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Python 3 bugfix in ccpp-framework, ESMF 8.1.0bs27, cleanup rt_utils.sh, fix RRTMGP regression tests #201

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merged 15 commits into from
Sep 15, 2020
Merged

Python 3 bugfix in ccpp-framework, ESMF 8.1.0bs27, cleanup rt_utils.sh, fix RRTMGP regression tests #201

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f051537
Enable inline post for gnumake builds on hera.gnu, cheyenne.intel, ch…
climbfuji Sep 11, 2020
78206f9
Update pull request template, use correct Python interpreter when cal…
climbfuji Sep 11, 2020
7aaf241
tests/rt_utils.sh: remove machine-dependent configuration; skip-ci
climbfuji Sep 11, 2020
dc8604f
Update ESMF from 8.1.0bs21 to 8.1.0bs27 on almost all machines; skip-ci
climbfuji Sep 11, 2020
e4e8b08
Update .gitmodules and submodule pointer for fv3atm for code review a…
climbfuji Sep 11, 2020
a60714b
Fix RRTMGP regression test setups, temporarily disable RRTMGP tests i…
climbfuji Sep 11, 2020
b30a900
Updates for docker/ci
climbfuji Sep 11, 2020
0e63eff
Add note about unit test availability to pull request template
climbfuji Sep 11, 2020
e559272
Update rt.sh configuration for jet, remove tests/rt_rrtmgp.conf, add …
climbfuji Sep 14, 2020
34e596a
Regression test logs for wcoss_cray and wcoss_dell_p3; skip-ci
climbfuji Sep 14, 2020
cdeabf6
Regression test logs for cheyenne.intel and cheyenne.gnu; skip-ci
climbfuji Sep 14, 2020
9a087e7
Regression test logs for hera.intel and hera.gnu; skip-ci
climbfuji Sep 14, 2020
e4b0e0e
Regression test logs for orion.intel
climbfuji Sep 14, 2020
1af29d1
Update submodule pointer for fv3atm; skip-ci
climbfuji Sep 14, 2020
ce1ea89
Revert change to .gitmodules and update submodule pointer for fv3atm
climbfuji Sep 15, 2020
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8 changes: 2 additions & 6 deletions .github/pull_request_template.md
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Expand Up @@ -4,8 +4,7 @@
Provide a detailed description of what this PR does.
What bug does it fix, or what feature does it add?
Is a change of answers expected from this PR?


Are any library updates included in this PR (modulefiles etc.)?

### Issue(s) addressed

Expand All @@ -14,15 +13,12 @@ Link the issues to be closed with this PR, whether in this repository, or in ano
- fixes #<issue_number>
- fixes noaa-emc/fv3atm/issues/<issue_number>



## Testing

How were these changes tested?
What compilers / HPCs was it tested with?
Are the changes covered by regression tests? (If not, why? Do new tests need to be added?)


Have regression tests and unit tests (utests) been run? On which platforms and with which compilers? (Note that unit tests can only be run on tier-1 platforms)

## Dependencies

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6 changes: 4 additions & 2 deletions .gitmodules
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@@ -1,7 +1,9 @@
[submodule "FV3"]
path = FV3
url = https://github.com/NOAA-EMC/fv3atm
branch = develop
#url = https://github.com/NOAA-EMC/fv3atm
#branch = develop
url = https://github.com/climbfuji/fv3atm
branch = update_submodule_ccpp_framework_20200910
[submodule "NEMS"]
path = NEMS
url = https://github.com/NOAA-EMC/NEMS
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6 changes: 4 additions & 2 deletions CMakeLists.txt
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Expand Up @@ -108,7 +108,8 @@ if(CCPP)

if(DEFINED CCPP_SUITES)
message("Calling CCPP code generator (ccpp_prebuild.py) for SUITES = ${CCPP_SUITES}")
execute_process(COMMAND FV3/ccpp/framework/scripts/ccpp_prebuild.py
execute_process(COMMAND ${Python_EXECUTABLE}
"FV3/ccpp/framework/scripts/ccpp_prebuild.py"
"--config=FV3/ccpp/config/ccpp_prebuild_config.py"
"--suites=${CCPP_SUITES}"
"--builddir=${PROJECT_BINARY_DIR}/FV3"
Expand All @@ -119,7 +120,8 @@ if(CCPP)
)
else()
message("Calling CCPP code generator (ccpp_prebuild.py) ...")
execute_process(COMMAND FV3/ccpp/framework/scripts/ccpp_prebuild.py
execute_process(COMMAND ${Python_EXECUTABLE}
"FV3/ccpp/framework/scripts/ccpp_prebuild.py"
"--config=FV3/ccpp/config/ccpp_prebuild_config.py"
"--builddir=${PROJECT_BINARY_DIR}/FV3"
WORKING_DIRECTORY ${PROJECT_SOURCE_DIR}
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2 changes: 1 addition & 1 deletion FV3
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Submodule FV3 updated 2 files
+4 −2 .gitmodules
+1 −1 ccpp/framework
2 changes: 1 addition & 1 deletion cmake/configure_cheyenne.gnu.cmake
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@@ -1 +1 @@
set(INLINE_POST ON CACHE BOOL "Enable inline post" FORCE)
set(INLINE_POST ON CACHE BOOL "Enable inline post" FORCE)
2 changes: 1 addition & 1 deletion conf/configure.fv3.cheyenne.gnu
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Expand Up @@ -89,7 +89,7 @@ CFLAGS := $(INCLUDE)
FFLAGS := $(INCLUDE) -fcray-pointer -ffree-line-length-none -fno-range-check -fbacktrace

CPPDEFS += -Duse_libMPI -Duse_netCDF -DSPMD -DUSE_LOG_DIAG_FIELD_INFO -DUSE_GFSL63 -DGFS_PHYS -Duse_WRTCOMP
CPPDEFS += -DNEW_TAUCTMAX -DINTERNAL_FILE_NML -DNO_INLINE_POST
CPPDEFS += -DNEW_TAUCTMAX -DINTERNAL_FILE_NML

ifeq ($(HYDRO),Y)
CPPDEFS +=
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2 changes: 1 addition & 1 deletion conf/configure.fv3.cheyenne.intel
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Expand Up @@ -89,7 +89,7 @@ CFLAGS := $(INCLUDE)
FFLAGS := $(INCLUDE) -fno-alias -auto -safe-cray-ptr -save-temps -ftz -assume byterecl -nowarn -sox -align array64byte

CPPDEFS += -Duse_libMPI -Duse_netCDF -DSPMD -DUSE_LOG_DIAG_FIELD_INFO -DUSE_GFSL63 -DGFS_PHYS -Duse_WRTCOMP
CPPDEFS += -DNEW_TAUCTMAX -DINTERNAL_FILE_NML -DNO_INLINE_POST
CPPDEFS += -DNEW_TAUCTMAX -DINTERNAL_FILE_NML

ifeq ($(HYDRO),Y)
CPPDEFS +=
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2 changes: 1 addition & 1 deletion conf/configure.fv3.hera.gnu
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Expand Up @@ -64,7 +64,7 @@ CFLAGS := $(INCLUDE)
FFLAGS := $(INCLUDE) -fcray-pointer -ffree-line-length-none -fno-range-check -fbacktrace

CPPDEFS += -Duse_libMPI -Duse_netCDF -DSPMD -DUSE_LOG_DIAG_FIELD_INFO -DUSE_GFSL63 -DGFS_PHYS -Duse_WRTCOMP
CPPDEFS += -DNEW_TAUCTMAX -DINTERNAL_FILE_NML -DNO_INLINE_POST
CPPDEFS += -DNEW_TAUCTMAX -DINTERNAL_FILE_NML

ifeq ($(HYDRO),Y)
CPPDEFS +=
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4 changes: 2 additions & 2 deletions modulefiles/cheyenne.gnu/fv3
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Expand Up @@ -23,11 +23,11 @@ module load ncarcompilers/0.5.0
##
## use pre-compiled PNG, NetCDF, ESMF and NCEP libraries for above compiler / MPI combination
##
module use -a /glade/p/ral/jntp/GMTB/tools/ufs-stack-20200825/gnu-9.1.0/mpt-2.19/modules
module use -a /glade/p/ral/jntp/GMTB/tools/ufs-stack-20200909/gnu-9.1.0/mpt-2.19/modules

module load libpng/1.6.35
module load netcdf/4.7.4
module load esmf/8.1.0bs21
module load esmf/8.1.0bs27

module load bacio/2.4.0
module load crtm/2.3.0
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4 changes: 2 additions & 2 deletions modulefiles/cheyenne.intel/fv3
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Expand Up @@ -23,11 +23,11 @@ module load ncarcompilers/0.5.0
##
## use pre-compiled PNG, NetCDF, ESMF and NCEP libraries for above compiler / MPI combination
##
module use -a /glade/p/ral/jntp/GMTB/tools/ufs-stack-20200825/intel-19.1.1/mpt-2.19/modules
module use -a /glade/p/ral/jntp/GMTB/tools/ufs-stack-20200909/intel-19.1.1/mpt-2.19/modules

module load libpng/1.6.35
module load netcdf/4.7.4
module load esmf/8.1.0bs21
module load esmf/8.1.0bs27

module load bacio/2.4.0
module load crtm/2.3.0
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4 changes: 2 additions & 2 deletions modulefiles/gaea.intel/fv3
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Expand Up @@ -25,11 +25,11 @@ module load cray-mpich/7.7.11
##
## use pre-compiled PNG, NetCDF, ESMF and NCEP libraries for above compiler / MPI combination
##
module use -a /lustre/f2/pdata/esrl/gsd/ufs/ufs-stack-20200825/intel-18.0.6.288/cray-mpich-7.7.11/modules
module use -a /lustre/f2/pdata/esrl/gsd/ufs/ufs-stack-20200909/intel-18.0.6.288/cray-mpich-7.7.11/modules

module load libpng/1.6.35
module load netcdf/4.7.4
module load esmf/8.1.0bs21
module load esmf/8.1.0bs27

module load bacio/2.4.0
module load crtm/2.3.0
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4 changes: 2 additions & 2 deletions modulefiles/hera.gnu/fv3
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Expand Up @@ -26,11 +26,11 @@ module load mpich/3.3.2
##
## use pre-compiled PNG, NetCDF, ESMF and NCEP libraries for above compiler / MPI combination
##
module use -a /scratch1/BMC/gmtb/software/ufs-stack-20200825/gnu-9.2.0/mpich-3.3.2/modules
module use -a /scratch1/BMC/gmtb/software/ufs-stack-20200909/gnu-9.2.0/mpich-3.3.2/modules

module load libpng/1.6.35
module load netcdf/4.7.4
module load esmf/8.1.0bs21
module load esmf/8.1.0bs27

module load bacio/2.4.0
module load crtm/2.3.0
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2 changes: 1 addition & 1 deletion modulefiles/hera.intel/fv3
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Expand Up @@ -47,7 +47,7 @@ module load sigio/2.3.0
##
module use -a /scratch1/NCEPDEV/nems/emc.nemspara/soft/modulefiles
module load netcdf_parallel/4.7.4.release
module load esmf/8.1.0bs21_ParallelNetCDF.release
module load esmf/8.1.0bs27
module load hdf5_parallel/1.10.6.release

##
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4 changes: 2 additions & 2 deletions modulefiles/jet.intel/fv3
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Expand Up @@ -22,11 +22,11 @@ module load impi/2018.4.274
##
## use pre-compiled PNG, NetCDF, ESMF and NCEP libraries for above compiler / MPI combination
##
module use -a /lfs4/HFIP/hfv3gfs/software/ufs-stack-20200825/intel-18.0.5.274/impi-2018.4.274/modules
module use -a /lfs4/HFIP/hfv3gfs/software/ufs-stack-20200909/intel-18.0.5.274/impi-2018.4.274/modules

module load libpng/1.6.35
module load netcdf/4.7.4
module load esmf/8.1.0bs21
module load esmf/8.1.0bs27

module load bacio/2.4.0
module load crtm/2.3.0
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7 changes: 1 addition & 6 deletions modulefiles/linux.gnu/fv3
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Expand Up @@ -47,9 +47,4 @@ export ESMFMKFILE=${ESMFMKFILE:-/usr/local/lib/esmf.mk}
## NCEP libraries (need to download and build manually, see doc/README_{UBUNTU,CENTOS,...}.txt and https://github.com/NCAR/NCEPlibs)
##
export NCEPLIBS_DIR=${NCEPLIBS_DIR:-/usr/local/NCEPlibs}
export bacio_DIR=${NCEPLIBS_DIR}/bacio-2.4.0
export nemsio_DIR=${NCEPLIBS_DIR}/nemsio-2.5.1
export w3nco_DIR=${NCEPLIBS_DIR}/w3nco-2.4.0
export sp_DIR=${NCEPLIBS_DIR}/sp-2.3.0
export w3emc_DIR=${NCEPLIBS_DIR}/w3emc-2.7.0
export sigio_DIR=${NCEPLIBS_DIR}/sigio-2.3.0
export CMAKE_PREFIX_PATH=${NCEPLIBS_DIR}
2 changes: 1 addition & 1 deletion modulefiles/orion.intel/fv3
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Expand Up @@ -51,7 +51,7 @@ module load z/1.2.6
##
module use /apps/contrib/NCEPLIBS/lib/modulefiles
module load netcdfp/4.7.4.release
module load esmflocal/8.1.0.21bs.release
module load esmflocal/8.1.0.27bs.release

###
### load Python 3
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8 changes: 4 additions & 4 deletions modulefiles/stampede.intel/fv3
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Expand Up @@ -18,17 +18,17 @@ module-whatis "loads NEMS FV3 prerequisites for Stampede/Intel"
module load intel/18.0.2
module load impi/18.0.2
module load python3/3.7.0
module load netcdf/4.6.2
setenv NETCDF /opt/apps/intel18/netcdf/4.6.2/x86_64

##
## use pre-compiled ESMF and NCEP libraries for above compiler / MPI combination
##
# DH* todo - shared directory
module use -a /work/06146/tg854455/stampede2/ufs-stack-20200728/intel-18.0.2/impi-18.0.2/modules
module use -a /work/06146/tg854455/stampede2/ufs-stack-20200909/intel-18.0.2/impi-18.0.2/modules
# *DH

module load esmf/8.0.0
module load libpng/1.6.35
module load netcdf/4.7.4
module load esmf/8.1.0bs27

module load bacio/2.4.0
module load crtm/2.3.0
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2 changes: 1 addition & 1 deletion modulefiles/wcoss_cray/fv3
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Expand Up @@ -64,7 +64,7 @@ module load udreg
module load ugni

module use /gpfs/hps3/emc/nems/noscrub/emc.nemspara/soft/modulefiles
module load esmf/8.1.0bs21
module load esmf/8.1.0bs27

module swap pmi pmi/5.0.11

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2 changes: 1 addition & 1 deletion modulefiles/wcoss_dell_p3/fv3
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Expand Up @@ -48,7 +48,7 @@ module load NetCDF-parallel/4.7.4
module load HDF5-parallel/1.10.6

module use /gpfs/dell2/emc/modeling/noscrub/emc.nemspara/soft/modulefiles
module load esmf/8.1.0bs21
module load esmf/8.1.0bs27

##
## load cmake
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2 changes: 1 addition & 1 deletion parm/ccpp_v15p2_c96_rrtmgp.nml.IN
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Expand Up @@ -16,7 +16,7 @@
fhout = 3
fhmaxhf = 120
fhouthf = 1
ccpp_suite = 'FV3_GFS_v15p2_RRTMGP'
ccpp_suite = '@[CCPP_SUITE]'
/

&diag_manager_nml
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2 changes: 1 addition & 1 deletion parm/ccpp_v16beta_c96_rrtmgp.nml.IN
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Expand Up @@ -16,7 +16,7 @@
fhout = 3
fhmaxhf = 120
fhouthf = 1
ccpp_suite = 'FV3_GFS_v16beta_RRTMGP'
ccpp_suite = '@[CCPP_SUITE]'
/

&diag_manager_nml
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4 changes: 2 additions & 2 deletions tests/ci/Dockerfile
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@@ -1,5 +1,5 @@
From minsukjinoaa/ci-test-base:ubuntu20.04-v3
#From minsukjinoaa/ci-test-base:centos7-v3
From minsukjinoaa/ci-test-base:ubuntu20.04-v3.5
#From minsukjinoaa/ci-test-base:centos7-v3.5

ENV HOME=/home/tester
COPY --chown=tester:tester . $HOME/ufs-weather-model
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24 changes: 12 additions & 12 deletions tests/rt.conf
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Expand Up @@ -119,12 +119,12 @@ RUN | fv3_ccpp_gfs_v15p2
RUN | fv3_ccpp_gfs_v16beta | standard | hera.intel | fv3 |
RUN | fv3_ccpp_gfs_v16beta | standard | orion.intel | fv3 |
RUN | fv3_ccpp_gfs_v16beta | standard | cheyenne.intel | fv3 |
RUN | fv3_ccpp_gfs_v15p2_RRTMGP | standard | hera.intel | fv3 |
RUN | fv3_ccpp_gfs_v15p2_RRTMGP | standard | orion.intel | fv3 |
RUN | fv3_ccpp_gfs_v15p2_RRTMGP | standard | cheyenne.intel | fv3 |
RUN | fv3_ccpp_gfs_v16beta_RRTMGP | standard | hera.intel | fv3 |
RUN | fv3_ccpp_gfs_v16beta_RRTMGP | standard | orion.intel | fv3 |
RUN | fv3_ccpp_gfs_v16beta_RRTMGP | standard | cheyenne.intel | fv3 |
#RUN | fv3_ccpp_gfs_v15p2_RRTMGP | standard | hera.intel | fv3 |
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#RUN | fv3_ccpp_gfs_v15p2_RRTMGP | standard | orion.intel | fv3 |
#RUN | fv3_ccpp_gfs_v15p2_RRTMGP | standard | cheyenne.intel | fv3 |
#RUN | fv3_ccpp_gfs_v16beta_RRTMGP | standard | hera.intel | fv3 |
#RUN | fv3_ccpp_gfs_v16beta_RRTMGP | standard | orion.intel | fv3 |
#RUN | fv3_ccpp_gfs_v16beta_RRTMGP | standard | cheyenne.intel | fv3 |

COMPILE | CCPP=Y SUITES=FV3_GFS_v16_csawmg | standard | | fv3 |
# fv3_ccpp_gfsv16_csawmg and fv3_ccpp_gfsv16_csawmgt crash with a "bus error" on cheyenne.intel, turn off
Expand Down Expand Up @@ -155,12 +155,12 @@ RUN | fv3_ccpp_gfs_v15p2_debug
RUN | fv3_ccpp_gfs_v16beta_debug | standard | hera.intel | fv3 |
RUN | fv3_ccpp_gfs_v16beta_debug | standard | orion.intel | fv3 |
RUN | fv3_ccpp_gfs_v16beta_debug | standard | cheyenne.intel | fv3 |
RUN | fv3_ccpp_gfs_v15p2_RRTMGP_debug | standard | hera.intel | fv3 |
RUN | fv3_ccpp_gfs_v15p2_RRTMGP_debug | standard | orion.intel | fv3 |
RUN | fv3_ccpp_gfs_v15p2_RRTMGP_debug | standard | cheyenne.intel | fv3 |
RUN | fv3_ccpp_gfs_v16beta_RRTMGP_debug | standard | hera.intel | fv3 |
RUN | fv3_ccpp_gfs_v16beta_RRTMGP_debug | standard | orion.intel | fv3 |
RUN | fv3_ccpp_gfs_v16beta_RRTMGP_debug | standard | cheyenne.intel | fv3 |
#RUN | fv3_ccpp_gfs_v15p2_RRTMGP_debug | standard | hera.intel | fv3 |
#RUN | fv3_ccpp_gfs_v15p2_RRTMGP_debug | standard | orion.intel | fv3 |
#RUN | fv3_ccpp_gfs_v15p2_RRTMGP_debug | standard | cheyenne.intel | fv3 |
#RUN | fv3_ccpp_gfs_v16beta_RRTMGP_debug | standard | hera.intel | fv3 |
#RUN | fv3_ccpp_gfs_v16beta_RRTMGP_debug | standard | orion.intel | fv3 |
#RUN | fv3_ccpp_gfs_v16beta_RRTMGP_debug | standard | cheyenne.intel | fv3 |

COMPILE | CCPP=Y SUITES=FV3_GSD_v0,FV3_GFS_v15_thompson,FV3_RRFS_v1beta 32BIT=Y DEBUG=Y | standard | | fv3 |
RUN | fv3_ccpp_gsd_debug | standard | | fv3 |
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8 changes: 4 additions & 4 deletions tests/rt_gnu.conf
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Expand Up @@ -10,8 +10,8 @@ COMPILE | CCPP=Y SUITES=FV3_GFS_v15p2,FV3_GFS_v16beta,FV3_GFS_v16beta_flake,FV3_
RUN | fv3_ccpp_gfs_v15p2 | standard | | fv3 |
RUN | fv3_ccpp_gfs_v16beta | standard | | fv3 |
RUN | fv3_ccpp_gfs_v16beta_flake | standard | | fv3 |
RUN | fv3_ccpp_gfs_v15p2_RRTMGP | standard | | fv3 |
RUN | fv3_ccpp_gfs_v16beta_RRTMGP | standard | | fv3 |
#RUN | fv3_ccpp_gfs_v15p2_RRTMGP | standard | | fv3 |
#RUN | fv3_ccpp_gfs_v16beta_RRTMGP | standard | | fv3 |

COMPILE | CCPP=Y SUITES=FV3_GSD_v0,FV3_GFS_v15_thompson,FV3_RRFS_v1beta 32BIT=Y | standard | | fv3 |

Expand All @@ -31,8 +31,8 @@ RUN | fv3_ccpp_control_debug
COMPILE | CCPP=Y SUITES=FV3_GFS_v15p2,FV3_GFS_v16beta,FV3_GFS_v15p2_RRTMGP,FV3_GFS_v16beta_RRTMGP DEBUG=Y | standard | | fv3 |
RUN | fv3_ccpp_gfs_v15p2_debug | standard | | fv3 |
RUN | fv3_ccpp_gfs_v16beta_debug | standard | | fv3 |
RUN | fv3_ccpp_gfs_v15p2_RRTMGP_debug | standard | | fv3 |
RUN | fv3_ccpp_gfs_v16beta_RRTMGP_debug | standard | | fv3 |
#RUN | fv3_ccpp_gfs_v15p2_RRTMGP_debug | standard | | fv3 |
#RUN | fv3_ccpp_gfs_v16beta_RRTMGP_debug | standard | | fv3 |

COMPILE | CCPP=Y SUITES=FV3_GFS_2017_fv3wam 32BIT=Y MULTI_GASES=Y | standard | | fv3 |
RUN | fv3_ccpp_multigases | standard | | fv3 |
Expand Down
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