_ESGgrid_Central_Asia_3km
+custom_ESGgrid_Central_Asia_3km
 custom_ESGgrid_IndianOcean_6km
-#custom_ESGgrid_NewZealand_3km
+custom_ESGgrid_NewZealand_3km
 custom_ESGgrid_Peru_12km
 custom_ESGgrid_SF_1p1km
 custom_GFDLgrid__GFDLgrid_USE_NUM_CELLS_IN_FILENAMES_eq_FALSE
@@ -20,8 +20,8 @@ deactivate_tasks
 get_from_AWS_ics_GEFS_lbcs_GEFS_fmt_grib2_2022040400_ensemble_2mems
 get_from_NOMADS_ics_FV3GFS_lbcs_FV3GFS
 grid_CONUS_25km_GFDLgrid_ics_FV3GFS_lbcs_FV3GFS_suite_GFS_v16
-#grid_CONUS_3km_GFDLgrid_ics_FV3GFS_lbcs_FV3GFS_suite_RRFS_v1beta
-#grid_RRFS_AK_13km_ics_FV3GFS_lbcs_FV3GFS_suite_GFS_v16_plot
+grid_CONUS_3km_GFDLgrid_ics_FV3GFS_lbcs_FV3GFS_suite_RRFS_v1beta
+grid_RRFS_AK_13km_ics_FV3GFS_lbcs_FV3GFS_suite_GFS_v16_plot
 grid_RRFS_AK_3km_ics_FV3GFS_lbcs_FV3GFS_suite_HRRR
 grid_RRFS_CONUS_13km_ics_FV3GFS_lbcs_FV3GFS_suite_RAP
 grid_RRFS_CONUS_13km_ics_FV3GFS_lbcs_FV3GFS_suite_GFS_v16_plot

diff --git a/tests/WE2E/machine_suites/coverage.cheyenne b/tests/WE2E/machine_suites/coverage.cheyenne
diff --git a/ush/machine/cheyenne.yaml b/ush/machine/cheyenne.yaml
diff --git a/ush/machine/jet.yaml b/ush/machine/jet.yaml
@@ -2,11 +2,11 @@ platform:
   WORKFLOW_MANAGER: rocoto
   NCORES_PER_NODE: 24
   SCHED: slurm
-  TEST_CCPA_OBS_DIR: /mnt/lfs4/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/obs_data/ccpa/proc
-  TEST_MRMS_OBS_DIR: /mnt/lfs4/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/obs_data/mrms/proc
-  TEST_NDAS_OBS_DIR: /mnt/lfs4/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/obs_data/ndas/proc
-  TEST_NOHRSC_OBS_DIR: /mnt/lfs4/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/obs_data/nohrsc/proc
-  DOMAIN_PREGEN_BASEDIR: /mnt/lfs4/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/FV3LAM_pregen
+  TEST_CCPA_OBS_DIR: /mnt/lfs5/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/obs_data/ccpa/proc
+  TEST_MRMS_OBS_DIR: /mnt/lfs5/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/obs_data/mrms/proc
+  TEST_NDAS_OBS_DIR: /mnt/lfs5/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/obs_data/ndas/proc
+  TEST_NOHRSC_OBS_DIR: /mnt/lfs5/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/obs_data/nohrsc/proc
+  DOMAIN_PREGEN_BASEDIR: /mnt/lfs5/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/FV3LAM_pregen
   PARTITION_DEFAULT: sjet,vjet,kjet,xjet
   QUEUE_DEFAULT: batch
   PARTITION_FCST: xjet
@@ -21,17 +21,17 @@ platform:
   SCHED_NATIVE_CMD: --export=NONE
   SCHED_NATIVE_CMD_HPSS: -n 1 --export=NONE
   PRE_TASK_CMDS: '{ ulimit -s unlimited; ulimit -a; }'
-  TEST_EXTRN_MDL_SOURCE_BASEDIR: /mnt/lfs4/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/input_model_data
-  TEST_PREGEN_BASEDIR: /mnt/lfs4/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/FV3LAM_pregen
-  TEST_ALT_EXTRN_MDL_SYSBASEDIR_ICS: /mnt/lfs4/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/dummy_FV3GFS_sys_dir
-  TEST_ALT_EXTRN_MDL_SYSBASEDIR_LBCS: /mnt/lfs4/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/dummy_FV3GFS_sys_dir
-  TEST_VX_FCST_INPUT_BASEDIR: '{{ "/mnt/lfs4/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/output_data/fcst_" }}{{ "ens" if (global.NUM_ENS_MEMBERS > 0) else "det" }}{{ "/{{workflow.PREDEF_GRID_NAME}}" }}{% raw %}{% endraw %}'
-  FIXaer: /mnt/lfs4/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/fix/fix_aer
-  FIXgsm: /mnt/lfs4/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/fix/fix_am
-  FIXlut: /mnt/lfs4/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/fix/fix_lut
-  FIXorg: /mnt/lfs4/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/fix/fix_orog
-  FIXsfc: /mnt/lfs4/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/fix/fix_sfc_climo
-  FIXshp: /mnt/lfs4/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/NaturalEarth
+  TEST_EXTRN_MDL_SOURCE_BASEDIR: /mnt/lfs5/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/input_model_data
+  TEST_PREGEN_BASEDIR: /mnt/lfs5/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/FV3LAM_pregen
+  TEST_ALT_EXTRN_MDL_SYSBASEDIR_ICS: /mnt/lfs5/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/dummy_FV3GFS_sys_dir
+  TEST_ALT_EXTRN_MDL_SYSBASEDIR_LBCS: /mnt/lfs5/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/dummy_FV3GFS_sys_dir
+  TEST_VX_FCST_INPUT_BASEDIR: '{{ "/mnt/lfs5/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/output_data/fcst_" }}{{ "ens" if (global.NUM_ENS_MEMBERS > 0) else "det" }}{{ "/{{workflow.PREDEF_GRID_NAME}}" }}{% raw %}{% endraw %}'
+  FIXaer: /mnt/lfs5/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/fix/fix_aer
+  FIXgsm: /mnt/lfs5/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/fix/fix_am
+  FIXlut: /mnt/lfs5/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/fix/fix_lut
+  FIXorg: /mnt/lfs5/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/fix/fix_orog
+  FIXsfc: /mnt/lfs5/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/fix/fix_sfc_climo
+  FIXshp: /mnt/lfs5/HFIP/hfv3gfs/role.epic/UFS_SRW_data/develop/NaturalEarth
   EXTRN_MDL_DATA_STORES: hpss aws nomads
 data:
   ics_lbcs: