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ZStd with Netcdf #2444

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ZStd with Netcdf #2444

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96b2de5
Temporary testing modulefile update for WCOSS2
BrianCurtis-NOAA Sep 23, 2024
6c87d35
Initial WCOSS2 testing, test changes
BrianCurtis-NOAA Sep 24, 2024
a7195bb
IDEFLATE=1 -> ZSTANDARD_LEVEL=5 and add acorn/wcoss2 to tests using Z…
BrianCurtis-NOAA Sep 27, 2024
65e1847
Modify model_configure files to bring in zstandard_level
BrianCurtis-NOAA Sep 30, 2024
5e6e7d7
Address merge conflicts
BrianCurtis-NOAA Oct 16, 2024
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28 changes: 21 additions & 7 deletions modulefiles/ufs_wcoss2.intel.lua
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Original file line number Diff line number Diff line change
Expand Up @@ -22,11 +22,11 @@ local ufs_modules = {
{["jasper"] = "2.0.25"},
{["zlib"] = "1.2.11"},
{["libpng"] = "1.6.37"},
{["hdf5-C"] = "1.14.0"},
{["netcdf-C"] = "4.9.2"},
{["pio-C"] = "2.5.10"},
{["esmf-C"] = "8.6.0"},
{["fms"] = "2024.01"},
-- {["hdf5-C"] = "1.14.0"},
-- {["netcdf-C"] = "4.9.2"},
-- {["pio-C"] = "2.5.10"},
-- {["esmf-C"] = "8.6.0"},
{["fms"] = "2024.01"},
{["bacio"] = "2.4.1"},
{["crtm"] = "2.4.0"},
{["g2"] = "3.5.1"},
Expand All @@ -35,8 +35,8 @@ local ufs_modules = {
{["sp"] = "2.3.3"},
{["w3emc"] = "2.12.0"},
{["gftl-shared"] = "1.6.1"},
{["mapl-C"] = "2.40.3"},
{["pnetcdf-C"] = "1.12.2"},
-- {["mapl-C"] = "2.40.3"},
-- {["pnetcdf-C"] = "1.12.2"},
{["scotch"] = "7.0.4"},
}

Expand All @@ -46,6 +46,20 @@ for i = 1, #ufs_modules do
load(pathJoin(name, os.getenv(env_version_name) or default_version))
end
end
--append_path("MODULEPATH", "/lfs/h2/emc/eib/save/hang.lei/forgdit/nco_wcoss2/install/modulefiles/mpi/intel/19.1.3.304/cray-mpich/8.1.9")
--append_path("MODULEPATH", "/lfs/h2/emc/eib/noscrub/hang.lei/c-libs/modulefiles")
append_path("MODULEPATH", "/lfs/h2/emc/eib/save/hang.lei/forgdit/nco_wcoss2/install2/modulefiles/compiler/intel/19.1.3.304")
append_path("MODULEPATH", "/lfs/h2/emc/eib/save/hang.lei/forgdit/nco_wcoss2/install2/modulefiles/mpi/intel/19.1.3.304/cray-mpich/8.1.12")
load("zstd/1.5.0")
load("hdf5/1.14.0")
load("pnetcdf/1.12.2")
load("netcdf/4.9.2")
load("pio/2.5.10")
load("esmf/8.6.0")
load("mapl/2.40.3-esmf-8.6.0")

--append_path("MODULEPATH","/apps/ops/para/libs/modulefiles/mpi/intel/19.1.3.304/cray-mpich/8.1.9/")
--load("fms/2024.01")

setenv("CC", "cc")
setenv("CXX", "CC")
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1 change: 1 addition & 0 deletions tests/parm/model_configure_atmaq.IN
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Expand Up @@ -8,6 +8,7 @@ nhours_fcst: @[FHMAX]
dt_atmos: @[DT_ATMOS]
restart_interval: @[RESTART_INTERVAL]
write_dopost: @[WRITE_DOPOST]
zstandard_level: @[ZSTANDARD_LEVEL]
ideflate: @[IDEFLATE]
quantize_mode: 'quantize_bitround'
quantize_nsd: @[QUANTIZE_NSD]
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1 change: 1 addition & 0 deletions tests/parm/model_configure_fire.IN
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Expand Up @@ -14,6 +14,7 @@ memuse_verbose: .false.
restart_interval: @[RESTART_INTERVAL]
output_1st_tstep_rst: .false.
write_dopost: @[WRITE_DOPOST]
zstandard_level: @[ZSTANDARD_LEVEL]
ideflate: @[IDEFLATE]
nbits: 0
ichunk2d: -1
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1 change: 1 addition & 0 deletions tests/parm/model_configure_hafs.IN
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Expand Up @@ -21,6 +21,7 @@ jchunk2d: -1
ichunk3d: -1
jchunk3d: -1
kchunk3d: -1
zstandard_level: @[ZSTANDARD_LEVEL]
ideflate: @[IDEFLATE]
quantize_mode: 'quantize_bitround'
quantize_nsd: @[QUANTIZE_NSD]
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2 changes: 2 additions & 0 deletions tests/parm/model_configure_regional_rrfs_a.IN
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Expand Up @@ -9,6 +9,8 @@ dt_atmos: 60
cpl: .false.
restart_interval: @[RESTART_INTERVAL]
quilting: @[QUILTING]
zstandard_level: @[ZSTANDARD_LEVEL]
ideflate: @[IDEFLATE]


#
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1 change: 1 addition & 0 deletions tests/parm/model_configure_regional_stoch.IN
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Expand Up @@ -18,6 +18,7 @@ write_dopost: @[WRITE_DOPOST]
num_files: 2
filename_base: 'dyn' 'phy'
output_file: @[OUTPUT_FILE]
zstandard_level: @[ZSTANDARD_LEVEL]
ideflate: @[IDEFLATE]

output_grid: 'lambert_conformal'
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1 change: 1 addition & 0 deletions tests/parm/model_configure_rrfs_conus13km.IN
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Expand Up @@ -19,6 +19,7 @@ write_dopost: @[WRITE_DOPOST]
num_files: @[NUM_FILES]
filename_base: @[FILENAME_BASE]
output_file: @[OUTPUT_FILE]
zstandard_level: @[ZSTANDARD_LEVEL]
ideflate: @[IDEFLATE]
quantize_mode: 'quantize_bitround'
quantize_nsd: @[QUANTIZE_NSD]
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19 changes: 17 additions & 2 deletions tests/test_changes.list
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@@ -1,2 +1,17 @@
datm_cdeps_lm4_gswp3 intel
datm_cdeps_lm4_gswp3_rst intel
cpld_control_p8_mixedmode intel
cpld_control_p8 intel
cpld_control_p8.v2.sfc intel
cpld_restart_p8 intel
cpld_control_qr_p8 intel
cpld_restart_qr_p8 intel
cpld_2threads_p8 intel
cpld_decomp_p8 intel
cpld_mpi_p8 intel
cpld_control_ciceC_p8 intel
cpld_bmark_p8 intel
cpld_restart_bmark_p8 intel
cpld_s2sa_p8 intel
cpld_control_p8_faster intel
atmaero_control_p8 intel
atmaero_control_p8_rad intel
atmaero_control_p8_rad_micro intel
2 changes: 1 addition & 1 deletion tests/tests/control_c768
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Expand Up @@ -46,7 +46,7 @@ export IAER=5111
export IOVR=3
export IMO=3072
export JMO=1536
export IDEFLATE=1
export ZSTANDARD_LEVEL=5
export QUANTIZE_NSD=14
export ICHUNK3D=${IMO}
export JCHUNK3D=${JMO}
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2 changes: 1 addition & 1 deletion tests/tests/control_debug_p8
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Expand Up @@ -97,6 +97,6 @@ export DOGP_SGS_CNV=.true.

export SATMEDMF=.true.

if [[ " hera orion hercules jet " =~ " ${MACHINE_ID} " ]] ; then
if [[ " hera orion hercules jet acorn wcoss2 " =~ " ${MACHINE_ID} " ]] ; then
ZSTANDARD_LEVEL=5
fi
2 changes: 1 addition & 1 deletion tests/tests/control_p8
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Expand Up @@ -138,6 +138,6 @@ export DOGP_SGS_CNV=.true.

export SATMEDMF=.true.

if [[ " hera orion hercules jet " =~ " ${MACHINE_ID} " ]] ; then
if [[ " hera orion hercules jet acorn wcoss2 " =~ " ${MACHINE_ID} " ]] ; then
ZSTANDARD_LEVEL=5
fi
2 changes: 1 addition & 1 deletion tests/tests/control_p8.v2.sfc
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Expand Up @@ -153,6 +153,6 @@ export DOGP_SGS_CNV=.true.

export SATMEDMF=.true.

if [[ " hera orion hercules gaea jet " =~ " ${MACHINE_ID} " ]] ; then
if [[ " hera orion hercules gaea jet acorn wcoss2 " =~ " ${MACHINE_ID} " ]] ; then
ZSTANDARD_LEVEL=5
fi
2 changes: 1 addition & 1 deletion tests/tests/control_wam
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Expand Up @@ -106,6 +106,6 @@ export DIAG_TABLE=diag_table_wam

export INPUT_NML=wam_v17.nml.IN

if [[ " hera orion hercules gaea jet " =~ " ${MACHINE_ID} " ]] ; then
if [[ " hera orion hercules gaea jet acorn wcoss2 " =~ " ${MACHINE_ID} " ]] ; then
ZSTANDARD_LEVEL=5
fi
2 changes: 1 addition & 1 deletion tests/tests/control_wam_debug
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Expand Up @@ -107,6 +107,6 @@ export DIAG_TABLE=diag_table_wam

export INPUT_NML=wam_v17.nml.IN

if [[ " hera orion hercules gaea jet " =~ " ${MACHINE_ID} " ]] ; then
if [[ " hera orion hercules gaea jet acorn wcoss2 " =~ " ${MACHINE_ID} " ]] ; then
ZSTANDARD_LEVEL=5
fi
2 changes: 1 addition & 1 deletion tests/tests/control_wrtGauss_netcdf_parallel
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Expand Up @@ -34,7 +34,7 @@ export WRITE_DOPOST=.true.
export IAER=5111
export IOVR=3
export OUTPUT_FILE="'netcdf_parallel' 'netcdf_parallel'"
export IDEFLATE=1
export ZSTANDARD_LEVEL=5
export QUANTIZE_NSD=14
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export FV3_RUN=control_run.IN
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2 changes: 1 addition & 1 deletion tests/tests/control_wrtGauss_netcdf_parallel_debug
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Expand Up @@ -30,7 +30,7 @@ export NSTF_NAME='2,0,0,0,0'
export IAER=5111
export IOVR=3
export OUTPUT_FILE="'netcdf_parallel' 'netcdf_parallel'"
export IDEFLATE=1
export ZSTANDARD_LEVEL=5
export QUANTIZE_NSD=14
export OUTPUT_FH="0 1"

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2 changes: 1 addition & 1 deletion tests/tests/conus13km_control
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Expand Up @@ -30,6 +30,6 @@ export RESTART_INTERVAL=1
export QUILTING_RESTART=.false.
export USE_MERRA2=.true.

if [[ " hera orion hercules jet " =~ " ${MACHINE_ID} " ]] ; then
if [[ " hera orion hercules jet acorn wcoss2 " =~ " ${MACHINE_ID} " ]] ; then
ZSTANDARD_LEVEL=5
fi
1 change: 0 additions & 1 deletion tests/tests/cpld_regional_atm_fbh
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Expand Up @@ -48,7 +48,6 @@ export NUM_FILES=2
export FILENAME_BASE="'dyn' 'phy'"
export OUTPUT_FILE="'netcdf' 'netcdf'"
export WRITE_DOPOST=.false.
export IDEFLATE=0
export OUTPUT_GRID="'lambert_conformal'"
export CEN_LON=-105.6041
export CEN_LAT=39.01736
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2 changes: 1 addition & 1 deletion tests/tests/dependency_unmet
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Expand Up @@ -81,6 +81,6 @@ export FV3_RUN=control_run.IN
export CCPP_SUITE=FV3_GFS_v17_p8
export INPUT_NML=global_control.nml.IN

if [[ " hera orion hercules jet " =~ " ${MACHINE_ID} " ]] ; then
if [[ " hera orion hercules jet acorn wcoss2 " =~ " ${MACHINE_ID} " ]] ; then
ZSTANDARD_LEVEL=5
fi
2 changes: 1 addition & 1 deletion tests/tests/fail_to_run
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Expand Up @@ -84,6 +84,6 @@ export FV3_RUN=control_run.IN
export CCPP_SUITE=FV3_GFS_v17_p8
export INPUT_NML=global_control.nml.IN

if [[ " hera orion hercules jet " =~ " ${MACHINE_ID} " ]] ; then
if [[ " hera orion hercules jet acorn wcoss2" =~ " ${MACHINE_ID} " ]] ; then
ZSTANDARD_LEVEL=5
fi
2 changes: 1 addition & 1 deletion tests/tests/gnv1_nested
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Expand Up @@ -83,7 +83,7 @@ export WRITE_NSFLIP=.true.
export FILENAME_BASE="'atm' 'sfc'"
export OUTPUT_GRID=gaussian_grid
export OUTPUT_FILE="'netcdf' 'netcdf'"
export IDEFLATE=1
export ZSTANDARD_LEVEL=5
export ICHUNK2D=-1
export JCHUNK2D=-1
export ICHUNK3D=-1
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2 changes: 1 addition & 1 deletion tests/tests/hafs_global_1nest_atm
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Expand Up @@ -62,7 +62,7 @@ export FHMAX=6
export RESTART_N=${FHMAX}
export atm_omp_num_threads=2
export DT_ATMOS=90
export IDEFLATE=1
export ZSTANDARD_LEVEL=5
export OUTPUT_FH='3 -1'
export OUTPUT_FILE="'netcdf' 'netcdf'"
export SDAY=25
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2 changes: 1 addition & 1 deletion tests/tests/hafs_global_multiple_4nests_atm
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Expand Up @@ -96,7 +96,7 @@ export FHMAX=6
export RESTART_N=${FHMAX}
export atm_omp_num_threads=2
export DT_ATMOS=90
export IDEFLATE=1
export ZSTANDARD_LEVEL=5
export OUTPUT_FH='3 -1'
export OUTPUT_FILE="'netcdf' 'netcdf'"
export SDAY=25
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2 changes: 1 addition & 1 deletion tests/tests/hafs_global_storm_following_1nest_atm
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Expand Up @@ -22,7 +22,7 @@ export RESTART_N=${FHMAX}
export atm_omp_num_threads=2

export DT_ATMOS=180
export IDEFLATE=1
export ZSTANDARD_LEVEL=5
export OUTPUT_FH='3 -1'
export OUTPUT_FILE="'netcdf' 'netcdf'"
export SDAY=25
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2 changes: 1 addition & 1 deletion tests/tests/hafs_regional_1nest_atm
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Expand Up @@ -36,7 +36,7 @@ export FHMAX=6
export RESTART_N=${FHMAX}
export atm_omp_num_threads=2
export DT_ATMOS=90
export IDEFLATE=1
export ZSTANDARD_LEVEL=5
export OUTPUT_FH='3 -1'
export OUTPUT_FILE="'netcdf' 'netcdf'"
export SDAY=25
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2 changes: 1 addition & 1 deletion tests/tests/hafs_regional_atm
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Expand Up @@ -20,7 +20,7 @@ export FHMAX=6
export RESTART_N=${FHMAX}
export atm_omp_num_threads=2
export DT_ATMOS=180
export IDEFLATE=1
export ZSTANDARD_LEVEL=5
export OUTPUT_FH='3 -1'
export OUTPUT_FILE="'netcdf' 'netcdf'"
export SDAY=29
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2 changes: 1 addition & 1 deletion tests/tests/hafs_regional_atm_ocn
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Expand Up @@ -23,7 +23,7 @@ export HAFS=true
export FHMAX=6
export RESTART_N=${FHMAX}
export DT_ATMOS=180
export IDEFLATE=1
export ZSTANDARD_LEVEL=5
export OUTPUT_FH='3 -1'
export OUTPUT_FILE="'netcdf' 'netcdf'"
export SDAY=29
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2 changes: 1 addition & 1 deletion tests/tests/hafs_regional_atm_ocn_wav
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Expand Up @@ -25,7 +25,7 @@ export HAFS=true
export FHMAX=6
export RESTART_N=${FHMAX}
export DT_ATMOS=180
export IDEFLATE=1
export ZSTANDARD_LEVEL=5
export OUTPUT_FH='3 -1'
export OUTPUT_FILE="'netcdf' 'netcdf'"
export SDAY=29
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2 changes: 1 addition & 1 deletion tests/tests/hafs_regional_atm_thompson_gfdlsf
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Expand Up @@ -20,7 +20,7 @@ export RESTART_N=${FHMAX}
export atm_omp_num_threads=2
export DT_ATMOS=180
export DT_INNER=${DT_ATMOS}
export IDEFLATE=1
export ZSTANDARD_LEVEL=5
export OUTPUT_FH='3 -1'
export OUTPUT_FILE="'netcdf' 'netcdf'"
export SDAY=29
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2 changes: 1 addition & 1 deletion tests/tests/hafs_regional_atm_wav
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Expand Up @@ -23,7 +23,7 @@ export HAFS=true
export FHMAX=6
export RESTART_N=${FHMAX}
export DT_ATMOS=180
export IDEFLATE=1
export ZSTANDARD_LEVEL=5
export OUTPUT_FH='3 -1'
export OUTPUT_FILE="'netcdf' 'netcdf'"
export SDAY=29
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2 changes: 1 addition & 1 deletion tests/tests/hafs_regional_docn
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Expand Up @@ -23,7 +23,7 @@ export HAFS=true
export FHMAX=6
export RESTART_N=${FHMAX}
export DT_ATMOS=180
export IDEFLATE=1
export ZSTANDARD_LEVEL=5
export OUTPUT_FH='3 -1'
export OUTPUT_FILE="'netcdf' 'netcdf'"
export SDAY=29
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2 changes: 1 addition & 1 deletion tests/tests/hafs_regional_docn_oisst
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Expand Up @@ -23,7 +23,7 @@ export HAFS=true
export FHMAX=6
export RESTART_N=${FHMAX}
export DT_ATMOS=180
export IDEFLATE=1
export ZSTANDARD_LEVEL=5
export OUTPUT_FH='3 -1'
export OUTPUT_FILE="'netcdf' 'netcdf'"
export SDAY=29
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2 changes: 1 addition & 1 deletion tests/tests/hafs_regional_specified_moving_1nest_atm
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Expand Up @@ -23,7 +23,7 @@ export FHMAX=6
export RESTART_N=${FHMAX}
export atm_omp_num_threads=2
export DT_ATMOS=180
export IDEFLATE=1
export ZSTANDARD_LEVEL=5
export OUTPUT_FH='3 -1'
export OUTPUT_FILE="'netcdf' 'netcdf'"
export SDAY=25
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2 changes: 1 addition & 1 deletion tests/tests/hafs_regional_storm_following_1nest_atm
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Expand Up @@ -36,7 +36,7 @@ export FHMAX=6
export RESTART_N=${FHMAX}
export atm_omp_num_threads=2
export DT_ATMOS=180
export IDEFLATE=1
export ZSTANDARD_LEVEL=5
export OUTPUT_FH='3 -1'
export OUTPUT_FILE="'netcdf' 'netcdf'"
export SDAY=25
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2 changes: 1 addition & 1 deletion tests/tests/hafs_regional_storm_following_1nest_atm_ocn
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Expand Up @@ -23,7 +23,7 @@ export HAFS=true
export FHMAX=6
export RESTART_N=${FHMAX}
export DT_ATMOS=180
export IDEFLATE=1
export ZSTANDARD_LEVEL=5
export OUTPUT_FH='3 -1'
export OUTPUT_FILE="'netcdf' 'netcdf'"
export SDAY=25
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2 changes: 1 addition & 1 deletion tests/tests/hafs_regional_storm_following_1nest_atm_ocn_debug
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Expand Up @@ -21,7 +21,7 @@ export HAFS=true
export FHMAX=1
export RESTART_N=${FHMAX}
export DT_ATMOS=180
export IDEFLATE=1
export ZSTANDARD_LEVEL=5
export OUTPUT_FH='1 -1'
export OUTPUT_FILE="'netcdf' 'netcdf'"
export SDAY=25
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2 changes: 1 addition & 1 deletion tests/tests/hafs_regional_storm_following_1nest_atm_ocn_wav
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Expand Up @@ -25,7 +25,7 @@ export HAFS=true
export FHMAX=6
export RESTART_N=${FHMAX}
export DT_ATMOS=180
export IDEFLATE=1
export ZSTANDARD_LEVEL=5
export OUTPUT_FH='3 -1'
export OUTPUT_FILE="'netcdf' 'netcdf'"
export SDAY=25
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2 changes: 1 addition & 1 deletion tests/tests/hafs_regional_storm_following_1nest_atm_ocn_wav_inline
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Expand Up @@ -25,7 +25,7 @@ export HAFS=true
export FHMAX=6
export RESTART_N=${FHMAX}
export DT_ATMOS=180
export IDEFLATE=1
export ZSTANDARD_LEVEL=5
export OUTPUT_FH='3 -1'
export OUTPUT_FILE="'netcdf' 'netcdf'"
export SDAY=25
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2 changes: 1 addition & 1 deletion tests/tests/hafs_regional_storm_following_1nest_atm_ocn_wav_mom6
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Expand Up @@ -25,7 +25,7 @@ export HAFS=true
export FHMAX=3
export RESTART_N=${FHMAX}
export DT_ATMOS=180
export IDEFLATE=1
export ZSTANDARD_LEVEL=5
export OUTPUT_FH='3 -1'
export OUTPUT_FILE="'netcdf' 'netcdf'"
export SDAY=25
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2 changes: 1 addition & 1 deletion tests/tests/hafs_regional_telescopic_2nests_atm
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Expand Up @@ -23,7 +23,7 @@ export FHMAX=6
export RESTART_N=${FHMAX}
export atm_omp_num_threads=2
export DT_ATMOS=90
export IDEFLATE=1
export ZSTANDARD_LEVEL=5
export OUTPUT_FH='3 -1'
export OUTPUT_FILE="'netcdf' 'netcdf'"
export SDAY=25
Expand Down
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