Issue #179 and issue #243 - update Fit2Obs to newm.1.2 tag and correct COMROOT path for Hera #244

KateFriedman-NOAA · 2021-01-21T16:30:10Z

Update fit2obs tag and correct COMROOT path on Hera for use by COMINsyn in tracker scripts.

This PR will close issue #243 and close issue #179

…t COMROOT path for Hera

Squashed commit of the following: commit 479000a5e7b4b9c575784ecca400594525396556 Merge: bbf30008 5a16a7a0 Author: Kate Friedman <kate.friedman@noaa.gov> Date: Thu Jan 21 11:31:41 2021 -0500 Merge pull request #244 from NOAA-EMC/issue243 Issue #179 and issue #243 - update Fit2Obs to newm.1.2 tag and correct COMROOT path for Hera commit 5a16a7a010477b5bbe530a684608b151b8f05755 Author: kate.friedman <kate.friedman@noaa.gov> Date: Thu Jan 21 16:27:54 2021 +0000 Issue #179 and issue #243 - update Fit2Obs to newm.1.2 tag and correct COMROOT path for Hera commit bbf3000856ebb20ca761c6e7d761f5fcefad0228 Author: kate.friedman <kate.friedman@noaa.gov> Date: Fri Jan 15 18:36:20 2021 +0000 HOTFIX: Issue #241 - update EMC_verif-global tag to remove use of /tmp space commit 43ae19be02687cdc362a34e11d299009f3dd8ffc Merge: c7e6a7f8 48be4d18 Author: Kate Friedman <kate.friedman@noaa.gov> Date: Thu Jan 14 10:35:16 2021 -0500 Merge pull request #239 from KateFriedman-NOAA/issue179 Issue #179 - update to config.vrfy for Fit2Obs tag which supports Orion commit 48be4d18263ea4f1c706c55e4b6b70d87f19c729 Author: kate.friedman <kate.friedman@noaa.gov> Date: Thu Jan 14 08:38:20 2021 -0600 Issue #179 - update to config.vrfy for Fit2Obs tag which supports Orion commit c7e6a7f8c6f7b0d5648b1379633c252f165c2ca6 Merge: ef8b6415 4be7954d Author: Kate Friedman <kate.friedman@noaa.gov> Date: Wed Jan 13 14:20:49 2021 -0500 Merge pull request #237 from KateFriedman-NOAA/issue233 Update GLDAS tag to gldas_gfsv16_release.v1.13.0 commit 4be7954ddcbb56e7ee5167f6d43054d8821b6a4f Author: kate.friedman <kate.friedman@noaa.gov> Date: Tue Jan 5 12:06:51 2021 -0600 Issue #233 - remove unnecessary extra space in tag line for gldas commit bcbdd12c39124eae14ec0b52d0a05b7c6944c27e Author: kate.friedman <kate.friedman@noaa.gov> Date: Tue Jan 5 12:03:15 2021 -0600 Issue #233 - update GLDAS tag to gldas_gfsv16_release.v1.13.0 commit ef8b64150a0cb7137b1ec48e9c8f3c7e9b3223de Merge: fca3433b cffc5682 Author: Fanglin Yang <fanglin.yang@noaa.gov> Date: Mon Jan 4 10:52:08 2021 -0500 Merge pull request #231 from yangfanglin/feature/multiple_restart modified exglobal_forecast.sh to enable multiple reruns from breakpoint restart initial conditions commit cffc5682f34eb9ab0bbf42ee11eaa848152c0dbc Author: fanglin.yang <fanglin.yang@noaa.gov> Date: Wed Dec 30 18:43:34 2020 +0000 modified: exglobal_forecast.sh The breakpoint restart only works for the first restart from a breakpoint. Restart files written in RERUN_RESTRAT after the first restart has a 3-hour time shift for DO_IAU=YES cases. Forecasts starting from the 2nd breakpoint and beyond will fail becasue of incorrect initial conditins. This commit fixes this bug. commit fca3433bf869b12cade480e1394688d7b6f95687 Merge: a95cce5f abb168bc Author: Kate Friedman <kate.friedman@noaa.gov> Date: Fri Dec 18 09:30:21 2020 -0500 Merge pull request #221 from NOAA-EMC/nco_v16_changes NCO changes for v16.0.3 commit abb168bc32fdff7b08ce8ecc54ea832aabf03c44 Author: kate.friedman <kate.friedman@noaa.gov> Date: Thu Dec 17 19:17:26 2020 +0000 Issue #1 and issue #220 - set C192/C96/C48 npe_eobs back to dev values for develop commit 65b4d965fa6ebee445a509a0593e925ae5d5b513 Merge: a95cce5f e89045b9 Author: kate.friedman <kate.friedman@noaa.gov> Date: Thu Dec 17 18:46:06 2020 +0000 Issue #1 - merge v16.0.3 changes from NCO into develop commit e89045b9fb1d9026810ef5c77a3554c67c41718e Author: kate.friedman <kate.friedman@noaa.gov> Date: Wed Dec 16 16:38:01 2020 +0000 Issue #1 - add grib_util module load to several analysis ecflow scripts commit a95cce5f3e123a241000b209fb50cc8911d13466 Merge: 1562bb97 2646921d Author: Kate Friedman <kate.friedman@noaa.gov> Date: Tue Dec 15 14:05:27 2020 -0500 Merge pull request #216 from NOAA-EMC/issue189 Issue #189 - update ufs-weather-model hash commit 2646921d0da6dc8a136ebeba6cceceacf3806c23 Author: kate.friedman <kate.friedman@noaa.gov> Date: Tue Dec 15 18:56:33 2020 +0000 Issue #189 - update ufs-weather-model hash commit 1562bb97ac21ce2406ed21f76b7c8d58cecf4a2a Merge: f3d11b9b 7a9bc00e Author: Kate Friedman <kate.friedman@noaa.gov> Date: Tue Dec 15 09:51:07 2020 -0500 Merge pull request #213 from NOAA-EMC/hotfixes Hotfixes - issues #201, 202, 208 commit 7a9bc00e367126044f83b0fc9b737386788899a9 Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Mon Dec 14 21:35:58 2020 +0000 Issue #201 - workaround for failing post000 job before hpc-stack solution commit 425588f711812819744c8060a46444b9d4bf2b63 Author: kate.friedman <kate.friedman@noaa.gov> Date: Mon Dec 14 21:06:20 2020 +0000 Issue #1 - update WAFS tag to gfs_wafs.v6.0.17 for dbn_alert change commit ec5e2e5dd98d80ca3e3d696d5eb19a5a4180c87b Author: kate.friedman <kate.friedman@noaa.gov> Date: Mon Dec 14 15:06:16 2020 +0000 Issue #1 - correct gridded wave parm files for v16.0.3 commit 39246c6e1604e9e81ddc384c951861c43e30cdcf Author: kate.friedman <kate.friedman@noaa.gov> Date: Fri Dec 11 19:26:51 2020 +0000 Issue #1 - changes from NCO for GFSv16.0.3 commit b9f7de8af3cb966fa756e38feaf98ce1f84ee2f3 Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Thu Dec 10 19:15:00 2020 +0000 Issue #1 - update Externals.cfg with final tags for GFSv16.0.2 commit cff28bdbf0daa6980766a011f73e2a021aee2341 Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Thu Dec 10 15:59:05 2020 +0000 Fixes for issue #202 (FINDDATE) and issue #208 (postsnd.sh permissions) commit 7c7482de947ae686b619fc72e7dd192410b7e0f7 Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Thu Dec 10 14:10:25 2020 +0000 Issue #1 - correct permissions on jobs/rocoto/postsnd.sh commit dee856c5b54c19cc9de6898908fdb9d4f8d99baa Author: kate.friedman <kate.friedman@noaa.gov> Date: Wed Dec 9 20:58:20 2020 +0000 Issue #1 - update gempak version to 7.3.3 in the ecflow gfs.ver file commit 0ee264bef7ea71d32426b6b6d77109e73b4235ff Author: kate.friedman <kate.friedman@noaa.gov> Date: Wed Dec 9 18:49:54 2020 +0000 Issue #1 - update gempak and dumpjb versions to 7.3.3 and 5.1.0 respectively commit b5d97ab6912596d3b343843ba3ef6e8c5f71a21a Merge: 6da1a24b be5f9ece Author: Kate Friedman <kate.friedman@noaa.gov> Date: Mon Dec 7 14:49:29 2020 -0500 Merge pull request #205 from NOAA-EMC/release/gfsv16.0.0.nco Script alert updates from NCO for wave downstream commit be5f9ece8329ee6b18af92d044809f018404669b Author: kate.friedman <kate.friedman@noaa.gov> Date: Mon Dec 7 19:45:23 2020 +0000 Script alert updates from NCO for wave downstream commit 6da1a24ba89c80ee5f5df38136d03483207d39dd Merge: ce1ae970 069f2662 Author: Kate Friedman <kate.friedman@noaa.gov> Date: Mon Dec 7 14:12:37 2020 -0500 Merge pull request #204 from NOAA-EMC/release/gfsv16.0.0.nco GFSv16 NCO changes - early December edition commit 069f2662bc2eabc822f13eec4e2f69f1c39606a8 Author: kate.friedman <kate.friedman@noaa.gov> Date: Wed Dec 2 20:01:17 2020 +0000 Add override for COMIN_WAV_RTOFS in emc mode for waveprep job commit 194f280cf7351d58b0295af35c91e74ac6925d0b Author: russ.treadon <Russ.Treadon@noaa.gov> Date: Mon Nov 30 18:47:19 2020 +0000 Issue #197: place CDATE specific sections of config.anal and config.prep inside RUN_ENVIR=emc blocks. These sections are use for retrospective parallels and therefore do not need to be executed in operations (NCO). commit d82efa8417fe6247ed08cd74a447460ba6bb51f9 Author: fanglin.yang <fanglin.yang@noaa.gov> Date: Mon Nov 30 18:06:12 2020 +0000 modified: JGLOBAL_FORECAST commit 25a28c8dacc8659071eca65be15fb4de08b18d80 Author: fanglin.yang <fanglin.yang@noaa.gov> Date: Mon Nov 30 17:02:05 2020 +0000 modified: JGLOBAL_FORECAST to make it work for both emc and nco running environments. commit 7283c7e60c98639c6466ce5903ab03c36a7f5f57 Author: fanglin.yang <fanglin.yang@noaa.gov> Date: Fri Nov 27 22:16:31 2020 +0000 modified: JGLOBAL_FORECAST A test showed that jobid is not defined in JGLOBAL_FORECAST running in the Rocoto environment. jobid is defined in ./env files. Defining DATA without sourcing ./env/$nachine.env caused the script to fail. Move the definitin of DATA after sourcing env parameters commit e6003773c0af51bd15eb2bdb6831c99dcce1cc5b Author: fanglin.yang <fanglin.yang@noaa.gov> Date: Tue Nov 24 03:25:23 2020 +0000 modified: checkout.sh to use WAFS tag gfs_wafs.v6.0.16 commit bd5294ee6844f8a5adbd04eae78999068c0961a2 Author: fanglin.yang <fanglin.yang@noaa.gov> Date: Sat Nov 21 17:32:05 2020 +0000 modified: checkout.sh to update UPP to upp_gfsv16_release.v1.1.1, a minor syntax bug fix commit 5a516b4cdf0333e4b8316c8cbda7be9f9dccc543 Author: fanglin.yang <fanglin.yang@noaa.gov> Date: Fri Nov 20 05:08:33 2020 +0000 modified: link_fv3gfs.sh to 1) use hard copies of external fix fields and executable for NCO installation 2) use soft links for all other files and directories for both NCO and EMC installations commit 759cf3341bb400d3b3254a05a624e3ab671ef6cd Author: fanglin.yang <fanglin.yang@noaa.gov> Date: Fri Nov 20 04:51:48 2020 +0000 Compared local files in NCO implementation directory with release/gfs.v16.0.0 branch, changes made by NCO(Jen Yang) in the following files are either accepted or rejected. use EMC's updated version modified: jobs/JGFS_ATMOS_POSTSND Use NCO's updated version modified: jobs/JGLOBAL_FORECAST modified: jobs/JGLOBAL_WAVE_GEMPAK modified: jobs/JGLOBAL_WAVE_POST_BNDPNT modified: jobs/JGLOBAL_WAVE_POST_PNT modified: jobs/JGLOBAL_WAVE_POST_SBS modified: jobs/JGLOBAL_WAVE_PRDGEN_BULLS modified: jobs/JGLOBAL_WAVE_PRDGEN_GRIDDED modified: parm/config/config.base.nco.static Updated by both NCO and EMC modified: parm/config/config.wave Updated gldas tag to gldas_gfsv16_release.v1.12.0 modified: sorc/checkout.sh commit f39ea0cbbabaa5e69e03cec4db309e2adfb33756 Author: fanglin.yang <fanglin.yang@noaa.gov> Date: Thu Nov 19 04:43:17 2020 +0000 create a new branch release/gfsv16.0.0.nco to merge changes made by NCO in /gpfs/dell1/nco/ops/nwpara/gfs-v16/gfs.v16.0.1 back to EMC's repository modified: ecflow/ecf/scripts/gdas/atmos/analysis/jgdas_atmos_analysis.ecf modified: 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parm/transfer_gfs_9b.list modified: parm/transfer_gfs_misc.list modified: parm/transfer_rdhpcs_gdas.list modified: parm/transfer_rdhpcs_gdas_enkf_enkf_1.list modified: parm/transfer_rdhpcs_gdas_enkf_enkf_2.list modified: parm/transfer_rdhpcs_gdas_enkf_enkf_3.list modified: parm/transfer_rdhpcs_gdas_enkf_enkf_4.list modified: parm/transfer_rdhpcs_gdas_enkf_enkf_5.list modified: parm/transfer_rdhpcs_gdas_enkf_enkf_6.list modified: parm/transfer_rdhpcs_gdas_enkf_enkf_7.list modified: parm/transfer_rdhpcs_gdas_enkf_enkf_8.list modified: parm/transfer_rdhpcs_gfs.list modified: parm/transfer_rdhpcs_gfs_nawips.list commit ce1ae9709fe506f32833910f3cf4f68117c7d0f2 Merge: b096e294 e9d00e41 Author: Fanglin Yang <fanglin.yang@noaa.gov> Date: Wed Nov 18 16:55:14 2020 -0500 Merge pull request #192 from JessicaMeixner-NOAA/bf/waveICfreq wave parm update for realease/gfsv16 commit e9d00e41e939fca68a39293b973326531f3c6983 Author: jessica.meixner <Jessica.Meixner@noaa.gov> Date: Wed Nov 18 19:51:25 2020 +0000 update for the wave parm so that the wave model will look for the correct restart for when gfs is not run every cycle commit f3d11b9bc7e669f4c11266654649c4d5e28f16a9 Merge: e3972f17 32a004aa Author: Kate Friedman <kate.friedman@noaa.gov> Date: Tue Nov 17 14:01:54 2020 -0500 Merge pull request #186 from lgannoaa/feature/ccpp Initial support for CCPP. commit 32a004aae3949e8fd3bda7a4f628995317d33f47 Merge: 66cc1a06 036cc113 Author: lgannoaa <37596169+lgannoaa@users.noreply.github.com> Date: Tue Nov 17 13:15:37 2020 -0500 Merge pull request #2 from KateFriedman-NOAA/ccpp Adjust efcs walltime and eupd thread value on Orion commit 036cc113dcd5787ce4bccfb11fb71ed7935bc982 Author: kate.friedman <kate.friedman@noaa.gov> Date: Tue Nov 17 10:44:02 2020 -0600 Adjust efcs walltime and eupd thread value on Orion commit 66cc1a062ba1b430e9ebaf41715997a3de0ff023 Merge: 9e8f9605 2432dc5b Author: lgannoaa <37596169+lgannoaa@users.noreply.github.com> Date: Mon Nov 16 15:48:34 2020 -0500 Merge pull request #1 from KateFriedman-NOAA/ccpp Fix missing COMROOT setting for Orion commit 2432dc5bbb1b3bc4c317063811333a5b30065794 Author: kate.friedman <kate.friedman@noaa.gov> Date: Mon Nov 16 14:40:59 2020 -0600 Fix missing COMROOT setting on Orion commit 9e8f960508e82f31e9d57da0fc37600b9697e4c9 Author: Lin.Gan <lin.gan@noaa.gov> Date: Mon Nov 16 18:24:08 2020 +0000 Modify build_all.sh while getopts "oc" option to while getopts "c" option commit 587e1986cb5c6307f2d10a01758994ce1155e36d Author: Lin.Gan <lin.gan@noaa.gov> Date: Mon Nov 16 18:21:16 2020 +0000 scripts/exglobal_forecast.sh Merge with v16ccpp commit 6066462b23d34db815ed73c630ef624c41239215 Author: Lin.Gan <lin.gan@noaa.gov> Date: Mon Nov 16 17:53:44 2020 +0000 As requested, using 2e25df5fe952d27355ed58963148f46b82565469 for ufs-weather-model. commit bf312432b662c3e2b7bd8cd5de19dd5b5ee0c042 Merge: dd7b0068 d59c09c6 Author: Lin.Gan <lin.gan@noaa.gov> Date: Mon Nov 16 17:41:32 2020 +0000 Merge remote-tracking branch 'upstream/v16ccpp' into feature/ccpp Pull in the iovr=3 in config.fcst commit dd7b0068cf0b598e58af41a92712e393674d14fd Author: Lin.Gan <lin.gan@noaa.gov> Date: Mon Nov 16 14:39:04 2020 +0000 Modify exglobal_forecast.sh to create namelist in runable sequence. commit d59c09c6d9445110871da231ef9945d201986f81 Author: fanglin.yang <fanglin.yang@noaa.gov> Date: Mon Nov 16 04:06:48 2020 +0000 modified: ../scripts/exglobal_forecast.sh commit d8aa4423f1a6f2c63c00a4ed5a38a4df6501ef7b Author: fanglin.yang <fanglin.yang@noaa.gov> Date: Mon Nov 16 04:04:43 2020 +0000 modified checkout.sh to check out a hash instead of head of the develop branch commit e29fd0c517840a9996987e7ae21f78cc2af8ca12 Author: fanglin.yang <fanglin.yang@noaa.gov> Date: Mon Nov 16 03:00:50 2020 +0000 modified: ../parm/config/config.fcst and exglobal_forecast.sh 1. use iovr for model after https://github.com/NCAR/ccpp-physics/pull/514 and iovr_sw and iovr_lw for older version of the model, controled by RUN_CCPP 2. remove the if block and use atmos_model_nml to turn on/off the CCPP option commit 1ec0ebf31767422a67e3f56c951f5ccb2305c7e5 Author: fanglin.yang <fanglin.yang@noaa.gov> Date: Sun Nov 15 17:48:51 2020 -0500 bug fix exglobal_forecast.sh commit 336647bcaced053baeee43ef2417b34b6b196439 Author: fanglin.yang <fanglin.yang@noaa.gov> Date: Sun Nov 15 12:55:20 2020 -0500 modified: exglobal_forecast.sh to add min_lakeice = ${min_lakeice:-"0.15"} min_seaice = ${min_seaice:-"0.15"} commit 9616b2eef626ce8db2f3a5da343b0a7ece2137cb Author: fanglin.yang <fanglin.yang@noaa.gov> Date: Sun Nov 15 04:05:48 2020 +0000 modified: build_fv3.sh commit fe79b87abbeca26939dbcc1ccd7cb5fb2624e666 Author: Lin.Gan <lin.gan@noaa.gov> Date: Fri Nov 13 20:11:26 2020 +0000 Clean up development code from build_all commit 9cd719d0609cefb3261870528b88c54d24117c47 Author: Lin.Gan <lin.gan@noaa.gov> Date: Fri Nov 13 19:53:31 2020 +0000 Modified build_all.sh checkout.sh partial_build.sh to allow switch turn on/off ccpp option Turn on CCPP usage: checkout.sh -c build_all.sh -c Turn off CCPP usage: checkout.sh build_all.sh commit 8aed1e4d44166ffb6036409bced3ad04f038dfc4 Author: fanglin.yang <fanglin.yang@noaa.gov> Date: Fri Nov 13 17:04:07 2020 +0000 modified: ../scripts/exglobal_forecast.sh modified: build_all.sh build_fv3.sh to automatically detect model version, CCPP vs IPD commit 7826668c6baaf113785e88b79bc059f8a430eace Author: Lin.Gan <lin.gan@noaa.gov> Date: Fri Nov 13 15:44:31 2020 +0000 Remove development configuration from config.nsst commit 1e5ebe44fd525135114b0fc74a698cadd2eb5eaa Merge: 0b540d78 b0536156 Author: Lin.Gan <lin.gan@noaa.gov> Date: Fri Nov 13 15:36:06 2020 +0000 Merge remote-tracking branch 'upstream/v16ccpp' into feature/ccpp commit 0b540d78c47755cb0bd68a8dc934461ec1bef345 Author: Lin.Gan <lin.gan@noaa.gov> Date: Fri Nov 13 15:35:26 2020 +0000 update eupd resource commit 267c661710562ab620c07212626268f0201c6c20 Author: Lin.Gan <lin.gan@noaa.gov> Date: Fri Nov 13 15:31:56 2020 +0000 Merge with v16ccpp modified: parm/config/config.base.emc.dyn modified: parm/config/config.resources modified: scripts/exglobal_forecast.sh modified: sorc/build_fv3.sh modified: sorc/checkout.sh commit b0536156ed8383150fc65d5897c6acd17c0df248 Author: fanglin.yang <fanglin.yang@noaa.gov> Date: Fri Nov 13 06:30:25 2020 +0000 modified: parm/config/config.base.emc.dyn parm/config/config.base.nco.static scripts/exglobal_forecast.sh sorc/build_all.sh sorc/build_fv3.sh sorc/checkout.sh to add the option to check out ufs_weather_model and run with CCPP phsyics commit b80676925e5dca6c26d8dbf59c8ca74c0efe5fcb Author: Lin.Gan <lin.gan@noaa.gov> Date: Thu Nov 12 20:18:08 2020 +0000 sync config.base.emc.dyn and config.resources with development commit 6e6fdd79515966f84334e9319dbb3b9cfff9095c Author: Lin.Gan <lin.gan@noaa.gov> Date: Thu Nov 12 19:28:06 2020 +0000 Remove GSD suite file and aero IC extract util commit 8aed527d4358e131fba73785469d1fec957e619a Author: Lin.Gan <lin.gan@noaa.gov> Date: Thu Nov 12 18:23:21 2020 +0000 deleted: jobs/rocoto/aeroic.sh commit d2191414c48835799e578a6010d7dbfdb6babb78 Author: Lin.Gan <lin.gan@noaa.gov> Date: Thu Nov 12 18:11:43 2020 +0000 Changes to be committed: modified: jobs/rocoto/fcst.sh deleted: modulefiles/module_base.wcoss_dell_p3_fcst deleted: parm/config/config.aeroic modified: parm/config/config.base.emc.dyn modified: parm/config/config.resources modified: sorc/build_fv3.sh modified: sorc/checkout.sh modified: sorc/link_fv3gfs.sh deleted: ush/load_fv3gfs_modules_fcst.sh deleted: ush/rocoto/setup_workflow_fcstonly_aeroic.py commit 490f0a73d852f709e1232d4a4a9ee7f3d95d58d9 Merge: 52f59845 e3972f17 Author: Lin.Gan <lin.gan@noaa.gov> Date: Thu Nov 12 15:49:48 2020 +0000 Merge remote-tracking branch 'upstream/develop' into feature/ccpp commit 52f59845f62bd9cc16b6b1197a7de04a4b4a1d86 Author: Lin.Gan <lin.gan@noaa.gov> Date: Thu Nov 12 15:04:33 2020 +0000 As of 11/12/2020, this package is tested with a C768 cycled (6 cycle) run on Dell system using FV3_GFS_v16beta (imp_physics=11). The wave components are turned off. Ready to merge back to the development. The expdir and log files are available on HPSS: /NCEPDEV/emc-global/1year/Lin.Gan/WCOSS_DELL_P3/feature_ccpp/FV3_GFS_v16beta/FV3_GFS_v16beta-LOG.tar /NCEPDEV/emc-global/1year/Lin.Gan/WCOSS_DELL_P3/feature_ccpp/FV3_GFS_v16beta/FV3_GFS_v16beta-EXPT.tar File parm/config/config.resources has been modified to fix EUPD job issue in job card resource. File sorc/build_fv3.sh and sorc/link_fv3gfs.sh changed to clear up development remark. Removed a developer directory that is not required for FV3_GFS_v16beta confiruration. commit e3972f1778242d696bcc4eb4a979d46373e8d193 Merge: 9f7eebaf 671856dd Author: Kate Friedman <kate.friedman@noaa.gov> Date: Fri Nov 6 12:55:23 2020 -0500 Merge pull request #174 from NOAA-EMC/port2orion GFSv16 release hand-off state, Orion support, and additional low res R&D updates commit b096e2941e4817eace7d8d9e9173ca92a3f72944 Merge: 9fa9ffe9 670b97c2 Author: Kate Friedman <kate.friedman@noaa.gov> Date: Fri Nov 6 10:54:07 2020 -0500 Merge pull request #173 from JessicaMeixner-NOAA/bugfix/rtofsissues Updates for RTOFS preprocessing for wave model commit 671856ddf96ff4ae2df8a5feacd1b184ce9b8702 Merge: 5383477a 9f7eebaf Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Thu Nov 5 20:43:26 2020 +0000 Sync merge with develop to resolve conflicts commit 5383477af879dd671dbab066b41eea7e2428e50f Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Thu Nov 5 18:46:43 2020 +0000 Change wavepostbndpnt to wait for fcst to end commit 201abf3e7ed9b5cb66bec43bcb9e4d34b3c6d5f9 Merge: f4ceb182 9fa9ffe9 Author: kate.friedman <kate.friedman@noaa.gov> Date: Thu Nov 5 12:10:32 2020 -0600 Merge remote-tracking branch 'origin/release/gfsv16.0.0' into port2orion * origin/release/gfsv16.0.0: Issue #1 - update WAFS tag to gfs_wafs.v6.0.14 and update dumpjb version to 5.1.0 modified: jobs/JGFS_ATMOS_POSTSND and jobs/rocoto/postsnd.sh to remove redundant variables in the two scripts and make them work for both EMC and NCO parallels. Issue #1 - update WAFS tag to gfs_wafs.v6.0.13 Rename Release_Notes.gfs.v16.0.0.txt to Release_Notes.gfs.v16.0.0.md Issue #1 - update WAFS tag to gfs_wafs.v6.0.12 for removal of in-cloud turbulence per AWC commit f4ceb182685a5d6d6fb18b2e40c48ae0623a0794 Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Thu Nov 5 14:49:08 2020 +0000 Hera updates for OUTPUT_FILETYPES and resources commit 896d19529c828a62574c835d6d372701588fe758 Author: kate.friedman <kate.friedman@noaa.gov> Date: Wed Nov 4 10:19:17 2020 -0600 Set nth_fcst to 4 for C384 deterministic commit 37d01e9fc68517c39b66a1ab67453b016666d590 Author: kate.friedman <kate.friedman@noaa.gov> Date: Tue Nov 3 14:06:59 2020 -0600 Tie DOIAU_ENKF to DOIAU and add DOIAU check for IAU_OFFSET and IAU_FHROT in config.base commit 1a11fd21740860275f9be14caf1e615691075414 Author: kate.friedman <kate.friedman@noaa.gov> Date: Tue Nov 3 14:49:12 2020 +0000 Increase gfsfcst walltime for C192 commit 670b97c2673054b8d18a004390af0093520b1968 Author: jessica.meixner <Jessica.Meixner@noaa.gov> Date: Mon Nov 2 20:46:33 2020 +0000 updates for checking if RTOFS files exist and only processing RTOFS files for needed fhr commit 190b78c8d34f60e84c80b47a97cb4184e4e11fd9 Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Mon Nov 2 18:41:32 2020 +0000 Set nth_fcst to 4 for C384 on Hera to handle less memory commit 713c51eabc40b80e02314b5955b0efab3b235344 Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Mon Nov 2 17:54:49 2020 +0000 Add FDATE calculation to setup scripts and change FDATE in to parsed value in config.base.emc.dyn commit 306ea5f15120d808760bd58b247b5861a8813670 Author: kate.friedman <kate.friedman@noaa.gov> Date: Mon Nov 2 10:43:20 2020 -0600 Reduce C384 nth_fv3 to 1 in config.fv3 commit 9fa9ffe97d23ad69c33658875c9b0c3440c2c97f Author: kate.friedman <kate.friedman@noaa.gov> Date: Mon Nov 2 15:24:48 2020 +0000 Issue #1 - update WAFS tag to gfs_wafs.v6.0.14 and update dumpjb version to 5.1.0 commit 24226384780c9c2438abec1864923f87371798d4 Merge: 70593343 a3b46385 Author: fanglin.yang <fanglin.yang@noaa.gov> Date: Fri Oct 30 19:48:13 2020 +0000 Merge branch 'release/gfsv16.0.0' of https://github.com/NOAA-EMC/global-workflow into release/gfsv16.0.0 commit 705933436f2f42d5fde17b8aa4a57918f2c66b6a Author: fanglin.yang <fanglin.yang@noaa.gov> Date: Fri Oct 30 19:46:51 2020 +0000 modified: jobs/JGFS_ATMOS_POSTSND and jobs/rocoto/postsnd.sh to remove redundant variables in the two scripts and make them work for both EMC and NCO parallels. commit c9e0566eb2e6179410583c14d48a971a79dc4c88 Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Thu Oct 29 20:50:46 2020 +0000 Revert epos change in setup_workflow.py commit a3b463859154c1127bb66764a65baa89929a0a5f Author: kate.friedman <kate.friedman@noaa.gov> Date: Wed Oct 28 18:18:51 2020 +0000 Issue #1 - update WAFS tag to gfs_wafs.v6.0.13 commit ab0577de3c4bbbdc58219fd1c95a142cf93b5f4a Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Wed Oct 28 13:52:34 2020 +0000 Issue #1 - update anal, eobs, and eupd resources for low res commit 97f1ae89baf37d8bd1940f179fecb6bdc1279fa2 Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Tue Oct 27 17:52:28 2020 +0000 Issue #1 - adjust epos groups for DOIAU/DOIAU_ENKF=NO commit cb6d74e0c7363f7e54d879a97f457f7d4a37d926 Author: Kate Friedman <kate.friedman@noaa.gov> Date: Mon Oct 26 15:56:58 2020 -0400 Rename Release_Notes.gfs.v16.0.0.txt to Release_Notes.gfs.v16.0.0.md commit c09678fb33d0ece36de1af223b5cdf8384d5b9c3 Author: kate.friedman <kate.friedman@noaa.gov> Date: Mon Oct 26 14:43:09 2020 +0000 Issue #1 - update WAFS tag to gfs_wafs.v6.0.12 for removal of in-cloud turbulence per AWC commit 59f08b31916d3585aa9a4832dc9de865e3a350cf Merge: cbe5ddff 1171a622 Author: Lin.Gan <lin.gan@noaa.gov> Date: Thu Oct 22 19:47:42 2020 +0000 Merge remote-tracking branch 'upstream/port2orion' into feature/ccpp commit cbe5ddff8013a03a9391eead40796f9c30d7ca28 Author: Lin.Gan <lin.gan@noaa.gov> Date: Thu Oct 22 18:35:49 2020 +0000 Cycled warm start run using develop ufs-weather-model branch and feature/ccpp using merged branch on the 10/13 (4da0f) with feature/gfsv16b (31563). CPP_SUITE="FV3_GFS_v16beta" build_fv3 option: CCPP=Y 32BIT=Y SUITES=FV3_GFS_v15,FV3_GSD_v0,FV3_GSD_noah,FV3_GFS_v16beta wave is turned off for this test because it's for atmospheric physics and comparison. commit 1171a62238f0877fc8956df669f07fc9a418c145 Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Thu Oct 22 14:01:31 2020 +0000 Issue #1 - increase wavepostbndpnt and wavepostpnt walltimes to give more time on Hera commit c3bab19722a8b301e9ac4d2367b7e3e5dc2d88e7 Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Wed Oct 21 20:13:38 2020 +0000 Fix wrong DATE in new if-block in config.anal for cold start checking commit 636ded675b81b15e8b3af2a211edf44f17972cf0 Author: kate.friedman <kate.friedman@noaa.gov> Date: Tue Oct 20 19:23:16 2020 +0000 Issue #1 - add wtime_fcst_gfs time of 4hrs for C384 commit 4007f116adcde8372e590489d0faa0181babbc15 Author: kate.friedman <kate.friedman@noaa.gov> Date: Tue Oct 20 18:29:15 2020 +0000 Issue #1 - fix firstcyc queue bug in workflow_utils.py on WCOSS commit ebdb058fd138a7aa408d69c967747686ea5b77d9 Author: kate.friedman <kate.friedman@noaa.gov> Date: Tue Oct 20 13:23:05 2020 -0500 Issue #1 - resource updates from low res testing - set io_layout to "1,1" for low res gfs in config.fcst - set npe_wav[_gfs] to 140 for all resolutions, same wave grid - increase nth_fv3 to 4 for C192 and C384 - set smaller walltime for gfsfcst when resolutions less than C768 commit 3f0ab6ff2dd4ca42a45e68972b1936d398b32097 Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Tue Oct 20 17:55:18 2020 +0000 Issue #1 - increase C768 npe_eobs to 200 for Hera nodes with less memory commit d5b69c49ddbd03982db79f09707a49d01ef0b443 Merge: 4ebdd230 794e6655 Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Tue Oct 20 16:56:27 2020 +0000 Merge remote-tracking branch 'origin/release/gfsv16.0.0' into port2orion * origin/release/gfsv16.0.0: Issue #1 - pull in corrected npe_eobs values in config.resources Issue #1 - update FV3 tag to GFS.v16.0.14 for Hera/Orion build support commit 4ebdd230c121a3c839829aa4ef855d80eb462549 Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Tue Oct 20 16:53:46 2020 +0000 Add UPP netcdf module library load to HERA.env to resolve runtime netcdf version mismatch commit 794e6655cb227973e47b2373d0e4c97bf297479e Author: kate.friedman <kate.friedman@noaa.gov> Date: Tue Oct 20 16:45:58 2020 +0000 Issue #1 - pull in corrected npe_eobs values in config.resources commit 1d0cad425b1e163377bba8ace6622bbbb2d81de0 Author: Kate.Friedman <Kate.Friedman@noaa.gov> Date: Mon Oct 19 19:24:55 2020 +0000 …

…OAA-EMC#244) * Replace mersenne twister in CALWXT_BOURG.f with standard Fortran RNG * Update TIMEF.f * Update VERSION to 10.0.1

* Fix to allow quilting with non-factors for layout (NOAA-EMC#244) * Remove the inline comments

…on ice initialization (remove IPD step 2) (NOAA-EMC#244) * Move LSM vegetation lookup tables into CCPP, clean up RUC snow cover on ice initialization * Revert change to .gitmodules and update submodule pointer for ccpp-physics

@SMoorthi-emc

* Update .gitmodules and submodule pointers for ccpp-framework and ccpp-physics for gsl/develop branch * RUC ice for gsl/develop (replaces NOAA-GSL#54 and NOAA-GSL#56) (NOAA-GSL#60) Implementation of RUC LSM ice model in CCPP * Squash-merge climbfuji:rucice_gfsv16dzmin into gsl/develop * Fix bug in gfsphysics/GFS_layer/GFS_typedefs.F90 from merge * Remove lsm_ruc_sfc_sice from suite FV3_GSD_v0_unified_ugwp_suite and update submodule pointer for ccpp-physics * Remove sfc_sice from ccpp/suites/suite_FV3_GSD_v0_unified_ugwp_suite.xml * Update submodule pointer for ccpp-physics * Revert change to .gitmodules and update submodule pointer for ccpp-physics Co-authored-by: Dom Heinzeller <climbfuji@ymail.com> * Update gsl/develop from develop 2020/12/08 (NOAA-GSL#61) * Fix for updating stochastic physics on separate time-step. (NOAA-EMC#199) This bug fix allows the random patterns in the stochastic physics persist the for a period of time (defined as SKEBINT,SPPTINT, etc.) before calculating new patterns. The fix is to move the allocation of the saved variables into the init section of stochastic_physics_wrapper, and remove the deallocates in the run section. * Bug fixes in (1) running with frac_grid=T and GFDL MP and (2) restarting with frac_grid=T (NOAA-EMC#204) * -- Pointing to Moorthi's modifications in ccpp/physics, which fixed the crash when running GFDL MP with frac_grid=T; -- Not setting fice to zero in order to leave lake ice untouched; -- Restart in the coupled model with the default physics is reproducible, if bad water temperature is only filtered at initial time; Co-authored-with: Shrinivas Moorthi <shrinivas.moorthi@noaa.gov> Co-authored-with: Denise Worthen <Denise.Worthen@noaa.gov> * Revert change to .gitmodules and update submodule pointer for ccpp-physics Co-authored-by: Phil Pegion <38869668+pjpegion@users.noreply.github.com> Co-authored-by: shansun6 <48043606+shansun6@users.noreply.github.com> * Update submodule pointer for ccpp-physics - MYNN surface layer updates and bugfixes (NOAA-EMC#63) * Land stochastic perturbations (wrapper PR for NOAA-EMC#65) (NOAA-EMC#68) * Move initialization of stochastic physics after the physics initialization in CCPP. * Add albedo variables to land perturbations with lndp_type=2 option. Change to accommodate soil perturbations with RUC LSM. * Max/min soil moisture variables are introduced via GFS_Control_type variables instead of through the use of namelist_soilveg*. This is a more flexible way for different LSMs. * Added pores and resid variables for max/min soil moisture to GFS_typedefs.f90. * Remove tracer_sanitizer from all suites and from CCPP prebuild config * Add namelist option to apply land surface perturbations at every time step, clean up stochastic_physics/stochastic_physics_wrapper.F90 Co-authored-by: tanyasmirnova <tanya.smirnova@noaa.gov> * Stochastic land perturbations: add roughness length over land to the perturbed variables (NOAA-EMC#70) * Added roughness length over land to the perturbed variables. * Bugfix in gfsphysics/GFS_layer/GFS_typedefs.F90: remove Diag%cldcov, in particular the reset call because the variable is not allocated Co-authored-by: Dom Heinzeller <climbfuji@ymail.com> * Update gsl/develop from develop 2021/02/22 (NOAA-EMC#73) * Fix for updating stochastic physics on separate time-step. (NOAA-EMC#199) This bug fix allows the random patterns in the stochastic physics persist the for a period of time (defined as SKEBINT,SPPTINT, etc.) before calculating new patterns. The fix is to move the allocation of the saved variables into the init section of stochastic_physics_wrapper, and remove the deallocates in the run section. * Bug fixes in (1) running with frac_grid=T and GFDL MP and (2) restarting with frac_grid=T (NOAA-EMC#204) * -- Pointing to Moorthi's modifications in ccpp/physics, which fixed the crash when running GFDL MP with frac_grid=T; -- Not setting fice to zero in order to leave lake ice untouched; -- Restart in the coupled model with the default physics is reproducible, if bad water temperature is only filtered at initial time; Co-authored-with: Shrinivas Moorthi <shrinivas.moorthi@noaa.gov> Co-authored-with: Denise Worthen <Denise.Worthen@noaa.gov> * jedi-ufs with ccpp-physics submodule update (contains NOAA-EMC#201) (NOAA-EMC#211) * updated CMakeLists.txt * Changes for JEDI linking/control * Update .gitmodules and submodule pointer for ccpp-physics for code review and testing * Revert change to .gitmodules and update submodule pointer for ccpp-physics Co-authored-by: Mark Potts <Mark.Potts@noaa.gov> * Final-final GFS v16 updates / restart reproducibility bugfixes (NOAA-EMC#212) * updates the submodule pointer for ccpp-physics for the final-final (!) GFS v16 physics updates * fixes a bug in io/FV3GFS_io.F90 to obtain restart reproducibility for uncoupled and coupled runs - contributed by @SMoorthi-emc Co-authored-by: Shrinivas.Moorthi <Shrinivas.Moorthi@noaa.gov> * RRTMGP coupling to Thompson MP in ccpp-physics (NOAA-EMC#208) * Updated physics. Added infrastructure to FV3 to handle new GP capabilities. Thompson MP, LW scattering, Use of LW-jacobian to update surface tendencies. * Some small changes to work with physics improvements to RRTMGP. * RRTMGP working with Thompson MP. * Updated .gitmodules. * Updated physics. New interstitials. * Synced with NCAR/master * Updated ccpp-physics * Updated physics submodule. * Cleanup * Update physics * Updated physics submodule pointer. * Updated physics submodule hash. * Minor bug fixes to CCPP UGWP (update submodule pointer for ccpp-physics) (NOAA-EMC#216) Update the submodule pointer for ccpp-physics for minor bugfixes in CCPP's Unified Gravity Wave Drag parameterization. * Remove IPD (step 1) (NOAA-EMC#215) Remove all IPD source files that are not needed to compile with CCPP. Update gfsphysics/CMakeLists.txt and gfsphysics/GFS_layer/GFS_driver.F90 so that the code compiles after removing IPD sources. Also: update submodule pointer for GFDL_atmos_cubed_sphere to include PR NOAA-EMC/GFDL_atmos_cubed_sphere#48 ("Removed use of mpp_node for use with FMS 2020.04"). * Update submodule pointers for ccpp-framework (ccpp_prebuild bugfix) and ccpp-physics (RRTMGP GFDL-MP bugfix) (NOAA-EMC#218) Update the submodule pointers for ccpp-framework and ccpp-physics for the changes described in NCAR/ccpp-framework#343 and NCAR/ccpp-physics#536. * Remove unnecessary SIMD instruction sets from ccpp/CMakeLists.txt (NOAA-EMC#220) * Remove additional/unnecessary SIMD instruction sets from ccpp/CMakeLists.txt * Implementation of CCPP timestep_init and timestep_final phases (NOAA-EMC#217) - replace calls to CCPP step `time_vary` with `timestep_init` in `atmos_model.F90`, add call to CCPP step `timestep_final` - update `ccpp/driver/CCPP_driver.F90` with calls to CCPP `timestep_init` and `timestep_final` - add `h2o_def.f` and `ozne_def.` to `ccpp_prebuild_config.py` - update of `gfsphysics/GFS_layer/GFS_typedefs.F90`: cleanup work for o3 and h2o physics (required by the updates to the CCPP time vary physics) - update metadata in `gfsphysics/GFS_layer/GFS_typedefs.meta` for the above changes, and clean up the index used for the surface wind enhancement due to convection in the `phy_f2d` array (use proper index, not just the last entry in the array) * add radiation_clouds_thompson_dependency in ccpp physics (NOAA-EMC#225) * using radiation_clouds_thompson_dependency ccpp physics branch * point to ccpp master branch * Remove IPD steps 3 and 5 (NOAA-EMC#224) * Implementation of CCPP timestep_init and timestep_final phases in fv3atm; cleanup work in GFS_typedefs for o3 and h2o physics as a result of the changes to the time vary physics in CCPP * Use proper index variable for surface wind enhancement due to convection in phy_f2d array in GFS_typedefs.{F90,meta}, move code to clear diagnostic buckets using GFS DDT bound procedures from atmos_model.F90 to CCPP_driver.F90 * First step of cleanup process: remove CCPP preprocessor directives, remove parts of unused IPD code, update cmake build system, Delete IPD source code, Replace IPD DDTs with GFS DDTs, Bugfix in atmos_model.F90; add missing call to GFS_externaldiag_populate, Move contents of gfsphysics/{CCPP_layer,GFS_layer} to ccpp/{data,driver}, entirely deleted IPD typedefs, Rename module GFS_driver to GFS_init * Fix indentation in ccpp/data/CMakeLists.txt and ccpp/driver/CMakeLists.txt * Add logic to set DYN32 depending on 32BIT setting * Pass preprocessor directive GFS_TYPES to dycore to enable use of GFS data types * Compile GFS_diagnostics.F90 without optimization, this leads to out of memory errors on wcoss_dell_p3 * Add CCPP rrtmgp fix (NOAA-EMC#237) * ccpp physics merged with top of master * point back to ccpp master branch * Update develop from NOAA-GSL: RUC ice, MYNN sfclay, stochastic land perturbations (NOAA-EMC#239) * Update .gitmodules and submodule pointers for ccpp-framework and ccpp-physics for gsl/develop branch * RUC ice for gsl/develop (replaces NOAA-GSL#54 and NOAA-GSL#56) (NOAA-GSL#60) Implementation of RUC LSM ice model in CCPP * Fix bug in gfsphysics/GFS_layer/GFS_typedefs.F90 from merge * Remove lsm_ruc_sfc_sice from suite FV3_GSD_v0_unified_ugwp_suite and update submodule pointer for ccpp-physics * Remove sfc_sice from ccpp/suites/suite_FV3_GSD_v0_unified_ugwp_suite.xml * Update gsl/develop from develop 2020/12/08 (NOAA-GSL#61) * Fix for updating stochastic physics on separate time-step. (NOAA-EMC#199) This bug fix allows the random patterns in the stochastic physics persist the for a period of time (defined as SKEBINT,SPPTINT, etc.) before calculating new patterns. The fix is to move the allocation of the saved variables into the init section of stochastic_physics_wrapper, and remove the deallocates in the run section. * Bug fixes in (1) running with frac_grid=T and GFDL MP and (2) restarting with frac_grid=T (NOAA-EMC#204) * -- Pointing to Moorthi's modifications in ccpp/physics, which fixed the crash when running GFDL MP with frac_grid=T; -- Not setting fice to zero in order to leave lake ice untouched; -- Restart in the coupled model with the default physics is reproducible, if bad water temperature is only filtered at initial time; Co-authored-with: Shrinivas Moorthi <shrinivas.moorthi@noaa.gov> Co-authored-with: Denise Worthen <Denise.Worthen@noaa.gov> * Revert change to .gitmodules and update submodule pointer for ccpp-physics * Update submodule pointer for ccpp-physics - MYNN surface layer updates and bugfixes (NOAA-EMC#63) * Land stochastic perturbations (wrapper PR for NOAA-EMC#65) (NOAA-EMC#68) * Move initialization of stochastic physics after the physics initialization in CCPP. * Add albedo variables to land perturbations with lndp_type=2 option. Change to accommodate soil perturbations with RUC LSM. * Max/min soil moisture variables are introduced via GFS_Control_type variables instead of through the use of namelist_soilveg*. This is a more flexible way for different LSMs. * Added pores and resid variables for max/min soil moisture to GFS_typedefs.f90. * Remove tracer_sanitizer from all suites and from CCPP prebuild config * Add namelist option to apply land surface perturbations at every time step, clean up stochastic_physics/stochastic_physics_wrapper.F90 * Stochastic land perturbations: add roughness length over land to the perturbed variables (NOAA-EMC#70) * Added roughness length over land to the perturbed variables. * Bugfix in gfsphysics/GFS_layer/GFS_typedefs.F90: remove Diag%cldcov, in particular the reset call because the variable is not allocated * Update .gitmodules and submodule pointer for GFDL_atmos_cubed_sphere for code review and testing * Revert change to .gitmodules for ccpp-physics, update submodule pointer for ccpp-physics * Revert change to .gitmodules and update submodule pointer for GFDL_atmos_cubed_sphere Co-authored-by: DomHeinzeller <58610420+DomHeinzeller@users.noreply.github.com> Co-authored-by: Phil Pegion <38869668+pjpegion@users.noreply.github.com> Co-authored-by: shansun6 <48043606+shansun6@users.noreply.github.com> Co-authored-by: tanyasmirnova <tanya.smirnova@noaa.gov> * Dycore change to add an option to zero-gradient BC for height advection and change dz_min as a namelist input (NOAA-EMC#232) * Point dycore to a personal branch * Point to new version of dycore * Update the dycore version * Update the dycore version * Point to NOAA-EMC dev/emc dycore branch * Remove gnumake build remnants, change v16beta to v16 (NOAA-EMC#234) * Remove gnumake files * Replace v16beta with v16 for all CCPP suites * Remove unused CCPP_INCLUDE_DIRS/CCPP_LIB_DIRS from ccpp/CMakeLists.txt * Move LSM vegetation lookup tables into CCPP, clean up RUC snow cover on ice initialization (remove IPD step 2) (NOAA-EMC#244) * Move LSM vegetation lookup tables into CCPP, clean up RUC snow cover on ice initialization * Revert change to .gitmodules and update submodule pointer for ccpp-physics * UGWP v0 v1 combined (NOAA-EMC#241) * .gitmodules/gsl atmos-cubed cccp-fram cccp/physics * update fv3atm from NOAA-EMC Jan 9 * new suite_FV3_GFS_v16b_ugwpv1.xml and modifications Jan 11/2021 * Added new logical flag do_ugwp_v0_nst_only which allows non-stationary drag from ugwp_v0 to be run with GSL drag suite * Fix formatting in ccpp/data/GFS_typedefs.* * Clean up allocation of arrays in ccpp/data/GFS_typedefs.F90, add active attribute (pass 1) to ccpp/data/GFS_typedefs.meta, strip trailing whitespaces from both * Update and cleanup of metadata for UGWPv0, UGWPv1, drag suite * Reorganize UGWP diagnostic variables in data/GFS_typedefs.{F90,meta} * Bugfix for uninitialized data in ccpp/data/GFS_typedefs.F90 * Update submodule pointer for ccpp-physics * Allocate 3d diagnostic arrays as dummy arrays if not used Co-authored-by: valery.yudin <valery.yudin@noaa.gov> Co-authored-by: Michael Toy <michael.toy@noaa.gov> * SDF for GFSv16 with Thompson (NOAA-EMC#238) * SDF for GFSv16 with Thompson * Delete suite_FV3_GFS_v16beta_thompson.xml * update to new commit of Thompson MP in ccpp physics Co-authored-by: Phil Pegion <38869668+pjpegion@users.noreply.github.com> Co-authored-by: shansun6 <48043606+shansun6@users.noreply.github.com> Co-authored-by: Mark Potts <Mark.Potts@noaa.gov> Co-authored-by: Shrinivas.Moorthi <Shrinivas.Moorthi@noaa.gov> Co-authored-by: dustinswales <dustin.swales@noaa.gov> Co-authored-by: Jun Wang <37633869+junwang-noaa@users.noreply.github.com> Co-authored-by: XiaqiongZhou-NOAA <48254930+XiaqiongZhou-NOAA@users.noreply.github.com> Co-authored-by: valery.yudin <valery.yudin@noaa.gov> Co-authored-by: Michael Toy <michael.toy@noaa.gov> Co-authored-by: XiaSun-NOAA <58949533+XiaSun-NOAA@users.noreply.github.com> * Remove inconsistencies in computation of air density with Thompson MP (NOAA-EMC#74) * Update .gitmodules and submodule pointer for ccpp-physics for code review and testing * Revert change to .gitmodules and update submodule pointer for ccpp-physics * Update thompson mp 20210213 (NOAA-EMC#567) for gsl/develop (NOAA-EMC#75) * Add logical convert_dry_rho for Thompson MP, hardcoded to false * Initialize all variables to NaN in ccpp-physics in DEBUG mode * Update submodule pointer for ccpp-physics * Revert change to .gitmodules and update submodule pointer for ccpp-framework and ccpp-physics * &gfs_physics_nml print_diff_pgr=.true. will print per-timestep pgr change stats * point to sam's repository for atmos_cubed_sphere * Add units and lat/lon to per-timestep pgr stats * Rebase atmos_cubed_sphere to NOAA-GFDL dev/emc branch * Print mean pgr change as hPa/hr and other pgr data as bars. * Remove changes from atmos_cubed_sphere and simplify atmos_model.F90 changes. * print mean abs change instead of mean change in pgr * Update .gitmodules and submodule pointers for ccpp-framework and ccpp-physics for code review and testing * Revert change to .gitmodules and update submodule pointers for ccpp-framework and ccpp-physics * clarify one print * More 3D diagnostic tendencies (NOAA-EMC#76) Add diagnostic tendencies for all tracers. Move all d*3dt variables into a 4D sparse array stored as `dtend(i,k,dtidx(tracer,process))` to reduce memory usage. * Fix incorrect units in dtend metadata (NOAA-EMC#82) * Fix incorrect units in dtend metadata * Make the tracer tendency units mandatory. * Add SO2 tendency units (NOAA-EMC#86) * Update .gitmodules and submodule pointers for ccpp-framework and ccpp-physics * Update submodule pointer for ccpp-physics * Revert change to .gitmodules and update submodule pointer for ccpp-framework and ccpp-physics * dtend: add missing tendencies and fix bugs in convection tendencies (NOAA-EMC#92) * Fix incorrect units in dtend metadata * Point to corresponding ccpp/physics branch * fixes to dtend support: 1. Store rtg (AKA clw AKA qtr) instead of gq0 in DCNV and SCNV pre/post for schemes that use convective transport. Tracers handled solely by convective transport (ones not in rtg) are reported as convective transport tendencies. Tendencies for variables in rtg are reported as dcnv and scnv tendencies. 2. Report TKE tendencies from gfs v16 PBL. 3. Add diagnostic tendencies to drag_suite 4. Only report rayleigh damping tendencies if rayleigh damping is enabled 5. List all possible diagnostic tendencies, even if they are not enabled. In the output, label them "selected" or "disabled." 6. Add phys_tend to the fv3_rap suite. * Merge gsl/develop into ccpp/physics * Add phys_tend to suite_FV3_GSD_SAR and remove some debug prints * Remove some debug prints and commented-out code. * Correct error in dtend variable availability list print. * Enable convtrans diagnostic tendencies for number concentrations and qrimef. * Disable cnvtrans diagnostic tendencies for schemes that do their own diagnostic tendency reporting. * Point to gsl repositories * Update .gitmodules for code review and regression testing * Formatting changes in ccpp/data/GFS_typedefs.F90 * Update submodule pointer for ccpp-physics * Update submodule pointer for ccpp-physics * Point update_gsl_develop_from_develop_20210531 to NOAA-GSL branches of ccpp/physics and ccpp/framework * GF aerosols updates and tunings * GF aerosol updates and tunings from physics * Update .gitmodules and submodule pointer for ccpp-physics for code review and testing * Update submodule pointer for ccpp-physics * Update submodule pointer for ccpp-physics * Update submodule pointer for ccpp-physics * Make aod_gf and cactiv_m work appriopriately for restarts Minor code cleanup * Add missing metadata for new GF arrays * Bug fix in ccpp/driver/GFS_restart.F90 for GF * Update submodule pointer for ccpp-physics * Revert change to .gitmodules and update submodule pointer for ccpp-physics * Add missing active attribute for aod_gf in ccpp/data/GFS_typedefs.meta * Update submodule pointer for ccpp-physics * Update submodule pointer for ccpp-physocs * Change name of sfc_name2(39) from 'weasd' to 'weasdl' in io/FV3GFS_io.F90 * Revert change to .gitmodules and update submodule pointers for ccpp-framework and ccpp-physics * Update .gitmodules and submodule pointer for ccpp-physics for code review and testing * Update .gitmodules and submodule pointer for ccpp-physics for code review and testing * Revert change to .gitmodules and update submodule pointer for ccpp-physics * Changed dimensions of variables tsnow_land and sncovr_ice from horizontal_dimension to horizontal_loop_extent * Added Flake to two suites: FV3_GSD_v0 and FV3_HRRR. * Update .gitmodules and submodule pointer for ccpp-physics for code review and testing * Update submodule pointer for ccpp-physics * Revert change to .gitmodules and update submodule pointer for ccpp-physics * Update to ccpp/data/GFS_typedefs.meta following CCPP standard names update * Update submodule pointer for ccpp-physics * Revert change to .gitmodules and update submodule pointer for ccpp-physics * Revert change to .gitmodules and update submodule pointers for ccpp-physics and ccpp-framework * Revert change to .gitmodules and update submodule pointers for ccpp-framework and ccpp-physics * Turn on GF aerosol-awareness Tune clwdet (cloud water detrainment) Make evfact (evaporation factor) and radiation factor scale-aware * Update .gitmodules and submodule pointers for ccpp-framework and ccpp-physics for code review and testing * Switch back to NCAR ccpp-framework main, abandon NOAA-GSL fork * Update submodule pointer for ccpp-physics * Update submodule pointer for ccpp/physics * Update .gitmodules and submodule pointer for ccpp-physics for code review and testing * Update submodule pointer for ccpp-physics * Revert change to .gitmodules and update submodule pointer for ccpp-physics * Update submodule pointer for ccpp-physics * Revert change to .gitmodules and update submodule pointer for ccpp-physics * Update .gitmodules and submodule pointer for ccpp-physics for code review aand testing * Update submodule pointer for ccpp-physics * Revert change to .gitmodules and update submodule pointer for ccpp-physics * Update .gitmodules and submodule pointer for ccpp-physics for code review and testing * Update submodule pointer for ccpp-physics * Revert .gitmodules and update submodule pointer for ccpp-physics * Revert change to .gitmodules and update submodule pointer for ccpp-physics * Update .gitmodules and submodule pointer for ccpp-physics for code review and testing * Revert .gitmodules and update submodule pointer for ccpp-physics * Update CCPP metadata and several suite defiition files for new GSL regression tests * Bug fix for compiling with Intel on macOS, remove clutter from stdout in io/FV3GFS_io.F90 * Update .gitmodules and submodule pointer for ccpp-physics for code review and testing * Rename GSL suites to RAP suites, add new RAP suites * rename suite FV3_GSD_v0 to FV3_RAP_noah_sfcdiff_cires_ugwp, delete suite FV3_SAR * Update submodule pointer for ccpp-physics * Address reviewer comments * Update submodule pointer for ccpp-physics * Revert .gitmodules and update submodule pointer for ccpp-physics Co-authored-by: DomHeinzeller <58610420+DomHeinzeller@users.noreply.github.com> Co-authored-by: Phil Pegion <38869668+pjpegion@users.noreply.github.com> Co-authored-by: shansun6 <48043606+shansun6@users.noreply.github.com> Co-authored-by: tanyasmirnova <tanya.smirnova@noaa.gov> Co-authored-by: tanyasmirnova <38667904+tanyasmirnova@users.noreply.github.com> Co-authored-by: Mark Potts <Mark.Potts@noaa.gov> Co-authored-by: Shrinivas.Moorthi <Shrinivas.Moorthi@noaa.gov> Co-authored-by: dustinswales <dustin.swales@noaa.gov> Co-authored-by: Jun Wang <37633869+junwang-noaa@users.noreply.github.com> Co-authored-by: XiaqiongZhou-NOAA <48254930+XiaqiongZhou-NOAA@users.noreply.github.com> Co-authored-by: valery.yudin <valery.yudin@noaa.gov> Co-authored-by: Michael Toy <michael.toy@noaa.gov> Co-authored-by: XiaSun-NOAA <58949533+XiaSun-NOAA@users.noreply.github.com> Co-authored-by: samuel.trahan <Samuel.Trahan@noaa.gov> Co-authored-by: Samuel Trahan (NOAA contractor) <39415369+SamuelTrahanNOAA@users.noreply.github.com> Co-authored-by: hannah barnes <hannah.barnes@noaa.gov> Co-authored-by: Hannah C Barnes <38660891+hannahcbarnes@users.noreply.github.com>

Issue #179 and issue #243 - update Fit2Obs to newm.1.2 tag and correc…

5a16a7a

…t COMROOT path for Hera

KateFriedman-NOAA added the bug Something isn't working label Jan 21, 2021

KateFriedman-NOAA self-assigned this Jan 21, 2021

This was linked to issues Jan 21, 2021

Test Fit2Obs on Orion and update installs everywhere to new tag #179

Closed

Fix COMINsyn path on Hera #243

Closed

KateFriedman-NOAA merged commit 479000a into develop Jan 21, 2021

KateFriedman-NOAA deleted the issue243 branch January 21, 2021 16:31

CatherineThomas-NOAA mentioned this pull request Dec 6, 2021

Add coupled support and update UFS #500

Merged

kayeekayee pushed a commit to kayeekayee/global-workflow that referenced this pull request May 30, 2024

Fix to allow quilting with non-factors for layout (NOAA-EMC#192)

b6957d8

* Fix to allow quilting with non-factors for layout (NOAA-EMC#244) * Remove the inline comments

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Issue #179 and issue #243 - update Fit2Obs to newm.1.2 tag and correct COMROOT path for Hera #244

Issue #179 and issue #243 - update Fit2Obs to newm.1.2 tag and correct COMROOT path for Hera #244

KateFriedman-NOAA commented Jan 21, 2021

Issue #179 and issue #243 - update Fit2Obs to newm.1.2 tag and correct COMROOT path for Hera #244

Issue #179 and issue #243 - update Fit2Obs to newm.1.2 tag and correct COMROOT path for Hera #244

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KateFriedman-NOAA commented Jan 21, 2021