Global-workflow (AR) Generic updates for Gaea C5

env/GAEA.env

@@ -0,0 +1,39 @@
+#! /usr/bin/env bash
+
+if [[ $# -ne 1 ]]; then
+
+    echo "Must specify an input argument to set runtime environment variables!"
+    echo "argument can be any one of the following:"
+    echo "fcst atmos_products"
+    exit 1
+
+fi
+
+step=$1
+
+export launcher="srun -l --export=ALL"
+export mpmd_opt="--multi-prog --output=mpmd.%j.%t.out"
+
+ulimit -s unlimited
+ulimit -a
+
+if [[ "${step}" = "fcst" ]]; then
+
+    if [[ "${CDUMP}" =~ "gfs" ]]; then
+        nprocs="npe_${step}_gfs"
+        ppn="npe_node_${step}_gfs" || ppn="npe_node_${step}"
+    else
+        nprocs="npe_${step}"
+        ppn="npe_node_${step}"
+    fi
+    (( nnodes = (${!nprocs}+${!ppn}-1)/${!ppn} ))
+    (( ntasks = nnodes*${!ppn} ))
+    # With ESMF threading, the model wants to use the full node
+    export APRUN_UFS="${launcher} -n ${ntasks}"
+    unset nprocs ppn nnodes ntasks
+
+elif [[ "${step}" = "atmos_products" ]]; then
+
+    export USE_CFP="YES"  # Use MPMD for downstream product generation
+
+fi

modulefiles/module_base.gaea.lua

@@ -0,0 +1,52 @@
+help([[
+Load environment to run GFS on Gaea
+]])
+
+local spack_mod_path=(os.getenv("spack_mod_path") or "None")
+local spack_gsi_mod_path=(os.getenv("spack_gsi_mod_path") or "None")
+prepend_path("MODULEPATH", spack_mod_path)
+prepend_path("MODULEPATH", spack_gsi_mod_path)
+
+load(pathJoin("stack-intel", (os.getenv("stack_intel_ver") or "None")))
+load(pathJoin("stack-cray-mpich", (os.getenv("stack_cray_mpich_ver") or "None")))
+load(pathJoin("python", (os.getenv("python_ver") or "None")))
+
+--load(pathJoin("hpss", (os.getenv("hpss_ver") or "None")))
+--load(pathJoin("gempak", (os.getenv("gempak_ver") or "None")))
+--load(pathJoin("ncl", (os.getenv("ncl_ver") or "None")))
+load(pathJoin("jasper", (os.getenv("jasper_ver") or "None")))
+load(pathJoin("libpng", (os.getenv("libpng_ver") or "None")))
+load(pathJoin("cdo", (os.getenv("cdo_ver") or "None")))
+--load(pathJoin("R", (os.getenv("R_ver") or "None")))
+--load(pathJoin("perl", (os.getenv("perl_ver") or "None")))
+
+load(pathJoin("hdf5", (os.getenv("hdf5_ver") or "None")))
+load(pathJoin("netcdf-c", (os.getenv("netcdf_c_ver") or "None")))
+load(pathJoin("netcdf-fortran", (os.getenv("netcdf_fortran_ver") or "None")))
+
+load(pathJoin("nco", (os.getenv("nco_ver") or "None")))
+load(pathJoin("prod_util", (os.getenv("prod_util_ver") or "None")))
+load(pathJoin("grib-util", (os.getenv("grib_util_ver") or "None")))
+load(pathJoin("g2tmpl", (os.getenv("g2tmpl_ver") or "None")))
+load(pathJoin("gsi-ncdiag", (os.getenv("gsi_ncdiag_ver") or "None")))
+load(pathJoin("crtm", (os.getenv("crtm_ver") or "None")))
+load(pathJoin("bufr", (os.getenv("bufr_ver") or "None")))
+load(pathJoin("wgrib2", (os.getenv("wgrib2_ver") or "None")))
+load(pathJoin("py-netcdf4", (os.getenv("py_netcdf4_ver") or "None")))
+load(pathJoin("py-pyyaml", (os.getenv("py_pyyaml_ver") or "None")))
+load(pathJoin("py-jinja2", (os.getenv("py_jinja2_ver") or "None")))
+load(pathJoin("py-pandas", (os.getenv("py_pandas_ver") or "None")))
+load(pathJoin("py-python-dateutil", (os.getenv("py_python_dateutil_ver") or "None")))
+load(pathJoin("met", (os.getenv("met_ver") or "None")))
+load(pathJoin("metplus", (os.getenv("metplus_ver") or "None")))
+load(pathJoin("py-xarray", (os.getenv("py_xarray_ver") or "None")))
+
+setenv("WGRIB2","wgrib2")
+setenv("UTILROOT",(os.getenv("prod_util_ROOT") or "None"))
+--prepend_path("MODULEPATH", pathJoin("/gpfs/f5/epic/proj-shared/global/glopara/data/git/prepobs/v" .. (os.getenv("prepobs_run_ver") or "None"), "modulefiles"))
+prepend_path("MODULEPATH", pathJoin("/gpfs/f5/epic/proj-shared/global/glopara/data/git/prepobs/feature-GFSv17_com_reorg_log_update/modulefiles"))
+load(pathJoin("prepobs", os.getenv("prepobs_run_ver")))
+prepend_path("MODULEPATH", pathJoin("/gpfs/f5/epic/proj-shared/global/glopara/data/git/Fit2Obs/v" .. (os.getenv("fit2obs_ver") or "None"), "modulefiles"))
+load(pathJoin("fit2obs", os.getenv("fit2obs_ver")))
+
+whatis("Description: GFS run setup environment")

modulefiles/module_gwsetup.gaea.lua

@@ -0,0 +1,21 @@
+help([[
+Load environment to run GFS workflow setup scripts on Gaea
+]])
+
+prepend_path("MODULEPATH", "/ncrc/proj/epic/rocoto/modulefiles")
+load(pathJoin("rocoto"))
+
+prepend_path("MODULEPATH", "/ncrc/proj/epic/spack-stack/spack-stack-1.6.0/envs/unified-env/install/modulefiles/Core")
+
+local stack_intel_ver=os.getenv("stack_intel_ver") or "2023.1.0"
+local python_ver=os.getenv("python_ver") or "3.10.13"
+
+load(pathJoin("stack-intel", stack_intel_ver))
+load(pathJoin("python", python_ver))
+load("py-jinja2")
+load("py-pyyaml")
+load("py-numpy")
+local git_ver=os.getenv("git_ver") or "2.35.2"
+load(pathJoin("git", git_ver))
+
+whatis("Description: GFS run setup environment")

parm/config/gfs/config.aero

@@ -20,6 +20,9 @@ case ${machine} in
   "WCOSS2")
     AERO_INPUTS_DIR="/lfs/h2/emc/global/noscrub/emc.global/data/gocart_emissions"
     ;;
+  "GAEA")
+    AERO_INPUTS_DIR="/gpfs/f5/epic/proj-shared/global/glopara/data/gocart_emissions"
+    ;;
   "JET")
     AERO_INPUTS_DIR="/lfs4/HFIP/hfv3gfs/glopara/data/gocart_emissions"
     ;;

parm/config/gfs/config.resources

@@ -35,6 +35,7 @@ echo "BEGIN: config.resources"
 case ${machine} in
   "WCOSS2")   npe_node_max=128;;
   "HERA")     npe_node_max=40;;
+  "GAEA")     npe_node_max=128;;
   "ORION")    npe_node_max=40;;
   "HERCULES") npe_node_max=80;;
   "JET")

sorc/link_workflow.sh

@@ -70,6 +70,7 @@ case "${machine}" in
   "hercules") FIX_DIR="/work/noaa/global/glopara/fix" ;;
   "jet")      FIX_DIR="/lfs4/HFIP/hfv3gfs/glopara/git/fv3gfs/fix" ;;
   "s4")       FIX_DIR="/data/prod/glopara/fix" ;;
+  "gaea")     FIX_DIR="/gpfs/f5/epic/proj-shared/global/glopara/data/fix" ;;
   *)
     echo "FATAL: Unknown target machine ${machine}, couldn't set FIX_DIR"
     exit 1

ush/detect_machine.sh

@@ -21,10 +21,8 @@ case $(hostname -f) in
   dlogin0[1-9].dogwood.wcoss2.ncep.noaa.gov) MACHINE_ID=wcoss2 ;; ### dogwood01-9
   dlogin10.dogwood.wcoss2.ncep.noaa.gov)     MACHINE_ID=wcoss2 ;; ### dogwood10
 
-  gaea9)               MACHINE_ID=gaea ;; ### gaea9
-  gaea1[0-6])          MACHINE_ID=gaea ;; ### gaea10-16
-  gaea9.ncrc.gov)      MACHINE_ID=gaea ;; ### gaea9
-  gaea1[0-6].ncrc.gov) MACHINE_ID=gaea ;; ### gaea10-16
+  gaea5[1-8])          MACHINE_ID=gaea ;; ### gaea51-58
+  gaea5[1-8].ncrc.gov) MACHINE_ID=gaea ;; ### gaea51-58
 
   hfe0[1-9]) MACHINE_ID=hera ;; ### hera01-09
   hfe1[0-2]) MACHINE_ID=hera ;; ### hera10-12

ush/module-setup.sh

@@ -70,39 +70,10 @@ elif [[ ${MACHINE_ID} = stampede* ]] ; then
 elif [[ ${MACHINE_ID} = gaea* ]] ; then
     # We are on GAEA.
     if ( ! eval module help > /dev/null 2>&1 ) ; then
-        # We cannot simply load the module command.  The GAEA
-        # /etc/profile modifies a number of module-related variables
-        # before loading the module command.  Without those variables,
-        # the module command fails.  Hence we actually have to source
-        # /etc/profile here.
-        source /etc/profile
-        __ms_source_etc_profile=yes
-    else
-        __ms_source_etc_profile=no
-    fi
-    module purge
-    # clean up after purge
-    unset _LMFILES_
-    unset _LMFILES_000
-    unset _LMFILES_001
-    unset LOADEDMODULES
-    module load modules
-    if [[ -d /opt/cray/ari/modulefiles ]] ; then
-        module use -a /opt/cray/ari/modulefiles
-    fi
-    if [[ -d /opt/cray/pe/ari/modulefiles ]] ; then
-        module use -a /opt/cray/pe/ari/modulefiles
-    fi
-    if [[ -d /opt/cray/pe/craype/default/modulefiles ]] ; then
-        module use -a /opt/cray/pe/craype/default/modulefiles
-    fi
-    if [[ -s /etc/opt/cray/pe/admin-pe/site-config ]] ; then
-        source /etc/opt/cray/pe/admin-pe/site-config
-    fi
-    if [[ "${__ms_source_etc_profile}" == yes ]] ; then
-        source /etc/profile
-        unset __ms_source_etc_profile
+	source /usr/share/lmod/lmod/init/bash
+	source /etc/profile
     fi
+    module reset 
 
 elif [[ ${MACHINE_ID} = expanse* ]]; then
     # We are on SDSC Expanse

versions/build.gaea.ver

@@ -0,0 +1,5 @@
+export stack_intel_ver=2023.1.0
+export stack_cray_mpich_ver=8.1.25
+export spack_env=unified-env
+source "${HOMEgfs:-}/versions/build.spack.ver"
+export spack_mod_path="/ncrc/proj/epic/spack-stack/spack-stack-${spack_stack_ver}/envs/${spack_env}/install/modulefiles/Core"

versions/fix.ver

@@ -18,6 +18,6 @@ export mom6_ver=20231219
 export orog_ver=20231027
 export reg2grb2_ver=20220805
 export sfc_climo_ver=20220805
-export ugwd_ver=20231027
+export ugwd_ver=20220805
 export verif_ver=20220805
 export wave_ver=20240105

versions/run.gaea.ver

@@ -0,0 +1,14 @@
+export stack_intel_ver=2023.1.0
+export stack_cray_mpich_ver=8.1.25
+export spack_env=unified-env
+export spack_gsi_env=gsi-addon-dev
+
+export hpss_ver=hpss
+export ncl_ver=6.6.2
+export R_ver=3.5.0
+export gempak_ver=7.4.2
+export perl_ver=5.38.0
+
+source "${HOMEgfs:-}/versions/run.spack.ver"
+export spack_mod_path="/ncrc/proj/epic/spack-stack/spack-stack-${spack_stack_ver}/envs/${spack_env}/install/modulefiles/Core"
+export spack_gsi_mod_path="/ncrc/proj/epic/spack-stack/spack-stack-${spack_stack_ver}/envs/${spack_gsi_env}/install/modulefiles/Core"

workflow/hosts.py

@@ -15,7 +15,7 @@ class Host:
     """
 
     SUPPORTED_HOSTS = ['HERA', 'ORION', 'JET', 'HERCULES',
-                       'WCOSS2', 'S4', 'CONTAINER', 'AWSPW']
+                       'WCOSS2', 'S4', 'CONTAINER', 'AWSPW', 'GAEA']
 
     def __init__(self, host=None):
 
@@ -49,6 +49,8 @@ def detect(cls):
             machine = 'WCOSS2'
         elif os.path.exists('/data/prod'):
             machine = 'S4'
+        elif os.path.exists('/gpfs/f5'):
+            machine = 'GAEA' 
         elif container is not None:
             machine = 'CONTAINER'
         elif pw_csp is not None:

workflow/hosts/gaea.yaml

@@ -0,0 +1,25 @@
+BASE_GIT: '/gpfs/f5/epic/proj-shared/global/glopara/data/git'
+DMPDIR: '/gpfs/f5/epic/proj-shared/global/glopara/data/dump'
+BASE_CPLIC: '/gpfs/f5/epic/proj-shared/global/glopara/data/ICSDIR/prototype_ICs'
+PACKAGEROOT: '/gpfs/f5/epic/proj-shared/global/glopara/data/nwpara'
+COMROOT: '/gpfs/f5/epic/proj-shared/global/glopara/data/com'
+COMINsyn: '${COMROOT}/gfs/prod/syndat'
+HOMEDIR: '/gpfs/f5/epic/scratch/${USER}'
+STMP: '/gpfs/f5/epic/scratch/${USER}'
+PTMP: '/gpfs/f5/epic/scratch/${USER}'
+NOSCRUB: $HOMEDIR
+ACCOUNT: epic 
+SCHEDULER: slurm
+QUEUE: batch
+QUEUE_SERVICE: batch
+PARTITION_BATCH: cron_c5 
+PARTITION_SERVICE: service
+CHGRP_RSTPROD: 'NO'
+CHGRP_CMD: 'chgrp rstprod'
+HPSSARCH: 'NO'
+HPSS_PROJECT: emc-global
+LOCALARCH: 'NO'
+ATARDIR: '${NOSCRUB}/archive_rotdir/${PSLOT}'
+MAKE_NSSTBUFR: 'NO'
+MAKE_ACFTBUFR: 'NO'
+SUPPORTED_RESOLUTIONS: ['C1152', 'C768', 'C384', 'C192', 'C96', 'C48']