release/public-v2: update build.sh for macOS, update regression tests, update modulefiles

[climbfuji]

Description

This PR:

• moves the clang test for turning off OpenMP from cmake/configure_macosx.gnu.cmake to CMakeLists.txt so that it works with build.sh
• updates build.sh to use the correct readlink command on macOS
• add gfortran-10 compiler flags
• update all modulefiles to use the NCEPLIBS ufs-v2.0.0 umbrella module
• update tests/rt.conf to run regression tests specific to the SRW App
• remove all unsupported regression test scripts/configuration files (for the SRW App) in parm, tests/fv3_conf, tests/tests
• updates the fv3atm submodule pointer for the changes in the associated PRs listed below

Caveats:

• not all of the regression tests are working, the problematic ones have been commented out in tests/rt.conf with a short note about the failure
• in addition there are two temporary regression test configurations, rt_gnu.conf and rt_jet_intel.conf for systems that have problems with more tests
• fixing these falls into the category of bugfixes, which are allowed after the code freeze on October 30, 2020

Testing

New baselines will be created on most tier-1 platforms of the SRW App release (hera.intel, hera.gnu, cheyenne.intel, cheyenne.gnu, jet.intel, gaea.intel; gaea.intel may be skipped if cluster problems are not resolved in time)

UPDATE:

• Regression tests ran successfully on cheyenne.intel, cheyenne.gnu, hera.intel, hera.gnu, jet.intel. Logs updated in the PR.
• Currently on hold (system problems): gaea.intel.

Dependencies

NOAA-EMC/fv3atm#190
#248

[mkavulich]

@climbfuji When I attempt to build the ufs-weather-model as part of the ufs-srweather-app, I run into an error in the ccpp prebuild step:

Found Python: /Users/kavulich/miniconda3/bin/python3.7
Calling CCPP code generator (ccpp_prebuild.py) for SUITES = FV3_CPT_v0,FV3_GFS_2017_gfdlmp,FV3_GFS_2017_gfdlmp_regional,FV3_GSD_SAR,FV3_GSD_v0,FV3_GFS_v15p2,FV3_GFS_v16beta,FV3_RRFS_v1beta
CMake Error at CMakeLists.txt:139 (message):
  An error occured while running ccpp_prebuild.py, check
  /Users/kavulich/workdir/UFS/test_Doms_code/ufs-srweather-app/build/src/ufs_weather_model/src/ufs_weather_model-build/ccpp_prebuild.{out,err}


-- Configuring incomplete, errors occurred!
See also "/Users/kavulich/workdir/UFS/test_Doms_code/ufs-srweather-app/build/src/ufs_weather_model/src/ufs_weather_model-build/CMakeFiles/CMakeOutput.log".
make[2]: *** [src/ufs_weather_model/src/ufs_weather_model-stamp/ufs_weather_model-configure] Error 1
make[1]: *** [src/CMakeFiles/ufs_weather_model.dir/all] Error 2
make: *** [all] Error 2

I was initially curious if maybe this was related to my python environment, but I do not see this error when building the release branch.

I also attached the cmake log referenced above but it doesn't seem to have any useful information. Let me know if you need any more info.

CMakeOutput.log

Oh and this is on MacOS High Sierra, by the way.

[climbfuji]

@climbfuji When I attempt to build the ufs-weather-model as part of the ufs-srweather-app, I run into an error in the ccpp prebuild step:

Found Python: /Users/kavulich/miniconda3/bin/python3.7
Calling CCPP code generator (ccpp_prebuild.py) for SUITES = FV3_CPT_v0,FV3_GFS_2017_gfdlmp,FV3_GFS_2017_gfdlmp_regional,FV3_GSD_SAR,FV3_GSD_v0,FV3_GFS_v15p2,FV3_GFS_v16beta,FV3_RRFS_v1beta
CMake Error at CMakeLists.txt:139 (message):
  An error occured while running ccpp_prebuild.py, check
  /Users/kavulich/workdir/UFS/test_Doms_code/ufs-srweather-app/build/src/ufs_weather_model/src/ufs_weather_model-build/ccpp_prebuild.{out,err}


-- Configuring incomplete, errors occurred!
See also "/Users/kavulich/workdir/UFS/test_Doms_code/ufs-srweather-app/build/src/ufs_weather_model/src/ufs_weather_model-build/CMakeFiles/CMakeOutput.log".
make[2]: *** [src/ufs_weather_model/src/ufs_weather_model-stamp/ufs_weather_model-configure] Error 1
make[1]: *** [src/CMakeFiles/ufs_weather_model.dir/all] Error 2
make: *** [all] Error 2

I was initially curious if maybe this was related to my python environment, but I do not see this error when building the release branch.

I also attached the cmake log referenced above but it doesn't seem to have any useful information. Let me know if you need any more info.

CMakeOutput.log

Please look in these files: /Users/kavulich/workdir/UFS/test_Doms_code/ufs-srweather-app/build/src/ufs_weather_model/src/ufs_weather_model-build/ccpp_prebuild.{out,err} - I guess that you are trying to use this branch, but it only has two suites left (FV3/ccpp/suites/).

[mkavulich]

Please look in these files: /Users/kavulich/workdir/UFS/test_Doms_code/ufs-srweather-app/build/src/ufs_weather_model/src/ufs_weather_model-build/ccpp_prebuild.{out,err} - I guess that you are trying to use this branch, but it only has two suites left (FV3/ccpp/suites/).

That was indeed the issue, sorry I missed those log files. It looks like the ufs-srweather-app needs to be updated to only build the supported suites, I can open a PR for that.

When I make that change it now compiles for gnu-10 compilers on my High Sierra machine! I think I just need to make an update to UFS_UTILS to include the same flags and the full app will build. Thanks for working on this.

[junwang-noaa]

Please point fv3 back to release/public-v2, then we can merge the code.

[climbfuji]

Please point fv3 back to release/public-v2, then we can merge the code.

Done, please check. Thanks!