Enable radar reflectivity output #2143
Merged
Conversation
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
WalterKolczynski-NOAA
requested review from
aerorahul,
RuiyuSun and
WenMeng-NOAA
|
grib2 files now have valid data for the associated fields: |
WenMeng-NOAA
approved these changes
Dec 12, 2023
WalterKolczynski-NOAA
added
the
CI-Hera-Ready
emcbot
added
CI-Hera-Building
|
aerorahul
reviewed
Dec 12, 2023
emcbot
added
CI-Hera-Running
|
Automated global-workflow Testing Results: |
|
Experiment C48_S2SWA_gefs_6333b639 SUCCESS on Hera at 12/12/23 07:48:19 PM |
|
Experiment C48_ATM_6333b639 SUCCESS on Hera at 12/12/23 07:52:12 PM |
|
Experiment C96C48_hybatmDA_6333b639 SUCCESS on Hera at 12/12/23 08:52:23 PM |
|
Experiment C96_atm3DVar_6333b639 SUCCESS on Hera at 12/12/23 08:52:31 PM |
|
Experiment C48_S2SW_6333b639 SUCCESS on Hera at 12/12/23 09:36:15 PM |
emcbot
added
CI-Hera-Passed
|
All CI Test Cases Passed on Hera: |
jkhender
added a commit
to jkhender/global-workflow
that referenced
this pull request
Jan 13, 2024
global-workflow: 02Jan24, 9d901db
UFS: 21Dec23, 991d652
UPP: 07Nov23, 78f369b
Squashed commit of the following:
commit 4e4e50803d95566e1c7967cf4cfa575391d77f25
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Fri Jan 12 00:44:59 2024 +0000
Change default HPSS_PROJECT to fim
Change restart_interval_gfs to -1 so no files are written ro RERUN_RESTART directory
commit 791d7a27c6b12f07d9c12ce491338e3da59eb1d8
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 11 23:34:36 2024 +0000
Add namelist parameter, nord_tr, for GSL suites
commit c4a41de7ebcda2f80ce69ac94bd2b3a6f5d04ed5
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 11 23:31:22 2024 +0000
Add changes for running v17p8_mynn
- new field table, field_table_thompson_aero_tke_progsigma
- updated namelist parameters in config.fcst
commit 982a1f02e3b880be43f4ae8a3f0ffbb34c056aea
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:26:22 2024 +0000
Add experiment setup script for p8_ugwpv1
commit c5a3697d22fdbb02bb80ddffee2629dddc10c702
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:19:13 2024 +0000
Add memory report to srun command in env/HERA.env
commit ece7e516ca65ec0240899e7d84321310a6887595
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:13:42 2024 +0000
Updated GSL-specific files under ufs_utils.fd_gsl
commit 1b153fc95b93a16eb40b791be7322100fde4a3d4
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 01:52:56 2024 +0000
Create new branch, gsl_ufs_dev, from dev_02jan24_9d901db
Add initial GSL modifications
- changes to workflow files
* GSL paths, projects, entities
- new FV3_GFS_v17_p8_ugwpv1_mynn suite definition file (SDF)
- updated namelist parameters in ush/parsing_namelists_FV3.sh
- create new GSL directories: ufs_model.fd_gsl and ufs_utils.fd_gsl
* new SDFs, add instantaneous flux variables to grib2 configuration files
* add Thompson tracers to initial conditions
- new sync script: rsync_gsl.sh
- new job files: getic.sh, makeinit_link.sh
- modify build_ufs.sh to include MYNN SDF
commit 9d901dbbff4d41586580316bdc094d24760119e6
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Jan 2 10:30:33 2024 -0700
Stop Gempak pgrb2 spec from modifying $DATA (#2147)
This PR addresses issue #1224. The following is accomplished:
- Instances where `DATA` is modified, corrections are made to use a locally defined variable such that `DATA` is no longer modified at run-time;
- Shell linter exceptions are addressed accordingly;
- The respective GEMPAK tasks is added to the Rocoto mesh.
Resolves #1224
commit 31ad23527802f7d07171132cc620f7135c4d8cba
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Jan 2 10:27:30 2024 -0700
Reorganize NPOESS scripts (#2166)
This PR addresses issue #1226. The following is accomplished:
- Using the GEMPAK j-job script `JGFS_ATMOS_GEMPAK_PGRB2_SPEC`, the structure
of `JGFS_ATMOS_PGRB2_SPEC_NPOESS` is updated;
- Environment variables specific to the script `exgfs_atmos_grib2_special_npoess.sh`
are moved accordingly; this specifically applies to the environment variable `FHOUR`,
`SHOUR`, `FHINC`, `SLEEP_TIME`, and `SLEEP_INT`;
- The `SLEEP_TIME` and `SLEEP_INT` parameters can now be defined at the top-level
(if necessary);
- Restart file checks are move to `exgfs_atmos_grib2_special_npoess.sh`; however,
this may not be necessary (see `TODO` note within draft PR.
Resolves #1226
commit 22bd82fa93b49e5ce98eb3f69123956dd5018049
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Jan 2 11:55:03 2024 -0500
Orog fix file reorg and fix directory variable standardization (#2181)
This PR makes updates to use the newly reorganized `orog/20231027`
fix file version and standardizes the fix file directory variables.
Changes:
1. Update UFS_UTILS hash to ce385ce
2. Update fix file version file to use new orog timestamp: `orog_ver=20231027`
3. Add ".mx$(OCNRES)" to `oro_data` filenames in scripts
4. Remove ".mx$(ocn_res)_frac" from the directory names for atmosphere
resolutions under the `/orog` folder
5. Adds fix file directory variables to `config.base`, many of which are pulled
up out of lower scripts; introduce `FIXcpl`
6. Renamed/replaced the following fix file directory variables:
- `FV3JEDI_FIX` --> `FIXgdas`
- `FIXfv3`, `FIX_orog` and `OROFIX` --> `FIXorog`
- `FIX_ugwd` and `OROFIX_ugwd` --> `FIXugwd`
- `FIX_am`, `FIXgsm`, `FIXSYND` --> `FIXam`
- `FIX_lut` --> `FIXlut`
- `FIX_aer` --> `FIXaer`
- `FIX_SFC` --> `FIXsfc`
- `FIX_DIR` --> `FIXgfs`
- `RTMFIX` and `FIXCRTM` --> `CRTM_FIX` (is `CRTM_FIX` in crtm module,
so not using `FIXcrtm`)
7. Correct the defaults for `FIXwave` in wave JJOB scripts
8. Update variable names in `*fixed_files.yaml` files, as well as update naming
convention for `oro_data` files
Resolves #1984
Resolves #1981
Resolves #2175
commit 03d03bf53b43914a55c384cb33eb06f6a9a443a6
Author: Andrew Collard <40322596+ADCollard@users.noreply.github.com>
Date: Tue Jan 2 11:53:44 2024 -0500
Remove HIRS from GSI processing (#2183)
With the update to CRTM 2.4.0.1, an issue with versioning of CRTM HIRS
files has been exposed. This is documented in JCSDA/crtm#42.
As HIRS radiances are no longer used in the GSI, these data should be removed
from processing until a suitable update to CRTM is available.
Resolves #2182
commit a3c50998d35525a39a66d5592fbf327ab3569e8b
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Fri Dec 22 18:07:48 2023 -0500
Update ufs-weather-model version (#2186)
* update model to latest version which includes needed bugfixes for HR3
commit 774c7302e618370ef578bec3ccabc70486d6da1b
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Fri Dec 22 11:34:53 2023 -0500
Fix analysis post processing's handling of 0-padded negative integers (#2187)
This screens for the analysis 'forecast' hour (-001) and handles the '-' and circumvents octal issues.
commit d1251360325faf75af9df0608557fcd10202a883
Author: Barry Baker <bbakernoaa@users.noreply.github.com>
Date: Thu Dec 21 11:23:48 2023 -0500
Fix for restoring cycling aerosols in fo-mode post COM refactor (#2179)
- Update to COM reorg aerosol initialization job
- Address bug in joining paths for data dependency in this job
---------
Co-authored-by: Rahul Mahajan <aerorahul@users.noreply.github.com>
commit e55a05980709288d902ad1bd894164bfa5a18a65
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Dec 20 22:14:01 2023 -0500
Stop calling ufs-utils link script (#2172)
The `link_workflow.sh` script was calling the ufs_utils version of the
same. That step is only necessary if a user is going to run one of the
stand-alone ufs-utils, which is rare.
commit ef3e5ad7c63be1644c82333c95853c3caf2d8995
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Dec 19 22:02:55 2023 -0500
Fix handling of excluded hosts list (#2170)
This PR fixes the issue with `create_experment.py` so that the yaml configuration
file can have a string of list of strings when specifying the host name to exclude
from the CI tests.
commit ea74a5719efc8f0fe631c5ff93426a4299a614f3
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Tue Dec 19 16:21:41 2023 -0500
Add COMOUT_OBS to marine obs prep (#2173)
Adds `COMOUT_OBS` (defined from `COM_OBS_TMPL`) to marine obs prep task to properly handle marine obs prep files. Used to keep obs after IODA conversion, QC, and other prep.
Towards resolving NOAA-EMC/GDASApp#815
commit c2500feace0bb7c04ce67a90dd3182120ee67b2e
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Tue Dec 19 14:55:20 2023 -0500
Return failed status if a build fails. (#2171)
If any of the builds fail, this makes build_all.sh return the sum of the error codes encountered.
Fixes #2168
commit 76fdd81cd84ed812181996a102379d8d964ba27a
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 19 13:24:34 2023 -0500
Update index.rst for new GFSv16.3.12 in ops (#2169)
Refs #2096
commit a81da33e8fe7541a36f68e7a4f14a384cadd36c8
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 19 10:22:21 2023 -0500
Set place=shared for shared jobs on WCOSS2 (develop) (#2156)
Set job as shared when not exclusive on WCOSS2
WCOSS2 defaults to exclusive when it is not specified as
either exclusive (place=exclhost) or shared (place=shared).
Now set shared when job should be shared.
Refs #2135
commit 89aea972f7964dac3f515e8070d7c534812c5fb4
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Dec 15 16:31:06 2023 -0500
Update gfs-utils version for Hercules (#2163)
An update of gfs-utils was misssing from the previous PR that added
initial Hercules support (#2128).
Also includes gfs-utils update for new marine post.
commit 9505cb4abc6ca2643a8ab254d14ca2000747fa44
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Thu Dec 14 16:15:31 2023 -0500
CI Updates to support Hercules (#2155)
If merged, this PR will update the CI scripts so they will run on Hercules for forecast only
NOTE: This is a stop gap to issue #2131 until its block on #1588 is removed.
Resolves #2154
commit c5ca82f04a2efae78389dec1c46b94ef4fb5bbe5
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Thu Dec 14 16:05:33 2023 -0500
Correct fbwind (#2161)
commit f3f3e05e6325e6c2e8ddab186f1ed2f985fec49a
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Thu Dec 14 12:06:23 2023 -0500
Add MOS jobs to rocoto mesh (#2148)
Create separate jobs for GFS MOS - extracted from now-retired vrfy job
Refs #2068
commit bb6151aa50c27253cb9b8f0a6601ddd58526b8b3
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Dec 14 05:38:29 2023 -0500
Replace checkout script with submodules (#2142)
Replaces the checkout script with git submodules. This change brings workflow in
line with other repos and git standards.
Due to these changes, the build system is updated slightly. First, the options that
were formerly used with `checkout.sh` to reduce unneeded builds (`-g` for GSI
and `-u` for UFSDA) are moved to `build_all.sh` instead. This is needed since build
all will not be able to key off directories existing or not to determine which com-
ponents to build. Second, the partial build system is removed. It was rarely, if ever,
used, and parts of it were already ignored with the previous changes to base builds
off whether directories exist. The manage externals file is also removed since that is
also not being used.
Following these changes, clones/checkout will need to either be recursive, or
`git submodule update` will need to be called separately to make sure components
are properly checked out (non-exhaustive list):
```
## Checkout develop (method 1)
git clone --recursive https://github.com/NOAA-EMC/global-workflow destination
## Checkout develop (method 2)
git clone --jobs 8 https://github.com/NOAA-EMC/global-workflow destination
cd destination
git submodule update --init --recursive --jobs 8
## Checkout existing branch some_branch (method 1)
git clone --recursive --jobs 8 -b some_branch https://github.com/NOAA-EMC/global-workflow destination
## Checkout existing branch some_branch (method 2)
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout --recurse-submodules some_branch
## Checkout existing branch some_branch (method 3)
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout some_branch
git submodule update --init --recursive --jobs 8
## Checkout new branch new_branch
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout -b new_branch
git submodule update --init --recursive --jobs 8
```
The git ignore list had to be updated to use explicit paths as the wildcard paths pick
up the ones that are now submodules.
UFS creates files during the build process that are not in its ignore list, so that sub-
module ignores the "dirty" state to avoid confusing users running `git status`.
CI and documentation are also updated to reflect the changes.
Resolves #2141
commit 1332188ce2409e012ec127d44880e49732f7f379
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Dec 13 09:32:57 2023 -0500
Enable radar reflectivity output (#2143)
Turns on radar reflectivity output from FV3. This eliminates missing values appearing in the grib2 files.
commit 24d898ec0ec0c7fcbda6966988f9a986f528ed14
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Wed Dec 13 09:32:24 2023 -0500
Fix Hercules hostname (#2150)
* Allow lower or upper hostname on hercules.
* Add Hercules to issue template.
commit 2896bb8787698be28ad20f2298589e6e95eaf9fb
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 12 09:13:06 2023 -0500
Fix module load typo (#2145)
Fix typo with loading the crtm module in the UPP hack for WCOSS2
Refs #2144
commit 29d34172a67d976f910e78158ff0337e1ef099ca
Author: Cory Martin <cory.r.martin@noaa.gov>
Date: Thu Dec 7 15:12:05 2023 -0500
Update GDAS hash to most recent stable versions (#2138)
commit 93da9f105502e24f1a1a621f05ea49e1fdfe0102
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Dec 7 10:41:05 2023 -0700
Corrected typo in a gempak job gempakncdcupapgif . (#2137)
commit 3483f550db1ae35a680de49f7485ce5a11902dd9
Author: Cory Martin <cory.r.martin@noaa.gov>
Date: Thu Dec 7 12:34:56 2023 -0500
Add support for FGAT and IAU for aerosol DA (#1940)
commit e2664c011bf5fb03a9b1b37878cad423a1fde6f9
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Thu Dec 7 12:33:46 2023 -0500
Enable forecast-only experiments on Hercules (#2128)
This add forecast-only support for Hercules to the global workflow. Partially satisfies #1588.
Co-authored-by: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
commit a29f751aed05312da3d80d396159bb5a906d6ce4
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Wed Dec 6 13:45:56 2023 -0700
Adds GEMPAK and related jobs to rocoto task mesh (#2127)
commit 1fc8b5bf55581de18e786611c65bc3f84bb0c082
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Tue Dec 5 15:47:52 2023 -0500
Separate offline UPP from interpolated grib2 product generation (#2110)
This PR:
- Replaces the use of `JGLOBAL_ATMOS_POST` with `JGLOBAL_ATMOS_UPP`
and `JGLOBAL_ATMOS_PRODUCTS`.
- Introduces `JGLOBAL_ATMOS_PRODUCTS` that is responsible for creating
grib2 products from the master file produced by UPP (inline from the model,
or offline by running `JGLOBAL_ATMOS_UPP`). Rocoto job `atmos_products.sh`,
ex-script `exglobal_atmos_products.sh` are also added along with a
`config.atmos_products`. Updates are made to the relevant `env` files as well as
`config.resources` to reflect the addition of this job.
- reduces the number of cores needed appropriately for forecast products when
there is no offline UPP necessary.
- renames older `fv3gfs_dwn_nems.sh` to `interp_atmos_master.sh` and
`inter_flux.sh` to `interp_atmos_sflux.sh`
- removes `fv3gfs_downstream_nems.sh` as it is absorbed into
`exglobal_atmos_products.sh`
- removes no longer used scripts for `gfs_post.sh`, `gfs_transfer.sh` (DBN alerts
are absorbed into `exglobal_atmos_products.sh`), `post.sh`,
`JGLOBAL_ATMOS_POST`, `ex${RUN}_atmos_post.sh` scripts.
- Rocoto workflow related scripts are updated to add `atmos_products` as a job.
When `WRITE_DOPOST` is `.false.`, `upp.sh` job to run the UPP offline is also
added. Dependencies have been appropriately applied.
- removes `PGB1F` option that creates 1-degree grib1 products that are no longer
needed in GFSv17.
The hacks from (now deleted) `post.sh` had to be reinstated in `upp.sh` to load the
modules from UPP instead of `load_fv3gfs_modules.sh`.
commit 44186f594aaf5f8feea0eadd4c5c3b59de3a825e
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 5 12:28:08 2023 -0500
Update index.rst for new GFSv16.3.11 version (#2121)
Refs #1356
commit e62a3a73cd22701962b7bf210fdfee37f37a5474
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Dec 5 09:08:12 2023 -0700
Splits AWIPS jobs into seperate tasks (#2094)
This PR addresses issue #1228. The following is accomplished:
- Separate rocoto jobs have been created beneath `jobs/rocoto/`
-- `awips_20sh` and `awips_g2sh`; these jobs replace `awips.sh` which was
calling multiple J-jobs within the respective `awips.sh` scripts;
- New tasks has been added to `workflow/rocoto/tasks.py` for the new
AWIPS scripts;
- The `gfs_cycled` and `gfs_forecast_only` modules beneath
`workflow/rocoto` have been updated accordingly.
Resolves #1228
commit 04d97e9aa7ab84b9754ab670074cfb19d543aa26
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Mon Dec 4 13:38:30 2023 -0500
Consolidate VMINMON and cleanup monitor scripts (#2088)
This PR combines the GDAS and GFS versions of the VMINMON JJOB
and ex-driver scripts into single GLOBAL/global versions. Additionally:
* some further cleanup of the GSI-Monitor scripts is done; variable
settings in ex-driver scripts are moved up to the JJOB level
* the fix symlinks are consolidated into a new `fix/mon` subfolder (formerly
`fix/gdas`) and copies of the gfs monitor fix files under `fix/products` are
removed
Resolves #1925
commit a286a11fdcbc31c8bc6d944890bc56294bc8caf6
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Mon Dec 4 17:48:44 2023 +0000
Robust CI Restarts (#2093)
Improved CI robustness for reverting back to **CI-Ready** from any
given state
New Features:
- Improved `scancel` routine (refactored into bash "subroutine")
- Improved messaging (see below) when ever a user changes state
- Any and all previous build scripts and running experiments are killed as
a result of reset to **Ready**
Resolves #2060
commit 73621e9b20b20f85e8b21e4c1e09ed1d80ecd46f
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Sun Dec 3 11:19:19 2023 -0500
Upgrade to spack-stack/1.5.1 and Intel 2022 on non-production machines (#2084)
Update module files to spack-stack/1.5.1 and compilers to Intel 2022+ on all non-production machines.
commit 6d548b250688861eb20a7e0dc852a0e4ba9e64f4
Author: jiandewang <jiande.wang@noaa.gov>
Date: Thu Nov 30 12:00:21 2023 -0500
Add variable tob in diag_table for ocean model output(#2105)
commit c19810cce252fcdb25fd9960c05b08b5f8d8b1ad
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Wed Nov 29 15:17:36 2023 -0500
Added variables to config.prepoceanobs (#2101)
commit c2d78a61a224678fb804eed19f39d1f07408ae5f
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 29 12:39:08 2023 -0500
Add missing cut to VDATE setting in JGFS_ATMOS_VERIFICATION (#2098)
Refs #2097
commit c1c025f91ddac73aea595cc9fa4dd0bea80575fc
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Nov 29 17:15:10 2023 +0000
Add wave init to GEFS (#2089)
Adds the wave init job to GEFS. Since the output would be the same for
every member, the job is only run once for the control, then links are
created in each of the member directories pointing to that copy.
New ww3_multi and ww3_shell templates for GEFS are copied from the
GFS versions.
The GEFS restart frequency is changed to not be zero, and the comment
about not setting it to zero is copied from the gfs config.base. The restart
interval for the GEFS perturbed members is changed to equal that of the
control.
Also fixes a bug where `RUNwave` was not defined for ensemble forecasts,
and another bug in the GEFS stage_ic dependency.
Resolves #2017
commit 64a2470ce29b7d8d5cb85ebcb4048ff82958f64e
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 29 11:26:34 2023 -0500
Adjust permissions for jobs/JGFS_ATMOS_VERIFICATION (#2095)
Add execute permissions (755)
commit 964b77bc6de67291973c2c70598a1f8cb72501c5
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Nov 28 18:45:51 2023 +0000
Make proper j-job for MET+ (#2090)
Creates a proper j-job for the metp job, moving much of the material
from the `jobs/rocoto` script there (some of it within `jjob_header`).
Also updates the old `COMIN` variable for the COM refactor (although
it does not appear used in the verify scripts currently).
This is a partial step towards restoring/improving metp functionality
and remains untested.
Refs #1575
commit 8c11eeb8556619e8db4e0efb6394ce5a2c1aae0f
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 23 10:31:32 2023 -0700
Adds FBWINDS support to global-workflow (#2082)
This PR addresses issue #1221. The following was accomplished:
- A new Rocoto job is added; `jobs/rocoto/fbwinds.sh`;
- `workflow/applications/gfs_cycled.py` is updated to include the `fbwinds` task;
- `workflow/applications/gfs_forecast_only.py` is updated to include the `fbwinds` task;
- A new function is added to `workflow/rocoto/gfs_tasks.py`, `fbwinds` is added as new GFS (only) task;
- `workflow/rocoto/tasks.py` is updated to include the `fbwinds` task.
Resolves #1221
commit 513db190d21f9ede0724a2cd5606372b1d7605de
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 21 22:52:58 2023 -0700
Adds NPOESS support to global-workflow (#2083)
This PR addresses issue #1225. The following was accomplished:
- A new Rocoto job is added; `jobs/rocoto/npoess.sh`;
- `workflow/applications/gfs_cycled.py` is updated to include the `npoess`
task;
- `workflow/applications/gfs_forecast_only.py` is updated to include the
`npoess` task;
- A new function is added to `workflow/rocoto/gfs_tasks.py`, `npoess` is
added as new GFS (only) task;
- `workflow/rocoto/tasks.py` is updated to include the `npoess` task.
Resolves #1225
commit 62d8e99e77ffe44784f4c61c3f2296c6d1a72413
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 20:25:50 2023 -0500
Retire vrfy job (#2080)
Retires the `vrfy` job from the global-workflow system. All associated
scripts, configs, and references to the job are removed.
Additionally, the switches listed in RTD were updated to reflect new
ones added in other PRs for issue #235.
Resolves #2069
Refs #235
commit ea386abf11ecbacef407388e8d57e71b30148a35
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Nov 17 23:59:46 2023 +0000
Enable different coupled settings for ensemble (#2030)
Adds the ability to turn off some coupled components for the ensemble.
To enable this, many settings are moved out of `config.fcst` and into `config.ufs`
so they are calculated after any overrides of `DO_*` have been made. Some
settings also had to be moved out of `config.base` for the same reason. A
switch to turn on gocart is added to `config.ufs`, but unlike the other switches
this one takes no arguments.
The name of the ufs configure template used is converted from a partial file
name to the full file name.
Resolves #1692
commit fe792c0c9a1c46908cbd18c7e71eb836974cf1de
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 17:19:16 2023 -0500
Add --cpus-per-task to srun commands for Hera and Orion (#2077)
This PR adds the `--cpus-per-task` flag to non-CFP `APRUN`/srun commands
in the env files for Orion and Hera. This is needed as a result of an upgrade
to SLURM on Orion that no longer exported the thread value to the
environment. Issue #1996 was a hotfix to add this flag for the analysis job
that was suddenly running slowly after the SLURM upgrade. A similar SLURM
upgrade was done on Hera but the sysadmins there implemented a
workaround so this issue did not appear there.
This PR adds the `--cpus-per-task` flag for both machines...needed on Orion
and as a safety measure on Hera.
Also included in this PR is a fix to indentations in the
`scripts/exglobal_diag.sh` script that was noticed during work for this PR.
Timing differences were not observed for other jobs after adding this srun
flag. Job timings were of a similar variation between control and test runs.
Any potential additional speedup was not observed. The test runs also
reproduced the control runs with `develop`.
Resolves #2044
commit 42c943be305c297a56b104bb50727938c1ba688f
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 15:41:34 2023 -0500
Adjust modules in post.sh for WCOSS2 (#2079)
On WCOSS2 the grib_util module is named a bit different and
needs the libjpeg module loaded beforehand.
commit cd4e6a1987e7fd71dff06766f540b5d32c8b648d
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Fri Nov 17 11:49:32 2023 -0500
Update ufs-weather-model and remove upp hack (#2071)
Updates the model to the most recent commit of ufs-weather-model. This
should allow for the removal of the UPP hack that was added in PR #2042
This required changing nems.configure -> ufs.configure.
Resolves #1942
commit 5a2d97e142aa4999b122fd5a130c63e59ea9f8e2
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 16 22:15:53 2023 +0000
Fix check for existence of preamble functions (#2066)
A few of the setup scripts were checking for the existence of
functions set by the preamble before calling them so they could
also be used stand-alone. However, the `type` command returns `1`
if the function name does not exist, which will cause the script
to die is `set -e` is on. Now the `type` command fails over to an
empty string.
commit ed2ee7c2b1457b71b271a2c40f0dfa356e0f52f8
Author: WenMeng-NOAA <48260754+WenMeng-NOAA@users.noreply.github.com>
Date: Thu Nov 16 16:38:11 2023 -0500
Update UPP products for GFS v17 (#1973)
Updates of generating GFS V17 UPP products to support HR3:
- Update g2tmpl to 1.0.12
- Add changes to launch cfp on WCOSS2 to generate pgrb2/pgrb2b files
- Changes for generating new products (MERRA2, six winter weather variables,
1km HLCY, SDEN) in pgrb2 files
Resolves #1965
Resolves #1994
commit 635c4719e603538ce7cccf9ea6b31f3f84f20849
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 16 20:35:30 2023 +0000
Fix some rocoto dependencies (#2074)
A few small errors/cleanup in the dependencies, mostly in fcst:
A few small errors/cleanup have crept into the dependencies with recent changes,
mostly in fcst:
- Fixed the offset, as it would yield a string rocoto doesn't recognize when the
interval was 24+ hrs
- Removed the duplicate wave dependency. When `waveprep` is included, it
depends on `waveinit` so there is no need to add a `waveinit` dependency.
- Converted an interval in the archive job that was missed in #2039
Resolves #2075
commit d4c7508260975c6b94fc92fd085f39d4faf3f027
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Wed Nov 15 16:44:03 2023 -0500
Fix missing _PREV in ocean restart file location (#2070)
commit 255616d37505c785bdddd5d3e39e8399110b626e
Author: mdtoyNOAA <73618848+mdtoyNOAA@users.noreply.github.com>
Date: Wed Nov 15 12:02:09 2023 -0700
Update functionality for Prototype HR3 UGWP (#1987)
This PR adds/modifies namelist options and activates new 'ccpp' suite definition
files for the updated Unified Gravity Wave Physics (UGWP) in the ufs-weather-
model recently updated for HR3. The changes to UGWP are the use of the GSL
drag suite for orographic gravity wave drag (GWD) and blocking, as well as the
new UGWP Version 1 non-stationary GWD. See
ufs-community/ufs-weather-model#1923 for details.
Resolves #1986
commit be9085e62aae147e3c74602e2f82a99b374fc783
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Wed Nov 15 13:48:58 2023 -0500
Save the required CICE history for the sea-ice DA (#2062)
The hist_avg setting of CICE was changed to be an array.
commit 85f1f5131ffd70061231304ea477bde0559eb67b
Author: Guoqing Ge <guoqing.ge@noaa.gov>
Date: Wed Nov 15 11:47:21 2023 -0700
Use assim_freq to configure "offset" in dependencies (#2039)
Use the assim_freq from config.base to configure "offset" in dependencies
instead of hard-coding them.
Resolves #2038
commit 4e3d82ba3a1fa7cdd4443bcd4cf83b2f8835137c
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 15 13:39:14 2023 -0500
Resolve ENKF archive script bugs (#2065)
Fix two bugs in the exgdas_enkf_earc.sh script:
1) Replace ARCH_LIST with DATA to match changes done in PR #2000
and update path to generated archive list files.
2) Add status check and exit after script attempts to make tarball on HPSS.
Refs #2064
commit 42d7f2f0c48fab898b764e09cfbbd7a9fabbae08
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Nov 14 17:54:29 2023 -0500
Separate tracker and genesis jobs from vrfy job (#2058)
This PR creates new individual jobs for the tracker and genesis jobs that are being
pulled out of the `vrfy` job (issue #235). The `tracker` and `genesis` jobs will be on
by default while the `genesis_fsu` job will be off by default. This mimics the current
settings in the `vrfy` job.
No enhancements or upgrades are made to the jobs themselves in this PR, only to
separate them from the `vrfy` job. However, one change compared to how they
currently run in the `vrfy` job is to no longer run the `tracker` in the gdas suite. This
mimics how the `ens_tracker` package is run in operations (gfs only).
Changes in this PR:
1. Create rocoto job scripts for tracker/genesis jobs.
2. Create configs for tracker/genesis jobs, as well as `config.tropcy` for shared
settings.
3. Add tracker/genesis jobs to `config.resources`; use resources from the ecf scripts
for `ens_tracker` jobs in operations
4. Add tracker/genesis jobs to rocoto setup for both cycled and forecast-only
modes.
5. Update arguments for `jjob_header.sh` script in tracker/genesis JJOB scripts to use
specific job names and configs instead of vrfy.
6. Rename `tracker_ver` to `ens_tracker_ver` in version files to mimic variable within
tracker package.
7. Rename and move tracker/genesis switches to `config.base`.
8. Remove tracker/genesis jobs from `vrfy` job (`jobs/rocoto/vrfy` and `config.vrfy`).
9. Reduce vrfy job resources to accommodate tasks having been removed.
Refs #235
Resolves #1988
Resolves #2048
commit 0a0d6984e094d2a551d5d8331102142e7db13fc2
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Tue Nov 14 14:08:26 2023 -0500
Enable warm starting of the model for forecast-only mode (#2031)
This PR:
- adds an option to warm|cold start the ufs-weather-model when setting up an experiment for GFS/GEFS
- adds the capability to stage FV3 restarts when the atmosphere is warm started from FV3 restarts. This would be used in the GEFS free-forecast for part of the reforecast capability.
- If a coupled model is warm started for the atmosphere, also check if mediator restarts are present. If so, stage mediator restarts to allow restarting the coupled model.
Fixes #2016
commit 2cd6a589305a9ac9d3a9a0d2136e66e42f09d3bf
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 14 12:05:20 2023 -0700
Moves UFS WM configuration files to `COM_CONF` (#2054)
The UFS weather-model (WM) files are place in the COM_CONF path rather than the respective component model COM history paths.
Resolves #2015
commit 6f1693081662f241fafc930b1afc88125f7f5aff
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Nov 14 11:15:02 2023 -0500
Refine fit2obs job in rocoto mesh (#2047)
This PR adjusts the `fit2obs` job in the rocoto mesh to better define when it exists
and how the archive job dependencies accommodate it not being in the first half
cycle.
Changes in PR:
1. Remove the `fit2obs` job from the first half cycle `cycledef`.
2. Adjust the archive job dependencies to now include the `fit2obs` job in the new
logic check added in PR #1983. The `gdasarch` job in the first half cycle will check if
`gdasfit2obs` is complete OR no prior cycle exists. Also cleaned up this new logic
check block some to make it a tad simpler.
3. Also, fix the addition of the `fit2obs` config to the config list in setup scripts. Now
tied to whether `fit2obs` job is on instead of always adding the config to the list.
Resolves #2043
commit 5730a71fa5d311e49d9bb11528b500f27f33d69d
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 14 09:13:11 2023 -0700
Add `waveinit` and `waveprep` to half-cycle. (#2037)
This PR addresses issue #1444. The `waveinit` and `waveprep` tasks have been added to
the GDAS have cycle. The downstream dependencies for the respective GFS and GDAS
forecast tasks have been removed.
Resolves #1444
commit 28d2e93c3857de95b0309a089cd7dac736ccaded
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Nov 14 16:11:47 2023 +0000
Update wave IC source for C384 (#2055)
The default wave grid for C384 has changed since P8, so a single wave
IC on the new grid is available under a different IC name.
commit 81dd2d9855091315611106a5afbdaeaa15e6e4ae
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 9 17:19:57 2023 +0000
Fix analysis and post on Orion (#2046)
Fixes a couple things to get workflow to work on Orion again:
First, while #2042 allowed post to be built, the `upp.x` executable would fail due
to a missing library. Now post jobs (temporarily) uses the UPP modules (plus
others needed for runtime) instead of the normal workflow runtime module. This
should actually fix #2041. This hack can likely be removed once we move to
spack-stack.
Second, the launcher command for the analysis jobs on Orion are updated to
specify the number of CPUs per task. This was necessary as a recent slurm update
on Orion discontinued reading that value from the scheduler. Other jobs will be
handled later (see #2044).
Additionally, a change is made to `module-setup.sh` that will eliminate the
annoyance of `gw_setup.sh` breaking tab completion because undefined variable
checking was turned on for the script but not back off.
Resolves #1996
Resolves #2041
Refs #2044
commit 13d06ded4155cba2d08ef2a2cd553024c5abe29d
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Nov 8 18:25:47 2023 +0000
Hack UPP version (#2042)
The stack UPP was using on Orion was recently deleted, leaving us
unable to build the UFS verison of UPP there. UPP has an updated
version using spack-stack that works, so the checkout script is
modified to check out that version of UPP after UFS has been
checked out.
This temporary hack can be removed once we move to a UFS version
that advances the UPP version to or beyond 78f369b.
Resolves #2041
commit 20f6eceb8ff58f84174a27eb849c1d74566a3e03
Author: jiandewang <jiande.wang@noaa.gov>
Date: Wed Nov 8 11:14:55 2023 -0500
Add basic C1152 settings (#2020)
Adding C1152 setting in host.yaml, config.base and config.stage_ic so that can run C1152 S2SW.
Resolves #2019
commit 5183c43bbbd07285869feacb49d8680afe85929a
Author: Barry Baker <bbakernoaa@users.noreply.github.com>
Date: Tue Nov 7 01:14:40 2023 -0500
Update UFS for dust fix and remove nitrates by default (#1989)
This PR updates the `ufs-weather-model` to the latest hash that included the dust fix (PR #1922).
Along with this I removed the nitrates by default in support of the GEFSv13 EP4 and EP5
experiments. Removed unneeded inputs that should help with speed improvements.
commit 34a73cf2ed5afefc776d9cc73b6ebf439122a1bb
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Mon Nov 6 14:00:51 2023 -0500
Reduce gdas builds to 8 #2029 (#2036)
Reduce the default number of build jobs for the GDASApp to 8 from 16.
This is needed for Orion as the build crashes during a linking step. Though not verified, it
appears this may be caused by using too much memory with 16 builds. The issue disappears
when using 8 build jobs.
Resolves #2029
commit 75269e4bb9764b81589efc7d703825b80e74c8f5
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Mon Nov 6 17:34:47 2023 +0000
Streamline CI reporting to PRs (#2026)
Cleaned up the logs for CI PRs sent to the GitHub Messages:
- Eliminates redundant accumulative reporting
- Reports on all created or skipped experiment instantiations in a single message
- Gives one line report once for each experiment completion
- Single final report completion of CI
See some examples in forked [PR 195](https://github.com/TerrenceMcGuinness-NOAA/global-workflow/pull/195)
Resolves #2007
commit 8d55126bb0b27c79c8bee7f72b014abd34950ff9
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Fri Nov 3 17:06:09 2023 -0400
Implement IAU Cycling Type with Marine Data Assimilation Enabled (#1944)
Allows cycling in IAU mode with the S2S UFS model, soca and the GSI.
Most of the work related to making IAU work was done by @JessicaMeixner-NOAA . Thanks @JessicaMeixner-NOAA !
Resolves #1943
Refs #1776
commit 2563806821d4ae3b57120bc61aa0575139a708f0
Author: jiandewang <jiande.wang@noaa.gov>
Date: Fri Nov 3 11:49:37 2023 -0400
Add two ucx modules in load_ufswm_modules.sh to solve C768 and C1152 S2SW job hanging issue on WCOSS2 (#2021)
commit cbdc09711a83493f363a737d1e3e46c48a09719d
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Nov 3 04:09:33 2023 +0000
Fix staging of MOM data (#2028)
During the update to stage_ic, the copying of the additional res_N files for
0p25 was omitted. These are now properly copied.
Resolves #2027
commit bd4c56d99c23c5c41f0bd5f8a980ef99ee160888
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Thu Nov 2 16:09:59 2023 -0400
changed optional script name vars for ocean analysis (#2025)
commit 93bc918cdabee771c182c6f33cc54a20b5bb86c6
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Thu Nov 2 16:01:18 2023 -0400
Create separate GSI monitor jobs and remove from vrfy job (#1983)
This PR will move the GSI monitor tasks from the `vrfy` job into their own separate jobs in
the rocoto mesh. This takes care of part of issue #235.
Changes in this PR:
1. Create new individual GSI monitor jobs in the rocoto mesh to match how it is done in
operations. The new jobs are: `gdasverfozn`, `gdasverfrad`, `gdasvminmon`, and `gfsvminmon`.
The names correspond to the names in operations and the ecf script names. The jobs are only
added to cycled mode, none of the jobs are run in forecast-only mode.
2. Updates to GSI monitor scripts:
* Update `ush/jjob_header.sh` arguments in JJOB scripts to call new individual job names and
configs.
* Introduce `COM_*` variables and use of the `generate_com` utility. This results in the outputs
landing in `COM` subfolders, like occurs in operations, instead of landing in the online archive.
* Some variable cleanup in JJOB and ush scripts, includes cleaning up usage of `DATA` variable
and its removal at the end of the jobs.
* Add missing exit statements to `JGFS_ATMOS_VMINMON` and `JGDAS_ATMOS_VERFRAD`.
3. Create new rocoto job scripts for the new individual GSI monitor jobs.
4. Create new configs for the new individual GSI monitor jobs.
5. Add new individual GSI monitor jobs to resource configuration, using the same resources as
in operations.
6. Move and rename GSI monitor job switches from `config.vrfy` to `config.base`. Also add
switches to setup system. New switches to control each job being added to the rocoto mesh
are: `DO_VERFOZN`, `DO_VERFRAD`, `DO_VMINMON`
7. Add GSI monitor job output to archival job and into resulting HPSS tarballs or local tarballs.
This now matches what is done in operations.
8. Remove the GSI monitor tasks from the rocoto `vrfy` job and associated `config.vrfy`.
Example output locations and files (not showing contents of oznmon/horiz or oznmon/time for
brevity, see archival script for full list of output files):
```
kate.friedman@dlogin09:/lfs/h2/emc/ptmp/kate.friedman/comrot/testmonitor2> ll gdas.20211221/00/products/atmos/*mon
gdas.20211221/00/products/atmos/minmon:
total 112
-rw-r--r-- 1 kate.friedman emc 14030 Oct 25 15:00 2021122100.costs.txt
-rw-r--r-- 1 kate.friedman emc 84932 Oct 25 15:00 2021122100.cost_terms.txt
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 15:00 2021122100.gnorms.ieee_d
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 15:00 2021122100.reduction.ieee_d
-rw-r--r-- 1 kate.friedman emc 80 Oct 25 15:00 gnorm_data.txt
gdas.20211221/00/products/atmos/oznmon:
total 8
drwxr-sr-x 2 kate.friedman emc 4096 Oct 25 15:05 horiz
drwxr-sr-x 2 kate.friedman emc 4096 Oct 25 15:05 time
gdas.20211221/00/products/atmos/radmon:
total 21036
-rw-r--r-- 1 kate.friedman emc 231 Oct 25 15:12 bad_diag.2021122100
-rw-r--r-- 1 kate.friedman emc 9035 Oct 25 15:12 bad_pen.2021122100
-rw-r--r-- 1 kate.friedman emc 1449 Oct 25 15:12 low_count.2021122100
-rw-r--r-- 1 kate.friedman emc 20523403 Oct 25 15:07 radmon_angle.tar.gz
-rw-r--r-- 1 kate.friedman emc 217272 Oct 25 15:08 radmon_bcoef.tar.gz
-rw-r--r-- 1 kate.friedman emc 502151 Oct 25 15:10 radmon_bcor.tar.gz
-rw-r--r-- 1 kate.friedman emc 264480 Oct 25 15:12 radmon_time.tar.gz
-rw-r--r-- 1 kate.friedman emc 684 Oct 25 15:12 warning.2021122100
kate.friedman@dlogin09:/lfs/h2/emc/ptmp/kate.friedman/comrot/testmonitor2> ll gfs.20211221/00/products/atmos/minmon/
total 88
-rw-r--r-- 1 kate.friedman emc 10530 Oct 25 14:55 2021122100.costs.txt
-rw-r--r-- 1 kate.friedman emc 63882 Oct 25 14:55 2021122100.cost_terms.txt
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 14:55 2021122100.gnorms.ieee_d
-rw-r--r-- 1 kate.friedman emc 608 Oct 25 14:55 2021122100.reduction.ieee_d
-rw-r--r-- 1 kate.friedman emc 80 Oct 25 14:55 gnorm_data.txt
```
Lingering work and considerations:
1. Issue #1925
2. Consider not hardcoding the list of types in archival and perhaps tie it to something reliable or
configurable (maybe into `config.verfozn`?):
`subtyplist="gome_metop-b omi_aura ompslp_npp ompsnp_n20 ompsnp_npp ompstc8_n20 ompstc8_npp sbuv2_n19"`
Resolves #1908
commit 31b05a99b77d0f6eaa8b116485a41a43867d20e1
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 2 12:23:32 2023 -0600
Move analysis post to new stand-alone task (#1979)
This PR addresses issue #1130. A new task `postanl.sh` has been added such that the
`anl` post-processing is not it's own task within the Rocoto workflow. This change
prevents the GDAS experiment from breaking due to failures caused by the `anl` not
being available for the first cycle.
Resolves #1130
commit 247cdf8c7e10e6c98f782799fc51c069b6474e70
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 2 11:18:53 2023 -0600
Corrects missing local variable reference (#2023)
Fixes missing `$` in variable reference in archive job.
Resolves #2022
commit 241742b246da1794646b68e41c3d6fe00b95dd07
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Wed Nov 1 14:19:55 2023 -0400
Updates to prep ocean obs task (#1870)
commit 77be0ec6a3117b9f7e71a19c69ac64c09b521ecd
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Wed Nov 1 12:09:33 2023 -0600
No longer write archive lists COM (#2000)
Changes the respective `.txt` files used for the HPSS archive to the `DATA` path. Each
defined text file has been updated to explicitly write to `DATA` rather than `COM` such
that the files are deleted rather than being archived.
Resolves #760
commit 517b92f9c20c9e44abba3183325e35a95a7334a5
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Tue Oct 31 16:33:11 2023 -0400
Parallelize the build scripts (#1998)
Optimized/parallelized build scripts.
A few notes:
1) The default number of build jobs is 20, but one could argue for using 40. When researching
this, I looked up what the SRW is compiling with. That system uses 40 cores, which seems a
little excessive, but on testing the global workflow, the actual number of cores being used at
any given time rarely exceeds 16 when running with 40 cores. This is because the builds tend to
use multiple threads in the beginning when compiling low-level modules while the higher-level
modules are more or less serial AND because the GDASApp takes several minutes to initialize
all of its subrepositories by which time the smaller builds are complete.
2) I also updated checkout.sh so that all checkouts are simultaneous. The CPU load for
`git submodule` is quite low, so running 16 instead of 8 jobs at once is not much more expensive.
3) To make this work, I had to add `-j` options to most of the build scripts. The only exception is
build_upp, for which the build script within the UPP is hard coded to use 6 cores.
4) I fixed a few small bugs in the build scripts along the way.
5) Lastly, this reduce the total build time from ~2.5 hours for the entire system (including GDAS
and GSI in the same build) to ~40 minutes when running with `-j 40`.
Resolves #1978
commit 67c050c201f92e855d09211e41a5f51ee1cb5230
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Oct 31 19:00:47 2023 +0000
Add missing export for rCDUMP in stage_ic (#2009)
rCDUMP is needed by the exscript but was never exported by the jjob.
commit 872068cb5ea78b311f7a77e97ee1428ae027cb61
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Oct 31 14:37:55 2023 +0000
Add output error log to user for create_experiment.py on fail in CI (#1974)
Small changes to driver CI bash scripts to recapture error log from `create_experment.py` logger
Fixes #1939
commit b2e4a2e9d269842acbb1b37dd563ee5dee2adf0f
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Oct 31 13:57:02 2023 +0000
Allow CI case to exclude running on certain platforms (#2001)
commit 7cc137116f1619bf1e5a12eaacb98d17da97c223
Author: Jeff Whitaker <jswhit@fastmail.fm>
Date: Tue Oct 31 07:54:24 2023 -0600
Add initial C96/1 deg coupled model support (#1991)
commit 7086ddc4bece6fb2a8c1c2e6090800d4293e410e
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Mon Oct 30 19:58:43 2023 -0400
Add ocean analysis files to HPSS archiving task (#1985)
This PR adds the files under `analysis/ocean` (except those in `bump` and `vrfy`) to the
HPSS archiving job, in `gdasocean_analysis.tar`, which were previously not archived.
Resolves NOAA-EMC/GDASApp/issues/693
commit eabc82ad30c118645c0e6e216162d823882a8139
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Mon Oct 30 10:31:27 2023 -0400
Make the early cycle work with the coupled UFS configured as S2S (#1954)
commit aff6ca7ae559e424dae128d6cfd5da4a4e3049e7
Author: Anil Kumar <108816337+AnilKumar-NOAA@users.noreply.github.com>
Date: Fri Oct 27 14:11:55 2023 -0400
GEFS Staging in exglobal_stage_ic (#1892)
Adjusts source paths for forecast-only ICs in support of extension to ensembles.
New paths omit the resolution (that is captured by the IC id name) and allow for
a member level.
Directories with the reorganized ICs have been added to the three tier-1 machines
under glopara space.
Building on this, also adds capability to stage GEFS ICs.
Resolves #911
commit 77c1ff2bfa26b341b01f41e50ee0ecb31cc4f661
Author: RussTreadon-NOAA <26926959+RussTreadon-NOAA@users.noreply.github.com>
Date: Thu Oct 26 23:44:27 2023 -0400
Update GDASApp hash (#1975)
Update GDASApp hash to bring recent UFSDA development into g-w.
Resolves #1972
commit 962368884991670d3a1ee1c5a065d5bce4b7561a
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Thu Oct 26 16:10:23 2023 -0400
Test tarballs for rstprod before calling chgrp (#1967)
Certain tarballs may or may not contain `rstprod` data. For instance, the first half cycle
gdas and enkfgdas tarballs will not contain `rstprod`, while future cycles likely will. Also,
some systems do not have `rstprod` on them. This will test the contents of the tarballs
first before attempting to change the group to rstprod.
Resolves #1460
commit c02e118c0ac5485109c9bd33472ff42db309cd9b
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Thu Oct 26 15:05:05 2023 -0400
Update ufs model to version from 10-12-23 (#1933)
This updates the ufs-weather-model to the commit hash from 10-12-23 from the HR2 tag.
The diffs can be seen here: https://github.com/ufs-community/ufs-weather-model/compare/GFSv17.HR2...68050e58589a82ab509aaefaafdc2a6b90f34e48
Resolves #1811
commit 8556541daa79b0180fde48a58a8dcfb2f8c56ea5
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Wed Oct 25 16:15:28 2023 -0400
Fix incorrect usage of CFP on WCOSS2 (#1977)
commit 0b5cf9b67a8146d9d4815ea6545f7f2524120d83
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Oct 25 13:17:28 2023 -0400
Update GFS version in index.rst to v16.3.10 (#1976)
Update the "State of operations" GFS version number to new v16.3.10 (Annual CO2 fix file update in operations).
Refs #1924
commit e817f5dd38c26a88f76d90eb71124f1acbfc5a8f
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Oct 25 02:03:14 2023 +0000
Fix path for marine products (#1966)
When PR #1823 was merged, the name of the marine product template
was not updated in ocnpost, leading the products to be placed in
the wrong location and missed by the archive job.
Resolves #1902
commit 7cdfad4eaa7abe0769ff13396c54e6d93afebf8f
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Oct 24 22:19:46 2023 +0000
Build GDASapp for CI tests (#1964)
* added -u to global checkout so CI test builds tests for GDASapps
* Update check_ci.sh
needed more quotes
---------
Co-authored-by: TerrenceMcGuinness-NOAA <terry.mcguinness@noaa.gov>
commit c58deae0cf078d1ee093529064d74f60482aa3f4
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Oct 24 16:19:04 2023 -0600
Updates for NOAA CSP AWS global-workflow related file paths. (#1970)
Co-authored-by: henrywinterbottom-wxdev <henry.winterbottom.wxdev@gmail.com>
commit 1b00224e18842cd873eb1779be08f96687e49e1f
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Oct 24 14:48:24 2023 -0400
Set SENDCOM=YES for tracker/genesis tasks (#1971)
Set SENDCOM to YES in config.vrfy to get outputs copied back to COM.
Will reevaluate the need for SENDCOM when moving the tracker/genesis jobs out of the vrfy job with issue #235 work.
Refs #1947
commit e2c624d8904cd988394c73d0edb22fa593229d3f
Author: RussTreadon-NOAA <26926959+RussTreadon-NOAA@users.noreply.github.com>
Date: Tue Oct 24 13:32:52 2023 -0400
Refactor UFSDA ATM var and ens layout (#1945)
commit 8940adddfe9d21189740e71487603fb2acee2336
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Tue Oct 24 11:02:29 2023 -0400
Optimize the checkout script (#1956)
* Multithread the checkout script #1953
commit 4b5cd0bc435fc158258ca38c3d5f44add6b60469
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Mon Oct 23 12:04:26 2023 -0400
Fix nth_eupd in gfs/config.resources. remove sections of jobs not run as part of gefs from gefs/config.resources (#1952)
commit 08ce4f8d3ed8e07b4d488a80b5054c6206b04404
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Oct 20 16:14:53 2023 +0000
Fix enkfgfs cleanup dependency (#1941)
When #1906 was merged, the dependency for enkf cycles was hard-coded
to use the enkfgdas archive instead of depending on the `RUN`.
commit 1a5d0b51642eb70f71e693355e86212d3607b7b3
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Oct 20 15:54:33 2023 +0000
Split clean-up into separate job (#1906)
Moves the clean-up that was previously done in the archive jobs into
their own separate job. The clean-up is also streamlined considerably
by using only `COM_TOP` instead of going through every template.
There is also additional streamlining/corrections in the function that
does the actual removing.
Some settings used by both jobs were elevated to `config.base`.
Others only needed for cleanup were moved to the new config for
that job.
Also corrects a small error encountered when attempting to rerun an
ensemble forecast.
Resolves #583
Resolves #1872
commit 3de102c28daf9eb50ce65e0afe911f5a416ce861
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Tue Oct 17 09:30:18 2023 -0400
Updates to CI to clarify HOMEgfs (#1931)
* replace HOMEgfs_PR with HOMEgfs, and HOMEgfs with ROOT_DIR. ROOT_DIR is the location where the ci scripts live
* update type to system in case yamls
* move create_experiment.py to workflow/
* detect HOMEgfs in create_experiment.py based on location. update to use jinja templates in the cases
* remove export of HOMEgfs from driver.sh
commit bfea2594207a477ea00e3b7fef95c2d7befd492b
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Sun Oct 15 23:27:47 2023 -0600
Remove SENDCOM (#1929)
This PR addresses issue #1501. All instances of `SENDCOM` gates have been
removed. The workflow was inconsistent in its use of `SENDCOM` to gate
movement of files to `COM` and have been removed based on NCO guidelines.
Resolves #1501.
commit 9a8911a0b30f0367d061facfb3b835480728081d
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Fri Oct 13 14:21:01 2023 +0000
update nth_eupd to 8 for Orion because of out of memmory errors (#1927)
Co-authored-by: TerrenceMcGuinness-NOAA <terry.mcguinness@noaa.gov>
commit ea4dfa5800b5cb529478cc64d329f567393fa37d
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Thu Oct 12 21:29:19 2023 -0400
Marine DA configuration updates (#1922)
Minor updates the configuration related to running the marine DA and the coupled UFS.
What's proposed in this PR:
- Memory increased for the marine DA analysis step
- The coupled UFS is (was?) running out of memory without the changes in `config.ufs`.
- Updates to the IAU section of MOM_input to allow for a current increment.
commit c2d112b40a926c9f33a653cfbb832cb811a60352
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Thu Oct 12 23:52:43 2023 +0000
Fix missing pipe in check_ci (#1926)
Bugfix: left out pipe to word count` | wc -l` after updating:
`num_platforms=$(ls ../platforms/config.* | wc -l)` to
`num_platforms=$(find ../platforms -type f -name "config.*")`
when it was flagged by the BASH linter.
commit 51d93e15eb30382017aaf72813d34f7010f47948
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Oct 10 19:09:26 2023 +0000
Updated cron bash ci script to remove weekly CI test PR on success (#1915)
This PR updates the check CI bash script in cron to remove the PR that is created by
the weekly CI test driver when all the tests has passed on all the platforms.
This is done by the script checking if all other labels for all the platforms for the PR
that has currently been flagged to have run to a successful completion by the check
ci bash script.
commit 2d64b74a0b0407d01d6f657efa6af9637a131448
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Wed Oct 4 22:33:25 2023 +0000
CI driver_weekly bugfix deleting new branch if is already on repo (#1899)
Bugfix and updates to weekly CI test that deletes the new modified branch
if it is already on the repo but now also makes sure that the intermediary
branch that creates the PR is coming from emcbot.
commit e4a6c35ae020253f07921ca34a17f19e928b0b6c
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Wed Oct 4 09:42:12 2023 -0400
Fix typo in cice history filename
commit d50938bc4f6705b722338bbea03f925614f953ed
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Oct 3 23:37:39 2023 -0400
Change metp dependency (#1900)
MET+ jobs rely on files already having been placed in the local
archive directory, but the job only depended on post, resulting
in the job prematurely firing. The dependency is now updated to
be on the archive job instead.
Resolves #1756
commit 836642bb201cd2e5e205eda2ae4a28993623355d
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Tue Oct 3 14:45:57 2023 -0400
Use deterministic marine resolutions for ensemble (#1894)
This PR determines the ensemble resolution for ocean, ice and waves based on the
deterministic configuration as there is no dual-resolution capability requested for
these model components.
For cycled DA, if the deterministic uses a coupled model, the ensemble will also be
a coupled model. This can be turned off manually via adding `DO_AERO_ENKF`,
`DO_OCN_ENKF`, `DO_ICE_ENKF` and `DO_WAVE_ENKF` flags set in `config.base` or
`config.efcs`. This is currently handled manually and will be automated when a
requirement arises for this flexibility.
Fixes #1730
commit 48ba775909870f0d27275128bd07ec134b92c356
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Mon Oct 2 13:34:02 2023 -0400
Update vrfy.sh to only run MINMON in cycled mode (#1901)
Update MINMON if-block in jobs/rocoto/vrfy.sh to only invoke this section when MODE is cycled.
Refs #1076
commit e65162f3083c34b639854e3216e2355ff6fccc0b
Author: RussTreadon-NOAA <26926959+RussTreadon-NOAA@users.noreply.github.com>
Date: Fri Sep 29 19:18:07 2023 -0400
Update module loads to intel/2022 for jobs running gsi.x and enkf.x (#1882)
This PR changes the module loads in g-w jobs `anal.sh`, `eobs.sh`, and `eupd.sh`
to use machine specific modulefiles from `sorc/gsi_enkf.fd/modulefiles`. This is
necessary because [NOAA-EMC/GSI#571](https://github.com/NOAA-EMC/GSI/pull/571)
updated `gsi.x` and `enkf.x` builds to intel/2022 on NOAA RDHPCS machines.
Resolves #1863
commit cd439d0bf2ae5fb57139fcb9983aa2755fdc9b2c
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Fri Sep 29 15:35:54 2023 -0400
Add coupled forecast-only tests for S2S and S2SW (#1895)
This PR:
- replaces the PR C48 S2S forecast-only test with a S2SW configuration
- adds a weekly C384 S2SWA forecast-only test.
The C384 S2SWA is a weekly test and will not be triggered/tested in this PR, but will
be tested on Friday. See notes on Orion below in the testing section.
@JessicaMeixner-NOAA kindly provided the details in
https://github.com/NOAA-EMC/global-workflow/issues/1794#issuecomment-1740768751
commit 02787fe9ba9e5a6881e5ccf9a9e352545eeadb9d
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Fri Sep 29 18:03:23 2023 +0000
Ci rename platform scripts (#1896)
Simply renaming the platform config files in ${HOMEgfs}/ci/platforms to
config.${MACHINE} so wxflow can read them too in support of up and
coming functional testing.
commit bb5a58541d6514d16901dca240dfbbc810bd31c8
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Sep 29 13:28:39 2023 -0400
Merge S2S defaults config back into other configs (#1876)
When the prototype S2S was first added, we placed some settings in
a `config.defaults.s2sw` file to avoid interference with existing
settings. Now that we are moving towards v17 and run S2S regularly,
it is time to merge these settings back into the other config files.
The wave output frequency settings are updated to the coarser fre-
quency as that is more suitable for development. The prior (ops)
settings are noted as comments.
There are a couple of settings that control ice fields within FV3.
These are placed in `config.ice`, so when the ice model is on those
settings are still used.
Changes the output frequency from 3 to 6. While we may leave this
setting as the default for development, it is required right now
because the ocean frequency is hard-coded to 6 but links are created
based on `$FHOUT_GFS`. Resolving #1629 should correct this limitation.
"Gaussian" archive is updated to the former override values.
Resolves #1606
Refs #1629
commit 49dc315c1ef6c5f4952a06b0ba70c36e771f128e
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Sep 29 13:25:58 2023 -0400
Move product functions to separate script (#1891)
PR #1822 converted some formerly stand-alone scripts and moved them
inside one of the standard product scripts. However, `trim_rh.sh`
is also used by gempak and AWIPS, so this change caused those jobs
to start failing (they are not yet tested by CI).
Those functions have now been moved into a separate product functions
script that can be sourced by all the scripts that need the functions.
A third similar script was also eliminated and converted into a
function.
Additionally fixes a base bug in AWIPS and updates some scripts to
satisfy (or at least mostly satisfy) the linter.
**AWIPS still failing when creating GRIB1 products.** That will be addressed
in a future PR (and may need a subject-matter expert).
Resolves #1890
commit 3e750d10be577106fb269a78e18765b8d2b8030d
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Thu Sep 28 16:21:52 2023 -0400
Fix a few bugs reported by devs (#1893)
This PR fixes a few bugs that were reported by developers:
- a namelist section is unclosed in `parsing_namelists_FV3.sh`
- resolution is not being properly cut from `CASE`
- date should be in UTC to properly go back and forth around DST dates.
Resolves #1796
commit e886e8aef633389d65e23cc42456827e1db2a771
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Sep 26 13:01:17 2023 -0400
Fix wavepostbndpntbll data dependency (#1888)
Update the data dependency path for the wavepostbndpntbll
job to use the ATMOS/atmos subfolder instead of WAVE/wave
for the atm.logf file it needs to fire off.
Refs #1887
commit bb1e561c6a519b9b1cf3fb3ac724e2d240bc3b5b
Author: Andy Tangborn <71304161+andytangborn@users.noreply.github.com>
Date: Tue Sep 26 11:08:49 2023 -0400
Update aero analysis for new bump files and archive aero diags (#1886)
This PR updates the global workflow so that it can handle the latest version of the JEDI
aero staticb, and also archives the aerosol diagnostic files.
commit 3d2b72ecd395585f650b2801b2ec3471bd938d63
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Tue …
jkhender
added a commit
to jkhender/global-workflow
that referenced
this pull request
Jan 29, 2024
Squashed commit of the following:
commit 3c0c126a376af31866a93aef4cdd0b4145150c58
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 17:32:25 2024 +0000
Add script for remapping 1/4 degree grib2 grids to other domains
commit f217d4ed9a500e9a1bdcc17548729d972a1763ac
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 16:46:25 2024 +0000
Update link script for ufs_utils.fd
commit 5b21b31900955013b4e8106d3ae906b9da93b361
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 16:45:25 2024 +0000
Add GSL archive scripts for initial conditions
commit abb88baf9dd536a3b2ea1e24eaa99cbfe85af799
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 16:42:17 2024 +0000
Move configuration files for getic and init from jobs/rocoto to parm/config/gfs
commit 45b235180719ab79d2514f0317207fbebfb8aedd
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sun Jan 14 03:21:15 2024 +0000
Add suite definition file for v17p8_ugwpv1_c3 to sorc/ufs_model.fd_gsl
commit 147b1fce99254dcb602c333cc559feaa9a396e81
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sun Jan 14 01:57:22 2024 +0000
Add getic and init tasks to workflow to create initial conditions in realtime
commit 4e4e50803d95566e1c7967cf4cfa575391d77f25
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Fri Jan 12 00:44:59 2024 +0000
Change default HPSS_PROJECT to fim
Change restart_interval_gfs to -1 so no files are written ro RERUN_RESTART directory
commit 791d7a27c6b12f07d9c12ce491338e3da59eb1d8
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 11 23:34:36 2024 +0000
Add namelist parameter, nord_tr, for GSL suites
commit c4a41de7ebcda2f80ce69ac94bd2b3a6f5d04ed5
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 11 23:31:22 2024 +0000
Add changes for running v17p8_mynn
- new field table, field_table_thompson_aero_tke_progsigma
- updated namelist parameters in config.fcst
commit 982a1f02e3b880be43f4ae8a3f0ffbb34c056aea
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:26:22 2024 +0000
Add experiment setup script for p8_ugwpv1
commit c5a3697d22fdbb02bb80ddffee2629dddc10c702
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:19:13 2024 +0000
Add memory report to srun command in env/HERA.env
commit ece7e516ca65ec0240899e7d84321310a6887595
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:13:42 2024 +0000
Updated GSL-specific files under ufs_utils.fd_gsl
commit 1b153fc95b93a16eb40b791be7322100fde4a3d4
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 01:52:56 2024 +0000
Create new branch, gsl_ufs_dev, from dev_02jan24_9d901db
Add initial GSL modifications
- changes to workflow files
* GSL paths, projects, entities
- new FV3_GFS_v17_p8_ugwpv1_mynn suite definition file (SDF)
- updated namelist parameters in ush/parsing_namelists_FV3.sh
- create new GSL directories: ufs_model.fd_gsl and ufs_utils.fd_gsl
* new SDFs, add instantaneous flux variables to grib2 configuration files
* add Thompson tracers to initial conditions
- new sync script: rsync_gsl.sh
- new job files: getic.sh, makeinit_link.sh
- modify build_ufs.sh to include MYNN SDF
commit 9d901dbbff4d41586580316bdc094d24760119e6
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Jan 2 10:30:33 2024 -0700
Stop Gempak pgrb2 spec from modifying $DATA (#2147)
This PR addresses issue #1224. The following is accomplished:
- Instances where `DATA` is modified, corrections are made to use a locally defined variable such that `DATA` is no longer modified at run-time;
- Shell linter exceptions are addressed accordingly;
- The respective GEMPAK tasks is added to the Rocoto mesh.
Resolves #1224
commit 31ad23527802f7d07171132cc620f7135c4d8cba
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Jan 2 10:27:30 2024 -0700
Reorganize NPOESS scripts (#2166)
This PR addresses issue #1226. The following is accomplished:
- Using the GEMPAK j-job script `JGFS_ATMOS_GEMPAK_PGRB2_SPEC`, the structure
of `JGFS_ATMOS_PGRB2_SPEC_NPOESS` is updated;
- Environment variables specific to the script `exgfs_atmos_grib2_special_npoess.sh`
are moved accordingly; this specifically applies to the environment variable `FHOUR`,
`SHOUR`, `FHINC`, `SLEEP_TIME`, and `SLEEP_INT`;
- The `SLEEP_TIME` and `SLEEP_INT` parameters can now be defined at the top-level
(if necessary);
- Restart file checks are move to `exgfs_atmos_grib2_special_npoess.sh`; however,
this may not be necessary (see `TODO` note within draft PR.
Resolves #1226
commit 22bd82fa93b49e5ce98eb3f69123956dd5018049
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Jan 2 11:55:03 2024 -0500
Orog fix file reorg and fix directory variable standardization (#2181)
This PR makes updates to use the newly reorganized `orog/20231027`
fix file version and standardizes the fix file directory variables.
Changes:
1. Update UFS_UTILS hash to ce385ce
2. Update fix file version file to use new orog timestamp: `orog_ver=20231027`
3. Add ".mx$(OCNRES)" to `oro_data` filenames in scripts
4. Remove ".mx$(ocn_res)_frac" from the directory names for atmosphere
resolutions under the `/orog` folder
5. Adds fix file directory variables to `config.base`, many of which are pulled
up out of lower scripts; introduce `FIXcpl`
6. Renamed/replaced the following fix file directory variables:
- `FV3JEDI_FIX` --> `FIXgdas`
- `FIXfv3`, `FIX_orog` and `OROFIX` --> `FIXorog`
- `FIX_ugwd` and `OROFIX_ugwd` --> `FIXugwd`
- `FIX_am`, `FIXgsm`, `FIXSYND` --> `FIXam`
- `FIX_lut` --> `FIXlut`
- `FIX_aer` --> `FIXaer`
- `FIX_SFC` --> `FIXsfc`
- `FIX_DIR` --> `FIXgfs`
- `RTMFIX` and `FIXCRTM` --> `CRTM_FIX` (is `CRTM_FIX` in crtm module,
so not using `FIXcrtm`)
7. Correct the defaults for `FIXwave` in wave JJOB scripts
8. Update variable names in `*fixed_files.yaml` files, as well as update naming
convention for `oro_data` files
Resolves #1984
Resolves #1981
Resolves #2175
commit 03d03bf53b43914a55c384cb33eb06f6a9a443a6
Author: Andrew Collard <40322596+ADCollard@users.noreply.github.com>
Date: Tue Jan 2 11:53:44 2024 -0500
Remove HIRS from GSI processing (#2183)
With the update to CRTM 2.4.0.1, an issue with versioning of CRTM HIRS
files has been exposed. This is documented in JCSDA/crtm#42.
As HIRS radiances are no longer used in the GSI, these data should be removed
from processing until a suitable update to CRTM is available.
Resolves #2182
commit a3c50998d35525a39a66d5592fbf327ab3569e8b
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Fri Dec 22 18:07:48 2023 -0500
Update ufs-weather-model version (#2186)
* update model to latest version which includes needed bugfixes for HR3
commit 774c7302e618370ef578bec3ccabc70486d6da1b
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Fri Dec 22 11:34:53 2023 -0500
Fix analysis post processing's handling of 0-padded negative integers (#2187)
This screens for the analysis 'forecast' hour (-001) and handles the '-' and circumvents octal issues.
commit d1251360325faf75af9df0608557fcd10202a883
Author: Barry Baker <bbakernoaa@users.noreply.github.com>
Date: Thu Dec 21 11:23:48 2023 -0500
Fix for restoring cycling aerosols in fo-mode post COM refactor (#2179)
- Update to COM reorg aerosol initialization job
- Address bug in joining paths for data dependency in this job
---------
Co-authored-by: Rahul Mahajan <aerorahul@users.noreply.github.com>
commit e55a05980709288d902ad1bd894164bfa5a18a65
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Dec 20 22:14:01 2023 -0500
Stop calling ufs-utils link script (#2172)
The `link_workflow.sh` script was calling the ufs_utils version of the
same. That step is only necessary if a user is going to run one of the
stand-alone ufs-utils, which is rare.
commit ef3e5ad7c63be1644c82333c95853c3caf2d8995
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Dec 19 22:02:55 2023 -0500
Fix handling of excluded hosts list (#2170)
This PR fixes the issue with `create_experment.py` so that the yaml configuration
file can have a string of list of strings when specifying the host name to exclude
from the CI tests.
commit ea74a5719efc8f0fe631c5ff93426a4299a614f3
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Tue Dec 19 16:21:41 2023 -0500
Add COMOUT_OBS to marine obs prep (#2173)
Adds `COMOUT_OBS` (defined from `COM_OBS_TMPL`) to marine obs prep task to properly handle marine obs prep files. Used to keep obs after IODA conversion, QC, and other prep.
Towards resolving NOAA-EMC/GDASApp#815
commit c2500feace0bb7c04ce67a90dd3182120ee67b2e
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Tue Dec 19 14:55:20 2023 -0500
Return failed status if a build fails. (#2171)
If any of the builds fail, this makes build_all.sh return the sum of the error codes encountered.
Fixes #2168
commit 76fdd81cd84ed812181996a102379d8d964ba27a
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 19 13:24:34 2023 -0500
Update index.rst for new GFSv16.3.12 in ops (#2169)
Refs #2096
commit a81da33e8fe7541a36f68e7a4f14a384cadd36c8
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 19 10:22:21 2023 -0500
Set place=shared for shared jobs on WCOSS2 (develop) (#2156)
Set job as shared when not exclusive on WCOSS2
WCOSS2 defaults to exclusive when it is not specified as
either exclusive (place=exclhost) or shared (place=shared).
Now set shared when job should be shared.
Refs #2135
commit 89aea972f7964dac3f515e8070d7c534812c5fb4
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Dec 15 16:31:06 2023 -0500
Update gfs-utils version for Hercules (#2163)
An update of gfs-utils was misssing from the previous PR that added
initial Hercules support (#2128).
Also includes gfs-utils update for new marine post.
commit 9505cb4abc6ca2643a8ab254d14ca2000747fa44
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Thu Dec 14 16:15:31 2023 -0500
CI Updates to support Hercules (#2155)
If merged, this PR will update the CI scripts so they will run on Hercules for forecast only
NOTE: This is a stop gap to issue #2131 until its block on #1588 is removed.
Resolves #2154
commit c5ca82f04a2efae78389dec1c46b94ef4fb5bbe5
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Thu Dec 14 16:05:33 2023 -0500
Correct fbwind (#2161)
commit f3f3e05e6325e6c2e8ddab186f1ed2f985fec49a
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Thu Dec 14 12:06:23 2023 -0500
Add MOS jobs to rocoto mesh (#2148)
Create separate jobs for GFS MOS - extracted from now-retired vrfy job
Refs #2068
commit bb6151aa50c27253cb9b8f0a6601ddd58526b8b3
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Dec 14 05:38:29 2023 -0500
Replace checkout script with submodules (#2142)
Replaces the checkout script with git submodules. This change brings workflow in
line with other repos and git standards.
Due to these changes, the build system is updated slightly. First, the options that
were formerly used with `checkout.sh` to reduce unneeded builds (`-g` for GSI
and `-u` for UFSDA) are moved to `build_all.sh` instead. This is needed since build
all will not be able to key off directories existing or not to determine which com-
ponents to build. Second, the partial build system is removed. It was rarely, if ever,
used, and parts of it were already ignored with the previous changes to base builds
off whether directories exist. The manage externals file is also removed since that is
also not being used.
Following these changes, clones/checkout will need to either be recursive, or
`git submodule update` will need to be called separately to make sure components
are properly checked out (non-exhaustive list):
```
## Checkout develop (method 1)
git clone --recursive https://github.com/NOAA-EMC/global-workflow destination
## Checkout develop (method 2)
git clone --jobs 8 https://github.com/NOAA-EMC/global-workflow destination
cd destination
git submodule update --init --recursive --jobs 8
## Checkout existing branch some_branch (method 1)
git clone --recursive --jobs 8 -b some_branch https://github.com/NOAA-EMC/global-workflow destination
## Checkout existing branch some_branch (method 2)
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout --recurse-submodules some_branch
## Checkout existing branch some_branch (method 3)
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout some_branch
git submodule update --init --recursive --jobs 8
## Checkout new branch new_branch
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout -b new_branch
git submodule update --init --recursive --jobs 8
```
The git ignore list had to be updated to use explicit paths as the wildcard paths pick
up the ones that are now submodules.
UFS creates files during the build process that are not in its ignore list, so that sub-
module ignores the "dirty" state to avoid confusing users running `git status`.
CI and documentation are also updated to reflect the changes.
Resolves #2141
commit 1332188ce2409e012ec127d44880e49732f7f379
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Dec 13 09:32:57 2023 -0500
Enable radar reflectivity output (#2143)
Turns on radar reflectivity output from FV3. This eliminates missing values appearing in the grib2 files.
commit 24d898ec0ec0c7fcbda6966988f9a986f528ed14
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Wed Dec 13 09:32:24 2023 -0500
Fix Hercules hostname (#2150)
* Allow lower or upper hostname on hercules.
* Add Hercules to issue template.
commit 2896bb8787698be28ad20f2298589e6e95eaf9fb
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 12 09:13:06 2023 -0500
Fix module load typo (#2145)
Fix typo with loading the crtm module in the UPP hack for WCOSS2
Refs #2144
commit 29d34172a67d976f910e78158ff0337e1ef099ca
Author: Cory Martin <cory.r.martin@noaa.gov>
Date: Thu Dec 7 15:12:05 2023 -0500
Update GDAS hash to most recent stable versions (#2138)
commit 93da9f105502e24f1a1a621f05ea49e1fdfe0102
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Dec 7 10:41:05 2023 -0700
Corrected typo in a gempak job gempakncdcupapgif . (#2137)
commit 3483f550db1ae35a680de49f7485ce5a11902dd9
Author: Cory Martin <cory.r.martin@noaa.gov>
Date: Thu Dec 7 12:34:56 2023 -0500
Add support for FGAT and IAU for aerosol DA (#1940)
commit e2664c011bf5fb03a9b1b37878cad423a1fde6f9
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Thu Dec 7 12:33:46 2023 -0500
Enable forecast-only experiments on Hercules (#2128)
This add forecast-only support for Hercules to the global workflow. Partially satisfies #1588.
Co-authored-by: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
commit a29f751aed05312da3d80d396159bb5a906d6ce4
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Wed Dec 6 13:45:56 2023 -0700
Adds GEMPAK and related jobs to rocoto task mesh (#2127)
commit 1fc8b5bf55581de18e786611c65bc3f84bb0c082
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Tue Dec 5 15:47:52 2023 -0500
Separate offline UPP from interpolated grib2 product generation (#2110)
This PR:
- Replaces the use of `JGLOBAL_ATMOS_POST` with `JGLOBAL_ATMOS_UPP`
and `JGLOBAL_ATMOS_PRODUCTS`.
- Introduces `JGLOBAL_ATMOS_PRODUCTS` that is responsible for creating
grib2 products from the master file produced by UPP (inline from the model,
or offline by running `JGLOBAL_ATMOS_UPP`). Rocoto job `atmos_products.sh`,
ex-script `exglobal_atmos_products.sh` are also added along with a
`config.atmos_products`. Updates are made to the relevant `env` files as well as
`config.resources` to reflect the addition of this job.
- reduces the number of cores needed appropriately for forecast products when
there is no offline UPP necessary.
- renames older `fv3gfs_dwn_nems.sh` to `interp_atmos_master.sh` and
`inter_flux.sh` to `interp_atmos_sflux.sh`
- removes `fv3gfs_downstream_nems.sh` as it is absorbed into
`exglobal_atmos_products.sh`
- removes no longer used scripts for `gfs_post.sh`, `gfs_transfer.sh` (DBN alerts
are absorbed into `exglobal_atmos_products.sh`), `post.sh`,
`JGLOBAL_ATMOS_POST`, `ex${RUN}_atmos_post.sh` scripts.
- Rocoto workflow related scripts are updated to add `atmos_products` as a job.
When `WRITE_DOPOST` is `.false.`, `upp.sh` job to run the UPP offline is also
added. Dependencies have been appropriately applied.
- removes `PGB1F` option that creates 1-degree grib1 products that are no longer
needed in GFSv17.
The hacks from (now deleted) `post.sh` had to be reinstated in `upp.sh` to load the
modules from UPP instead of `load_fv3gfs_modules.sh`.
commit 44186f594aaf5f8feea0eadd4c5c3b59de3a825e
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 5 12:28:08 2023 -0500
Update index.rst for new GFSv16.3.11 version (#2121)
Refs #1356
commit e62a3a73cd22701962b7bf210fdfee37f37a5474
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Dec 5 09:08:12 2023 -0700
Splits AWIPS jobs into seperate tasks (#2094)
This PR addresses issue #1228. The following is accomplished:
- Separate rocoto jobs have been created beneath `jobs/rocoto/`
-- `awips_20sh` and `awips_g2sh`; these jobs replace `awips.sh` which was
calling multiple J-jobs within the respective `awips.sh` scripts;
- New tasks has been added to `workflow/rocoto/tasks.py` for the new
AWIPS scripts;
- The `gfs_cycled` and `gfs_forecast_only` modules beneath
`workflow/rocoto` have been updated accordingly.
Resolves #1228
commit 04d97e9aa7ab84b9754ab670074cfb19d543aa26
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Mon Dec 4 13:38:30 2023 -0500
Consolidate VMINMON and cleanup monitor scripts (#2088)
This PR combines the GDAS and GFS versions of the VMINMON JJOB
and ex-driver scripts into single GLOBAL/global versions. Additionally:
* some further cleanup of the GSI-Monitor scripts is done; variable
settings in ex-driver scripts are moved up to the JJOB level
* the fix symlinks are consolidated into a new `fix/mon` subfolder (formerly
`fix/gdas`) and copies of the gfs monitor fix files under `fix/products` are
removed
Resolves #1925
commit a286a11fdcbc31c8bc6d944890bc56294bc8caf6
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Mon Dec 4 17:48:44 2023 +0000
Robust CI Restarts (#2093)
Improved CI robustness for reverting back to **CI-Ready** from any
given state
New Features:
- Improved `scancel` routine (refactored into bash "subroutine")
- Improved messaging (see below) when ever a user changes state
- Any and all previous build scripts and running experiments are killed as
a result of reset to **Ready**
Resolves #2060
commit 73621e9b20b20f85e8b21e4c1e09ed1d80ecd46f
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Sun Dec 3 11:19:19 2023 -0500
Upgrade to spack-stack/1.5.1 and Intel 2022 on non-production machines (#2084)
Update module files to spack-stack/1.5.1 and compilers to Intel 2022+ on all non-production machines.
commit 6d548b250688861eb20a7e0dc852a0e4ba9e64f4
Author: jiandewang <jiande.wang@noaa.gov>
Date: Thu Nov 30 12:00:21 2023 -0500
Add variable tob in diag_table for ocean model output(#2105)
commit c19810cce252fcdb25fd9960c05b08b5f8d8b1ad
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Wed Nov 29 15:17:36 2023 -0500
Added variables to config.prepoceanobs (#2101)
commit c2d78a61a224678fb804eed19f39d1f07408ae5f
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 29 12:39:08 2023 -0500
Add missing cut to VDATE setting in JGFS_ATMOS_VERIFICATION (#2098)
Refs #2097
commit c1c025f91ddac73aea595cc9fa4dd0bea80575fc
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Nov 29 17:15:10 2023 +0000
Add wave init to GEFS (#2089)
Adds the wave init job to GEFS. Since the output would be the same for
every member, the job is only run once for the control, then links are
created in each of the member directories pointing to that copy.
New ww3_multi and ww3_shell templates for GEFS are copied from the
GFS versions.
The GEFS restart frequency is changed to not be zero, and the comment
about not setting it to zero is copied from the gfs config.base. The restart
interval for the GEFS perturbed members is changed to equal that of the
control.
Also fixes a bug where `RUNwave` was not defined for ensemble forecasts,
and another bug in the GEFS stage_ic dependency.
Resolves #2017
commit 64a2470ce29b7d8d5cb85ebcb4048ff82958f64e
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 29 11:26:34 2023 -0500
Adjust permissions for jobs/JGFS_ATMOS_VERIFICATION (#2095)
Add execute permissions (755)
commit 964b77bc6de67291973c2c70598a1f8cb72501c5
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Nov 28 18:45:51 2023 +0000
Make proper j-job for MET+ (#2090)
Creates a proper j-job for the metp job, moving much of the material
from the `jobs/rocoto` script there (some of it within `jjob_header`).
Also updates the old `COMIN` variable for the COM refactor (although
it does not appear used in the verify scripts currently).
This is a partial step towards restoring/improving metp functionality
and remains untested.
Refs #1575
commit 8c11eeb8556619e8db4e0efb6394ce5a2c1aae0f
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 23 10:31:32 2023 -0700
Adds FBWINDS support to global-workflow (#2082)
This PR addresses issue #1221. The following was accomplished:
- A new Rocoto job is added; `jobs/rocoto/fbwinds.sh`;
- `workflow/applications/gfs_cycled.py` is updated to include the `fbwinds` task;
- `workflow/applications/gfs_forecast_only.py` is updated to include the `fbwinds` task;
- A new function is added to `workflow/rocoto/gfs_tasks.py`, `fbwinds` is added as new GFS (only) task;
- `workflow/rocoto/tasks.py` is updated to include the `fbwinds` task.
Resolves #1221
commit 513db190d21f9ede0724a2cd5606372b1d7605de
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 21 22:52:58 2023 -0700
Adds NPOESS support to global-workflow (#2083)
This PR addresses issue #1225. The following was accomplished:
- A new Rocoto job is added; `jobs/rocoto/npoess.sh`;
- `workflow/applications/gfs_cycled.py` is updated to include the `npoess`
task;
- `workflow/applications/gfs_forecast_only.py` is updated to include the
`npoess` task;
- A new function is added to `workflow/rocoto/gfs_tasks.py`, `npoess` is
added as new GFS (only) task;
- `workflow/rocoto/tasks.py` is updated to include the `npoess` task.
Resolves #1225
commit 62d8e99e77ffe44784f4c61c3f2296c6d1a72413
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 20:25:50 2023 -0500
Retire vrfy job (#2080)
Retires the `vrfy` job from the global-workflow system. All associated
scripts, configs, and references to the job are removed.
Additionally, the switches listed in RTD were updated to reflect new
ones added in other PRs for issue #235.
Resolves #2069
Refs #235
commit ea386abf11ecbacef407388e8d57e71b30148a35
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Nov 17 23:59:46 2023 +0000
Enable different coupled settings for ensemble (#2030)
Adds the ability to turn off some coupled components for the ensemble.
To enable this, many settings are moved out of `config.fcst` and into `config.ufs`
so they are calculated after any overrides of `DO_*` have been made. Some
settings also had to be moved out of `config.base` for the same reason. A
switch to turn on gocart is added to `config.ufs`, but unlike the other switches
this one takes no arguments.
The name of the ufs configure template used is converted from a partial file
name to the full file name.
Resolves #1692
commit fe792c0c9a1c46908cbd18c7e71eb836974cf1de
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 17:19:16 2023 -0500
Add --cpus-per-task to srun commands for Hera and Orion (#2077)
This PR adds the `--cpus-per-task` flag to non-CFP `APRUN`/srun commands
in the env files for Orion and Hera. This is needed as a result of an upgrade
to SLURM on Orion that no longer exported the thread value to the
environment. Issue #1996 was a hotfix to add this flag for the analysis job
that was suddenly running slowly after the SLURM upgrade. A similar SLURM
upgrade was done on Hera but the sysadmins there implemented a
workaround so this issue did not appear there.
This PR adds the `--cpus-per-task` flag for both machines...needed on Orion
and as a safety measure on Hera.
Also included in this PR is a fix to indentations in the
`scripts/exglobal_diag.sh` script that was noticed during work for this PR.
Timing differences were not observed for other jobs after adding this srun
flag. Job timings were of a similar variation between control and test runs.
Any potential additional speedup was not observed. The test runs also
reproduced the control runs with `develop`.
Resolves #2044
commit 42c943be305c297a56b104bb50727938c1ba688f
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 15:41:34 2023 -0500
Adjust modules in post.sh for WCOSS2 (#2079)
On WCOSS2 the grib_util module is named a bit different and
needs the libjpeg module loaded beforehand.
commit cd4e6a1987e7fd71dff06766f540b5d32c8b648d
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Fri Nov 17 11:49:32 2023 -0500
Update ufs-weather-model and remove upp hack (#2071)
Updates the model to the most recent commit of ufs-weather-model. This
should allow for the removal of the UPP hack that was added in PR #2042
This required changing nems.configure -> ufs.configure.
Resolves #1942
commit 5a2d97e142aa4999b122fd5a130c63e59ea9f8e2
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 16 22:15:53 2023 +0000
Fix check for existence of preamble functions (#2066)
A few of the setup scripts were checking for the existence of
functions set by the preamble before calling them so they could
also be used stand-alone. However, the `type` command returns `1`
if the function name does not exist, which will cause the script
to die is `set -e` is on. Now the `type` command fails over to an
empty string.
commit ed2ee7c2b1457b71b271a2c40f0dfa356e0f52f8
Author: WenMeng-NOAA <48260754+WenMeng-NOAA@users.noreply.github.com>
Date: Thu Nov 16 16:38:11 2023 -0500
Update UPP products for GFS v17 (#1973)
Updates of generating GFS V17 UPP products to support HR3:
- Update g2tmpl to 1.0.12
- Add changes to launch cfp on WCOSS2 to generate pgrb2/pgrb2b files
- Changes for generating new products (MERRA2, six winter weather variables,
1km HLCY, SDEN) in pgrb2 files
Resolves #1965
Resolves #1994
commit 635c4719e603538ce7cccf9ea6b31f3f84f20849
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 16 20:35:30 2023 +0000
Fix some rocoto dependencies (#2074)
A few small errors/cleanup in the dependencies, mostly in fcst:
A few small errors/cleanup have crept into the dependencies with recent changes,
mostly in fcst:
- Fixed the offset, as it would yield a string rocoto doesn't recognize when the
interval was 24+ hrs
- Removed the duplicate wave dependency. When `waveprep` is included, it
depends on `waveinit` so there is no need to add a `waveinit` dependency.
- Converted an interval in the archive job that was missed in #2039
Resolves #2075
commit d4c7508260975c6b94fc92fd085f39d4faf3f027
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Wed Nov 15 16:44:03 2023 -0500
Fix missing _PREV in ocean restart file location (#2070)
commit 255616d37505c785bdddd5d3e39e8399110b626e
Author: mdtoyNOAA <73618848+mdtoyNOAA@users.noreply.github.com>
Date: Wed Nov 15 12:02:09 2023 -0700
Update functionality for Prototype HR3 UGWP (#1987)
This PR adds/modifies namelist options and activates new 'ccpp' suite definition
files for the updated Unified Gravity Wave Physics (UGWP) in the ufs-weather-
model recently updated for HR3. The changes to UGWP are the use of the GSL
drag suite for orographic gravity wave drag (GWD) and blocking, as well as the
new UGWP Version 1 non-stationary GWD. See
ufs-community/ufs-weather-model#1923 for details.
Resolves #1986
commit be9085e62aae147e3c74602e2f82a99b374fc783
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Wed Nov 15 13:48:58 2023 -0500
Save the required CICE history for the sea-ice DA (#2062)
The hist_avg setting of CICE was changed to be an array.
commit 85f1f5131ffd70061231304ea477bde0559eb67b
Author: Guoqing Ge <guoqing.ge@noaa.gov>
Date: Wed Nov 15 11:47:21 2023 -0700
Use assim_freq to configure "offset" in dependencies (#2039)
Use the assim_freq from config.base to configure "offset" in dependencies
instead of hard-coding them.
Resolves #2038
commit 4e3d82ba3a1fa7cdd4443bcd4cf83b2f8835137c
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 15 13:39:14 2023 -0500
Resolve ENKF archive script bugs (#2065)
Fix two bugs in the exgdas_enkf_earc.sh script:
1) Replace ARCH_LIST with DATA to match changes done in PR #2000
and update path to generated archive list files.
2) Add status check and exit after script attempts to make tarball on HPSS.
Refs #2064
commit 42d7f2f0c48fab898b764e09cfbbd7a9fabbae08
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Nov 14 17:54:29 2023 -0500
Separate tracker and genesis jobs from vrfy job (#2058)
This PR creates new individual jobs for the tracker and genesis jobs that are being
pulled out of the `vrfy` job (issue #235). The `tracker` and `genesis` jobs will be on
by default while the `genesis_fsu` job will be off by default. This mimics the current
settings in the `vrfy` job.
No enhancements or upgrades are made to the jobs themselves in this PR, only to
separate them from the `vrfy` job. However, one change compared to how they
currently run in the `vrfy` job is to no longer run the `tracker` in the gdas suite. This
mimics how the `ens_tracker` package is run in operations (gfs only).
Changes in this PR:
1. Create rocoto job scripts for tracker/genesis jobs.
2. Create configs for tracker/genesis jobs, as well as `config.tropcy` for shared
settings.
3. Add tracker/genesis jobs to `config.resources`; use resources from the ecf scripts
for `ens_tracker` jobs in operations
4. Add tracker/genesis jobs to rocoto setup for both cycled and forecast-only
modes.
5. Update arguments for `jjob_header.sh` script in tracker/genesis JJOB scripts to use
specific job names and configs instead of vrfy.
6. Rename `tracker_ver` to `ens_tracker_ver` in version files to mimic variable within
tracker package.
7. Rename and move tracker/genesis switches to `config.base`.
8. Remove tracker/genesis jobs from `vrfy` job (`jobs/rocoto/vrfy` and `config.vrfy`).
9. Reduce vrfy job resources to accommodate tasks having been removed.
Refs #235
Resolves #1988
Resolves #2048
commit 0a0d6984e094d2a551d5d8331102142e7db13fc2
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Tue Nov 14 14:08:26 2023 -0500
Enable warm starting of the model for forecast-only mode (#2031)
This PR:
- adds an option to warm|cold start the ufs-weather-model when setting up an experiment for GFS/GEFS
- adds the capability to stage FV3 restarts when the atmosphere is warm started from FV3 restarts. This would be used in the GEFS free-forecast for part of the reforecast capability.
- If a coupled model is warm started for the atmosphere, also check if mediator restarts are present. If so, stage mediator restarts to allow restarting the coupled model.
Fixes #2016
commit 2cd6a589305a9ac9d3a9a0d2136e66e42f09d3bf
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 14 12:05:20 2023 -0700
Moves UFS WM configuration files to `COM_CONF` (#2054)
The UFS weather-model (WM) files are place in the COM_CONF path rather than the respective component model COM history paths.
Resolves #2015
commit 6f1693081662f241fafc930b1afc88125f7f5aff
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Nov 14 11:15:02 2023 -0500
Refine fit2obs job in rocoto mesh (#2047)
This PR adjusts the `fit2obs` job in the rocoto mesh to better define when it exists
and how the archive job dependencies accommodate it not being in the first half
cycle.
Changes in PR:
1. Remove the `fit2obs` job from the first half cycle `cycledef`.
2. Adjust the archive job dependencies to now include the `fit2obs` job in the new
logic check added in PR #1983. The `gdasarch` job in the first half cycle will check if
`gdasfit2obs` is complete OR no prior cycle exists. Also cleaned up this new logic
check block some to make it a tad simpler.
3. Also, fix the addition of the `fit2obs` config to the config list in setup scripts. Now
tied to whether `fit2obs` job is on instead of always adding the config to the list.
Resolves #2043
commit 5730a71fa5d311e49d9bb11528b500f27f33d69d
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 14 09:13:11 2023 -0700
Add `waveinit` and `waveprep` to half-cycle. (#2037)
This PR addresses issue #1444. The `waveinit` and `waveprep` tasks have been added to
the GDAS have cycle. The downstream dependencies for the respective GFS and GDAS
forecast tasks have been removed.
Resolves #1444
commit 28d2e93c3857de95b0309a089cd7dac736ccaded
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Nov 14 16:11:47 2023 +0000
Update wave IC source for C384 (#2055)
The default wave grid for C384 has changed since P8, so a single wave
IC on the new grid is available under a different IC name.
commit 81dd2d9855091315611106a5afbdaeaa15e6e4ae
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 9 17:19:57 2023 +0000
Fix analysis and post on Orion (#2046)
Fixes a couple things to get workflow to work on Orion again:
First, while #2042 allowed post to be built, the `upp.x` executable would fail due
to a missing library. Now post jobs (temporarily) uses the UPP modules (plus
others needed for runtime) instead of the normal workflow runtime module. This
should actually fix #2041. This hack can likely be removed once we move to
spack-stack.
Second, the launcher command for the analysis jobs on Orion are updated to
specify the number of CPUs per task. This was necessary as a recent slurm update
on Orion discontinued reading that value from the scheduler. Other jobs will be
handled later (see #2044).
Additionally, a change is made to `module-setup.sh` that will eliminate the
annoyance of `gw_setup.sh` breaking tab completion because undefined variable
checking was turned on for the script but not back off.
Resolves #1996
Resolves #2041
Refs #2044
commit 13d06ded4155cba2d08ef2a2cd553024c5abe29d
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Nov 8 18:25:47 2023 +0000
Hack UPP version (#2042)
The stack UPP was using on Orion was recently deleted, leaving us
unable to build the UFS verison of UPP there. UPP has an updated
version using spack-stack that works, so the checkout script is
modified to check out that version of UPP after UFS has been
checked out.
This temporary hack can be removed once we move to a UFS version
that advances the UPP version to or beyond 78f369b.
Resolves #2041
commit 20f6eceb8ff58f84174a27eb849c1d74566a3e03
Author: jiandewang <jiande.wang@noaa.gov>
Date: Wed Nov 8 11:14:55 2023 -0500
Add basic C1152 settings (#2020)
Adding C1152 setting in host.yaml, config.base and config.stage_ic so that can run C1152 S2SW.
Resolves #2019
commit 5183c43bbbd07285869feacb49d8680afe85929a
Author: Barry Baker <bbakernoaa@users.noreply.github.com>
Date: Tue Nov 7 01:14:40 2023 -0500
Update UFS for dust fix and remove nitrates by default (#1989)
This PR updates the `ufs-weather-model` to the latest hash that included the dust fix (PR #1922).
Along with this I removed the nitrates by default in support of the GEFSv13 EP4 and EP5
experiments. Removed unneeded inputs that should help with speed improvements.
commit 34a73cf2ed5afefc776d9cc73b6ebf439122a1bb
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Mon Nov 6 14:00:51 2023 -0500
Reduce gdas builds to 8 #2029 (#2036)
Reduce the default number of build jobs for the GDASApp to 8 from 16.
This is needed for Orion as the build crashes during a linking step. Though not verified, it
appears this may be caused by using too much memory with 16 builds. The issue disappears
when using 8 build jobs.
Resolves #2029
commit 75269e4bb9764b81589efc7d703825b80e74c8f5
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Mon Nov 6 17:34:47 2023 +0000
Streamline CI reporting to PRs (#2026)
Cleaned up the logs for CI PRs sent to the GitHub Messages:
- Eliminates redundant accumulative reporting
- Reports on all created or skipped experiment instantiations in a single message
- Gives one line report once for each experiment completion
- Single final report completion of CI
See some examples in forked [PR 195](https://github.com/TerrenceMcGuinness-NOAA/global-workflow/pull/195)
Resolves #2007
commit 8d55126bb0b27c79c8bee7f72b014abd34950ff9
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Fri Nov 3 17:06:09 2023 -0400
Implement IAU Cycling Type with Marine Data Assimilation Enabled (#1944)
Allows cycling in IAU mode with the S2S UFS model, soca and the GSI.
Most of the work related to making IAU work was done by @JessicaMeixner-NOAA . Thanks @JessicaMeixner-NOAA !
Resolves #1943
Refs #1776
commit 2563806821d4ae3b57120bc61aa0575139a708f0
Author: jiandewang <jiande.wang@noaa.gov>
Date: Fri Nov 3 11:49:37 2023 -0400
Add two ucx modules in load_ufswm_modules.sh to solve C768 and C1152 S2SW job hanging issue on WCOSS2 (#2021)
commit cbdc09711a83493f363a737d1e3e46c48a09719d
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Nov 3 04:09:33 2023 +0000
Fix staging of MOM data (#2028)
During the update to stage_ic, the copying of the additional res_N files for
0p25 was omitted. These are now properly copied.
Resolves #2027
commit bd4c56d99c23c5c41f0bd5f8a980ef99ee160888
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Thu Nov 2 16:09:59 2023 -0400
changed optional script name vars for ocean analysis (#2025)
commit 93bc918cdabee771c182c6f33cc54a20b5bb86c6
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Thu Nov 2 16:01:18 2023 -0400
Create separate GSI monitor jobs and remove from vrfy job (#1983)
This PR will move the GSI monitor tasks from the `vrfy` job into their own separate jobs in
the rocoto mesh. This takes care of part of issue #235.
Changes in this PR:
1. Create new individual GSI monitor jobs in the rocoto mesh to match how it is done in
operations. The new jobs are: `gdasverfozn`, `gdasverfrad`, `gdasvminmon`, and `gfsvminmon`.
The names correspond to the names in operations and the ecf script names. The jobs are only
added to cycled mode, none of the jobs are run in forecast-only mode.
2. Updates to GSI monitor scripts:
* Update `ush/jjob_header.sh` arguments in JJOB scripts to call new individual job names and
configs.
* Introduce `COM_*` variables and use of the `generate_com` utility. This results in the outputs
landing in `COM` subfolders, like occurs in operations, instead of landing in the online archive.
* Some variable cleanup in JJOB and ush scripts, includes cleaning up usage of `DATA` variable
and its removal at the end of the jobs.
* Add missing exit statements to `JGFS_ATMOS_VMINMON` and `JGDAS_ATMOS_VERFRAD`.
3. Create new rocoto job scripts for the new individual GSI monitor jobs.
4. Create new configs for the new individual GSI monitor jobs.
5. Add new individual GSI monitor jobs to resource configuration, using the same resources as
in operations.
6. Move and rename GSI monitor job switches from `config.vrfy` to `config.base`. Also add
switches to setup system. New switches to control each job being added to the rocoto mesh
are: `DO_VERFOZN`, `DO_VERFRAD`, `DO_VMINMON`
7. Add GSI monitor job output to archival job and into resulting HPSS tarballs or local tarballs.
This now matches what is done in operations.
8. Remove the GSI monitor tasks from the rocoto `vrfy` job and associated `config.vrfy`.
Example output locations and files (not showing contents of oznmon/horiz or oznmon/time for
brevity, see archival script for full list of output files):
```
kate.friedman@dlogin09:/lfs/h2/emc/ptmp/kate.friedman/comrot/testmonitor2> ll gdas.20211221/00/products/atmos/*mon
gdas.20211221/00/products/atmos/minmon:
total 112
-rw-r--r-- 1 kate.friedman emc 14030 Oct 25 15:00 2021122100.costs.txt
-rw-r--r-- 1 kate.friedman emc 84932 Oct 25 15:00 2021122100.cost_terms.txt
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 15:00 2021122100.gnorms.ieee_d
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 15:00 2021122100.reduction.ieee_d
-rw-r--r-- 1 kate.friedman emc 80 Oct 25 15:00 gnorm_data.txt
gdas.20211221/00/products/atmos/oznmon:
total 8
drwxr-sr-x 2 kate.friedman emc 4096 Oct 25 15:05 horiz
drwxr-sr-x 2 kate.friedman emc 4096 Oct 25 15:05 time
gdas.20211221/00/products/atmos/radmon:
total 21036
-rw-r--r-- 1 kate.friedman emc 231 Oct 25 15:12 bad_diag.2021122100
-rw-r--r-- 1 kate.friedman emc 9035 Oct 25 15:12 bad_pen.2021122100
-rw-r--r-- 1 kate.friedman emc 1449 Oct 25 15:12 low_count.2021122100
-rw-r--r-- 1 kate.friedman emc 20523403 Oct 25 15:07 radmon_angle.tar.gz
-rw-r--r-- 1 kate.friedman emc 217272 Oct 25 15:08 radmon_bcoef.tar.gz
-rw-r--r-- 1 kate.friedman emc 502151 Oct 25 15:10 radmon_bcor.tar.gz
-rw-r--r-- 1 kate.friedman emc 264480 Oct 25 15:12 radmon_time.tar.gz
-rw-r--r-- 1 kate.friedman emc 684 Oct 25 15:12 warning.2021122100
kate.friedman@dlogin09:/lfs/h2/emc/ptmp/kate.friedman/comrot/testmonitor2> ll gfs.20211221/00/products/atmos/minmon/
total 88
-rw-r--r-- 1 kate.friedman emc 10530 Oct 25 14:55 2021122100.costs.txt
-rw-r--r-- 1 kate.friedman emc 63882 Oct 25 14:55 2021122100.cost_terms.txt
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 14:55 2021122100.gnorms.ieee_d
-rw-r--r-- 1 kate.friedman emc 608 Oct 25 14:55 2021122100.reduction.ieee_d
-rw-r--r-- 1 kate.friedman emc 80 Oct 25 14:55 gnorm_data.txt
```
Lingering work and considerations:
1. Issue #1925
2. Consider not hardcoding the list of types in archival and perhaps tie it to something reliable or
configurable (maybe into `config.verfozn`?):
`subtyplist="gome_metop-b omi_aura ompslp_npp ompsnp_n20 ompsnp_npp ompstc8_n20 ompstc8_npp sbuv2_n19"`
Resolves #1908
commit 31b05a99b77d0f6eaa8b116485a41a43867d20e1
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 2 12:23:32 2023 -0600
Move analysis post to new stand-alone task (#1979)
This PR addresses issue #1130. A new task `postanl.sh` has been added such that the
`anl` post-processing is not it's own task within the Rocoto workflow. This change
prevents the GDAS experiment from breaking due to failures caused by the `anl` not
being available for the first cycle.
Resolves #1130
commit 247cdf8c7e10e6c98f782799fc51c069b6474e70
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 2 11:18:53 2023 -0600
Corrects missing local variable reference (#2023)
Fixes missing `$` in variable reference in archive job.
Resolves #2022
commit 241742b246da1794646b68e41c3d6fe00b95dd07
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Wed Nov 1 14:19:55 2023 -0400
Updates to prep ocean obs task (#1870)
commit 77be0ec6a3117b9f7e71a19c69ac64c09b521ecd
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Wed Nov 1 12:09:33 2023 -0600
No longer write archive lists COM (#2000)
Changes the respective `.txt` files used for the HPSS archive to the `DATA` path. Each
defined text file has been updated to explicitly write to `DATA` rather than `COM` such
that the files are deleted rather than being archived.
Resolves #760
commit 517b92f9c20c9e44abba3183325e35a95a7334a5
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Tue Oct 31 16:33:11 2023 -0400
Parallelize the build scripts (#1998)
Optimized/parallelized build scripts.
A few notes:
1) The default number of build jobs is 20, but one could argue for using 40. When researching
this, I looked up what the SRW is compiling with. That system uses 40 cores, which seems a
little excessive, but on testing the global workflow, the actual number of cores being used at
any given time rarely exceeds 16 when running with 40 cores. This is because the builds tend to
use multiple threads in the beginning when compiling low-level modules while the higher-level
modules are more or less serial AND because the GDASApp takes several minutes to initialize
all of its subrepositories by which time the smaller builds are complete.
2) I also updated checkout.sh so that all checkouts are simultaneous. The CPU load for
`git submodule` is quite low, so running 16 instead of 8 jobs at once is not much more expensive.
3) To make this work, I had to add `-j` options to most of the build scripts. The only exception is
build_upp, for which the build script within the UPP is hard coded to use 6 cores.
4) I fixed a few small bugs in the build scripts along the way.
5) Lastly, this reduce the total build time from ~2.5 hours for the entire system (including GDAS
and GSI in the same build) to ~40 minutes when running with `-j 40`.
Resolves #1978
commit 67c050c201f92e855d09211e41a5f51ee1cb5230
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Oct 31 19:00:47 2023 +0000
Add missing export for rCDUMP in stage_ic (#2009)
rCDUMP is needed by the exscript but was never exported by the jjob.
commit 872068cb5ea78b311f7a77e97ee1428ae027cb61
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Oct 31 14:37:55 2023 +0000
Add output error log to user for create_experiment.py on fail in CI (#1974)
Small changes to driver CI bash scripts to recapture error log from `create_experment.py` logger
Fixes #1939
commit b2e4a2e9d269842acbb1b37dd563ee5dee2adf0f
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Oct 31 13:57:02 2023 +0000
Allow CI case to exclude running on certain platforms (#2001)
commit 7cc137116f1619bf1e5a12eaacb98d17da97c223
Author: Jeff Whitaker <jswhit@fastmail.fm>
Date: Tue Oct 31 07:54:24 2023 -0600
Add initial C96/1 deg coupled model support (#1991)
commit 7086ddc4bece6fb2a8c1c2e6090800d4293e410e
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Mon Oct 30 19:58:43 2023 -0400
Add ocean analysis files to HPSS archiving task (#1985)
This PR adds the files under `analysis/ocean` (except those in `bump` and `vrfy`) to the
HPSS archiving job, in `gdasocean_analysis.tar`, which were previously not archived.
Resolves NOAA-EMC/GDASApp/issues/693
commit eabc82ad30c118645c0e6e216162d823882a8139
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Mon Oct 30 10:31:27 2023 -0400
Make the early cycle work with the coupled UFS configured as S2S (#1954)
commit aff6ca7ae559e424dae128d6cfd5da4a4e3049e7
Author: Anil Kumar <108816337+AnilKumar-NOAA@users.noreply.github.com>
Date: Fri Oct 27 14:11:55 2023 -0400
GEFS Staging in exglobal_stage_ic (#1892)
Adjusts source paths for forecast-only ICs in support of extension to ensembles.
New paths omit the resolution (that is captured by the IC id name) and allow for
a member level.
Directories with the reorganized ICs have been added to the three tier-1 machines
under glopara space.
Building on this, also adds capability to stage GEFS ICs.
Resolves #911
commit 77c1ff2bfa26b341b01f41e50ee0ecb31cc4f661
Author: RussTreadon-NOAA <26926959+RussTreadon-NOAA@users.noreply.github.com>
Date: Thu Oct 26 23:44:27 2023 -0400
Update GDASApp hash (#1975)
Update GDASApp hash to bring recent UFSDA development into g-w.
Resolves #1972
commit 962368884991670d3a1ee1c5a065d5bce4b7561a
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Thu Oct 26 16:10:23 2023 -0400
Test tarballs for rstprod before calling chgrp (#1967)
Certain tarballs may or may not contain `rstprod` data. For instance, the first half cycle
gdas and enkfgdas tarballs will not contain `rstprod`, while future cycles likely will. Also,
some systems do not have `rstprod` on them. This will test the contents of the tarballs
first before attempting to change the group to rstprod.
Resolves #1460
commit c02e118c0ac5485109c9bd33472ff42db309cd9b
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Thu Oct 26 15:05:05 2023 -0400
Update ufs model to version from 10-12-23 (#1933)
This updates the ufs-weather-model to the commit hash from 10-12-23 from the HR2 tag.
The diffs can be seen here: https://github.com/ufs-community/ufs-weather-model/compare/GFSv17.HR2...68050e58589a82ab509aaefaafdc2a6b90f34e48
Resolves #1811
commit 8556541daa79b0180fde48a58a8dcfb2f8c56ea5
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Wed Oct 25 16:15:28 2023 -0400
Fix incorrect usage of CFP on WCOSS2 (#1977)
commit 0b5cf9b67a8146d9d4815ea6545f7f2524120d83
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Oct 25 13:17:28 2023 -0400
Update GFS version in index.rst to v16.3.10 (#1976)
Update the "State of operations" GFS version number to new v16.3.10 (Annual CO2 fix file update in operations).
Refs #1924
commit e817f5dd38c26a88f76d90eb71124f1acbfc5a8f
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Oct 25 02:03:14 2023 +0000
Fix path for marine products (#1966)
When PR #1823 was merged, the name of the marine product template
was not updated in ocnpost, leading the products to be placed in
the wrong location and missed by the archive job.
Resolves #1902
commit 7cdfad4eaa7abe0769ff13396c54e6d93afebf8f
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Oct 24 22:19:46 2023 +0000
Build GDASapp for CI tests (#1964)
* added -u to global checkout so CI test builds tests for GDASapps
* Update check_ci.sh
needed more quotes
---------
Co-authored-by: TerrenceMcGuinness-NOAA <terry.mcguinness@noaa.gov>
commit c58deae0cf078d1ee093529064d74f60482aa3f4
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Oct 24 16:19:04 2023 -0600
Updates for NOAA CSP AWS global-workflow related file paths. (#1970)
Co-authored-by: henrywinterbottom-wxdev <henry.winterbottom.wxdev@gmail.com>
commit 1b00224e18842cd873eb1779be08f96687e49e1f
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Oct 24 14:48:24 2023 -0400
Set SENDCOM=YES for tracker/genesis tasks (#1971)
Set SENDCOM to YES in config.vrfy to get outputs copied back to COM.
Will reevaluate the need for SENDCOM when moving the tracker/genesis jobs out of the vrfy job with issue #235 work.
Refs #1947
commit e2c624d8904cd988394c73d0edb22fa593229d3f
Author: RussTreadon-NOAA <26926959+RussTreadon-NOAA@users.noreply.github.com>
Date: Tue Oct 24 13:32:52 2023 -0400
Refactor UFSDA ATM var and ens layout (#1945)
commit 8940adddfe9d21189740e71487603fb2acee2336
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Tue Oct 24 11:02:29 2023 -0400
Optimize the checkout script (#1956)
* Multithread the checkout script #1953
commit 4b5cd0bc435fc158258ca38c3d5f44add6b60469
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Mon Oct 23 12:04:26 2023 -0400
Fix nth_eupd in gfs/config.resources. remove sections of jobs not run as part of gefs from gefs/config.resources (#1952)
commit 08ce4f8d3ed8e07b4d488a80b5054c6206b04404
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Oct 20 16:14:53 2023 +0000
Fix enkfgfs cleanup dependency (#1941)
When #1906 was merged, the dependency for enkf cycles was hard-coded
to use the enkfgdas archive instead of depending on the `RUN`.
commit 1a5d0b51642eb70f71e693355e86212d3607b7b3
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Oct 20 15:54:33 2023 +0000
Split clean-up into separate job (#1906)
Moves the clean-up that was previously done in the archive jobs into
their own separate job. The clean-up is also streamlined considerably
by using only `COM_TOP` instead of going through every template.
There is also additional streamlining/corrections in the function that
does the actual removing.
Some settings used by both jobs were elevated to `config.base`.
Others only needed for cleanup were moved to the new config for
that job.
Also corrects a small error encountered when attempting to rerun an
ensemble forecast.
Resolves #583
Resolves #1872
commit 3de102c28daf9eb50ce65e0afe911f5a416ce861
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Tue Oct 17 09:30:18 2023 -0400
Updates to CI to clarify HOMEgfs (#1931)
* replace HOMEgfs_PR with HOMEgfs, and HOMEgfs with ROOT_DIR. ROOT_DIR is the location where the ci scripts live
* update type to system in case yamls
* move create_experiment.py to workflow/
* detect HOMEgfs in create_experiment.py based on location. update to use jinja templates in the cases
* remove export of HOMEgfs from driver.sh
commit bfea2594207a477ea00e3b7fef95c2d7befd492b
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Sun Oct 15 23:27:47 2023 -0600
Remove SENDCOM (#1929)
This PR addresses issue #1501. All instances of `SENDCOM` gates have been
removed. The workflow was inconsistent in its use of `SENDCOM` to gate
movement of files to `COM` and have been removed based on NCO guidelines.
Resolves #1501.
commit 9a8911a0b30f0367d061facfb3b835480728081d
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Fri Oct 13 14:21:01 2023 +0000
update nth_eupd to 8 for Orion because of out of memmory errors (#1927)
Co-authored-by: TerrenceMcGuinness-NOAA <terry.mcguinness@noaa.gov>
commit ea4dfa5800b5cb529478cc64d329f567393fa37d
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Thu Oct 12 21:29:19 2023 -0400
Marine DA configuration updates (#1922)
Minor updates the configuration related to running the marine DA and the coupled UFS.
What's proposed in this PR:
- Memory increased for the marine DA analysis step
- The coupled UFS is (was?) running out of memory without the changes in `config.ufs`.
- Updates to the IAU section of MOM_input to allow for a current increment.
commit c2d112b40a926c9f33a653cfbb832cb811a60352
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Thu Oct 12 23:52:43 2023 +0000
Fix missing pipe in check_ci (#1926)
Bugfix: left out pipe to word count` | wc -l` after updating:
`num_platforms=$(ls ../platforms/config.* | wc -l)` to
`num_platforms=$(find ../platforms -type f -name "config.*")`
when it was flagged by the BASH linter.
commit 51d93e15eb30382017aaf72813d34f7010f47948
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Oct 10 19:09:26 2023 +0000
Updated cron bash ci script to remove weekly CI test PR on success (#1915)
This PR updates the check CI bash script in cron to remove the PR that is created by
the weekly CI test driver when all the tests has passed on all the platforms.
This is done by the script checking if all other labels for all the platforms for the PR
that has currently been flagged to have run to a successful completion by the check
ci bash script.
commit 2d64b74a0b0407d01d6f657efa6af9637a131448
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Wed Oct 4 22:33:25 2023 +0000
CI driver_weekly bugfix deleting new branch if is already on repo (#1899)
Bugfix and updates to weekly CI test that deletes the new modified branch
if it is already on the repo but now also makes sure that the intermediary
branch that creates the PR is coming from emcbot.
commit e4a6c35ae020253f07921ca34a17f19e928b0b6c
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Wed Oct 4 09:42:12 2023 -0400
Fix typo in cice history filename
commit d50938bc4f6705b722338bbea03f925614f953ed
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Oct 3 23:37:39 2023 -0400
Change metp dependency (#1900)
MET+ jobs rely on files already having been placed in the local
archive directory, but the job only depended on post, resulting
in the job prematurely firing. The dependency is now updated to
be on the archive job instead.
Resolves #1756
commit 836642bb201cd2e5e205eda2ae4a28993623355d
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Tue Oct 3 14:45:57 2023 -0400
Use deterministic marine resolutions for ensemble (#1894)
This PR determines the ensemble resolution for ocean, ice and waves based on the
deterministic configuration as there is no dual-resolution capability requested for
these model components.
For cycled DA, if the deterministic uses a coupled model, the ensemble will also be
a coupled model. This can be turned off manually via adding `DO_AERO_ENKF`,
`DO_OCN_ENKF`, `DO_ICE_ENKF` and `DO_WAVE_ENKF` flags set in `config.base` or
`config.efcs`. This is currently handled manually and will be automated when a
requirement arises for this flexibility.
Fixes #1730
commit 48ba775909870f0d27275128bd07ec134b92c356
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Mon Oct 2 13:34:02 2023 -0400
Update vrfy.sh to only run MINMON in cycled mode (#1901)
Update MINMON if-block in jobs/rocoto/vrfy.sh to only invoke this section when MODE is cycled.
Refs #1076
commit e65162f3083c34b639854e3216e2355ff6fccc0b
Author: RussTreadon-NOAA <26926959+RussTreadon-NOAA@users.noreply.github.com>
Date: Fri Sep 29 19:18:07 2023 -0400
Update module loads to intel/2022 for jobs running gsi.x and enkf.x (#1882)
This PR changes the module loads in g-w jobs `anal.sh`, `eobs.sh`, and `eupd.sh`
to use machine specific modulefiles from `sorc/gsi_enkf.fd/modulefiles`. This is
necessary because [NOAA-EMC/GSI#571](https://github.com/NOAA-EMC/GSI/pull/571)
updated `gsi.x` and `enkf.x` builds to intel/2022 on NOAA RDHPCS machines.
Resolves #1863
commit cd439d0bf2ae5fb57139fcb9983aa2755fdc9b2c
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Fri Sep 29 15:35:54 2023 -0400
Add coupled forecast-only tests for S2S and S2SW (#1895)
This PR:
- replaces the PR C48 S2S forecast-only test with a S2SW configuration
- adds a weekly C384 S2SWA forecast-only test.
The C384 S2SWA is a weekly test and will not be triggered/tested in this PR, but will
be tested on Friday. See notes on Orion below in the testing section.
@JessicaMeixner-NOAA kindly provided the details in
https://github.com/NOAA-EMC/global-workflow/issues/1794#issuecomment-1740768751
commit 02787fe9ba9e5a6881e5ccf9a9e352545eeadb9d
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Fri Sep 29 18:03:23 2023 +0000
Ci rename platform scripts (#1896)
Simply renaming the platform config files in ${HOMEgfs}/ci/platforms to
config.${MACHINE} so wxflow can read them too in support of up and
coming functional testing.
commit bb5a58541d6514d16901dca240dfbbc810bd31c8
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Sep 29 13:28:39 2023 -0400
Merge S2S defaults config back into other configs (#1876)
When the prototype S2S was first added, we placed some settings in
a `config.defaults.s2sw` file to avoid interference with existing
settings. Now that we are moving towards v17 and run S2S regularly,
it is time to merge these settings back into the other config files.
The wave output frequency settings are updated to the coarser fre-
quency as that is more suitable for development. The prior (ops)
settings are noted as comments.
There are a couple of settings that control ice fields within FV3.
These are placed in `config.ice`, so when the ice model is on those
settings are still used.
Changes the output frequency from 3 to 6. While we may leave this
setting as the default for development, it is required right now
because the ocean frequency is hard-coded to 6 but links are created
based on `$FHOUT_GFS`. Resolving #1629 should correct this limitation.
"Gaussian" archive is updated to the former override values.
Resolves #1606
Refs #1629
commit 49dc315c1ef6c5f4952a06b0ba70c36e771f128e
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Sep 29 13:25:58 2023 -0400
Move product functions to separate script (#1891)
PR #1822 converted some formerly stand-alone scripts and moved them
inside one of the standard product scripts. However, `trim_rh.sh`
is also used by gempak and AWIPS, so this change caused those jobs
to start failing (they are not yet tested by CI).
Those functions have now been moved into a separate product functions
script that can be sourced by all the scripts that need the functions.
A third similar script was also eliminated and converted into a
function.
Additionally fixes a base bug in AWIPS and updates some scripts to
satisfy (or at least mostly satisfy) the linter.
**AWIPS still failing when creating GRIB1 products.** That will be addressed
in a future PR (and may need a subject-matter expert).
Resolves #1890
commit 3e750d10be577106fb269a78e18765b8d2b8030d
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Thu Sep 28 16:21:52 2023 -0400
Fix a few bugs reported by devs (#1893)
This PR fixes a …
jkhender
added a commit
to jkhender/global-workflow
that referenced
this pull request
Jan 29, 2024
- based on gsl_ufs_dev from Judy's fork
global-workflow: 02Jan24, 9d901db [dev_02jan24_9d901db]
UFS: 21Dec23, 991d652
UPP: 07Nov23, 78f369b
- uses submodules instead of checkout.sh
- gfsatmprod tasks replace gfspost tasks
Squashed commit of the following:
commit 2e95cb5ed49ca24fb8e48bad0e2948e6abff7202
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Mon Jan 29 18:02:12 2024 +0000
Create links to GSL files
scripts/exglobal_archive.sh
ush/hpssarch_gen.sh
workflow/hosts/jet.yaml
workflow/rocoto/workflow_xml.py
Update paths in experiment setup scripts
Fix spelling typo in config.fcst
commit 4a0501cef14ac4437c09bcb70f65073f8f705bad
Merge: 783ef7406 73e518e2f
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Mon Jan 29 17:18:40 2024 +0000
Merge branch 'update_rt' of github.com:jkhender/global-workflow into update_rt
commit 783ef74063b28eaa88de208ec966c4238f3217c0
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 02:29:00 2024 +0000
Create GSL and EMC versions of python scripts under workflow/rocoto
commit 4b0ecb25802afb63346076d882eed67f2ee1518c
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 02:09:56 2024 +0000
Update archive scripts for GSL
commit 5224148e1c782a79d68d207d5dc410b70142e2e9
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 01:50:57 2024 +0000
Update tracker files for GSL
commit 6a4be178fbf921d39c54a89a35b5d77b131a8581
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 00:49:41 2024 +0000
Update atmos_products configuration file for GSL
- set downset to 1 so pgrb2b files are not created
- set FLXGF to "NO" so interpolated sflux.1p00 files are not created
commit 4949edaa4e974654f40e1caa04e31901a2b5b1c6
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 00:42:57 2024 +0000
Create separate config.ufs files for different C768 configurations for GSL (default is 12x12)
- 12x12 layout, 2 threads, 1 write group/40 write tasks (56 nodes)
- 16x16 layout, 2 threads, 2 write group/40 write tasks (101 nodes)
commit 74be3bed051e30498508b74df8d1ad164d2a11a1
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 00:00:36 2024 +0000
Update workflow directory
- update GSL template for jet
- create EMC and GSL versions of yaml files under hosts
- add realtime experiment setup scripts
commit c0cddbe264651ffee5d502b0faa774332bf9d19e
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Fri Jan 26 21:37:38 2024 +0000
Delete files leftover from older gsl_ufs_rt branch
commit 5371b03be790e4694274d307d78555328f4e8cf8
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Wed Jan 17 02:20:37 2024 +0000
Update configuration files for GSL
commit 18db5c8f6c3754eea90b9e418da6f2ec80a6c79b
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Wed Jan 17 01:55:49 2024 +0000
Updated gsl_ufs_rt branch - initial merge of gsl_ufs_dev branch
Squashed commit of the following:
commit 3c0c126a376af31866a93aef4cdd0b4145150c58
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 17:32:25 2024 +0000
Add script for remapping 1/4 degree grib2 grids to other domains
commit f217d4ed9a500e9a1bdcc17548729d972a1763ac
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 16:46:25 2024 +0000
Update link script for ufs_utils.fd
commit 5b21b31900955013b4e8106d3ae906b9da93b361
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 16:45:25 2024 +0000
Add GSL archive scripts for initial conditions
commit abb88baf9dd536a3b2ea1e24eaa99cbfe85af799
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 16:42:17 2024 +0000
Move configuration files for getic and init from jobs/rocoto to parm/config/gfs
commit 45b235180719ab79d2514f0317207fbebfb8aedd
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sun Jan 14 03:21:15 2024 +0000
Add suite definition file for v17p8_ugwpv1_c3 to sorc/ufs_model.fd_gsl
commit 147b1fce99254dcb602c333cc559feaa9a396e81
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sun Jan 14 01:57:22 2024 +0000
Add getic and init tasks to workflow to create initial conditions in realtime
commit 4e4e50803d95566e1c7967cf4cfa575391d77f25
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Fri Jan 12 00:44:59 2024 +0000
Change default HPSS_PROJECT to fim
Change restart_interval_gfs to -1 so no files are written ro RERUN_RESTART directory
commit 791d7a27c6b12f07d9c12ce491338e3da59eb1d8
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 11 23:34:36 2024 +0000
Add namelist parameter, nord_tr, for GSL suites
commit c4a41de7ebcda2f80ce69ac94bd2b3a6f5d04ed5
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 11 23:31:22 2024 +0000
Add changes for running v17p8_mynn
- new field table, field_table_thompson_aero_tke_progsigma
- updated namelist parameters in config.fcst
commit 982a1f02e3b880be43f4ae8a3f0ffbb34c056aea
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:26:22 2024 +0000
Add experiment setup script for p8_ugwpv1
commit c5a3697d22fdbb02bb80ddffee2629dddc10c702
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:19:13 2024 +0000
Add memory report to srun command in env/HERA.env
commit ece7e516ca65ec0240899e7d84321310a6887595
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:13:42 2024 +0000
Updated GSL-specific files under ufs_utils.fd_gsl
commit 1b153fc95b93a16eb40b791be7322100fde4a3d4
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 01:52:56 2024 +0000
Create new branch, gsl_ufs_dev, from dev_02jan24_9d901db
Add initial GSL modifications
- changes to workflow files
* GSL paths, projects, entities
- new FV3_GFS_v17_p8_ugwpv1_mynn suite definition file (SDF)
- updated namelist parameters in ush/parsing_namelists_FV3.sh
- create new GSL directories: ufs_model.fd_gsl and ufs_utils.fd_gsl
* new SDFs, add instantaneous flux variables to grib2 configuration files
* add Thompson tracers to initial conditions
- new sync script: rsync_gsl.sh
- new job files: getic.sh, makeinit_link.sh
- modify build_ufs.sh to include MYNN SDF
commit 9d901dbbff4d41586580316bdc094d24760119e6
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Jan 2 10:30:33 2024 -0700
Stop Gempak pgrb2 spec from modifying $DATA (#2147)
This PR addresses issue #1224. The following is accomplished:
- Instances where `DATA` is modified, corrections are made to use a locally defined variable such that `DATA` is no longer modified at run-time;
- Shell linter exceptions are addressed accordingly;
- The respective GEMPAK tasks is added to the Rocoto mesh.
Resolves #1224
commit 31ad23527802f7d07171132cc620f7135c4d8cba
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Jan 2 10:27:30 2024 -0700
Reorganize NPOESS scripts (#2166)
This PR addresses issue #1226. The following is accomplished:
- Using the GEMPAK j-job script `JGFS_ATMOS_GEMPAK_PGRB2_SPEC`, the structure
of `JGFS_ATMOS_PGRB2_SPEC_NPOESS` is updated;
- Environment variables specific to the script `exgfs_atmos_grib2_special_npoess.sh`
are moved accordingly; this specifically applies to the environment variable `FHOUR`,
`SHOUR`, `FHINC`, `SLEEP_TIME`, and `SLEEP_INT`;
- The `SLEEP_TIME` and `SLEEP_INT` parameters can now be defined at the top-level
(if necessary);
- Restart file checks are move to `exgfs_atmos_grib2_special_npoess.sh`; however,
this may not be necessary (see `TODO` note within draft PR.
Resolves #1226
commit 22bd82fa93b49e5ce98eb3f69123956dd5018049
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Jan 2 11:55:03 2024 -0500
Orog fix file reorg and fix directory variable standardization (#2181)
This PR makes updates to use the newly reorganized `orog/20231027`
fix file version and standardizes the fix file directory variables.
Changes:
1. Update UFS_UTILS hash to ce385ce
2. Update fix file version file to use new orog timestamp: `orog_ver=20231027`
3. Add ".mx$(OCNRES)" to `oro_data` filenames in scripts
4. Remove ".mx$(ocn_res)_frac" from the directory names for atmosphere
resolutions under the `/orog` folder
5. Adds fix file directory variables to `config.base`, many of which are pulled
up out of lower scripts; introduce `FIXcpl`
6. Renamed/replaced the following fix file directory variables:
- `FV3JEDI_FIX` --> `FIXgdas`
- `FIXfv3`, `FIX_orog` and `OROFIX` --> `FIXorog`
- `FIX_ugwd` and `OROFIX_ugwd` --> `FIXugwd`
- `FIX_am`, `FIXgsm`, `FIXSYND` --> `FIXam`
- `FIX_lut` --> `FIXlut`
- `FIX_aer` --> `FIXaer`
- `FIX_SFC` --> `FIXsfc`
- `FIX_DIR` --> `FIXgfs`
- `RTMFIX` and `FIXCRTM` --> `CRTM_FIX` (is `CRTM_FIX` in crtm module,
so not using `FIXcrtm`)
7. Correct the defaults for `FIXwave` in wave JJOB scripts
8. Update variable names in `*fixed_files.yaml` files, as well as update naming
convention for `oro_data` files
Resolves #1984
Resolves #1981
Resolves #2175
commit 03d03bf53b43914a55c384cb33eb06f6a9a443a6
Author: Andrew Collard <40322596+ADCollard@users.noreply.github.com>
Date: Tue Jan 2 11:53:44 2024 -0500
Remove HIRS from GSI processing (#2183)
With the update to CRTM 2.4.0.1, an issue with versioning of CRTM HIRS
files has been exposed. This is documented in JCSDA/crtm#42.
As HIRS radiances are no longer used in the GSI, these data should be removed
from processing until a suitable update to CRTM is available.
Resolves #2182
commit a3c50998d35525a39a66d5592fbf327ab3569e8b
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Fri Dec 22 18:07:48 2023 -0500
Update ufs-weather-model version (#2186)
* update model to latest version which includes needed bugfixes for HR3
commit 774c7302e618370ef578bec3ccabc70486d6da1b
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Fri Dec 22 11:34:53 2023 -0500
Fix analysis post processing's handling of 0-padded negative integers (#2187)
This screens for the analysis 'forecast' hour (-001) and handles the '-' and circumvents octal issues.
commit d1251360325faf75af9df0608557fcd10202a883
Author: Barry Baker <bbakernoaa@users.noreply.github.com>
Date: Thu Dec 21 11:23:48 2023 -0500
Fix for restoring cycling aerosols in fo-mode post COM refactor (#2179)
- Update to COM reorg aerosol initialization job
- Address bug in joining paths for data dependency in this job
---------
Co-authored-by: Rahul Mahajan <aerorahul@users.noreply.github.com>
commit e55a05980709288d902ad1bd894164bfa5a18a65
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Dec 20 22:14:01 2023 -0500
Stop calling ufs-utils link script (#2172)
The `link_workflow.sh` script was calling the ufs_utils version of the
same. That step is only necessary if a user is going to run one of the
stand-alone ufs-utils, which is rare.
commit ef3e5ad7c63be1644c82333c95853c3caf2d8995
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Dec 19 22:02:55 2023 -0500
Fix handling of excluded hosts list (#2170)
This PR fixes the issue with `create_experment.py` so that the yaml configuration
file can have a string of list of strings when specifying the host name to exclude
from the CI tests.
commit ea74a5719efc8f0fe631c5ff93426a4299a614f3
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Tue Dec 19 16:21:41 2023 -0500
Add COMOUT_OBS to marine obs prep (#2173)
Adds `COMOUT_OBS` (defined from `COM_OBS_TMPL`) to marine obs prep task to properly handle marine obs prep files. Used to keep obs after IODA conversion, QC, and other prep.
Towards resolving NOAA-EMC/GDASApp#815
commit c2500feace0bb7c04ce67a90dd3182120ee67b2e
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Tue Dec 19 14:55:20 2023 -0500
Return failed status if a build fails. (#2171)
If any of the builds fail, this makes build_all.sh return the sum of the error codes encountered.
Fixes #2168
commit 76fdd81cd84ed812181996a102379d8d964ba27a
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 19 13:24:34 2023 -0500
Update index.rst for new GFSv16.3.12 in ops (#2169)
Refs #2096
commit a81da33e8fe7541a36f68e7a4f14a384cadd36c8
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 19 10:22:21 2023 -0500
Set place=shared for shared jobs on WCOSS2 (develop) (#2156)
Set job as shared when not exclusive on WCOSS2
WCOSS2 defaults to exclusive when it is not specified as
either exclusive (place=exclhost) or shared (place=shared).
Now set shared when job should be shared.
Refs #2135
commit 89aea972f7964dac3f515e8070d7c534812c5fb4
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Dec 15 16:31:06 2023 -0500
Update gfs-utils version for Hercules (#2163)
An update of gfs-utils was misssing from the previous PR that added
initial Hercules support (#2128).
Also includes gfs-utils update for new marine post.
commit 9505cb4abc6ca2643a8ab254d14ca2000747fa44
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Thu Dec 14 16:15:31 2023 -0500
CI Updates to support Hercules (#2155)
If merged, this PR will update the CI scripts so they will run on Hercules for forecast only
NOTE: This is a stop gap to issue #2131 until its block on #1588 is removed.
Resolves #2154
commit c5ca82f04a2efae78389dec1c46b94ef4fb5bbe5
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Thu Dec 14 16:05:33 2023 -0500
Correct fbwind (#2161)
commit f3f3e05e6325e6c2e8ddab186f1ed2f985fec49a
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Thu Dec 14 12:06:23 2023 -0500
Add MOS jobs to rocoto mesh (#2148)
Create separate jobs for GFS MOS - extracted from now-retired vrfy job
Refs #2068
commit bb6151aa50c27253cb9b8f0a6601ddd58526b8b3
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Dec 14 05:38:29 2023 -0500
Replace checkout script with submodules (#2142)
Replaces the checkout script with git submodules. This change brings workflow in
line with other repos and git standards.
Due to these changes, the build system is updated slightly. First, the options that
were formerly used with `checkout.sh` to reduce unneeded builds (`-g` for GSI
and `-u` for UFSDA) are moved to `build_all.sh` instead. This is needed since build
all will not be able to key off directories existing or not to determine which com-
ponents to build. Second, the partial build system is removed. It was rarely, if ever,
used, and parts of it were already ignored with the previous changes to base builds
off whether directories exist. The manage externals file is also removed since that is
also not being used.
Following these changes, clones/checkout will need to either be recursive, or
`git submodule update` will need to be called separately to make sure components
are properly checked out (non-exhaustive list):
```
## Checkout develop (method 1)
git clone --recursive https://github.com/NOAA-EMC/global-workflow destination
## Checkout develop (method 2)
git clone --jobs 8 https://github.com/NOAA-EMC/global-workflow destination
cd destination
git submodule update --init --recursive --jobs 8
## Checkout existing branch some_branch (method 1)
git clone --recursive --jobs 8 -b some_branch https://github.com/NOAA-EMC/global-workflow destination
## Checkout existing branch some_branch (method 2)
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout --recurse-submodules some_branch
## Checkout existing branch some_branch (method 3)
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout some_branch
git submodule update --init --recursive --jobs 8
## Checkout new branch new_branch
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout -b new_branch
git submodule update --init --recursive --jobs 8
```
The git ignore list had to be updated to use explicit paths as the wildcard paths pick
up the ones that are now submodules.
UFS creates files during the build process that are not in its ignore list, so that sub-
module ignores the "dirty" state to avoid confusing users running `git status`.
CI and documentation are also updated to reflect the changes.
Resolves #2141
commit 1332188ce2409e012ec127d44880e49732f7f379
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Dec 13 09:32:57 2023 -0500
Enable radar reflectivity output (#2143)
Turns on radar reflectivity output from FV3. This eliminates missing values appearing in the grib2 files.
commit 24d898ec0ec0c7fcbda6966988f9a986f528ed14
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Wed Dec 13 09:32:24 2023 -0500
Fix Hercules hostname (#2150)
* Allow lower or upper hostname on hercules.
* Add Hercules to issue template.
commit 2896bb8787698be28ad20f2298589e6e95eaf9fb
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 12 09:13:06 2023 -0500
Fix module load typo (#2145)
Fix typo with loading the crtm module in the UPP hack for WCOSS2
Refs #2144
commit 29d34172a67d976f910e78158ff0337e1ef099ca
Author: Cory Martin <cory.r.martin@noaa.gov>
Date: Thu Dec 7 15:12:05 2023 -0500
Update GDAS hash to most recent stable versions (#2138)
commit 93da9f105502e24f1a1a621f05ea49e1fdfe0102
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Dec 7 10:41:05 2023 -0700
Corrected typo in a gempak job gempakncdcupapgif . (#2137)
commit 3483f550db1ae35a680de49f7485ce5a11902dd9
Author: Cory Martin <cory.r.martin@noaa.gov>
Date: Thu Dec 7 12:34:56 2023 -0500
Add support for FGAT and IAU for aerosol DA (#1940)
commit e2664c011bf5fb03a9b1b37878cad423a1fde6f9
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Thu Dec 7 12:33:46 2023 -0500
Enable forecast-only experiments on Hercules (#2128)
This add forecast-only support for Hercules to the global workflow. Partially satisfies #1588.
Co-authored-by: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
commit a29f751aed05312da3d80d396159bb5a906d6ce4
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Wed Dec 6 13:45:56 2023 -0700
Adds GEMPAK and related jobs to rocoto task mesh (#2127)
commit 1fc8b5bf55581de18e786611c65bc3f84bb0c082
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Tue Dec 5 15:47:52 2023 -0500
Separate offline UPP from interpolated grib2 product generation (#2110)
This PR:
- Replaces the use of `JGLOBAL_ATMOS_POST` with `JGLOBAL_ATMOS_UPP`
and `JGLOBAL_ATMOS_PRODUCTS`.
- Introduces `JGLOBAL_ATMOS_PRODUCTS` that is responsible for creating
grib2 products from the master file produced by UPP (inline from the model,
or offline by running `JGLOBAL_ATMOS_UPP`). Rocoto job `atmos_products.sh`,
ex-script `exglobal_atmos_products.sh` are also added along with a
`config.atmos_products`. Updates are made to the relevant `env` files as well as
`config.resources` to reflect the addition of this job.
- reduces the number of cores needed appropriately for forecast products when
there is no offline UPP necessary.
- renames older `fv3gfs_dwn_nems.sh` to `interp_atmos_master.sh` and
`inter_flux.sh` to `interp_atmos_sflux.sh`
- removes `fv3gfs_downstream_nems.sh` as it is absorbed into
`exglobal_atmos_products.sh`
- removes no longer used scripts for `gfs_post.sh`, `gfs_transfer.sh` (DBN alerts
are absorbed into `exglobal_atmos_products.sh`), `post.sh`,
`JGLOBAL_ATMOS_POST`, `ex${RUN}_atmos_post.sh` scripts.
- Rocoto workflow related scripts are updated to add `atmos_products` as a job.
When `WRITE_DOPOST` is `.false.`, `upp.sh` job to run the UPP offline is also
added. Dependencies have been appropriately applied.
- removes `PGB1F` option that creates 1-degree grib1 products that are no longer
needed in GFSv17.
The hacks from (now deleted) `post.sh` had to be reinstated in `upp.sh` to load the
modules from UPP instead of `load_fv3gfs_modules.sh`.
commit 44186f594aaf5f8feea0eadd4c5c3b59de3a825e
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 5 12:28:08 2023 -0500
Update index.rst for new GFSv16.3.11 version (#2121)
Refs #1356
commit e62a3a73cd22701962b7bf210fdfee37f37a5474
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Dec 5 09:08:12 2023 -0700
Splits AWIPS jobs into seperate tasks (#2094)
This PR addresses issue #1228. The following is accomplished:
- Separate rocoto jobs have been created beneath `jobs/rocoto/`
-- `awips_20sh` and `awips_g2sh`; these jobs replace `awips.sh` which was
calling multiple J-jobs within the respective `awips.sh` scripts;
- New tasks has been added to `workflow/rocoto/tasks.py` for the new
AWIPS scripts;
- The `gfs_cycled` and `gfs_forecast_only` modules beneath
`workflow/rocoto` have been updated accordingly.
Resolves #1228
commit 04d97e9aa7ab84b9754ab670074cfb19d543aa26
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Mon Dec 4 13:38:30 2023 -0500
Consolidate VMINMON and cleanup monitor scripts (#2088)
This PR combines the GDAS and GFS versions of the VMINMON JJOB
and ex-driver scripts into single GLOBAL/global versions. Additionally:
* some further cleanup of the GSI-Monitor scripts is done; variable
settings in ex-driver scripts are moved up to the JJOB level
* the fix symlinks are consolidated into a new `fix/mon` subfolder (formerly
`fix/gdas`) and copies of the gfs monitor fix files under `fix/products` are
removed
Resolves #1925
commit a286a11fdcbc31c8bc6d944890bc56294bc8caf6
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Mon Dec 4 17:48:44 2023 +0000
Robust CI Restarts (#2093)
Improved CI robustness for reverting back to **CI-Ready** from any
given state
New Features:
- Improved `scancel` routine (refactored into bash "subroutine")
- Improved messaging (see below) when ever a user changes state
- Any and all previous build scripts and running experiments are killed as
a result of reset to **Ready**
Resolves #2060
commit 73621e9b20b20f85e8b21e4c1e09ed1d80ecd46f
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Sun Dec 3 11:19:19 2023 -0500
Upgrade to spack-stack/1.5.1 and Intel 2022 on non-production machines (#2084)
Update module files to spack-stack/1.5.1 and compilers to Intel 2022+ on all non-production machines.
commit 6d548b250688861eb20a7e0dc852a0e4ba9e64f4
Author: jiandewang <jiande.wang@noaa.gov>
Date: Thu Nov 30 12:00:21 2023 -0500
Add variable tob in diag_table for ocean model output(#2105)
commit c19810cce252fcdb25fd9960c05b08b5f8d8b1ad
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Wed Nov 29 15:17:36 2023 -0500
Added variables to config.prepoceanobs (#2101)
commit c2d78a61a224678fb804eed19f39d1f07408ae5f
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 29 12:39:08 2023 -0500
Add missing cut to VDATE setting in JGFS_ATMOS_VERIFICATION (#2098)
Refs #2097
commit c1c025f91ddac73aea595cc9fa4dd0bea80575fc
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Nov 29 17:15:10 2023 +0000
Add wave init to GEFS (#2089)
Adds the wave init job to GEFS. Since the output would be the same for
every member, the job is only run once for the control, then links are
created in each of the member directories pointing to that copy.
New ww3_multi and ww3_shell templates for GEFS are copied from the
GFS versions.
The GEFS restart frequency is changed to not be zero, and the comment
about not setting it to zero is copied from the gfs config.base. The restart
interval for the GEFS perturbed members is changed to equal that of the
control.
Also fixes a bug where `RUNwave` was not defined for ensemble forecasts,
and another bug in the GEFS stage_ic dependency.
Resolves #2017
commit 64a2470ce29b7d8d5cb85ebcb4048ff82958f64e
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 29 11:26:34 2023 -0500
Adjust permissions for jobs/JGFS_ATMOS_VERIFICATION (#2095)
Add execute permissions (755)
commit 964b77bc6de67291973c2c70598a1f8cb72501c5
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Nov 28 18:45:51 2023 +0000
Make proper j-job for MET+ (#2090)
Creates a proper j-job for the metp job, moving much of the material
from the `jobs/rocoto` script there (some of it within `jjob_header`).
Also updates the old `COMIN` variable for the COM refactor (although
it does not appear used in the verify scripts currently).
This is a partial step towards restoring/improving metp functionality
and remains untested.
Refs #1575
commit 8c11eeb8556619e8db4e0efb6394ce5a2c1aae0f
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 23 10:31:32 2023 -0700
Adds FBWINDS support to global-workflow (#2082)
This PR addresses issue #1221. The following was accomplished:
- A new Rocoto job is added; `jobs/rocoto/fbwinds.sh`;
- `workflow/applications/gfs_cycled.py` is updated to include the `fbwinds` task;
- `workflow/applications/gfs_forecast_only.py` is updated to include the `fbwinds` task;
- A new function is added to `workflow/rocoto/gfs_tasks.py`, `fbwinds` is added as new GFS (only) task;
- `workflow/rocoto/tasks.py` is updated to include the `fbwinds` task.
Resolves #1221
commit 513db190d21f9ede0724a2cd5606372b1d7605de
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 21 22:52:58 2023 -0700
Adds NPOESS support to global-workflow (#2083)
This PR addresses issue #1225. The following was accomplished:
- A new Rocoto job is added; `jobs/rocoto/npoess.sh`;
- `workflow/applications/gfs_cycled.py` is updated to include the `npoess`
task;
- `workflow/applications/gfs_forecast_only.py` is updated to include the
`npoess` task;
- A new function is added to `workflow/rocoto/gfs_tasks.py`, `npoess` is
added as new GFS (only) task;
- `workflow/rocoto/tasks.py` is updated to include the `npoess` task.
Resolves #1225
commit 62d8e99e77ffe44784f4c61c3f2296c6d1a72413
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 20:25:50 2023 -0500
Retire vrfy job (#2080)
Retires the `vrfy` job from the global-workflow system. All associated
scripts, configs, and references to the job are removed.
Additionally, the switches listed in RTD were updated to reflect new
ones added in other PRs for issue #235.
Resolves #2069
Refs #235
commit ea386abf11ecbacef407388e8d57e71b30148a35
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Nov 17 23:59:46 2023 +0000
Enable different coupled settings for ensemble (#2030)
Adds the ability to turn off some coupled components for the ensemble.
To enable this, many settings are moved out of `config.fcst` and into `config.ufs`
so they are calculated after any overrides of `DO_*` have been made. Some
settings also had to be moved out of `config.base` for the same reason. A
switch to turn on gocart is added to `config.ufs`, but unlike the other switches
this one takes no arguments.
The name of the ufs configure template used is converted from a partial file
name to the full file name.
Resolves #1692
commit fe792c0c9a1c46908cbd18c7e71eb836974cf1de
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 17:19:16 2023 -0500
Add --cpus-per-task to srun commands for Hera and Orion (#2077)
This PR adds the `--cpus-per-task` flag to non-CFP `APRUN`/srun commands
in the env files for Orion and Hera. This is needed as a result of an upgrade
to SLURM on Orion that no longer exported the thread value to the
environment. Issue #1996 was a hotfix to add this flag for the analysis job
that was suddenly running slowly after the SLURM upgrade. A similar SLURM
upgrade was done on Hera but the sysadmins there implemented a
workaround so this issue did not appear there.
This PR adds the `--cpus-per-task` flag for both machines...needed on Orion
and as a safety measure on Hera.
Also included in this PR is a fix to indentations in the
`scripts/exglobal_diag.sh` script that was noticed during work for this PR.
Timing differences were not observed for other jobs after adding this srun
flag. Job timings were of a similar variation between control and test runs.
Any potential additional speedup was not observed. The test runs also
reproduced the control runs with `develop`.
Resolves #2044
commit 42c943be305c297a56b104bb50727938c1ba688f
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 15:41:34 2023 -0500
Adjust modules in post.sh for WCOSS2 (#2079)
On WCOSS2 the grib_util module is named a bit different and
needs the libjpeg module loaded beforehand.
commit cd4e6a1987e7fd71dff06766f540b5d32c8b648d
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Fri Nov 17 11:49:32 2023 -0500
Update ufs-weather-model and remove upp hack (#2071)
Updates the model to the most recent commit of ufs-weather-model. This
should allow for the removal of the UPP hack that was added in PR #2042
This required changing nems.configure -> ufs.configure.
Resolves #1942
commit 5a2d97e142aa4999b122fd5a130c63e59ea9f8e2
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 16 22:15:53 2023 +0000
Fix check for existence of preamble functions (#2066)
A few of the setup scripts were checking for the existence of
functions set by the preamble before calling them so they could
also be used stand-alone. However, the `type` command returns `1`
if the function name does not exist, which will cause the script
to die is `set -e` is on. Now the `type` command fails over to an
empty string.
commit ed2ee7c2b1457b71b271a2c40f0dfa356e0f52f8
Author: WenMeng-NOAA <48260754+WenMeng-NOAA@users.noreply.github.com>
Date: Thu Nov 16 16:38:11 2023 -0500
Update UPP products for GFS v17 (#1973)
Updates of generating GFS V17 UPP products to support HR3:
- Update g2tmpl to 1.0.12
- Add changes to launch cfp on WCOSS2 to generate pgrb2/pgrb2b files
- Changes for generating new products (MERRA2, six winter weather variables,
1km HLCY, SDEN) in pgrb2 files
Resolves #1965
Resolves #1994
commit 635c4719e603538ce7cccf9ea6b31f3f84f20849
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 16 20:35:30 2023 +0000
Fix some rocoto dependencies (#2074)
A few small errors/cleanup in the dependencies, mostly in fcst:
A few small errors/cleanup have crept into the dependencies with recent changes,
mostly in fcst:
- Fixed the offset, as it would yield a string rocoto doesn't recognize when the
interval was 24+ hrs
- Removed the duplicate wave dependency. When `waveprep` is included, it
depends on `waveinit` so there is no need to add a `waveinit` dependency.
- Converted an interval in the archive job that was missed in #2039
Resolves #2075
commit d4c7508260975c6b94fc92fd085f39d4faf3f027
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Wed Nov 15 16:44:03 2023 -0500
Fix missing _PREV in ocean restart file location (#2070)
commit 255616d37505c785bdddd5d3e39e8399110b626e
Author: mdtoyNOAA <73618848+mdtoyNOAA@users.noreply.github.com>
Date: Wed Nov 15 12:02:09 2023 -0700
Update functionality for Prototype HR3 UGWP (#1987)
This PR adds/modifies namelist options and activates new 'ccpp' suite definition
files for the updated Unified Gravity Wave Physics (UGWP) in the ufs-weather-
model recently updated for HR3. The changes to UGWP are the use of the GSL
drag suite for orographic gravity wave drag (GWD) and blocking, as well as the
new UGWP Version 1 non-stationary GWD. See
ufs-community/ufs-weather-model#1923 for details.
Resolves #1986
commit be9085e62aae147e3c74602e2f82a99b374fc783
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Wed Nov 15 13:48:58 2023 -0500
Save the required CICE history for the sea-ice DA (#2062)
The hist_avg setting of CICE was changed to be an array.
commit 85f1f5131ffd70061231304ea477bde0559eb67b
Author: Guoqing Ge <guoqing.ge@noaa.gov>
Date: Wed Nov 15 11:47:21 2023 -0700
Use assim_freq to configure "offset" in dependencies (#2039)
Use the assim_freq from config.base to configure "offset" in dependencies
instead of hard-coding them.
Resolves #2038
commit 4e3d82ba3a1fa7cdd4443bcd4cf83b2f8835137c
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 15 13:39:14 2023 -0500
Resolve ENKF archive script bugs (#2065)
Fix two bugs in the exgdas_enkf_earc.sh script:
1) Replace ARCH_LIST with DATA to match changes done in PR #2000
and update path to generated archive list files.
2) Add status check and exit after script attempts to make tarball on HPSS.
Refs #2064
commit 42d7f2f0c48fab898b764e09cfbbd7a9fabbae08
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Nov 14 17:54:29 2023 -0500
Separate tracker and genesis jobs from vrfy job (#2058)
This PR creates new individual jobs for the tracker and genesis jobs that are being
pulled out of the `vrfy` job (issue #235). The `tracker` and `genesis` jobs will be on
by default while the `genesis_fsu` job will be off by default. This mimics the current
settings in the `vrfy` job.
No enhancements or upgrades are made to the jobs themselves in this PR, only to
separate them from the `vrfy` job. However, one change compared to how they
currently run in the `vrfy` job is to no longer run the `tracker` in the gdas suite. This
mimics how the `ens_tracker` package is run in operations (gfs only).
Changes in this PR:
1. Create rocoto job scripts for tracker/genesis jobs.
2. Create configs for tracker/genesis jobs, as well as `config.tropcy` for shared
settings.
3. Add tracker/genesis jobs to `config.resources`; use resources from the ecf scripts
for `ens_tracker` jobs in operations
4. Add tracker/genesis jobs to rocoto setup for both cycled and forecast-only
modes.
5. Update arguments for `jjob_header.sh` script in tracker/genesis JJOB scripts to use
specific job names and configs instead of vrfy.
6. Rename `tracker_ver` to `ens_tracker_ver` in version files to mimic variable within
tracker package.
7. Rename and move tracker/genesis switches to `config.base`.
8. Remove tracker/genesis jobs from `vrfy` job (`jobs/rocoto/vrfy` and `config.vrfy`).
9. Reduce vrfy job resources to accommodate tasks having been removed.
Refs #235
Resolves #1988
Resolves #2048
commit 0a0d6984e094d2a551d5d8331102142e7db13fc2
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Tue Nov 14 14:08:26 2023 -0500
Enable warm starting of the model for forecast-only mode (#2031)
This PR:
- adds an option to warm|cold start the ufs-weather-model when setting up an experiment for GFS/GEFS
- adds the capability to stage FV3 restarts when the atmosphere is warm started from FV3 restarts. This would be used in the GEFS free-forecast for part of the reforecast capability.
- If a coupled model is warm started for the atmosphere, also check if mediator restarts are present. If so, stage mediator restarts to allow restarting the coupled model.
Fixes #2016
commit 2cd6a589305a9ac9d3a9a0d2136e66e42f09d3bf
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 14 12:05:20 2023 -0700
Moves UFS WM configuration files to `COM_CONF` (#2054)
The UFS weather-model (WM) files are place in the COM_CONF path rather than the respective component model COM history paths.
Resolves #2015
commit 6f1693081662f241fafc930b1afc88125f7f5aff
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Nov 14 11:15:02 2023 -0500
Refine fit2obs job in rocoto mesh (#2047)
This PR adjusts the `fit2obs` job in the rocoto mesh to better define when it exists
and how the archive job dependencies accommodate it not being in the first half
cycle.
Changes in PR:
1. Remove the `fit2obs` job from the first half cycle `cycledef`.
2. Adjust the archive job dependencies to now include the `fit2obs` job in the new
logic check added in PR #1983. The `gdasarch` job in the first half cycle will check if
`gdasfit2obs` is complete OR no prior cycle exists. Also cleaned up this new logic
check block some to make it a tad simpler.
3. Also, fix the addition of the `fit2obs` config to the config list in setup scripts. Now
tied to whether `fit2obs` job is on instead of always adding the config to the list.
Resolves #2043
commit 5730a71fa5d311e49d9bb11528b500f27f33d69d
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 14 09:13:11 2023 -0700
Add `waveinit` and `waveprep` to half-cycle. (#2037)
This PR addresses issue #1444. The `waveinit` and `waveprep` tasks have been added to
the GDAS have cycle. The downstream dependencies for the respective GFS and GDAS
forecast tasks have been removed.
Resolves #1444
commit 28d2e93c3857de95b0309a089cd7dac736ccaded
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Nov 14 16:11:47 2023 +0000
Update wave IC source for C384 (#2055)
The default wave grid for C384 has changed since P8, so a single wave
IC on the new grid is available under a different IC name.
commit 81dd2d9855091315611106a5afbdaeaa15e6e4ae
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 9 17:19:57 2023 +0000
Fix analysis and post on Orion (#2046)
Fixes a couple things to get workflow to work on Orion again:
First, while #2042 allowed post to be built, the `upp.x` executable would fail due
to a missing library. Now post jobs (temporarily) uses the UPP modules (plus
others needed for runtime) instead of the normal workflow runtime module. This
should actually fix #2041. This hack can likely be removed once we move to
spack-stack.
Second, the launcher command for the analysis jobs on Orion are updated to
specify the number of CPUs per task. This was necessary as a recent slurm update
on Orion discontinued reading that value from the scheduler. Other jobs will be
handled later (see #2044).
Additionally, a change is made to `module-setup.sh` that will eliminate the
annoyance of `gw_setup.sh` breaking tab completion because undefined variable
checking was turned on for the script but not back off.
Resolves #1996
Resolves #2041
Refs #2044
commit 13d06ded4155cba2d08ef2a2cd553024c5abe29d
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Nov 8 18:25:47 2023 +0000
Hack UPP version (#2042)
The stack UPP was using on Orion was recently deleted, leaving us
unable to build the UFS verison of UPP there. UPP has an updated
version using spack-stack that works, so the checkout script is
modified to check out that version of UPP after UFS has been
checked out.
This temporary hack can be removed once we move to a UFS version
that advances the UPP version to or beyond 78f369b.
Resolves #2041
commit 20f6eceb8ff58f84174a27eb849c1d74566a3e03
Author: jiandewang <jiande.wang@noaa.gov>
Date: Wed Nov 8 11:14:55 2023 -0500
Add basic C1152 settings (#2020)
Adding C1152 setting in host.yaml, config.base and config.stage_ic so that can run C1152 S2SW.
Resolves #2019
commit 5183c43bbbd07285869feacb49d8680afe85929a
Author: Barry Baker <bbakernoaa@users.noreply.github.com>
Date: Tue Nov 7 01:14:40 2023 -0500
Update UFS for dust fix and remove nitrates by default (#1989)
This PR updates the `ufs-weather-model` to the latest hash that included the dust fix (PR #1922).
Along with this I removed the nitrates by default in support of the GEFSv13 EP4 and EP5
experiments. Removed unneeded inputs that should help with speed improvements.
commit 34a73cf2ed5afefc776d9cc73b6ebf439122a1bb
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Mon Nov 6 14:00:51 2023 -0500
Reduce gdas builds to 8 #2029 (#2036)
Reduce the default number of build jobs for the GDASApp to 8 from 16.
This is needed for Orion as the build crashes during a linking step. Though not verified, it
appears this may be caused by using too much memory with 16 builds. The issue disappears
when using 8 build jobs.
Resolves #2029
commit 75269e4bb9764b81589efc7d703825b80e74c8f5
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Mon Nov 6 17:34:47 2023 +0000
Streamline CI reporting to PRs (#2026)
Cleaned up the logs for CI PRs sent to the GitHub Messages:
- Eliminates redundant accumulative reporting
- Reports on all created or skipped experiment instantiations in a single message
- Gives one line report once for each experiment completion
- Single final report completion of CI
See some examples in forked [PR 195](https://github.com/TerrenceMcGuinness-NOAA/global-workflow/pull/195)
Resolves #2007
commit 8d55126bb0b27c79c8bee7f72b014abd34950ff9
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Fri Nov 3 17:06:09 2023 -0400
Implement IAU Cycling Type with Marine Data Assimilation Enabled (#1944)
Allows cycling in IAU mode with the S2S UFS model, soca and the GSI.
Most of the work related to making IAU work was done by @JessicaMeixner-NOAA . Thanks @JessicaMeixner-NOAA !
Resolves #1943
Refs #1776
commit 2563806821d4ae3b57120bc61aa0575139a708f0
Author: jiandewang <jiande.wang@noaa.gov>
Date: Fri Nov 3 11:49:37 2023 -0400
Add two ucx modules in load_ufswm_modules.sh to solve C768 and C1152 S2SW job hanging issue on WCOSS2 (#2021)
commit cbdc09711a83493f363a737d1e3e46c48a09719d
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Nov 3 04:09:33 2023 +0000
Fix staging of MOM data (#2028)
During the update to stage_ic, the copying of the additional res_N files for
0p25 was omitted. These are now properly copied.
Resolves #2027
commit bd4c56d99c23c5c41f0bd5f8a980ef99ee160888
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Thu Nov 2 16:09:59 2023 -0400
changed optional script name vars for ocean analysis (#2025)
commit 93bc918cdabee771c182c6f33cc54a20b5bb86c6
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Thu Nov 2 16:01:18 2023 -0400
Create separate GSI monitor jobs and remove from vrfy job (#1983)
This PR will move the GSI monitor tasks from the `vrfy` job into their own separate jobs in
the rocoto mesh. This takes care of part of issue #235.
Changes in this PR:
1. Create new individual GSI monitor jobs in the rocoto mesh to match how it is done in
operations. The new jobs are: `gdasverfozn`, `gdasverfrad`, `gdasvminmon`, and `gfsvminmon`.
The names correspond to the names in operations and the ecf script names. The jobs are only
added to cycled mode, none of the jobs are run in forecast-only mode.
2. Updates to GSI monitor scripts:
* Update `ush/jjob_header.sh` arguments in JJOB scripts to call new individual job names and
configs.
* Introduce `COM_*` variables and use of the `generate_com` utility. This results in the outputs
landing in `COM` subfolders, like occurs in operations, instead of landing in the online archive.
* Some variable cleanup in JJOB and ush scripts, includes cleaning up usage of `DATA` variable
and its removal at the end of the jobs.
* Add missing exit statements to `JGFS_ATMOS_VMINMON` and `JGDAS_ATMOS_VERFRAD`.
3. Create new rocoto job scripts for the new individual GSI monitor jobs.
4. Create new configs for the new individual GSI monitor jobs.
5. Add new individual GSI monitor jobs to resource configuration, using the same resources as
in operations.
6. Move and rename GSI monitor job switches from `config.vrfy` to `config.base`. Also add
switches to setup system. New switches to control each job being added to the rocoto mesh
are: `DO_VERFOZN`, `DO_VERFRAD`, `DO_VMINMON`
7. Add GSI monitor job output to archival job and into resulting HPSS tarballs or local tarballs.
This now matches what is done in operations.
8. Remove the GSI monitor tasks from the rocoto `vrfy` job and associated `config.vrfy`.
Example output locations and files (not showing contents of oznmon/horiz or oznmon/time for
brevity, see archival script for full list of output files):
```
kate.friedman@dlogin09:/lfs/h2/emc/ptmp/kate.friedman/comrot/testmonitor2> ll gdas.20211221/00/products/atmos/*mon
gdas.20211221/00/products/atmos/minmon:
total 112
-rw-r--r-- 1 kate.friedman emc 14030 Oct 25 15:00 2021122100.costs.txt
-rw-r--r-- 1 kate.friedman emc 84932 Oct 25 15:00 2021122100.cost_terms.txt
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 15:00 2021122100.gnorms.ieee_d
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 15:00 2021122100.reduction.ieee_d
-rw-r--r-- 1 kate.friedman emc 80 Oct 25 15:00 gnorm_data.txt
gdas.20211221/00/products/atmos/oznmon:
total 8
drwxr-sr-x 2 kate.friedman emc 4096 Oct 25 15:05 horiz
drwxr-sr-x 2 kate.friedman emc 4096 Oct 25 15:05 time
gdas.20211221/00/products/atmos/radmon:
total 21036
-rw-r--r-- 1 kate.friedman emc 231 Oct 25 15:12 bad_diag.2021122100
-rw-r--r-- 1 kate.friedman emc 9035 Oct 25 15:12 bad_pen.2021122100
-rw-r--r-- 1 kate.friedman emc 1449 Oct 25 15:12 low_count.2021122100
-rw-r--r-- 1 kate.friedman emc 20523403 Oct 25 15:07 radmon_angle.tar.gz
-rw-r--r-- 1 kate.friedman emc 217272 Oct 25 15:08 radmon_bcoef.tar.gz
-rw-r--r-- 1 kate.friedman emc 502151 Oct 25 15:10 radmon_bcor.tar.gz
-rw-r--r-- 1 kate.friedman emc 264480 Oct 25 15:12 radmon_time.tar.gz
-rw-r--r-- 1 kate.friedman emc 684 Oct 25 15:12 warning.2021122100
kate.friedman@dlogin09:/lfs/h2/emc/ptmp/kate.friedman/comrot/testmonitor2> ll gfs.20211221/00/products/atmos/minmon/
total 88
-rw-r--r-- 1 kate.friedman emc 10530 Oct 25 14:55 2021122100.costs.txt
-rw-r--r-- 1 kate.friedman emc 63882 Oct 25 14:55 2021122100.cost_terms.txt
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 14:55 2021122100.gnorms.ieee_d
-rw-r--r-- 1 kate.friedman emc 608 Oct 25 14:55 2021122100.reduction.ieee_d
-rw-r--r-- 1 kate.friedman emc 80 Oct 25 14:55 gnorm_data.txt
```
Lingering work and considerations:
1. Issue #1925
2. Consider not hardcoding the list of types in archival and perhaps tie it to something reliable or
configurable (maybe into `config.verfozn`?):
`subtyplist="gome_metop-b omi_aura ompslp_npp ompsnp_n20 ompsnp_npp ompstc8_n20 ompstc8_npp sbuv2_n19"`
Resolves #1908
commit 31b05a99b77d0f6eaa8b116485a41a43867d20e1
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 2 12:23:32 2023 -0600
Move analysis post to new stand-alone task (#1979)
This PR addresses issue #1130. A new task `postanl.sh` has been added such that the
`anl` post-processing is not it's own task within the Rocoto workflow. This change
prevents the GDAS experiment from breaking due to failures caused by the `anl` not
being available for the first cycle.
Resolves #1130
commit 247cdf8c7e10e6c98f782799fc51c069b6474e70
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 2 11:18:53 2023 -0600
Corrects missing local variable reference (#2023)
Fixes missing `$` in variable reference in archive job.
Resolves #2022
commit 241742b246da1794646b68e41c3d6fe00b95dd07
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Wed Nov 1 14:19:55 2023 -0400
Updates to prep ocean obs task (#1870)
commit 77be0ec6a3117b9f7e71a19c69ac64c09b521ecd
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Wed Nov 1 12:09:33 2023 -0600
No longer write archive lists COM (#2000)
Changes the respective `.txt` files used for the HPSS archive to the `DATA` path. Each
defined text file has been updated to explicitly write to `DATA` rather than `COM` such
that the files are deleted rather than being archived.
Resolves #760
commit 517b92f9c20c9e44abba3183325e35a95a7334a5
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Tue Oct 31 16:33:11 2023 -0400
Parallelize the build scripts (#1998)
Optimized/parallelized build scripts.
A few notes:
1) The default number of build jobs is 20, but one could argue for using 40. When researching
this, I looked up what the SRW is compiling with. That system uses 40 cores, which seems a
little excessive, but on testing the global workflow, the actual number of cores being used at
any given time rarely exceeds 16 when running with 40 cores. This is because the builds tend to
use multiple threads in the beginning when compiling low-level modules while the higher-level
modules are more or less serial AND because the GDASApp takes several minutes to initialize
all of its subrepositories by which time the smaller builds are complete.
2) I also updated checkout.sh so that all checkouts are simultaneous. The CPU load for
`git submodule` is quite low, so running 16 instead of 8 jobs at once is not much more expensive.
3) To make this work, I had to add `-j` options to most of the build scripts. The only exception is
build_upp, for which the build script within the UPP is hard coded to use 6 cores.
4) I fixed a few small bugs in the build scripts along the way.
5) Lastly, this reduce the total build time from ~2.5 hours for the entire system (including GDAS
and GSI in the same build) to ~40 minutes when running with `-j 40`.
Resolves #1978
commit 67c050c201f92e855d09211e41a5f51ee1cb5230
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Oct 31 19:00:47 2023 +0000
Add missing export for rCDUMP in stage_ic (#2009)
rCDUMP is needed by the exscript but was never exported by the jjob.
commit 872068cb5ea78b311f7a77e97ee1428ae027cb61
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Oct 31 14:37:55 2023 +0000
Add output error log to user for create_experiment.py on fail in CI (#1974)
Small changes to driver CI bash scripts to recapture error log from `create_experment.py` logger
Fixes #1939
commit b2e4a2e9d269842acbb1b37dd563ee5dee2adf0f
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Oct 31 13:57:02 2023 +0000
Allow CI case to exclude running on certain platforms (#2001)
commit 7cc137116f1619bf1e5a12eaacb98d17da97c223
Author: Jeff Whitaker <jswhit@fastmail.fm>
Date: Tue Oct 31 07:54:24 2023 -0600
Add initial C96/1 deg coupled model support (#1991)
commit 7086ddc4bece6fb2a8c1c2e6090800d4293e410e
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Mon Oct 30 19:58:43 2023 -0400
Add ocean analysis files to HPSS archiving task (#1985)
This PR adds the files under `analysis/ocean` (except those in `bump` and `vrfy`) to the
HPSS archiving job, in `gdasocean_analysis.tar`, which were previously not archived.
Resolves NOAA-EMC/GDASApp/issues/693
commit eabc82ad30c118645c0e6e216162d823882a8139
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Mon Oct 30 10:31:27 2023 -0400
Make the early cycle work with the coupled UFS configured as S2S (#1954)
commit aff6ca7ae559e424dae128d6cfd5da4a4e3049e7
Author: Anil Kumar <108816337+AnilKumar-NOAA@users.noreply.github.com>
Date: Fri Oct 27 14:11:55 2023 -0400
GEFS Staging in exglobal_stage_ic (#1892)
Adjusts source paths for forecast-only ICs in support of extension to ensembles.
New paths omit the resolution (that is captured by the IC id name) and allow for
a member level.
Directories with the reorganized ICs have been added to the three tier-1 machines
under glopara space.
Building on this, also adds capability to stage GEFS ICs.
Resolves #911
commit 77c1ff2bfa26b341b01f41e50ee0ecb31cc4f661
Author: RussTreadon-NOAA <26926959+RussTreadon-NOAA@users.noreply.github.com>
Date: Thu Oct 26 23:44:27 2023 -0400
Update GDASApp hash (#1975)
Update GDASApp hash to bring recent UFSDA development into g-w.
Resolves #1972
commit 962368884991670d3a1ee1c5a065d5bce4b7561a
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Thu Oct 26 16:10:23 2023 -0400
Test tarballs for rstprod before calling chgrp (#1967)
Certain tarballs may or may not contain `rstprod` data. For instance, the first half cycle
gdas and enkfgdas tarballs will not contain `rstprod`, while future cycles likely will. Also,
some systems do not have `rstprod` on them. This will test the contents of the tarballs
first before attempting to change the group to rstprod.
Resolves #1460
commit c02e118c0ac5485109c9bd33472ff42db309cd9b
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Thu Oct 26 15:05:05 2023 -0400
Update ufs model to version from 10-12-23 (#1933)
This updates the ufs-weather-model to the commit hash from 10-12-23 from the HR2 tag.
The diffs can be seen here: https://github.com/ufs-community/ufs-weather-model/compare/GFSv17.HR2...68050e58589a82ab509aaefaafdc2a6b90f34e48
Resolves #1811
commit 8556541daa79b0180fde48a58a8dcfb2f8c56ea5
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Wed Oct 25 16:15:28 2023 -0400
Fix incorrect usage of CFP on WCOSS2 (#1977)
commit 0b5cf9b67a8146d9d4815ea6545f7f2524120d83
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Oct 25 13:17:28 2023 -0400
Update GFS version in index.rst to v16.3.10 (#1976)
Update the "State of operations" GFS version number to new v16.3.10 (Annual CO2 fix file update in operations).
Refs #1924
commit e817f5dd38c26a88f76d90eb71124f1acbfc5a8f
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Oct 25 02:03:14 2023 +0000
Fix path for marine products (#1966)
When PR #1823 was merged, the name of the marine product template
was not updated in ocnpost, leading the products to be placed in
the wrong location and missed by the archive job.
Resolves #1902
commit 7cdfad4eaa7abe0769ff13396c54e6d93afebf8f
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Oct 24 22:19:46 2023 +0000
Build GDASapp for CI tests (#1964)
* added -u to global checkout so CI test builds tests for GDASapps
* Update check_ci.sh
needed more quotes
---------
Co-authored-by: TerrenceMcGuinness-NOAA <terry.mcguinness@noaa.gov>
commit c58deae0cf078d1ee093529064d74f60482aa3f4
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Oct 24 16:19:04 2023 -0600
Updates for NOAA CSP AWS global-workflow related file paths. (#1970)
Co-authored-by: henrywinterbottom-wxdev <henry.winterbottom.wxdev@gmail.com>
commit 1b00224e18842cd873eb1779be08f96687e49e1f
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Oct 24 14:48:24 2023 -0400
Set SENDCOM=YES for tracker/genesis tasks (#1971)
Set SENDCOM to YES in config.vrfy to get outputs copied back to COM.
Will reevaluate the need for SENDCOM when moving the tracker/genesis jobs out of the vrfy job with issue #235 work.
Refs #1947
commit e2c624d8904cd988394c73d0edb22fa593229d3f
Author: RussTreadon-NOAA <26926959+RussTreadon-NOAA@users.noreply.github.com>
Date: Tue Oct 24 13:32:52 2023 -0400
Refactor UFSDA ATM var and ens layout (#1945)
commit 8940adddfe9d21189740e71487603fb2acee2336
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Tue Oct 24 11:02:29 2023 -0400
Optimize the checkout script (#1956)
* Multithread the checkout script #1953
commit 4b5cd0bc435fc158258ca38c3d5f44add6b60469
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Mon Oct 23 12:04:26 2023 -0400
Fix nth_eupd in gfs/config.resources. remove sections of jobs not run as part of gefs from gefs/config.resources (#1952)
commit 08ce4f8d3ed8e07b4d488a80b5054c6206b04404
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Oct 20 16:14:53 2023 +0000
Fix enkfgfs cleanup dependency (#1941)
When #1906 was merged, the dependency for enkf cycles was hard-coded
to use the enkfgdas archive instead of depending on the `RUN`.
commit 1a5d0b51642eb70f71e693355e86212d3607b7b3
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Oct 20 15:54:33 2023 +0000
Split clean-up into separate job (#1906)
Moves the clean-up that was previously done in the archive jobs into
their own separate job. The clean-up is also streamlined considerably
by using only `COM_TOP` instead of going through every template.
There is also additional streamlining/corrections in the function that
does the actual removing.
Some settings used by both jobs were elevated to `config.base`.
Others only needed for cleanup were moved to the new config for
that job.
Also corrects a small error encountered when attempting to rerun an
ensemble forecast.
Resolves #583
Resolves #1872
commit 3de102c28daf9eb50ce65e0afe911f5a416ce861
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Tue Oct 17 09:30:18 2023 -0400
Updates to CI to clarify HOMEgfs (#1931)
* replace HOMEgfs_PR with HOMEgfs, and HOMEgfs with ROOT_DIR. ROOT_DIR is the location where the ci scripts live
* update type to system in case yamls
* move create_experiment.py to workflow/
* detect HOMEgfs in create_experiment.py based on location. update to use jinja templates in the cases
* remove export of HOMEgfs from driver.sh
commit bfea2594207a477ea00e3b7fef95c2d7befd492b
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Sun Oct 15 23:27:47 2023 -0600
Remove SENDCOM (#1929)
This PR addresses issue #1501. All instances of `SENDCOM` gates have been
removed. The workflow was inconsistent in its use of `SENDCOM` to gate
movement of files to `COM` and have been removed based on NCO guidelines.
Resolves #1501.
commit 9a8911a0b30f0367d061facfb3b835480728081d
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Fri Oct 13 14:21:01 2023 +0000
update nth_eupd to 8 for Orion because of out of memmory errors (#1927)
Co-authored-by: TerrenceMcGuinness-NOAA <terry.mcguinness@noaa.gov>
commit ea4dfa5800b5cb529478cc64d329f567393fa37d
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Thu Oct 12 21:29:19 2023 -0400
Marine DA configuration updates (#1922)
Minor updates the configuration related to running the marine DA and the coupled UFS.
What's proposed in this PR:
- Memory increased for the marine DA analysis step
- The coupled UFS is (was?) running out of memory without the changes in `config.ufs`.
- Updates to the IAU section of MOM_input to allow for a current increment.
commit c2d112b40a926c9f33a653cfbb832cb811a60352
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@…
kayeekayee
added a commit
to kayeekayee/global-workflow
that referenced
this pull request
Mar 11, 2024
- based on gsl_ufs_dev from NOAA-GSL/gsl_ufs_dev
29Feb24 global-workflow, 25c026e
UFS: 29Jan24, 625ac02
FV3: 06Jan24, 5e7f196
UPP: 07Nov23, 78f369b
update pointers for ufs_model and ufs_utils
remove GSL directories for ufs_model and ufs_utils
add GSL C3_MYNN xml suite
Squashed commit of the following:
commit 25c026ef03a8d8c0db0b7368d2836f0b2e866eae
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Feb 29 20:35:11 2024 +0000
update ufs_model pointer
commit a28617a951c46b765aa996bfe4d28b554ec4e0a4
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Feb 22 06:16:26 2024 +0000
removed unneeded gsl directories
commit 6fb4f90e8572e98c977a1d2ab385f033111f3ea7
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Feb 22 06:08:13 2024 +0000
update ufs_utils.fd pointer
commit 9264f0c09239d046c5cd862d807e9b82f51dc3bd
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Wed Feb 21 19:33:26 2024 +0000
update .gitmodules file
commit f8edfa966147506f2c207728039e3a736cb95415
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Wed Feb 21 19:30:47 2024 +0000
update pointer to ufs_utils.fd
commit 5e0d2ab02d58e6a7a40db55a149a93008b28aa8b
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Wed Feb 21 19:25:52 2024 +0000
update pointer to ufs_model.fd
commit ebc9e1d02987a1c6aa8cabedf2323642748fab3c
Merge: e7a81511 50cb1e6f
Author: Janet Derrico <143837053+jderrico-noaa@users.noreply.github.com>
Date: Thu Feb 15 13:40:33 2024 -0700
Merge pull request #40 from kayeekayee/gsl_ufs_dev
Merge to 2024 Jan 12 NOAA-EMC/develop and update to 2024 Jan 29 UFS
commit 50cb1e6f0c661e4c6e2ef0be4527cce58379b2c9
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Thu Feb 15 20:30:34 2024 +0000
Add pygraf workflow.
commit 38b726125d49cff6cae4c0e5fff2438fc33143c5
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Wed Feb 14 17:43:15 2024 +0000
Add double quote for the arguments when calling setup_expt.py.
commit 053f2025fb0b0679c7d4f84958973c1534ec050c
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 23:57:06 2024 +0000
more fix.
commit 6f80ea2edc5444e275a79b371d02b6e98e963662
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 23:50:01 2024 +0000
more bug fix.
commit 56e283f1f666a38a4a3b30e1528e96eeb5c622e7
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 23:40:02 2024 +0000
Minor bug fix.
commit 2dcfed06ff6789eb77cf92e22b80f5475923fafc
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 23:19:03 2024 +0000
Update parameter for c3 case
Add c3 and mynn template
commit cc46b19ccc7cdb54878340eff79dda9e747abdf7
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 20:51:23 2024 +0000
Update INFO.
Add c3 SDF in the build.
commit a444ed48a23f24724853036e522b4437bf412c59
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 18:42:33 2024 +0000
Update to UFS 2024 Jan 29 version.
commit 88595707c7521cdce37ae1cf78720a7827242b24
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 18:16:46 2024 +0000
Minor bug fix.
commit baa0e9f10b132098d5134efaad712a51ebc26b83
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 17:59:27 2024 +0000
Update parameters for setup_expt.py in p8_ugwpv1.sh to resdetatmos and comroot.
commit 5875f06903f82a47fafb05f89f840e3b099d18d8
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 17:51:11 2024 +0000
Remove old gsl SDFs.
Remove 'rrtmg_lw_pre' from C3 and MYNN SDFs.
commit 9e0d1342f4e1edce96c9b2baeec55c2cffb964cd
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Thu Feb 8 22:14:01 2024 +0000
Merge to 2024 Jan 12 NOAA-EMC/develop.
Squashed commit of the following:
commit c59047614c29f6ec15a4d4a6fa1855929287debd
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Fri Jan 12 19:21:02 2024 -0500
Update hash to ufs-weather-model. The noahmptable.tbl was reorganized, so update link_workflow.sh to use the same one used in UFSWM RT (#2219)
commit c041968e165c07da785376f1441374687b55d6cc
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Jan 12 12:09:35 2024 -0500
Add ocean resolution to setup_expt invocation and retire/reduce COMROT/ROTDIR usage (#2214)
Two series of updates:
1) Update setup scripts to now allow users to provide ocean resolution
2) Housekeeping to retire the `COMROT` variable, replacing it with other variables
as needed, and reduce the `ROTDIR` variable usage.
Both updates change options for the workflow setup API.
Refs #2061
commit 997f97816493d9ed0242e169b6dcf84e5c9338d6
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Fri Jan 12 10:46:36 2024 -0500
Allow use of ocean obs prep in WCDA cycling and remove R2D2 (#2215)
Enables use of ocean obs prep task in WCDA cycling and removes R2D2 from same.
Runs task gdasprepoceanobs before gdasocnanalprep -- obtains ocean data nc4 files from DMPDIR, processes them into IODA format and copies them to COM_OBS.
Replaces the current R2D2 processing.
commit 12a5bb192ab6282d44c008c06dc14947abd37249
Merge: 4cb58020 6492c2da
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Fri Jan 12 09:26:27 2024 -0500
Merge pull request #2217 from DavidHuber-NOAA/update/versions
Update and clean up version and module files
commit 6492c2da5f49bd31575d0bef5278c9a7f8ba3412
Author: David Huber <david.huber@noaa.gov>
Date: Thu Jan 11 11:49:08 2024 -0600
Update orion module/version files for met/metplus #2123
commit 94c9937f0bff380b0ebd6acdcfd2509e1ae99389
Author: DavidHuber <david.huber@noaa.gov>
Date: Thu Jan 11 17:42:53 2024 +0000
Comment met/metplus out from Hera modulefile. #2123
commit 8c32f8b7d00bba6e3e954f149e6548fb27713a3c
Merge: a65e4c67 4cb58020
Author: David Huber <david.huber@noaa.gov>
Date: Thu Jan 11 11:34:44 2024 -0600
Merge branch 'develop' of github.com:noaa-emc/global-workflow into develop
commit a65e4c675f21dbe72198d263e85e894e62b41e13
Author: David Huber <david.huber@noaa.gov>
Date: Thu Jan 11 11:34:19 2024 -0600
Initial update of version/module files #2123
commit 4cb580201af68c1c0e2ae19faf0727dcbbe43b4d
Author: souopgui <souopgui@users.noreply.github.com>
Date: Wed Jan 10 08:30:22 2024 -0600
Fix OpenMP over-allocation of resources in exglobal_atmos_products.sh when running MPMD tasks (#2212)
Fix OpenMP over-allocation of resources running MPMD tasks
Co-authored-by: Innocent Souopgui <isouopgui@redlineperf.com>
commit b056b531faee6929687cb8a588ffafa1a66426fb
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Mon Jan 8 17:28:05 2024 -0500
Add Hercules as valid machine in CI scripts (#2207)
Few updates to CI scripts to include names for hercules that where missed
the first time.
commit 6574d29a8c26b0695614874c344bccc5182363f4
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Mon Jan 8 17:25:47 2024 -0500
Fix invalid GH action and restart file name (#2210)
Resolves a typo that leads to an invalid workflow yaml and fixes the restart filename in restart detection.
Resolves #2205
commit 69605eac299df381ea9e0e329654487e26380ff5
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Mon Jan 8 17:00:28 2024 -0500
Stop attempting to comment link to RTD for non-PRs (#2209)
Adds a check so comments with a link to documentation are only generated
for PRs.
commit 4e160a895bfb31c281e21557dd86c13954a1a967
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Mon Jan 8 13:10:15 2024 -0500
Enable UPP for GOES processing (#2203)
Wnables the creation of special master grib2 files from UPP for
GOES processing
commit c15875b6dbf685327af9316ee43b3d01f0fc815e
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Mon Jan 8 09:56:06 2024 -0500
Port cycling to Hercules (#2196)
Adds cycled support for Hercules (excluding gsi-monitor).
Partially resolves #1588
GSI monitoring is disabled on Hercules due to missing Perl modules. That will be enabled in a later PR.
commit ef6827dd6abdab2996d1e19f9e0ff5d3071e0fdd
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Mon Jan 8 09:43:12 2024 -0500
Refactor rocoto task XML creation (#2189)
Refactors the rocoto task generation to be recursive.
This will allow nested metatasks to loop over multiple variables, which is needed for GEFS product generation.
As part of this refactor, there is no longer separate arguments to designate metatasks.
Instead, task dicts can include a nested 'task_dict' as well as a 'var_dict' containing the variables to loop over.
The nested task dict can then either have another layer, or be the innermost task.
To accommodate the new recursive nature, some defaults that were previously defined in create_wf_task() had to be pushed down into the function that creates the innermost task.
Also, former keywords have been absorbed by the task dict.
Refs #823
Refs #827
commit 2b81cfac16f103fb29b3aeb9748941787abf7287
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Mon Jan 8 09:41:03 2024 -0500
Update fix versions (#2198)
Updates fix versions for a few components:
- Update cice and mom6 versions to support C96/1p00 marine
- Update wave to change betamax setting for glo_025 waves
Resolves #2004
Resolves #2107
commit e7a81511e37f86e881da020e06b95990b470d952
Merge: af47b77c 75ad3754
Author: Janet Derrico <143837053+jderrico-noaa@users.noreply.github.com>
Date: Thu Feb 1 13:14:02 2024 -0700
Merge pull request #37 from jderrico-noaa/gsl_ufs_dev
Add GSL archive script and correct typos/fixed paths
commit 75ad3754f8bef5411c2570b5e392cd08e95cb6cb
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Feb 1 20:00:52 2024 +0000
adding consistent [[ ]] for if statements
commit 67b99668c82a5fd8c42479b9b1bfe8b0bad0be25
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Feb 1 19:37:47 2024 +0000
Updated HOMEgfs in GSL XML templates
commit 4d3719c086e7907a6eeff03112042d392e0d8c5e
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Feb 1 17:27:39 2024 +0000
Correct syntax errors in GSL scripts
Add new GSL archive script for archiving grib2 and ICs, but no netcdf files
commit 4309dd0b3b2d5625e7e1740d7cd3e39aacd5bc29
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Mon Jan 29 18:05:45 2024 +0000
Add GSL diag tables to parm/ufs/fv3
Update GSL template for hera
Create EMC and GSL versions of files under workflow/rocoto
- tasks.py, workflow_tasks.py
commit af47b77c7ee59a11c798995b4362b57e9096b090
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 02:07:43 2024 +0000
Create GSL version of archive script
commit 529d9f71f97b6e643e76a53bc9871901ae861faf
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 01:37:09 2024 +0000
Create GSL version of tracker.sh
- this is a placeholder with changes from last year's HFIP experiment; will likely need to be updated in the future
commit 8457e12c313bee602265b863129734354b019271
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 01:27:42 2024 +0000
Link config.base.emc.dyn_hera to config.base.emc.dyn
commit 7a05f5bd947944d8c3be828aeef9cc03bf9e073a
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 01:22:54 2024 +0000
Create GSL version of hpssarch_gen.sh
- assume we only run cold starts
- archive only 0p25 grib2 files (no 0p50 opr 1p00)
- assume no pgrb2b or flux files are created so no need to archive to HPSS
commit 98f5d6b16437e2a340bf16f83187e389a53f8bf0
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 00:24:06 2024 +0000
Update workflow directory
- add GSL template for jet (based on last year's experiment)
- create EMC and GSL versions of yaml files under hosts; defaults point to GSL files
commit 38a7e5629ceeb23d399643a021e9a0a88468a07c
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 25 18:40:37 2024 +0000
Update atmos_products configuration file for GSL
- set downset to 1 so pgrb2b files are not created
- set FLXGF to "NO" so interpolated sflux.1p00 files are not created
commit fe8a953658d092ce2b597e14f31678624606fd8a
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 25 17:02:25 2024 +0000
Update nodes for gfsfcst task in GSL template for hera to match default configuration in config.ufs
(12x12, 2 threads, 1 write group, 40 write tasks ==> 56 nodes)
Increase walltime to 4:10 for gfsfcst task
commit 9d85b0f6d50e8ed142557fcb87c89d2e5d63c617
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 23 19:08:52 2024 +0000
Added default location for PTMP/STMP in workflow/hosts/hera.yaml
Added GSL XML template for hera
commit 1cf317d327fae78c5469712c9e5a6aa1ffa4b23b
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Wed Jan 17 22:33:13 2024 +0000
Add sjet partition
Make syntax consistent in "if" statements in config.resources
commit 2755e203751f50113849b06769173285e093290b
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Wed Jan 17 22:32:26 2024 +0000
Update configuration files for GSL
- create Hera and Jet versions of config.base.emc.dyn
- correct typo in config.fcst
- create different versions of config.ufs;
default is 12x12, 2 threads, 1 write group/40 write tasks (56 nodes)
commit 3c0c126a376af31866a93aef4cdd0b4145150c58
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 17:32:25 2024 +0000
Add script for remapping 1/4 degree grib2 grids to other domains
commit f217d4ed9a500e9a1bdcc17548729d972a1763ac
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 16:46:25 2024 +0000
Update link script for ufs_utils.fd
commit 5b21b31900955013b4e8106d3ae906b9da93b361
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 16:45:25 2024 +0000
Add GSL archive scripts for initial conditions
commit abb88baf9dd536a3b2ea1e24eaa99cbfe85af799
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 16:42:17 2024 +0000
Move configuration files for getic and init from jobs/rocoto to parm/config/gfs
commit 45b235180719ab79d2514f0317207fbebfb8aedd
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sun Jan 14 03:21:15 2024 +0000
Add suite definition file for v17p8_ugwpv1_c3 to sorc/ufs_model.fd_gsl
commit 147b1fce99254dcb602c333cc559feaa9a396e81
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sun Jan 14 01:57:22 2024 +0000
Add getic and init tasks to workflow to create initial conditions in realtime
commit 4e4e50803d95566e1c7967cf4cfa575391d77f25
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Fri Jan 12 00:44:59 2024 +0000
Change default HPSS_PROJECT to fim
Change restart_interval_gfs to -1 so no files are written ro RERUN_RESTART directory
commit 791d7a27c6b12f07d9c12ce491338e3da59eb1d8
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 11 23:34:36 2024 +0000
Add namelist parameter, nord_tr, for GSL suites
commit c4a41de7ebcda2f80ce69ac94bd2b3a6f5d04ed5
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 11 23:31:22 2024 +0000
Add changes for running v17p8_mynn
- new field table, field_table_thompson_aero_tke_progsigma
- updated namelist parameters in config.fcst
commit 982a1f02e3b880be43f4ae8a3f0ffbb34c056aea
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:26:22 2024 +0000
Add experiment setup script for p8_ugwpv1
commit c5a3697d22fdbb02bb80ddffee2629dddc10c702
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:19:13 2024 +0000
Add memory report to srun command in env/HERA.env
commit ece7e516ca65ec0240899e7d84321310a6887595
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:13:42 2024 +0000
Updated GSL-specific files under ufs_utils.fd_gsl
commit 1b153fc95b93a16eb40b791be7322100fde4a3d4
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 01:52:56 2024 +0000
Create new branch, gsl_ufs_dev, from dev_02jan24_9d901db
Add initial GSL modifications
- changes to workflow files
* GSL paths, projects, entities
- new FV3_GFS_v17_p8_ugwpv1_mynn suite definition file (SDF)
- updated namelist parameters in ush/parsing_namelists_FV3.sh
- create new GSL directories: ufs_model.fd_gsl and ufs_utils.fd_gsl
* new SDFs, add instantaneous flux variables to grib2 configuration files
* add Thompson tracers to initial conditions
- new sync script: rsync_gsl.sh
- new job files: getic.sh, makeinit_link.sh
- modify build_ufs.sh to include MYNN SDF
commit 9d901dbbff4d41586580316bdc094d24760119e6
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Jan 2 10:30:33 2024 -0700
Stop Gempak pgrb2 spec from modifying $DATA (#2147)
This PR addresses issue #1224. The following is accomplished:
- Instances where `DATA` is modified, corrections are made to use a locally defined variable such that `DATA` is no longer modified at run-time;
- Shell linter exceptions are addressed accordingly;
- The respective GEMPAK tasks is added to the Rocoto mesh.
Resolves #1224
commit 31ad23527802f7d07171132cc620f7135c4d8cba
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Jan 2 10:27:30 2024 -0700
Reorganize NPOESS scripts (#2166)
This PR addresses issue #1226. The following is accomplished:
- Using the GEMPAK j-job script `JGFS_ATMOS_GEMPAK_PGRB2_SPEC`, the structure
of `JGFS_ATMOS_PGRB2_SPEC_NPOESS` is updated;
- Environment variables specific to the script `exgfs_atmos_grib2_special_npoess.sh`
are moved accordingly; this specifically applies to the environment variable `FHOUR`,
`SHOUR`, `FHINC`, `SLEEP_TIME`, and `SLEEP_INT`;
- The `SLEEP_TIME` and `SLEEP_INT` parameters can now be defined at the top-level
(if necessary);
- Restart file checks are move to `exgfs_atmos_grib2_special_npoess.sh`; however,
this may not be necessary (see `TODO` note within draft PR.
Resolves #1226
commit 22bd82fa93b49e5ce98eb3f69123956dd5018049
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Jan 2 11:55:03 2024 -0500
Orog fix file reorg and fix directory variable standardization (#2181)
This PR makes updates to use the newly reorganized `orog/20231027`
fix file version and standardizes the fix file directory variables.
Changes:
1. Update UFS_UTILS hash to ce385ce
2. Update fix file version file to use new orog timestamp: `orog_ver=20231027`
3. Add ".mx$(OCNRES)" to `oro_data` filenames in scripts
4. Remove ".mx$(ocn_res)_frac" from the directory names for atmosphere
resolutions under the `/orog` folder
5. Adds fix file directory variables to `config.base`, many of which are pulled
up out of lower scripts; introduce `FIXcpl`
6. Renamed/replaced the following fix file directory variables:
- `FV3JEDI_FIX` --> `FIXgdas`
- `FIXfv3`, `FIX_orog` and `OROFIX` --> `FIXorog`
- `FIX_ugwd` and `OROFIX_ugwd` --> `FIXugwd`
- `FIX_am`, `FIXgsm`, `FIXSYND` --> `FIXam`
- `FIX_lut` --> `FIXlut`
- `FIX_aer` --> `FIXaer`
- `FIX_SFC` --> `FIXsfc`
- `FIX_DIR` --> `FIXgfs`
- `RTMFIX` and `FIXCRTM` --> `CRTM_FIX` (is `CRTM_FIX` in crtm module,
so not using `FIXcrtm`)
7. Correct the defaults for `FIXwave` in wave JJOB scripts
8. Update variable names in `*fixed_files.yaml` files, as well as update naming
convention for `oro_data` files
Resolves #1984
Resolves #1981
Resolves #2175
commit 03d03bf53b43914a55c384cb33eb06f6a9a443a6
Author: Andrew Collard <40322596+ADCollard@users.noreply.github.com>
Date: Tue Jan 2 11:53:44 2024 -0500
Remove HIRS from GSI processing (#2183)
With the update to CRTM 2.4.0.1, an issue with versioning of CRTM HIRS
files has been exposed. This is documented in JCSDA/crtm#42.
As HIRS radiances are no longer used in the GSI, these data should be removed
from processing until a suitable update to CRTM is available.
Resolves #2182
commit a3c50998d35525a39a66d5592fbf327ab3569e8b
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Fri Dec 22 18:07:48 2023 -0500
Update ufs-weather-model version (#2186)
* update model to latest version which includes needed bugfixes for HR3
commit 774c7302e618370ef578bec3ccabc70486d6da1b
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Fri Dec 22 11:34:53 2023 -0500
Fix analysis post processing's handling of 0-padded negative integers (#2187)
This screens for the analysis 'forecast' hour (-001) and handles the '-' and circumvents octal issues.
commit d1251360325faf75af9df0608557fcd10202a883
Author: Barry Baker <bbakernoaa@users.noreply.github.com>
Date: Thu Dec 21 11:23:48 2023 -0500
Fix for restoring cycling aerosols in fo-mode post COM refactor (#2179)
- Update to COM reorg aerosol initialization job
- Address bug in joining paths for data dependency in this job
---------
Co-authored-by: Rahul Mahajan <aerorahul@users.noreply.github.com>
commit e55a05980709288d902ad1bd894164bfa5a18a65
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Dec 20 22:14:01 2023 -0500
Stop calling ufs-utils link script (#2172)
The `link_workflow.sh` script was calling the ufs_utils version of the
same. That step is only necessary if a user is going to run one of the
stand-alone ufs-utils, which is rare.
commit ef3e5ad7c63be1644c82333c95853c3caf2d8995
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Dec 19 22:02:55 2023 -0500
Fix handling of excluded hosts list (#2170)
This PR fixes the issue with `create_experment.py` so that the yaml configuration
file can have a string of list of strings when specifying the host name to exclude
from the CI tests.
commit ea74a5719efc8f0fe631c5ff93426a4299a614f3
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Tue Dec 19 16:21:41 2023 -0500
Add COMOUT_OBS to marine obs prep (#2173)
Adds `COMOUT_OBS` (defined from `COM_OBS_TMPL`) to marine obs prep task to properly handle marine obs prep files. Used to keep obs after IODA conversion, QC, and other prep.
Towards resolving NOAA-EMC/GDASApp#815
commit c2500feace0bb7c04ce67a90dd3182120ee67b2e
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Tue Dec 19 14:55:20 2023 -0500
Return failed status if a build fails. (#2171)
If any of the builds fail, this makes build_all.sh return the sum of the error codes encountered.
Fixes #2168
commit 76fdd81cd84ed812181996a102379d8d964ba27a
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 19 13:24:34 2023 -0500
Update index.rst for new GFSv16.3.12 in ops (#2169)
Refs #2096
commit a81da33e8fe7541a36f68e7a4f14a384cadd36c8
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 19 10:22:21 2023 -0500
Set place=shared for shared jobs on WCOSS2 (develop) (#2156)
Set job as shared when not exclusive on WCOSS2
WCOSS2 defaults to exclusive when it is not specified as
either exclusive (place=exclhost) or shared (place=shared).
Now set shared when job should be shared.
Refs #2135
commit 89aea972f7964dac3f515e8070d7c534812c5fb4
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Dec 15 16:31:06 2023 -0500
Update gfs-utils version for Hercules (#2163)
An update of gfs-utils was misssing from the previous PR that added
initial Hercules support (#2128).
Also includes gfs-utils update for new marine post.
commit 9505cb4abc6ca2643a8ab254d14ca2000747fa44
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Thu Dec 14 16:15:31 2023 -0500
CI Updates to support Hercules (#2155)
If merged, this PR will update the CI scripts so they will run on Hercules for forecast only
NOTE: This is a stop gap to issue #2131 until its block on #1588 is removed.
Resolves #2154
commit c5ca82f04a2efae78389dec1c46b94ef4fb5bbe5
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Thu Dec 14 16:05:33 2023 -0500
Correct fbwind (#2161)
commit f3f3e05e6325e6c2e8ddab186f1ed2f985fec49a
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Thu Dec 14 12:06:23 2023 -0500
Add MOS jobs to rocoto mesh (#2148)
Create separate jobs for GFS MOS - extracted from now-retired vrfy job
Refs #2068
commit bb6151aa50c27253cb9b8f0a6601ddd58526b8b3
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Dec 14 05:38:29 2023 -0500
Replace checkout script with submodules (#2142)
Replaces the checkout script with git submodules. This change brings workflow in
line with other repos and git standards.
Due to these changes, the build system is updated slightly. First, the options that
were formerly used with `checkout.sh` to reduce unneeded builds (`-g` for GSI
and `-u` for UFSDA) are moved to `build_all.sh` instead. This is needed since build
all will not be able to key off directories existing or not to determine which com-
ponents to build. Second, the partial build system is removed. It was rarely, if ever,
used, and parts of it were already ignored with the previous changes to base builds
off whether directories exist. The manage externals file is also removed since that is
also not being used.
Following these changes, clones/checkout will need to either be recursive, or
`git submodule update` will need to be called separately to make sure components
are properly checked out (non-exhaustive list):
```
## Checkout develop (method 1)
git clone --recursive https://github.com/NOAA-EMC/global-workflow destination
## Checkout develop (method 2)
git clone --jobs 8 https://github.com/NOAA-EMC/global-workflow destination
cd destination
git submodule update --init --recursive --jobs 8
## Checkout existing branch some_branch (method 1)
git clone --recursive --jobs 8 -b some_branch https://github.com/NOAA-EMC/global-workflow destination
## Checkout existing branch some_branch (method 2)
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout --recurse-submodules some_branch
## Checkout existing branch some_branch (method 3)
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout some_branch
git submodule update --init --recursive --jobs 8
## Checkout new branch new_branch
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout -b new_branch
git submodule update --init --recursive --jobs 8
```
The git ignore list had to be updated to use explicit paths as the wildcard paths pick
up the ones that are now submodules.
UFS creates files during the build process that are not in its ignore list, so that sub-
module ignores the "dirty" state to avoid confusing users running `git status`.
CI and documentation are also updated to reflect the changes.
Resolves #2141
commit 1332188ce2409e012ec127d44880e49732f7f379
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Dec 13 09:32:57 2023 -0500
Enable radar reflectivity output (#2143)
Turns on radar reflectivity output from FV3. This eliminates missing values appearing in the grib2 files.
commit 24d898ec0ec0c7fcbda6966988f9a986f528ed14
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Wed Dec 13 09:32:24 2023 -0500
Fix Hercules hostname (#2150)
* Allow lower or upper hostname on hercules.
* Add Hercules to issue template.
commit 2896bb8787698be28ad20f2298589e6e95eaf9fb
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 12 09:13:06 2023 -0500
Fix module load typo (#2145)
Fix typo with loading the crtm module in the UPP hack for WCOSS2
Refs #2144
commit 29d34172a67d976f910e78158ff0337e1ef099ca
Author: Cory Martin <cory.r.martin@noaa.gov>
Date: Thu Dec 7 15:12:05 2023 -0500
Update GDAS hash to most recent stable versions (#2138)
commit 93da9f105502e24f1a1a621f05ea49e1fdfe0102
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Dec 7 10:41:05 2023 -0700
Corrected typo in a gempak job gempakncdcupapgif . (#2137)
commit 3483f550db1ae35a680de49f7485ce5a11902dd9
Author: Cory Martin <cory.r.martin@noaa.gov>
Date: Thu Dec 7 12:34:56 2023 -0500
Add support for FGAT and IAU for aerosol DA (#1940)
commit e2664c011bf5fb03a9b1b37878cad423a1fde6f9
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Thu Dec 7 12:33:46 2023 -0500
Enable forecast-only experiments on Hercules (#2128)
This add forecast-only support for Hercules to the global workflow. Partially satisfies #1588.
Co-authored-by: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
commit a29f751aed05312da3d80d396159bb5a906d6ce4
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Wed Dec 6 13:45:56 2023 -0700
Adds GEMPAK and related jobs to rocoto task mesh (#2127)
commit 1fc8b5bf55581de18e786611c65bc3f84bb0c082
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Tue Dec 5 15:47:52 2023 -0500
Separate offline UPP from interpolated grib2 product generation (#2110)
This PR:
- Replaces the use of `JGLOBAL_ATMOS_POST` with `JGLOBAL_ATMOS_UPP`
and `JGLOBAL_ATMOS_PRODUCTS`.
- Introduces `JGLOBAL_ATMOS_PRODUCTS` that is responsible for creating
grib2 products from the master file produced by UPP (inline from the model,
or offline by running `JGLOBAL_ATMOS_UPP`). Rocoto job `atmos_products.sh`,
ex-script `exglobal_atmos_products.sh` are also added along with a
`config.atmos_products`. Updates are made to the relevant `env` files as well as
`config.resources` to reflect the addition of this job.
- reduces the number of cores needed appropriately for forecast products when
there is no offline UPP necessary.
- renames older `fv3gfs_dwn_nems.sh` to `interp_atmos_master.sh` and
`inter_flux.sh` to `interp_atmos_sflux.sh`
- removes `fv3gfs_downstream_nems.sh` as it is absorbed into
`exglobal_atmos_products.sh`
- removes no longer used scripts for `gfs_post.sh`, `gfs_transfer.sh` (DBN alerts
are absorbed into `exglobal_atmos_products.sh`), `post.sh`,
`JGLOBAL_ATMOS_POST`, `ex${RUN}_atmos_post.sh` scripts.
- Rocoto workflow related scripts are updated to add `atmos_products` as a job.
When `WRITE_DOPOST` is `.false.`, `upp.sh` job to run the UPP offline is also
added. Dependencies have been appropriately applied.
- removes `PGB1F` option that creates 1-degree grib1 products that are no longer
needed in GFSv17.
The hacks from (now deleted) `post.sh` had to be reinstated in `upp.sh` to load the
modules from UPP instead of `load_fv3gfs_modules.sh`.
commit 44186f594aaf5f8feea0eadd4c5c3b59de3a825e
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 5 12:28:08 2023 -0500
Update index.rst for new GFSv16.3.11 version (#2121)
Refs #1356
commit e62a3a73cd22701962b7bf210fdfee37f37a5474
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Dec 5 09:08:12 2023 -0700
Splits AWIPS jobs into seperate tasks (#2094)
This PR addresses issue #1228. The following is accomplished:
- Separate rocoto jobs have been created beneath `jobs/rocoto/`
-- `awips_20sh` and `awips_g2sh`; these jobs replace `awips.sh` which was
calling multiple J-jobs within the respective `awips.sh` scripts;
- New tasks has been added to `workflow/rocoto/tasks.py` for the new
AWIPS scripts;
- The `gfs_cycled` and `gfs_forecast_only` modules beneath
`workflow/rocoto` have been updated accordingly.
Resolves #1228
commit 04d97e9aa7ab84b9754ab670074cfb19d543aa26
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Mon Dec 4 13:38:30 2023 -0500
Consolidate VMINMON and cleanup monitor scripts (#2088)
This PR combines the GDAS and GFS versions of the VMINMON JJOB
and ex-driver scripts into single GLOBAL/global versions. Additionally:
* some further cleanup of the GSI-Monitor scripts is done; variable
settings in ex-driver scripts are moved up to the JJOB level
* the fix symlinks are consolidated into a new `fix/mon` subfolder (formerly
`fix/gdas`) and copies of the gfs monitor fix files under `fix/products` are
removed
Resolves #1925
commit a286a11fdcbc31c8bc6d944890bc56294bc8caf6
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Mon Dec 4 17:48:44 2023 +0000
Robust CI Restarts (#2093)
Improved CI robustness for reverting back to **CI-Ready** from any
given state
New Features:
- Improved `scancel` routine (refactored into bash "subroutine")
- Improved messaging (see below) when ever a user changes state
- Any and all previous build scripts and running experiments are killed as
a result of reset to **Ready**
Resolves #2060
commit 73621e9b20b20f85e8b21e4c1e09ed1d80ecd46f
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Sun Dec 3 11:19:19 2023 -0500
Upgrade to spack-stack/1.5.1 and Intel 2022 on non-production machines (#2084)
Update module files to spack-stack/1.5.1 and compilers to Intel 2022+ on all non-production machines.
commit 6d548b250688861eb20a7e0dc852a0e4ba9e64f4
Author: jiandewang <jiande.wang@noaa.gov>
Date: Thu Nov 30 12:00:21 2023 -0500
Add variable tob in diag_table for ocean model output(#2105)
commit c19810cce252fcdb25fd9960c05b08b5f8d8b1ad
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Wed Nov 29 15:17:36 2023 -0500
Added variables to config.prepoceanobs (#2101)
commit c2d78a61a224678fb804eed19f39d1f07408ae5f
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 29 12:39:08 2023 -0500
Add missing cut to VDATE setting in JGFS_ATMOS_VERIFICATION (#2098)
Refs #2097
commit c1c025f91ddac73aea595cc9fa4dd0bea80575fc
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Nov 29 17:15:10 2023 +0000
Add wave init to GEFS (#2089)
Adds the wave init job to GEFS. Since the output would be the same for
every member, the job is only run once for the control, then links are
created in each of the member directories pointing to that copy.
New ww3_multi and ww3_shell templates for GEFS are copied from the
GFS versions.
The GEFS restart frequency is changed to not be zero, and the comment
about not setting it to zero is copied from the gfs config.base. The restart
interval for the GEFS perturbed members is changed to equal that of the
control.
Also fixes a bug where `RUNwave` was not defined for ensemble forecasts,
and another bug in the GEFS stage_ic dependency.
Resolves #2017
commit 64a2470ce29b7d8d5cb85ebcb4048ff82958f64e
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 29 11:26:34 2023 -0500
Adjust permissions for jobs/JGFS_ATMOS_VERIFICATION (#2095)
Add execute permissions (755)
commit 964b77bc6de67291973c2c70598a1f8cb72501c5
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Nov 28 18:45:51 2023 +0000
Make proper j-job for MET+ (#2090)
Creates a proper j-job for the metp job, moving much of the material
from the `jobs/rocoto` script there (some of it within `jjob_header`).
Also updates the old `COMIN` variable for the COM refactor (although
it does not appear used in the verify scripts currently).
This is a partial step towards restoring/improving metp functionality
and remains untested.
Refs #1575
commit 8c11eeb8556619e8db4e0efb6394ce5a2c1aae0f
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 23 10:31:32 2023 -0700
Adds FBWINDS support to global-workflow (#2082)
This PR addresses issue #1221. The following was accomplished:
- A new Rocoto job is added; `jobs/rocoto/fbwinds.sh`;
- `workflow/applications/gfs_cycled.py` is updated to include the `fbwinds` task;
- `workflow/applications/gfs_forecast_only.py` is updated to include the `fbwinds` task;
- A new function is added to `workflow/rocoto/gfs_tasks.py`, `fbwinds` is added as new GFS (only) task;
- `workflow/rocoto/tasks.py` is updated to include the `fbwinds` task.
Resolves #1221
commit 513db190d21f9ede0724a2cd5606372b1d7605de
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 21 22:52:58 2023 -0700
Adds NPOESS support to global-workflow (#2083)
This PR addresses issue #1225. The following was accomplished:
- A new Rocoto job is added; `jobs/rocoto/npoess.sh`;
- `workflow/applications/gfs_cycled.py` is updated to include the `npoess`
task;
- `workflow/applications/gfs_forecast_only.py` is updated to include the
`npoess` task;
- A new function is added to `workflow/rocoto/gfs_tasks.py`, `npoess` is
added as new GFS (only) task;
- `workflow/rocoto/tasks.py` is updated to include the `npoess` task.
Resolves #1225
commit 62d8e99e77ffe44784f4c61c3f2296c6d1a72413
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 20:25:50 2023 -0500
Retire vrfy job (#2080)
Retires the `vrfy` job from the global-workflow system. All associated
scripts, configs, and references to the job are removed.
Additionally, the switches listed in RTD were updated to reflect new
ones added in other PRs for issue #235.
Resolves #2069
Refs #235
commit ea386abf11ecbacef407388e8d57e71b30148a35
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Nov 17 23:59:46 2023 +0000
Enable different coupled settings for ensemble (#2030)
Adds the ability to turn off some coupled components for the ensemble.
To enable this, many settings are moved out of `config.fcst` and into `config.ufs`
so they are calculated after any overrides of `DO_*` have been made. Some
settings also had to be moved out of `config.base` for the same reason. A
switch to turn on gocart is added to `config.ufs`, but unlike the other switches
this one takes no arguments.
The name of the ufs configure template used is converted from a partial file
name to the full file name.
Resolves #1692
commit fe792c0c9a1c46908cbd18c7e71eb836974cf1de
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 17:19:16 2023 -0500
Add --cpus-per-task to srun commands for Hera and Orion (#2077)
This PR adds the `--cpus-per-task` flag to non-CFP `APRUN`/srun commands
in the env files for Orion and Hera. This is needed as a result of an upgrade
to SLURM on Orion that no longer exported the thread value to the
environment. Issue #1996 was a hotfix to add this flag for the analysis job
that was suddenly running slowly after the SLURM upgrade. A similar SLURM
upgrade was done on Hera but the sysadmins there implemented a
workaround so this issue did not appear there.
This PR adds the `--cpus-per-task` flag for both machines...needed on Orion
and as a safety measure on Hera.
Also included in this PR is a fix to indentations in the
`scripts/exglobal_diag.sh` script that was noticed during work for this PR.
Timing differences were not observed for other jobs after adding this srun
flag. Job timings were of a similar variation between control and test runs.
Any potential additional speedup was not observed. The test runs also
reproduced the control runs with `develop`.
Resolves #2044
commit 42c943be305c297a56b104bb50727938c1ba688f
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 15:41:34 2023 -0500
Adjust modules in post.sh for WCOSS2 (#2079)
On WCOSS2 the grib_util module is named a bit different and
needs the libjpeg module loaded beforehand.
commit cd4e6a1987e7fd71dff06766f540b5d32c8b648d
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Fri Nov 17 11:49:32 2023 -0500
Update ufs-weather-model and remove upp hack (#2071)
Updates the model to the most recent commit of ufs-weather-model. This
should allow for the removal of the UPP hack that was added in PR #2042
This required changing nems.configure -> ufs.configure.
Resolves #1942
commit 5a2d97e142aa4999b122fd5a130c63e59ea9f8e2
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 16 22:15:53 2023 +0000
Fix check for existence of preamble functions (#2066)
A few of the setup scripts were checking for the existence of
functions set by the preamble before calling them so they could
also be used stand-alone. However, the `type` command returns `1`
if the function name does not exist, which will cause the script
to die is `set -e` is on. Now the `type` command fails over to an
empty string.
commit ed2ee7c2b1457b71b271a2c40f0dfa356e0f52f8
Author: WenMeng-NOAA <48260754+WenMeng-NOAA@users.noreply.github.com>
Date: Thu Nov 16 16:38:11 2023 -0500
Update UPP products for GFS v17 (#1973)
Updates of generating GFS V17 UPP products to support HR3:
- Update g2tmpl to 1.0.12
- Add changes to launch cfp on WCOSS2 to generate pgrb2/pgrb2b files
- Changes for generating new products (MERRA2, six winter weather variables,
1km HLCY, SDEN) in pgrb2 files
Resolves #1965
Resolves #1994
commit 635c4719e603538ce7cccf9ea6b31f3f84f20849
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 16 20:35:30 2023 +0000
Fix some rocoto dependencies (#2074)
A few small errors/cleanup in the dependencies, mostly in fcst:
A few small errors/cleanup have crept into the dependencies with recent changes,
mostly in fcst:
- Fixed the offset, as it would yield a string rocoto doesn't recognize when the
interval was 24+ hrs
- Removed the duplicate wave dependency. When `waveprep` is included, it
depends on `waveinit` so there is no need to add a `waveinit` dependency.
- Converted an interval in the archive job that was missed in #2039
Resolves #2075
commit d4c7508260975c6b94fc92fd085f39d4faf3f027
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Wed Nov 15 16:44:03 2023 -0500
Fix missing _PREV in ocean restart file location (#2070)
commit 255616d37505c785bdddd5d3e39e8399110b626e
Author: mdtoyNOAA <73618848+mdtoyNOAA@users.noreply.github.com>
Date: Wed Nov 15 12:02:09 2023 -0700
Update functionality for Prototype HR3 UGWP (#1987)
This PR adds/modifies namelist options and activates new 'ccpp' suite definition
files for the updated Unified Gravity Wave Physics (UGWP) in the ufs-weather-
model recently updated for HR3. The changes to UGWP are the use of the GSL
drag suite for orographic gravity wave drag (GWD) and blocking, as well as the
new UGWP Version 1 non-stationary GWD. See
ufs-community/ufs-weather-model#1923 for details.
Resolves #1986
commit be9085e62aae147e3c74602e2f82a99b374fc783
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Wed Nov 15 13:48:58 2023 -0500
Save the required CICE history for the sea-ice DA (#2062)
The hist_avg setting of CICE was changed to be an array.
commit 85f1f5131ffd70061231304ea477bde0559eb67b
Author: Guoqing Ge <guoqing.ge@noaa.gov>
Date: Wed Nov 15 11:47:21 2023 -0700
Use assim_freq to configure "offset" in dependencies (#2039)
Use the assim_freq from config.base to configure "offset" in dependencies
instead of hard-coding them.
Resolves #2038
commit 4e3d82ba3a1fa7cdd4443bcd4cf83b2f8835137c
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 15 13:39:14 2023 -0500
Resolve ENKF archive script bugs (#2065)
Fix two bugs in the exgdas_enkf_earc.sh script:
1) Replace ARCH_LIST with DATA to match changes done in PR #2000
and update path to generated archive list files.
2) Add status check and exit after script attempts to make tarball on HPSS.
Refs #2064
commit 42d7f2f0c48fab898b764e09cfbbd7a9fabbae08
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Nov 14 17:54:29 2023 -0500
Separate tracker and genesis jobs from vrfy job (#2058)
This PR creates new individual jobs for the tracker and genesis jobs that are being
pulled out of the `vrfy` job (issue #235). The `tracker` and `genesis` jobs will be on
by default while the `genesis_fsu` job will be off by default. This mimics the current
settings in the `vrfy` job.
No enhancements or upgrades are made to the jobs themselves in this PR, only to
separate them from the `vrfy` job. However, one change compared to how they
currently run in the `vrfy` job is to no longer run the `tracker` in the gdas suite. This
mimics how the `ens_tracker` package is run in operations (gfs only).
Changes in this PR:
1. Create rocoto job scripts for tracker/genesis jobs.
2. Create configs for tracker/genesis jobs, as well as `config.tropcy` for shared
settings.
3. Add tracker/genesis jobs to `config.resources`; use resources from the ecf scripts
for `ens_tracker` jobs in operations
4. Add tracker/genesis jobs to rocoto setup for both cycled and forecast-only
modes.
5. Update arguments for `jjob_header.sh` script in tracker/genesis JJOB scripts to use
specific job names and configs instead of vrfy.
6. Rename `tracker_ver` to `ens_tracker_ver` in version files to mimic variable within
tracker package.
7. Rename and move tracker/genesis switches to `config.base`.
8. Remove tracker/genesis jobs from `vrfy` job (`jobs/rocoto/vrfy` and `config.vrfy`).
9. Reduce vrfy job resources to accommodate tasks having been removed.
Refs #235
Resolves #1988
Resolves #2048
commit 0a0d6984e094d2a551d5d8331102142e7db13fc2
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Tue Nov 14 14:08:26 2023 -0500
Enable warm starting of the model for forecast-only mode (#2031)
This PR:
- adds an option to warm|cold start the ufs-weather-model when setting up an experiment for GFS/GEFS
- adds the capability to stage FV3 restarts when the atmosphere is warm started from FV3 restarts. This would be used in the GEFS free-forecast for part of the reforecast capability.
- If a coupled model is warm started for the atmosphere, also check if mediator restarts are present. If so, stage mediator restarts to allow restarting the coupled model.
Fixes #2016
commit 2cd6a589305a9ac9d3a9a0d2136e66e42f09d3bf
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 14 12:05:20 2023 -0700
Moves UFS WM configuration files to `COM_CONF` (#2054)
The UFS weather-model (WM) files are place in the COM_CONF path rather than the respective component model COM history paths.
Resolves #2015
commit 6f1693081662f241fafc930b1afc88125f7f5aff
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Nov 14 11:15:02 2023 -0500
Refine fit2obs job in rocoto mesh (#2047)
This PR adjusts the `fit2obs` job in the rocoto mesh to better define when it exists
and how the archive job dependencies accommodate it not being in the first half
cycle.
Changes in PR:
1. Remove the `fit2obs` job from the first half cycle `cycledef`.
2. Adjust the archive job dependencies to now include the `fit2obs` job in the new
logic check added in PR #1983. The `gdasarch` job in the first half cycle will check if
`gdasfit2obs` is complete OR no prior cycle exists. Also cleaned up this new logic
check block some to make it a tad simpler.
3. Also, fix the addition of the `fit2obs` config to the config list in setup scripts. Now
tied to whether `fit2obs` job is on instead of always adding the config to the list.
Resolves #2043
commit 5730a71fa5d311e49d9bb11528b500f27f33d69d
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 14 09:13:11 2023 -0700
Add `waveinit` and `waveprep` to half-cycle. (#2037)
This PR addresses issue #1444. The `waveinit` and `waveprep` tasks have been added to
the GDAS have cycle. The downstream dependencies for the respective GFS and GDAS
forecast tasks have been removed.
Resolves #1444
commit 28d2e93c3857de95b0309a089cd7dac736ccaded
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Nov 14 16:11:47 2023 +0000
Update wave IC source for C384 (#2055)
The default wave grid for C384 has changed since P8, so a single wave
IC on the new grid is available under a different IC name.
commit 81dd2d9855091315611106a5afbdaeaa15e6e4ae
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 9 17:19:57 2023 +0000
Fix analysis and post on Orion (#2046)
Fixes a couple things to get workflow to work on Orion again:
First, while #2042 allowed post to be built, the `upp.x` executable would fail due
to a missing library. Now post jobs (temporarily) uses the UPP modules (plus
others needed for runtime) instead of the normal workflow runtime module. This
should actually fix #2041. This hack can likely be removed once we move to
spack-stack.
Second, the launcher command for the analysis jobs on Orion are updated to
specify the number of CPUs per task. This was necessary as a recent slurm update
on Orion discontinued reading that value from the scheduler. Other jobs will be
handled later (see #2044).
Additionally, a change is made to `module-setup.sh` that will eliminate the
annoyance of `gw_setup.sh` breaking tab completion because undefined variable
checking was turned on for the script but not back off.
Resolves #1996
Resolves #2041
Refs #2044
commit 13d06ded4155cba2d08ef2a2cd553024c5abe29d
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Nov 8 18:25:47 2023 +0000
Hack UPP version (#2042)
The stack UPP was using on Orion was recently deleted, leaving us
unable to build the UFS verison of UPP there. UPP has an updated
version using spack-stack that works, so the checkout script is
modified to check out that version of UPP after UFS has been
checked out.
This temporary hack can be removed once we move to a UFS version
that advances the UPP version to or beyond 78f369b.
Resolves #2041
commit 20f6eceb8ff58f84174a27eb849c1d74566a3e03
Author: jiandewang <jiande.wang@noaa.gov>
Date: Wed Nov 8 11:14:55 2023 -0500
Add basic C1152 settings (#2020)
Adding C1152 setting in host.yaml, config.base and config.stage_ic so that can run C1152 S2SW.
Resolves #2019
commit 5183c43bbbd07285869feacb49d8680afe85929a
Author: Barry Baker <bbakernoaa@users.noreply.github.com>
Date: Tue Nov 7 01:14:40 2023 -0500
Update UFS for dust fix and remove nitrates by default (#1989)
This PR updates the `ufs-weather-model` to the latest hash that included the dust fix (PR #1922).
Along with this I removed the nitrates by default in support of the GEFSv13 EP4 and EP5
experiments. Removed unneeded inputs that should help with speed improvements.
commit 34a73cf2ed5afefc776d9cc73b6ebf439122a1bb
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Mon Nov 6 14:00:51 2023 -0500
Reduce gdas builds to 8 #2029 (#2036)
Reduce the default number of build jobs for the GDASApp to 8 from 16.
This is needed for Orion as the build crashes during a linking step. Though not verified, it
appears this may be caused by using too much memory with 16 builds. The issue disappears
when using 8 build jobs.
Resolves #2029
commit 75269e4bb9764b81589efc7d703825b80e74c8f5
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Mon Nov 6 17:34:47 2023 +0000
Streamline CI reporting to PRs (#2026)
Cleaned up the logs for CI PRs sent to the GitHub Messages:
- Eliminates redundant accumulative reporting
- Reports on all created or skipped experiment instantiations in a single message
- Gives one line report once for each experiment completion
- Single final report completion of CI
See some examples in forked [PR 195](https://github.com/TerrenceMcGuinness-NOAA/global-workflow/pull/195)
Resolves #2007
commit 8d55126bb0b27c79c8bee7f72b014abd34950ff9
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Fri Nov 3 17:06:09 2023 -0400
Implement IAU Cycling Type with Marine Data Assimilation Enabled (#1944)
Allows cycling in IAU mode with the S2S UFS model, soca and the GSI.
Most of the work related to making IAU work was done by @JessicaMeixner-NOAA . Thanks @JessicaMeixner-NOAA !
Resolves #1943
Refs #1776
commit 2563806821d4ae3b57120bc61aa0575139a708f0
Author: jiandewang <jiande.wang@noaa.gov>
Date: Fri Nov 3 11:49:37 2023 -0400
Add two ucx modules in load_ufswm_modules.sh to solve C768 and C1152 S2SW job hanging issue on WCOSS2 (#2021)
commit cbdc09711a83493f363a737d1e3e46c48a09719d
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Nov 3 04:09:33 2023 +0000
Fix staging of MOM data (#2028)
During the update to stage_ic, the copying of the additional res_N files for
0p25 was omitted. These are now properly copied.
Resolves #2027
commit bd4c56d99c23c5c41f0bd5f8a980ef99ee160888
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Thu Nov 2 16:09:59 2023 -0400
changed optional script name vars for ocean analysis (#2025)
commit 93bc918cdabee771c182c6f33cc54a20b5bb86c6
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Thu Nov 2 16:01:18 2023 -0400
Create separate GSI monitor jobs and remove from vrfy job (#1983)
This PR will move the GSI monitor tasks from the `vrfy` job into their own separate jobs in
the rocoto mesh. This takes care of part of issue #235.
Changes in this PR:
1. Create new individual GSI monitor jobs in the rocoto mesh to match how it is done in
operations. The new jobs are: `gdasverfozn`, `gdasverfrad`, `gdasvminmon`, and `gfsvminmon`.
The names correspond to the names in operations and the ecf script names. The jobs are only
added to cycled mode, none of the jobs are run in forecast-only mode.
2. Updates to GSI monitor scripts:
* Update `ush/jjob_header.sh` arguments in JJOB scripts to call new individual job names and
configs.
* Introduce `COM_*` variables and use of the `generate_com` utility. This results in the outputs
landing in `COM` subfolders, like occurs in operations, instead of landing in the online archive.
* Some variable cleanup in JJOB and ush scripts, includes cleaning up usage of `DATA` variable
and its removal at the end of the jobs.
* Add missing exit statements to `JGFS_ATMOS_VMINMON` and `JGDAS_ATMOS_VERFRAD`.
3. Create new rocoto job scripts for the new individual GSI monitor jobs.
4. Create new configs for the new individual GSI monitor jobs.
5. Add new individual GSI monitor jobs to resource configuration, using the same resources as
in operations.
6. Move and rename GSI monitor job switches from `config.vrfy` to `config.base`. Also add
switches to setup system. New switches to control each job being added to the rocoto mesh
are: `DO_VERFOZN`, `DO_VERFRAD`, `DO_VMINMON`
7. Add GSI monitor job output to archival job and into resulting HPSS tarballs or local tarballs.
This now matches what is done in operations.
8. Remove the GSI monitor tasks from the rocoto `vrfy` job and associated `config.vrfy`.
Example output locations and files (not showing contents of oznmon/horiz or oznmon/time for
brevity, see archival script for full list of output files):
```
kate.friedman@dlogin09:/lfs/h2/emc/ptmp/kate.friedman/comrot/testmonitor2> ll gdas.20211221/00/products/atmos/*mon
gdas.20211221/00/products/atmos/minmon:
total 112
-rw-r--r-- 1 kate.friedman emc 14030 Oct 25 15:00 2021122100.costs.txt
-rw-r--r-- 1 kate.friedman emc 84932 Oct 25 15:00 2021122100.cost_terms.txt
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 15:00 2021122100.gnorms.ieee_d
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 15:00 2021122100.reduction.ieee_d
-rw-r--r-- 1 kate.friedman emc 80 Oct 25 15:00 gnorm_data.txt
gdas.20211221/00/products/atmos/oznmon:
total 8
drwxr-sr-x 2 kate.friedman emc 4096 Oct 25 15:05 horiz
drwxr-sr-x 2 kate.friedman emc 4096 Oct 25 15:05 time
gdas.20211221/00/products/atmos/radmon:
total 21036
-rw-r--r-- 1 kate.friedman emc 231 Oct 25 15:12 bad_diag.2021122100
-rw-r--r-- 1 kate.friedman emc 9035 Oct 25 15:12 bad_pen.2021122100
-rw-r--r-- 1 kate.friedman emc 1449 Oct 25 15:12 low_count.2021122100
-rw-r--r-- 1 kate.friedman emc 20523403 Oct 25 15:07 radmon_angle.tar.gz
-rw-r--r-- 1 kate.friedman emc 217272 Oct 25 15:08 radmon_bcoef.tar.gz
-rw-r--r-- 1 kate.friedman emc 502151 Oct 25 15:10 radmon_bcor.tar.gz
-rw-r--r-- 1 kate.friedman emc 264480 Oct 25 15:12 radmon_time.tar.gz
-rw-r--r-- 1 kate.friedman emc 684 Oct 25 15:12 warning.2021122100
kate.friedman@dlogin09:/lfs/h2/emc/ptmp/kate.friedman/comrot/testmonitor2> ll gfs.20211221/00/products/atmos/minmon/
total 88
-rw-r--r-- 1 kate.friedman emc 10530 Oct 25 14:55 2021122100.costs.txt
-rw-r--r-- 1 kate.friedman emc 63882 Oct 25 14:55 2021122100.cost_terms.txt
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 14:55 2021122100.gnorms.ieee_d
-rw-r--r-- 1 kate.friedman emc 608 Oct 25 14:55 2021122100.reduction.ieee_d
-rw-r--r-- 1 kate.friedman emc 80 Oct 25 14:55 gnorm_data.txt
```
Lingering work and considerations:
1. Issue #1925
2. Consider not hardcoding the list of types in archival and perhaps tie it to something reliable or
configurable (maybe into `config.verfozn`?):
`subtyplist="gome_metop-b omi_aura ompslp_npp ompsnp_n20 ompsnp_npp ompstc8_n20 ompstc8_npp sbuv2_n19"`
Resolves #1908
commit 31b05a99b77d0f6eaa8b116485a41a43867d20e1
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 2 12:23:32 2023 -0600
Move analysis post to new stand-alone task (#1979)
This PR addresses issue #1130. A new task `postanl.sh` has been added such that the
`anl` post-processing is not it's own task within the Rocoto workflow. This change
prevents the GDAS experiment from breaking due to failures caused by the `anl` not
being available for the first cycle.
Resolves #1130
commit 247cdf8c7e10e6c98f782799fc51c069b6474e70
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 2 11:18:53 2023 -0600
Corrects missing local variable reference (#2023)
Fixes missing `$` in variable reference in archive job.
Resolves #2022
commit 241742b246da1794646b68e41c3d6fe00b95dd07
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Wed Nov 1 14:19:55 2023 -0400
Updates to prep ocean obs task (#1870)
commit 77be0ec6a3117b9f7e71a19c69ac64c09b521ecd
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Wed Nov 1 12:09:33 2023 -0600
No longer write archive lists COM (#2000)
Changes the respective `.txt` files used for the HPSS archive to the `DATA` path. Each
defined text file has been updated to explicitly write to `DATA` rather than `COM` such
that the files are deleted rather than being archived.
Resolves #760
commit 517b92f9c20c9e44abba3183325e35a95a7334a5
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Tue Oct 31 16:33:11 2023 -0400
Parallelize the build scripts (#1998)
Optimized/parallelized build scripts.
A few notes:
1) The default number of build jobs is 20, but one could argue for using 40. When researching
this, I looked up what the SRW is compiling with. That system uses 40 cores, which seems a
little excessive, but on testing the global workflow, the actual number of cores being used at
any given time rarely exceeds 16 when running with 40 cores. This is because the builds tend to
use multiple threads in the beginning when compiling low-level modules while the higher-level
modules are more or less serial AND because the GDASApp takes several minutes to initialize
all of its subrepositories by which time the smaller builds are complete.
2) I also updated checkout.sh so that all checkouts are simultaneous. The CPU load for
`git submodule` is quite low, so running 16 instead of 8 jobs at once is not much more expensive.
3) To make this work, I had to add `-j` options to most of the build scripts. The only exception is
build_upp, for which the build script within the UPP is hard coded to use 6 cores.
4) I fixed a few small bugs in the build scripts along the way.
5) Lastly, this reduce the total build time from ~2.5 hours for the entire system (including GDAS
and GSI in the same build) to ~40 minutes when running with `-j 40`.
Resolves #1978
commit 67c050c201f92e855d09211e41a5f51ee1cb5230
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Oct 31 19:00:47 2023 +0000
Add missing export for rCDUMP in stage_ic (#2009)
rCDUMP is needed by the exscript but was never exported by the jjob.
commit 872068cb5ea78b311f7a77e97ee1428ae027cb61
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Oct 31 14:37:55 2023 +0000
Add output error log to user for create_experiment.py on fail in CI (#1974)
Small changes to driver CI bash scripts to recapture error log from `create_experment.py` logger
Fixes #1939
commit b2e4a2e9d269842acbb1b37dd563ee5dee2adf0f
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Oct 31 13:57:02 2023 +0000
Allow CI case to exclude running on certain platforms (#2001)
commit 7cc137116f1619bf1e5a12eaacb98d17da97c223
Author: Jeff Whitaker <jswhit@fastmail.fm>
Date: Tue Oct 31 07:54:24 2023 -0600
Add initial C96/1 deg coupled model support (#1991)
commit 7086ddc4bece6fb2a8c1c2e6090800d4293e410e
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Mon Oct 30 19:58:43 2023 -0400
Add ocean analysis files to HPSS archiving task (#1985)
This PR adds the files under `analysis/ocean` (except those in `bump` and `vrfy`) to the
HPSS archiving job, in `gdasocean_analysis.tar`, which were previously not archived.
Resolves NOAA-EMC/GDASApp/issues/693
commit eabc82ad30c118645c0e6e216162d823882a8139
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Mon Oct 30 10:31:27 2023 -0400
Make the early cycle work with the coupled UFS configured as S2S (#1954)
commit aff6ca7ae559e424dae128d6cfd5da4a4e3049e7
Author: Anil Kumar <108816337+AnilKumar-NOAA@users.noreply.github.com>
Date: Fri Oct 27 14:11:55 2023 -0400
GEFS Staging in exglobal_stage_ic (#1892)
Adjusts source paths for forecast-only ICs in support of extension to ensembles.
New paths omit the resolution (that is captured by the IC id name) and allow for
a member level.
Directories with the reorganized ICs have been added to the three tier-1 machines
under glopara space.
Building on this, also adds capability to stage GEFS ICs.
Resolves #911
commit 77c1ff2bfa26b341b01f41e50ee0ecb31cc4f661
Author: RussTreadon-NOAA <26926959+RussTreadon-NOAA@users.noreply.github.com>
Date: Thu Oct 26 23:44:27 2023 -0400
Update GDASApp hash (#1975)
Update GDASApp hash to bring recent UFSDA development into g-w…
kayeekayee
added a commit
to kayeekayee/global-workflow
that referenced
this pull request
Mar 12, 2024
12Jan24 global-workflow
UFS: 29Jan24, 625ac02
FV3: 29Jan24, bd38c56
UPP: 07Nov23, 78f369b
UFS_UTILS: 22Dev23, ce385ce
update pointers for ufs_model and ufs_utils
add GSL C3_MYNN xml suite
Squashed commit of the following:
commit 25c026ef03a8d8c0db0b7368d2836f0b2e866eae
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Feb 29 20:35:11 2024 +0000
update ufs_model pointer
commit a28617a951c46b765aa996bfe4d28b554ec4e0a4
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Feb 22 06:16:26 2024 +0000
removed unneeded gsl directories
commit 6fb4f90e8572e98c977a1d2ab385f033111f3ea7
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Feb 22 06:08:13 2024 +0000
update ufs_utils.fd pointer
commit 9264f0c09239d046c5cd862d807e9b82f51dc3bd
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Wed Feb 21 19:33:26 2024 +0000
update .gitmodules file
commit f8edfa966147506f2c207728039e3a736cb95415
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Wed Feb 21 19:30:47 2024 +0000
update pointer to ufs_utils.fd
commit 5e0d2ab02d58e6a7a40db55a149a93008b28aa8b
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Wed Feb 21 19:25:52 2024 +0000
update pointer to ufs_model.fd
commit ebc9e1d02987a1c6aa8cabedf2323642748fab3c
Merge: e7a81511 50cb1e6f
Author: Janet Derrico <143837053+jderrico-noaa@users.noreply.github.com>
Date: Thu Feb 15 13:40:33 2024 -0700
Merge pull request #40 from kayeekayee/gsl_ufs_dev
Merge to 2024 Jan 12 NOAA-EMC/develop and update to 2024 Jan 29 UFS
commit 50cb1e6f0c661e4c6e2ef0be4527cce58379b2c9
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Thu Feb 15 20:30:34 2024 +0000
Add pygraf workflow.
commit 38b726125d49cff6cae4c0e5fff2438fc33143c5
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Wed Feb 14 17:43:15 2024 +0000
Add double quote for the arguments when calling setup_expt.py.
commit 053f2025fb0b0679c7d4f84958973c1534ec050c
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 23:57:06 2024 +0000
more fix.
commit 6f80ea2edc5444e275a79b371d02b6e98e963662
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 23:50:01 2024 +0000
more bug fix.
commit 56e283f1f666a38a4a3b30e1528e96eeb5c622e7
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 23:40:02 2024 +0000
Minor bug fix.
commit 2dcfed06ff6789eb77cf92e22b80f5475923fafc
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 23:19:03 2024 +0000
Update parameter for c3 case
Add c3 and mynn template
commit cc46b19ccc7cdb54878340eff79dda9e747abdf7
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 20:51:23 2024 +0000
Update INFO.
Add c3 SDF in the build.
commit a444ed48a23f24724853036e522b4437bf412c59
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 18:42:33 2024 +0000
Update to UFS 2024 Jan 29 version.
commit 88595707c7521cdce37ae1cf78720a7827242b24
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 18:16:46 2024 +0000
Minor bug fix.
commit baa0e9f10b132098d5134efaad712a51ebc26b83
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 17:59:27 2024 +0000
Update parameters for setup_expt.py in p8_ugwpv1.sh to resdetatmos and comroot.
commit 5875f06903f82a47fafb05f89f840e3b099d18d8
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 17:51:11 2024 +0000
Remove old gsl SDFs.
Remove 'rrtmg_lw_pre' from C3 and MYNN SDFs.
commit 9e0d1342f4e1edce96c9b2baeec55c2cffb964cd
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Thu Feb 8 22:14:01 2024 +0000
Merge to 2024 Jan 12 NOAA-EMC/develop.
Squashed commit of the following:
commit c59047614c29f6ec15a4d4a6fa1855929287debd
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Fri Jan 12 19:21:02 2024 -0500
Update hash to ufs-weather-model. The noahmptable.tbl was reorganized, so update link_workflow.sh to use the same one used in UFSWM RT (#2219)
commit c041968e165c07da785376f1441374687b55d6cc
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Jan 12 12:09:35 2024 -0500
Add ocean resolution to setup_expt invocation and retire/reduce COMROT/ROTDIR usage (#2214)
Two series of updates:
1) Update setup scripts to now allow users to provide ocean resolution
2) Housekeeping to retire the `COMROT` variable, replacing it with other variables
as needed, and reduce the `ROTDIR` variable usage.
Both updates change options for the workflow setup API.
Refs #2061
commit 997f97816493d9ed0242e169b6dcf84e5c9338d6
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Fri Jan 12 10:46:36 2024 -0500
Allow use of ocean obs prep in WCDA cycling and remove R2D2 (#2215)
Enables use of ocean obs prep task in WCDA cycling and removes R2D2 from same.
Runs task gdasprepoceanobs before gdasocnanalprep -- obtains ocean data nc4 files from DMPDIR, processes them into IODA format and copies them to COM_OBS.
Replaces the current R2D2 processing.
commit 12a5bb192ab6282d44c008c06dc14947abd37249
Merge: 4cb58020 6492c2da
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Fri Jan 12 09:26:27 2024 -0500
Merge pull request #2217 from DavidHuber-NOAA/update/versions
Update and clean up version and module files
commit 6492c2da5f49bd31575d0bef5278c9a7f8ba3412
Author: David Huber <david.huber@noaa.gov>
Date: Thu Jan 11 11:49:08 2024 -0600
Update orion module/version files for met/metplus #2123
commit 94c9937f0bff380b0ebd6acdcfd2509e1ae99389
Author: DavidHuber <david.huber@noaa.gov>
Date: Thu Jan 11 17:42:53 2024 +0000
Comment met/metplus out from Hera modulefile. #2123
commit 8c32f8b7d00bba6e3e954f149e6548fb27713a3c
Merge: a65e4c67 4cb58020
Author: David Huber <david.huber@noaa.gov>
Date: Thu Jan 11 11:34:44 2024 -0600
Merge branch 'develop' of github.com:noaa-emc/global-workflow into develop
commit a65e4c675f21dbe72198d263e85e894e62b41e13
Author: David Huber <david.huber@noaa.gov>
Date: Thu Jan 11 11:34:19 2024 -0600
Initial update of version/module files #2123
commit 4cb580201af68c1c0e2ae19faf0727dcbbe43b4d
Author: souopgui <souopgui@users.noreply.github.com>
Date: Wed Jan 10 08:30:22 2024 -0600
Fix OpenMP over-allocation of resources in exglobal_atmos_products.sh when running MPMD tasks (#2212)
Fix OpenMP over-allocation of resources running MPMD tasks
Co-authored-by: Innocent Souopgui <isouopgui@redlineperf.com>
commit b056b531faee6929687cb8a588ffafa1a66426fb
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Mon Jan 8 17:28:05 2024 -0500
Add Hercules as valid machine in CI scripts (#2207)
Few updates to CI scripts to include names for hercules that where missed
the first time.
commit 6574d29a8c26b0695614874c344bccc5182363f4
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Mon Jan 8 17:25:47 2024 -0500
Fix invalid GH action and restart file name (#2210)
Resolves a typo that leads to an invalid workflow yaml and fixes the restart filename in restart detection.
Resolves #2205
commit 69605eac299df381ea9e0e329654487e26380ff5
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Mon Jan 8 17:00:28 2024 -0500
Stop attempting to comment link to RTD for non-PRs (#2209)
Adds a check so comments with a link to documentation are only generated
for PRs.
commit 4e160a895bfb31c281e21557dd86c13954a1a967
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Mon Jan 8 13:10:15 2024 -0500
Enable UPP for GOES processing (#2203)
Wnables the creation of special master grib2 files from UPP for
GOES processing
commit c15875b6dbf685327af9316ee43b3d01f0fc815e
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Mon Jan 8 09:56:06 2024 -0500
Port cycling to Hercules (#2196)
Adds cycled support for Hercules (excluding gsi-monitor).
Partially resolves #1588
GSI monitoring is disabled on Hercules due to missing Perl modules. That will be enabled in a later PR.
commit ef6827dd6abdab2996d1e19f9e0ff5d3071e0fdd
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Mon Jan 8 09:43:12 2024 -0500
Refactor rocoto task XML creation (#2189)
Refactors the rocoto task generation to be recursive.
This will allow nested metatasks to loop over multiple variables, which is needed for GEFS product generation.
As part of this refactor, there is no longer separate arguments to designate metatasks.
Instead, task dicts can include a nested 'task_dict' as well as a 'var_dict' containing the variables to loop over.
The nested task dict can then either have another layer, or be the innermost task.
To accommodate the new recursive nature, some defaults that were previously defined in create_wf_task() had to be pushed down into the function that creates the innermost task.
Also, former keywords have been absorbed by the task dict.
Refs #823
Refs #827
commit 2b81cfac16f103fb29b3aeb9748941787abf7287
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Mon Jan 8 09:41:03 2024 -0500
Update fix versions (#2198)
Updates fix versions for a few components:
- Update cice and mom6 versions to support C96/1p00 marine
- Update wave to change betamax setting for glo_025 waves
Resolves #2004
Resolves #2107
commit e7a81511e37f86e881da020e06b95990b470d952
Merge: af47b77c 75ad3754
Author: Janet Derrico <143837053+jderrico-noaa@users.noreply.github.com>
Date: Thu Feb 1 13:14:02 2024 -0700
Merge pull request #37 from jderrico-noaa/gsl_ufs_dev
Add GSL archive script and correct typos/fixed paths
commit 75ad3754f8bef5411c2570b5e392cd08e95cb6cb
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Feb 1 20:00:52 2024 +0000
adding consistent [[ ]] for if statements
commit 67b99668c82a5fd8c42479b9b1bfe8b0bad0be25
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Feb 1 19:37:47 2024 +0000
Updated HOMEgfs in GSL XML templates
commit 4d3719c086e7907a6eeff03112042d392e0d8c5e
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Feb 1 17:27:39 2024 +0000
Correct syntax errors in GSL scripts
Add new GSL archive script for archiving grib2 and ICs, but no netcdf files
commit 4309dd0b3b2d5625e7e1740d7cd3e39aacd5bc29
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Mon Jan 29 18:05:45 2024 +0000
Add GSL diag tables to parm/ufs/fv3
Update GSL template for hera
Create EMC and GSL versions of files under workflow/rocoto
- tasks.py, workflow_tasks.py
commit af47b77c7ee59a11c798995b4362b57e9096b090
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 02:07:43 2024 +0000
Create GSL version of archive script
commit 529d9f71f97b6e643e76a53bc9871901ae861faf
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 01:37:09 2024 +0000
Create GSL version of tracker.sh
- this is a placeholder with changes from last year's HFIP experiment; will likely need to be updated in the future
commit 8457e12c313bee602265b863129734354b019271
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 01:27:42 2024 +0000
Link config.base.emc.dyn_hera to config.base.emc.dyn
commit 7a05f5bd947944d8c3be828aeef9cc03bf9e073a
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 01:22:54 2024 +0000
Create GSL version of hpssarch_gen.sh
- assume we only run cold starts
- archive only 0p25 grib2 files (no 0p50 opr 1p00)
- assume no pgrb2b or flux files are created so no need to archive to HPSS
commit 98f5d6b16437e2a340bf16f83187e389a53f8bf0
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 00:24:06 2024 +0000
Update workflow directory
- add GSL template for jet (based on last year's experiment)
- create EMC and GSL versions of yaml files under hosts; defaults point to GSL files
commit 38a7e5629ceeb23d399643a021e9a0a88468a07c
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 25 18:40:37 2024 +0000
Update atmos_products configuration file for GSL
- set downset to 1 so pgrb2b files are not created
- set FLXGF to "NO" so interpolated sflux.1p00 files are not created
commit fe8a953658d092ce2b597e14f31678624606fd8a
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 25 17:02:25 2024 +0000
Update nodes for gfsfcst task in GSL template for hera to match default configuration in config.ufs
(12x12, 2 threads, 1 write group, 40 write tasks ==> 56 nodes)
Increase walltime to 4:10 for gfsfcst task
commit 9d85b0f6d50e8ed142557fcb87c89d2e5d63c617
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 23 19:08:52 2024 +0000
Added default location for PTMP/STMP in workflow/hosts/hera.yaml
Added GSL XML template for hera
commit 1cf317d327fae78c5469712c9e5a6aa1ffa4b23b
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Wed Jan 17 22:33:13 2024 +0000
Add sjet partition
Make syntax consistent in "if" statements in config.resources
commit 2755e203751f50113849b06769173285e093290b
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Wed Jan 17 22:32:26 2024 +0000
Update configuration files for GSL
- create Hera and Jet versions of config.base.emc.dyn
- correct typo in config.fcst
- create different versions of config.ufs;
default is 12x12, 2 threads, 1 write group/40 write tasks (56 nodes)
commit 3c0c126a376af31866a93aef4cdd0b4145150c58
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 17:32:25 2024 +0000
Add script for remapping 1/4 degree grib2 grids to other domains
commit f217d4ed9a500e9a1bdcc17548729d972a1763ac
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 16:46:25 2024 +0000
Update link script for ufs_utils.fd
commit 5b21b31900955013b4e8106d3ae906b9da93b361
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 16:45:25 2024 +0000
Add GSL archive scripts for initial conditions
commit abb88baf9dd536a3b2ea1e24eaa99cbfe85af799
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 16:42:17 2024 +0000
Move configuration files for getic and init from jobs/rocoto to parm/config/gfs
commit 45b235180719ab79d2514f0317207fbebfb8aedd
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sun Jan 14 03:21:15 2024 +0000
Add suite definition file for v17p8_ugwpv1_c3 to sorc/ufs_model.fd_gsl
commit 147b1fce99254dcb602c333cc559feaa9a396e81
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sun Jan 14 01:57:22 2024 +0000
Add getic and init tasks to workflow to create initial conditions in realtime
commit 4e4e50803d95566e1c7967cf4cfa575391d77f25
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Fri Jan 12 00:44:59 2024 +0000
Change default HPSS_PROJECT to fim
Change restart_interval_gfs to -1 so no files are written ro RERUN_RESTART directory
commit 791d7a27c6b12f07d9c12ce491338e3da59eb1d8
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 11 23:34:36 2024 +0000
Add namelist parameter, nord_tr, for GSL suites
commit c4a41de7ebcda2f80ce69ac94bd2b3a6f5d04ed5
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 11 23:31:22 2024 +0000
Add changes for running v17p8_mynn
- new field table, field_table_thompson_aero_tke_progsigma
- updated namelist parameters in config.fcst
commit 982a1f02e3b880be43f4ae8a3f0ffbb34c056aea
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:26:22 2024 +0000
Add experiment setup script for p8_ugwpv1
commit c5a3697d22fdbb02bb80ddffee2629dddc10c702
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:19:13 2024 +0000
Add memory report to srun command in env/HERA.env
commit ece7e516ca65ec0240899e7d84321310a6887595
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:13:42 2024 +0000
Updated GSL-specific files under ufs_utils.fd_gsl
commit 1b153fc95b93a16eb40b791be7322100fde4a3d4
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 01:52:56 2024 +0000
Create new branch, gsl_ufs_dev, from dev_02jan24_9d901db
Add initial GSL modifications
- changes to workflow files
* GSL paths, projects, entities
- new FV3_GFS_v17_p8_ugwpv1_mynn suite definition file (SDF)
- updated namelist parameters in ush/parsing_namelists_FV3.sh
- create new GSL directories: ufs_model.fd_gsl and ufs_utils.fd_gsl
* new SDFs, add instantaneous flux variables to grib2 configuration files
* add Thompson tracers to initial conditions
- new sync script: rsync_gsl.sh
- new job files: getic.sh, makeinit_link.sh
- modify build_ufs.sh to include MYNN SDF
commit 9d901dbbff4d41586580316bdc094d24760119e6
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Jan 2 10:30:33 2024 -0700
Stop Gempak pgrb2 spec from modifying $DATA (#2147)
This PR addresses issue #1224. The following is accomplished:
- Instances where `DATA` is modified, corrections are made to use a locally defined variable such that `DATA` is no longer modified at run-time;
- Shell linter exceptions are addressed accordingly;
- The respective GEMPAK tasks is added to the Rocoto mesh.
Resolves #1224
commit 31ad23527802f7d07171132cc620f7135c4d8cba
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Jan 2 10:27:30 2024 -0700
Reorganize NPOESS scripts (#2166)
This PR addresses issue #1226. The following is accomplished:
- Using the GEMPAK j-job script `JGFS_ATMOS_GEMPAK_PGRB2_SPEC`, the structure
of `JGFS_ATMOS_PGRB2_SPEC_NPOESS` is updated;
- Environment variables specific to the script `exgfs_atmos_grib2_special_npoess.sh`
are moved accordingly; this specifically applies to the environment variable `FHOUR`,
`SHOUR`, `FHINC`, `SLEEP_TIME`, and `SLEEP_INT`;
- The `SLEEP_TIME` and `SLEEP_INT` parameters can now be defined at the top-level
(if necessary);
- Restart file checks are move to `exgfs_atmos_grib2_special_npoess.sh`; however,
this may not be necessary (see `TODO` note within draft PR.
Resolves #1226
commit 22bd82fa93b49e5ce98eb3f69123956dd5018049
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Jan 2 11:55:03 2024 -0500
Orog fix file reorg and fix directory variable standardization (#2181)
This PR makes updates to use the newly reorganized `orog/20231027`
fix file version and standardizes the fix file directory variables.
Changes:
1. Update UFS_UTILS hash to ce385ce
2. Update fix file version file to use new orog timestamp: `orog_ver=20231027`
3. Add ".mx$(OCNRES)" to `oro_data` filenames in scripts
4. Remove ".mx$(ocn_res)_frac" from the directory names for atmosphere
resolutions under the `/orog` folder
5. Adds fix file directory variables to `config.base`, many of which are pulled
up out of lower scripts; introduce `FIXcpl`
6. Renamed/replaced the following fix file directory variables:
- `FV3JEDI_FIX` --> `FIXgdas`
- `FIXfv3`, `FIX_orog` and `OROFIX` --> `FIXorog`
- `FIX_ugwd` and `OROFIX_ugwd` --> `FIXugwd`
- `FIX_am`, `FIXgsm`, `FIXSYND` --> `FIXam`
- `FIX_lut` --> `FIXlut`
- `FIX_aer` --> `FIXaer`
- `FIX_SFC` --> `FIXsfc`
- `FIX_DIR` --> `FIXgfs`
- `RTMFIX` and `FIXCRTM` --> `CRTM_FIX` (is `CRTM_FIX` in crtm module,
so not using `FIXcrtm`)
7. Correct the defaults for `FIXwave` in wave JJOB scripts
8. Update variable names in `*fixed_files.yaml` files, as well as update naming
convention for `oro_data` files
Resolves #1984
Resolves #1981
Resolves #2175
commit 03d03bf53b43914a55c384cb33eb06f6a9a443a6
Author: Andrew Collard <40322596+ADCollard@users.noreply.github.com>
Date: Tue Jan 2 11:53:44 2024 -0500
Remove HIRS from GSI processing (#2183)
With the update to CRTM 2.4.0.1, an issue with versioning of CRTM HIRS
files has been exposed. This is documented in JCSDA/crtm#42.
As HIRS radiances are no longer used in the GSI, these data should be removed
from processing until a suitable update to CRTM is available.
Resolves #2182
commit a3c50998d35525a39a66d5592fbf327ab3569e8b
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Fri Dec 22 18:07:48 2023 -0500
Update ufs-weather-model version (#2186)
* update model to latest version which includes needed bugfixes for HR3
commit 774c7302e618370ef578bec3ccabc70486d6da1b
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Fri Dec 22 11:34:53 2023 -0500
Fix analysis post processing's handling of 0-padded negative integers (#2187)
This screens for the analysis 'forecast' hour (-001) and handles the '-' and circumvents octal issues.
commit d1251360325faf75af9df0608557fcd10202a883
Author: Barry Baker <bbakernoaa@users.noreply.github.com>
Date: Thu Dec 21 11:23:48 2023 -0500
Fix for restoring cycling aerosols in fo-mode post COM refactor (#2179)
- Update to COM reorg aerosol initialization job
- Address bug in joining paths for data dependency in this job
---------
Co-authored-by: Rahul Mahajan <aerorahul@users.noreply.github.com>
commit e55a05980709288d902ad1bd894164bfa5a18a65
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Dec 20 22:14:01 2023 -0500
Stop calling ufs-utils link script (#2172)
The `link_workflow.sh` script was calling the ufs_utils version of the
same. That step is only necessary if a user is going to run one of the
stand-alone ufs-utils, which is rare.
commit ef3e5ad7c63be1644c82333c95853c3caf2d8995
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Dec 19 22:02:55 2023 -0500
Fix handling of excluded hosts list (#2170)
This PR fixes the issue with `create_experment.py` so that the yaml configuration
file can have a string of list of strings when specifying the host name to exclude
from the CI tests.
commit ea74a5719efc8f0fe631c5ff93426a4299a614f3
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Tue Dec 19 16:21:41 2023 -0500
Add COMOUT_OBS to marine obs prep (#2173)
Adds `COMOUT_OBS` (defined from `COM_OBS_TMPL`) to marine obs prep task to properly handle marine obs prep files. Used to keep obs after IODA conversion, QC, and other prep.
Towards resolving NOAA-EMC/GDASApp#815
commit c2500feace0bb7c04ce67a90dd3182120ee67b2e
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Tue Dec 19 14:55:20 2023 -0500
Return failed status if a build fails. (#2171)
If any of the builds fail, this makes build_all.sh return the sum of the error codes encountered.
Fixes #2168
commit 76fdd81cd84ed812181996a102379d8d964ba27a
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 19 13:24:34 2023 -0500
Update index.rst for new GFSv16.3.12 in ops (#2169)
Refs #2096
commit a81da33e8fe7541a36f68e7a4f14a384cadd36c8
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 19 10:22:21 2023 -0500
Set place=shared for shared jobs on WCOSS2 (develop) (#2156)
Set job as shared when not exclusive on WCOSS2
WCOSS2 defaults to exclusive when it is not specified as
either exclusive (place=exclhost) or shared (place=shared).
Now set shared when job should be shared.
Refs #2135
commit 89aea972f7964dac3f515e8070d7c534812c5fb4
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Dec 15 16:31:06 2023 -0500
Update gfs-utils version for Hercules (#2163)
An update of gfs-utils was misssing from the previous PR that added
initial Hercules support (#2128).
Also includes gfs-utils update for new marine post.
commit 9505cb4abc6ca2643a8ab254d14ca2000747fa44
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Thu Dec 14 16:15:31 2023 -0500
CI Updates to support Hercules (#2155)
If merged, this PR will update the CI scripts so they will run on Hercules for forecast only
NOTE: This is a stop gap to issue #2131 until its block on #1588 is removed.
Resolves #2154
commit c5ca82f04a2efae78389dec1c46b94ef4fb5bbe5
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Thu Dec 14 16:05:33 2023 -0500
Correct fbwind (#2161)
commit f3f3e05e6325e6c2e8ddab186f1ed2f985fec49a
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Thu Dec 14 12:06:23 2023 -0500
Add MOS jobs to rocoto mesh (#2148)
Create separate jobs for GFS MOS - extracted from now-retired vrfy job
Refs #2068
commit bb6151aa50c27253cb9b8f0a6601ddd58526b8b3
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Dec 14 05:38:29 2023 -0500
Replace checkout script with submodules (#2142)
Replaces the checkout script with git submodules. This change brings workflow in
line with other repos and git standards.
Due to these changes, the build system is updated slightly. First, the options that
were formerly used with `checkout.sh` to reduce unneeded builds (`-g` for GSI
and `-u` for UFSDA) are moved to `build_all.sh` instead. This is needed since build
all will not be able to key off directories existing or not to determine which com-
ponents to build. Second, the partial build system is removed. It was rarely, if ever,
used, and parts of it were already ignored with the previous changes to base builds
off whether directories exist. The manage externals file is also removed since that is
also not being used.
Following these changes, clones/checkout will need to either be recursive, or
`git submodule update` will need to be called separately to make sure components
are properly checked out (non-exhaustive list):
```
## Checkout develop (method 1)
git clone --recursive https://github.com/NOAA-EMC/global-workflow destination
## Checkout develop (method 2)
git clone --jobs 8 https://github.com/NOAA-EMC/global-workflow destination
cd destination
git submodule update --init --recursive --jobs 8
## Checkout existing branch some_branch (method 1)
git clone --recursive --jobs 8 -b some_branch https://github.com/NOAA-EMC/global-workflow destination
## Checkout existing branch some_branch (method 2)
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout --recurse-submodules some_branch
## Checkout existing branch some_branch (method 3)
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout some_branch
git submodule update --init --recursive --jobs 8
## Checkout new branch new_branch
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout -b new_branch
git submodule update --init --recursive --jobs 8
```
The git ignore list had to be updated to use explicit paths as the wildcard paths pick
up the ones that are now submodules.
UFS creates files during the build process that are not in its ignore list, so that sub-
module ignores the "dirty" state to avoid confusing users running `git status`.
CI and documentation are also updated to reflect the changes.
Resolves #2141
commit 1332188ce2409e012ec127d44880e49732f7f379
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Dec 13 09:32:57 2023 -0500
Enable radar reflectivity output (#2143)
Turns on radar reflectivity output from FV3. This eliminates missing values appearing in the grib2 files.
commit 24d898ec0ec0c7fcbda6966988f9a986f528ed14
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Wed Dec 13 09:32:24 2023 -0500
Fix Hercules hostname (#2150)
* Allow lower or upper hostname on hercules.
* Add Hercules to issue template.
commit 2896bb8787698be28ad20f2298589e6e95eaf9fb
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 12 09:13:06 2023 -0500
Fix module load typo (#2145)
Fix typo with loading the crtm module in the UPP hack for WCOSS2
Refs #2144
commit 29d34172a67d976f910e78158ff0337e1ef099ca
Author: Cory Martin <cory.r.martin@noaa.gov>
Date: Thu Dec 7 15:12:05 2023 -0500
Update GDAS hash to most recent stable versions (#2138)
commit 93da9f105502e24f1a1a621f05ea49e1fdfe0102
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Dec 7 10:41:05 2023 -0700
Corrected typo in a gempak job gempakncdcupapgif . (#2137)
commit 3483f550db1ae35a680de49f7485ce5a11902dd9
Author: Cory Martin <cory.r.martin@noaa.gov>
Date: Thu Dec 7 12:34:56 2023 -0500
Add support for FGAT and IAU for aerosol DA (#1940)
commit e2664c011bf5fb03a9b1b37878cad423a1fde6f9
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Thu Dec 7 12:33:46 2023 -0500
Enable forecast-only experiments on Hercules (#2128)
This add forecast-only support for Hercules to the global workflow. Partially satisfies #1588.
Co-authored-by: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
commit a29f751aed05312da3d80d396159bb5a906d6ce4
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Wed Dec 6 13:45:56 2023 -0700
Adds GEMPAK and related jobs to rocoto task mesh (#2127)
commit 1fc8b5bf55581de18e786611c65bc3f84bb0c082
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Tue Dec 5 15:47:52 2023 -0500
Separate offline UPP from interpolated grib2 product generation (#2110)
This PR:
- Replaces the use of `JGLOBAL_ATMOS_POST` with `JGLOBAL_ATMOS_UPP`
and `JGLOBAL_ATMOS_PRODUCTS`.
- Introduces `JGLOBAL_ATMOS_PRODUCTS` that is responsible for creating
grib2 products from the master file produced by UPP (inline from the model,
or offline by running `JGLOBAL_ATMOS_UPP`). Rocoto job `atmos_products.sh`,
ex-script `exglobal_atmos_products.sh` are also added along with a
`config.atmos_products`. Updates are made to the relevant `env` files as well as
`config.resources` to reflect the addition of this job.
- reduces the number of cores needed appropriately for forecast products when
there is no offline UPP necessary.
- renames older `fv3gfs_dwn_nems.sh` to `interp_atmos_master.sh` and
`inter_flux.sh` to `interp_atmos_sflux.sh`
- removes `fv3gfs_downstream_nems.sh` as it is absorbed into
`exglobal_atmos_products.sh`
- removes no longer used scripts for `gfs_post.sh`, `gfs_transfer.sh` (DBN alerts
are absorbed into `exglobal_atmos_products.sh`), `post.sh`,
`JGLOBAL_ATMOS_POST`, `ex${RUN}_atmos_post.sh` scripts.
- Rocoto workflow related scripts are updated to add `atmos_products` as a job.
When `WRITE_DOPOST` is `.false.`, `upp.sh` job to run the UPP offline is also
added. Dependencies have been appropriately applied.
- removes `PGB1F` option that creates 1-degree grib1 products that are no longer
needed in GFSv17.
The hacks from (now deleted) `post.sh` had to be reinstated in `upp.sh` to load the
modules from UPP instead of `load_fv3gfs_modules.sh`.
commit 44186f594aaf5f8feea0eadd4c5c3b59de3a825e
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 5 12:28:08 2023 -0500
Update index.rst for new GFSv16.3.11 version (#2121)
Refs #1356
commit e62a3a73cd22701962b7bf210fdfee37f37a5474
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Dec 5 09:08:12 2023 -0700
Splits AWIPS jobs into seperate tasks (#2094)
This PR addresses issue #1228. The following is accomplished:
- Separate rocoto jobs have been created beneath `jobs/rocoto/`
-- `awips_20sh` and `awips_g2sh`; these jobs replace `awips.sh` which was
calling multiple J-jobs within the respective `awips.sh` scripts;
- New tasks has been added to `workflow/rocoto/tasks.py` for the new
AWIPS scripts;
- The `gfs_cycled` and `gfs_forecast_only` modules beneath
`workflow/rocoto` have been updated accordingly.
Resolves #1228
commit 04d97e9aa7ab84b9754ab670074cfb19d543aa26
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Mon Dec 4 13:38:30 2023 -0500
Consolidate VMINMON and cleanup monitor scripts (#2088)
This PR combines the GDAS and GFS versions of the VMINMON JJOB
and ex-driver scripts into single GLOBAL/global versions. Additionally:
* some further cleanup of the GSI-Monitor scripts is done; variable
settings in ex-driver scripts are moved up to the JJOB level
* the fix symlinks are consolidated into a new `fix/mon` subfolder (formerly
`fix/gdas`) and copies of the gfs monitor fix files under `fix/products` are
removed
Resolves #1925
commit a286a11fdcbc31c8bc6d944890bc56294bc8caf6
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Mon Dec 4 17:48:44 2023 +0000
Robust CI Restarts (#2093)
Improved CI robustness for reverting back to **CI-Ready** from any
given state
New Features:
- Improved `scancel` routine (refactored into bash "subroutine")
- Improved messaging (see below) when ever a user changes state
- Any and all previous build scripts and running experiments are killed as
a result of reset to **Ready**
Resolves #2060
commit 73621e9b20b20f85e8b21e4c1e09ed1d80ecd46f
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Sun Dec 3 11:19:19 2023 -0500
Upgrade to spack-stack/1.5.1 and Intel 2022 on non-production machines (#2084)
Update module files to spack-stack/1.5.1 and compilers to Intel 2022+ on all non-production machines.
commit 6d548b250688861eb20a7e0dc852a0e4ba9e64f4
Author: jiandewang <jiande.wang@noaa.gov>
Date: Thu Nov 30 12:00:21 2023 -0500
Add variable tob in diag_table for ocean model output(#2105)
commit c19810cce252fcdb25fd9960c05b08b5f8d8b1ad
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Wed Nov 29 15:17:36 2023 -0500
Added variables to config.prepoceanobs (#2101)
commit c2d78a61a224678fb804eed19f39d1f07408ae5f
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 29 12:39:08 2023 -0500
Add missing cut to VDATE setting in JGFS_ATMOS_VERIFICATION (#2098)
Refs #2097
commit c1c025f91ddac73aea595cc9fa4dd0bea80575fc
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Nov 29 17:15:10 2023 +0000
Add wave init to GEFS (#2089)
Adds the wave init job to GEFS. Since the output would be the same for
every member, the job is only run once for the control, then links are
created in each of the member directories pointing to that copy.
New ww3_multi and ww3_shell templates for GEFS are copied from the
GFS versions.
The GEFS restart frequency is changed to not be zero, and the comment
about not setting it to zero is copied from the gfs config.base. The restart
interval for the GEFS perturbed members is changed to equal that of the
control.
Also fixes a bug where `RUNwave` was not defined for ensemble forecasts,
and another bug in the GEFS stage_ic dependency.
Resolves #2017
commit 64a2470ce29b7d8d5cb85ebcb4048ff82958f64e
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 29 11:26:34 2023 -0500
Adjust permissions for jobs/JGFS_ATMOS_VERIFICATION (#2095)
Add execute permissions (755)
commit 964b77bc6de67291973c2c70598a1f8cb72501c5
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Nov 28 18:45:51 2023 +0000
Make proper j-job for MET+ (#2090)
Creates a proper j-job for the metp job, moving much of the material
from the `jobs/rocoto` script there (some of it within `jjob_header`).
Also updates the old `COMIN` variable for the COM refactor (although
it does not appear used in the verify scripts currently).
This is a partial step towards restoring/improving metp functionality
and remains untested.
Refs #1575
commit 8c11eeb8556619e8db4e0efb6394ce5a2c1aae0f
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 23 10:31:32 2023 -0700
Adds FBWINDS support to global-workflow (#2082)
This PR addresses issue #1221. The following was accomplished:
- A new Rocoto job is added; `jobs/rocoto/fbwinds.sh`;
- `workflow/applications/gfs_cycled.py` is updated to include the `fbwinds` task;
- `workflow/applications/gfs_forecast_only.py` is updated to include the `fbwinds` task;
- A new function is added to `workflow/rocoto/gfs_tasks.py`, `fbwinds` is added as new GFS (only) task;
- `workflow/rocoto/tasks.py` is updated to include the `fbwinds` task.
Resolves #1221
commit 513db190d21f9ede0724a2cd5606372b1d7605de
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 21 22:52:58 2023 -0700
Adds NPOESS support to global-workflow (#2083)
This PR addresses issue #1225. The following was accomplished:
- A new Rocoto job is added; `jobs/rocoto/npoess.sh`;
- `workflow/applications/gfs_cycled.py` is updated to include the `npoess`
task;
- `workflow/applications/gfs_forecast_only.py` is updated to include the
`npoess` task;
- A new function is added to `workflow/rocoto/gfs_tasks.py`, `npoess` is
added as new GFS (only) task;
- `workflow/rocoto/tasks.py` is updated to include the `npoess` task.
Resolves #1225
commit 62d8e99e77ffe44784f4c61c3f2296c6d1a72413
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 20:25:50 2023 -0500
Retire vrfy job (#2080)
Retires the `vrfy` job from the global-workflow system. All associated
scripts, configs, and references to the job are removed.
Additionally, the switches listed in RTD were updated to reflect new
ones added in other PRs for issue #235.
Resolves #2069
Refs #235
commit ea386abf11ecbacef407388e8d57e71b30148a35
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Nov 17 23:59:46 2023 +0000
Enable different coupled settings for ensemble (#2030)
Adds the ability to turn off some coupled components for the ensemble.
To enable this, many settings are moved out of `config.fcst` and into `config.ufs`
so they are calculated after any overrides of `DO_*` have been made. Some
settings also had to be moved out of `config.base` for the same reason. A
switch to turn on gocart is added to `config.ufs`, but unlike the other switches
this one takes no arguments.
The name of the ufs configure template used is converted from a partial file
name to the full file name.
Resolves #1692
commit fe792c0c9a1c46908cbd18c7e71eb836974cf1de
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 17:19:16 2023 -0500
Add --cpus-per-task to srun commands for Hera and Orion (#2077)
This PR adds the `--cpus-per-task` flag to non-CFP `APRUN`/srun commands
in the env files for Orion and Hera. This is needed as a result of an upgrade
to SLURM on Orion that no longer exported the thread value to the
environment. Issue #1996 was a hotfix to add this flag for the analysis job
that was suddenly running slowly after the SLURM upgrade. A similar SLURM
upgrade was done on Hera but the sysadmins there implemented a
workaround so this issue did not appear there.
This PR adds the `--cpus-per-task` flag for both machines...needed on Orion
and as a safety measure on Hera.
Also included in this PR is a fix to indentations in the
`scripts/exglobal_diag.sh` script that was noticed during work for this PR.
Timing differences were not observed for other jobs after adding this srun
flag. Job timings were of a similar variation between control and test runs.
Any potential additional speedup was not observed. The test runs also
reproduced the control runs with `develop`.
Resolves #2044
commit 42c943be305c297a56b104bb50727938c1ba688f
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 15:41:34 2023 -0500
Adjust modules in post.sh for WCOSS2 (#2079)
On WCOSS2 the grib_util module is named a bit different and
needs the libjpeg module loaded beforehand.
commit cd4e6a1987e7fd71dff06766f540b5d32c8b648d
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Fri Nov 17 11:49:32 2023 -0500
Update ufs-weather-model and remove upp hack (#2071)
Updates the model to the most recent commit of ufs-weather-model. This
should allow for the removal of the UPP hack that was added in PR #2042
This required changing nems.configure -> ufs.configure.
Resolves #1942
commit 5a2d97e142aa4999b122fd5a130c63e59ea9f8e2
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 16 22:15:53 2023 +0000
Fix check for existence of preamble functions (#2066)
A few of the setup scripts were checking for the existence of
functions set by the preamble before calling them so they could
also be used stand-alone. However, the `type` command returns `1`
if the function name does not exist, which will cause the script
to die is `set -e` is on. Now the `type` command fails over to an
empty string.
commit ed2ee7c2b1457b71b271a2c40f0dfa356e0f52f8
Author: WenMeng-NOAA <48260754+WenMeng-NOAA@users.noreply.github.com>
Date: Thu Nov 16 16:38:11 2023 -0500
Update UPP products for GFS v17 (#1973)
Updates of generating GFS V17 UPP products to support HR3:
- Update g2tmpl to 1.0.12
- Add changes to launch cfp on WCOSS2 to generate pgrb2/pgrb2b files
- Changes for generating new products (MERRA2, six winter weather variables,
1km HLCY, SDEN) in pgrb2 files
Resolves #1965
Resolves #1994
commit 635c4719e603538ce7cccf9ea6b31f3f84f20849
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 16 20:35:30 2023 +0000
Fix some rocoto dependencies (#2074)
A few small errors/cleanup in the dependencies, mostly in fcst:
A few small errors/cleanup have crept into the dependencies with recent changes,
mostly in fcst:
- Fixed the offset, as it would yield a string rocoto doesn't recognize when the
interval was 24+ hrs
- Removed the duplicate wave dependency. When `waveprep` is included, it
depends on `waveinit` so there is no need to add a `waveinit` dependency.
- Converted an interval in the archive job that was missed in #2039
Resolves #2075
commit d4c7508260975c6b94fc92fd085f39d4faf3f027
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Wed Nov 15 16:44:03 2023 -0500
Fix missing _PREV in ocean restart file location (#2070)
commit 255616d37505c785bdddd5d3e39e8399110b626e
Author: mdtoyNOAA <73618848+mdtoyNOAA@users.noreply.github.com>
Date: Wed Nov 15 12:02:09 2023 -0700
Update functionality for Prototype HR3 UGWP (#1987)
This PR adds/modifies namelist options and activates new 'ccpp' suite definition
files for the updated Unified Gravity Wave Physics (UGWP) in the ufs-weather-
model recently updated for HR3. The changes to UGWP are the use of the GSL
drag suite for orographic gravity wave drag (GWD) and blocking, as well as the
new UGWP Version 1 non-stationary GWD. See
ufs-community/ufs-weather-model#1923 for details.
Resolves #1986
commit be9085e62aae147e3c74602e2f82a99b374fc783
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Wed Nov 15 13:48:58 2023 -0500
Save the required CICE history for the sea-ice DA (#2062)
The hist_avg setting of CICE was changed to be an array.
commit 85f1f5131ffd70061231304ea477bde0559eb67b
Author: Guoqing Ge <guoqing.ge@noaa.gov>
Date: Wed Nov 15 11:47:21 2023 -0700
Use assim_freq to configure "offset" in dependencies (#2039)
Use the assim_freq from config.base to configure "offset" in dependencies
instead of hard-coding them.
Resolves #2038
commit 4e3d82ba3a1fa7cdd4443bcd4cf83b2f8835137c
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 15 13:39:14 2023 -0500
Resolve ENKF archive script bugs (#2065)
Fix two bugs in the exgdas_enkf_earc.sh script:
1) Replace ARCH_LIST with DATA to match changes done in PR #2000
and update path to generated archive list files.
2) Add status check and exit after script attempts to make tarball on HPSS.
Refs #2064
commit 42d7f2f0c48fab898b764e09cfbbd7a9fabbae08
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Nov 14 17:54:29 2023 -0500
Separate tracker and genesis jobs from vrfy job (#2058)
This PR creates new individual jobs for the tracker and genesis jobs that are being
pulled out of the `vrfy` job (issue #235). The `tracker` and `genesis` jobs will be on
by default while the `genesis_fsu` job will be off by default. This mimics the current
settings in the `vrfy` job.
No enhancements or upgrades are made to the jobs themselves in this PR, only to
separate them from the `vrfy` job. However, one change compared to how they
currently run in the `vrfy` job is to no longer run the `tracker` in the gdas suite. This
mimics how the `ens_tracker` package is run in operations (gfs only).
Changes in this PR:
1. Create rocoto job scripts for tracker/genesis jobs.
2. Create configs for tracker/genesis jobs, as well as `config.tropcy` for shared
settings.
3. Add tracker/genesis jobs to `config.resources`; use resources from the ecf scripts
for `ens_tracker` jobs in operations
4. Add tracker/genesis jobs to rocoto setup for both cycled and forecast-only
modes.
5. Update arguments for `jjob_header.sh` script in tracker/genesis JJOB scripts to use
specific job names and configs instead of vrfy.
6. Rename `tracker_ver` to `ens_tracker_ver` in version files to mimic variable within
tracker package.
7. Rename and move tracker/genesis switches to `config.base`.
8. Remove tracker/genesis jobs from `vrfy` job (`jobs/rocoto/vrfy` and `config.vrfy`).
9. Reduce vrfy job resources to accommodate tasks having been removed.
Refs #235
Resolves #1988
Resolves #2048
commit 0a0d6984e094d2a551d5d8331102142e7db13fc2
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Tue Nov 14 14:08:26 2023 -0500
Enable warm starting of the model for forecast-only mode (#2031)
This PR:
- adds an option to warm|cold start the ufs-weather-model when setting up an experiment for GFS/GEFS
- adds the capability to stage FV3 restarts when the atmosphere is warm started from FV3 restarts. This would be used in the GEFS free-forecast for part of the reforecast capability.
- If a coupled model is warm started for the atmosphere, also check if mediator restarts are present. If so, stage mediator restarts to allow restarting the coupled model.
Fixes #2016
commit 2cd6a589305a9ac9d3a9a0d2136e66e42f09d3bf
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 14 12:05:20 2023 -0700
Moves UFS WM configuration files to `COM_CONF` (#2054)
The UFS weather-model (WM) files are place in the COM_CONF path rather than the respective component model COM history paths.
Resolves #2015
commit 6f1693081662f241fafc930b1afc88125f7f5aff
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Nov 14 11:15:02 2023 -0500
Refine fit2obs job in rocoto mesh (#2047)
This PR adjusts the `fit2obs` job in the rocoto mesh to better define when it exists
and how the archive job dependencies accommodate it not being in the first half
cycle.
Changes in PR:
1. Remove the `fit2obs` job from the first half cycle `cycledef`.
2. Adjust the archive job dependencies to now include the `fit2obs` job in the new
logic check added in PR #1983. The `gdasarch` job in the first half cycle will check if
`gdasfit2obs` is complete OR no prior cycle exists. Also cleaned up this new logic
check block some to make it a tad simpler.
3. Also, fix the addition of the `fit2obs` config to the config list in setup scripts. Now
tied to whether `fit2obs` job is on instead of always adding the config to the list.
Resolves #2043
commit 5730a71fa5d311e49d9bb11528b500f27f33d69d
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 14 09:13:11 2023 -0700
Add `waveinit` and `waveprep` to half-cycle. (#2037)
This PR addresses issue #1444. The `waveinit` and `waveprep` tasks have been added to
the GDAS have cycle. The downstream dependencies for the respective GFS and GDAS
forecast tasks have been removed.
Resolves #1444
commit 28d2e93c3857de95b0309a089cd7dac736ccaded
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Nov 14 16:11:47 2023 +0000
Update wave IC source for C384 (#2055)
The default wave grid for C384 has changed since P8, so a single wave
IC on the new grid is available under a different IC name.
commit 81dd2d9855091315611106a5afbdaeaa15e6e4ae
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 9 17:19:57 2023 +0000
Fix analysis and post on Orion (#2046)
Fixes a couple things to get workflow to work on Orion again:
First, while #2042 allowed post to be built, the `upp.x` executable would fail due
to a missing library. Now post jobs (temporarily) uses the UPP modules (plus
others needed for runtime) instead of the normal workflow runtime module. This
should actually fix #2041. This hack can likely be removed once we move to
spack-stack.
Second, the launcher command for the analysis jobs on Orion are updated to
specify the number of CPUs per task. This was necessary as a recent slurm update
on Orion discontinued reading that value from the scheduler. Other jobs will be
handled later (see #2044).
Additionally, a change is made to `module-setup.sh` that will eliminate the
annoyance of `gw_setup.sh` breaking tab completion because undefined variable
checking was turned on for the script but not back off.
Resolves #1996
Resolves #2041
Refs #2044
commit 13d06ded4155cba2d08ef2a2cd553024c5abe29d
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Nov 8 18:25:47 2023 +0000
Hack UPP version (#2042)
The stack UPP was using on Orion was recently deleted, leaving us
unable to build the UFS verison of UPP there. UPP has an updated
version using spack-stack that works, so the checkout script is
modified to check out that version of UPP after UFS has been
checked out.
This temporary hack can be removed once we move to a UFS version
that advances the UPP version to or beyond 78f369b.
Resolves #2041
commit 20f6eceb8ff58f84174a27eb849c1d74566a3e03
Author: jiandewang <jiande.wang@noaa.gov>
Date: Wed Nov 8 11:14:55 2023 -0500
Add basic C1152 settings (#2020)
Adding C1152 setting in host.yaml, config.base and config.stage_ic so that can run C1152 S2SW.
Resolves #2019
commit 5183c43bbbd07285869feacb49d8680afe85929a
Author: Barry Baker <bbakernoaa@users.noreply.github.com>
Date: Tue Nov 7 01:14:40 2023 -0500
Update UFS for dust fix and remove nitrates by default (#1989)
This PR updates the `ufs-weather-model` to the latest hash that included the dust fix (PR #1922).
Along with this I removed the nitrates by default in support of the GEFSv13 EP4 and EP5
experiments. Removed unneeded inputs that should help with speed improvements.
commit 34a73cf2ed5afefc776d9cc73b6ebf439122a1bb
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Mon Nov 6 14:00:51 2023 -0500
Reduce gdas builds to 8 #2029 (#2036)
Reduce the default number of build jobs for the GDASApp to 8 from 16.
This is needed for Orion as the build crashes during a linking step. Though not verified, it
appears this may be caused by using too much memory with 16 builds. The issue disappears
when using 8 build jobs.
Resolves #2029
commit 75269e4bb9764b81589efc7d703825b80e74c8f5
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Mon Nov 6 17:34:47 2023 +0000
Streamline CI reporting to PRs (#2026)
Cleaned up the logs for CI PRs sent to the GitHub Messages:
- Eliminates redundant accumulative reporting
- Reports on all created or skipped experiment instantiations in a single message
- Gives one line report once for each experiment completion
- Single final report completion of CI
See some examples in forked [PR 195](https://github.com/TerrenceMcGuinness-NOAA/global-workflow/pull/195)
Resolves #2007
commit 8d55126bb0b27c79c8bee7f72b014abd34950ff9
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Fri Nov 3 17:06:09 2023 -0400
Implement IAU Cycling Type with Marine Data Assimilation Enabled (#1944)
Allows cycling in IAU mode with the S2S UFS model, soca and the GSI.
Most of the work related to making IAU work was done by @JessicaMeixner-NOAA . Thanks @JessicaMeixner-NOAA !
Resolves #1943
Refs #1776
commit 2563806821d4ae3b57120bc61aa0575139a708f0
Author: jiandewang <jiande.wang@noaa.gov>
Date: Fri Nov 3 11:49:37 2023 -0400
Add two ucx modules in load_ufswm_modules.sh to solve C768 and C1152 S2SW job hanging issue on WCOSS2 (#2021)
commit cbdc09711a83493f363a737d1e3e46c48a09719d
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Nov 3 04:09:33 2023 +0000
Fix staging of MOM data (#2028)
During the update to stage_ic, the copying of the additional res_N files for
0p25 was omitted. These are now properly copied.
Resolves #2027
commit bd4c56d99c23c5c41f0bd5f8a980ef99ee160888
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Thu Nov 2 16:09:59 2023 -0400
changed optional script name vars for ocean analysis (#2025)
commit 93bc918cdabee771c182c6f33cc54a20b5bb86c6
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Thu Nov 2 16:01:18 2023 -0400
Create separate GSI monitor jobs and remove from vrfy job (#1983)
This PR will move the GSI monitor tasks from the `vrfy` job into their own separate jobs in
the rocoto mesh. This takes care of part of issue #235.
Changes in this PR:
1. Create new individual GSI monitor jobs in the rocoto mesh to match how it is done in
operations. The new jobs are: `gdasverfozn`, `gdasverfrad`, `gdasvminmon`, and `gfsvminmon`.
The names correspond to the names in operations and the ecf script names. The jobs are only
added to cycled mode, none of the jobs are run in forecast-only mode.
2. Updates to GSI monitor scripts:
* Update `ush/jjob_header.sh` arguments in JJOB scripts to call new individual job names and
configs.
* Introduce `COM_*` variables and use of the `generate_com` utility. This results in the outputs
landing in `COM` subfolders, like occurs in operations, instead of landing in the online archive.
* Some variable cleanup in JJOB and ush scripts, includes cleaning up usage of `DATA` variable
and its removal at the end of the jobs.
* Add missing exit statements to `JGFS_ATMOS_VMINMON` and `JGDAS_ATMOS_VERFRAD`.
3. Create new rocoto job scripts for the new individual GSI monitor jobs.
4. Create new configs for the new individual GSI monitor jobs.
5. Add new individual GSI monitor jobs to resource configuration, using the same resources as
in operations.
6. Move and rename GSI monitor job switches from `config.vrfy` to `config.base`. Also add
switches to setup system. New switches to control each job being added to the rocoto mesh
are: `DO_VERFOZN`, `DO_VERFRAD`, `DO_VMINMON`
7. Add GSI monitor job output to archival job and into resulting HPSS tarballs or local tarballs.
This now matches what is done in operations.
8. Remove the GSI monitor tasks from the rocoto `vrfy` job and associated `config.vrfy`.
Example output locations and files (not showing contents of oznmon/horiz or oznmon/time for
brevity, see archival script for full list of output files):
```
kate.friedman@dlogin09:/lfs/h2/emc/ptmp/kate.friedman/comrot/testmonitor2> ll gdas.20211221/00/products/atmos/*mon
gdas.20211221/00/products/atmos/minmon:
total 112
-rw-r--r-- 1 kate.friedman emc 14030 Oct 25 15:00 2021122100.costs.txt
-rw-r--r-- 1 kate.friedman emc 84932 Oct 25 15:00 2021122100.cost_terms.txt
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 15:00 2021122100.gnorms.ieee_d
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 15:00 2021122100.reduction.ieee_d
-rw-r--r-- 1 kate.friedman emc 80 Oct 25 15:00 gnorm_data.txt
gdas.20211221/00/products/atmos/oznmon:
total 8
drwxr-sr-x 2 kate.friedman emc 4096 Oct 25 15:05 horiz
drwxr-sr-x 2 kate.friedman emc 4096 Oct 25 15:05 time
gdas.20211221/00/products/atmos/radmon:
total 21036
-rw-r--r-- 1 kate.friedman emc 231 Oct 25 15:12 bad_diag.2021122100
-rw-r--r-- 1 kate.friedman emc 9035 Oct 25 15:12 bad_pen.2021122100
-rw-r--r-- 1 kate.friedman emc 1449 Oct 25 15:12 low_count.2021122100
-rw-r--r-- 1 kate.friedman emc 20523403 Oct 25 15:07 radmon_angle.tar.gz
-rw-r--r-- 1 kate.friedman emc 217272 Oct 25 15:08 radmon_bcoef.tar.gz
-rw-r--r-- 1 kate.friedman emc 502151 Oct 25 15:10 radmon_bcor.tar.gz
-rw-r--r-- 1 kate.friedman emc 264480 Oct 25 15:12 radmon_time.tar.gz
-rw-r--r-- 1 kate.friedman emc 684 Oct 25 15:12 warning.2021122100
kate.friedman@dlogin09:/lfs/h2/emc/ptmp/kate.friedman/comrot/testmonitor2> ll gfs.20211221/00/products/atmos/minmon/
total 88
-rw-r--r-- 1 kate.friedman emc 10530 Oct 25 14:55 2021122100.costs.txt
-rw-r--r-- 1 kate.friedman emc 63882 Oct 25 14:55 2021122100.cost_terms.txt
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 14:55 2021122100.gnorms.ieee_d
-rw-r--r-- 1 kate.friedman emc 608 Oct 25 14:55 2021122100.reduction.ieee_d
-rw-r--r-- 1 kate.friedman emc 80 Oct 25 14:55 gnorm_data.txt
```
Lingering work and considerations:
1. Issue #1925
2. Consider not hardcoding the list of types in archival and perhaps tie it to something reliable or
configurable (maybe into `config.verfozn`?):
`subtyplist="gome_metop-b omi_aura ompslp_npp ompsnp_n20 ompsnp_npp ompstc8_n20 ompstc8_npp sbuv2_n19"`
Resolves #1908
commit 31b05a99b77d0f6eaa8b116485a41a43867d20e1
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 2 12:23:32 2023 -0600
Move analysis post to new stand-alone task (#1979)
This PR addresses issue #1130. A new task `postanl.sh` has been added such that the
`anl` post-processing is not it's own task within the Rocoto workflow. This change
prevents the GDAS experiment from breaking due to failures caused by the `anl` not
being available for the first cycle.
Resolves #1130
commit 247cdf8c7e10e6c98f782799fc51c069b6474e70
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 2 11:18:53 2023 -0600
Corrects missing local variable reference (#2023)
Fixes missing `$` in variable reference in archive job.
Resolves #2022
commit 241742b246da1794646b68e41c3d6fe00b95dd07
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Wed Nov 1 14:19:55 2023 -0400
Updates to prep ocean obs task (#1870)
commit 77be0ec6a3117b9f7e71a19c69ac64c09b521ecd
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Wed Nov 1 12:09:33 2023 -0600
No longer write archive lists COM (#2000)
Changes the respective `.txt` files used for the HPSS archive to the `DATA` path. Each
defined text file has been updated to explicitly write to `DATA` rather than `COM` such
that the files are deleted rather than being archived.
Resolves #760
commit 517b92f9c20c9e44abba3183325e35a95a7334a5
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Tue Oct 31 16:33:11 2023 -0400
Parallelize the build scripts (#1998)
Optimized/parallelized build scripts.
A few notes:
1) The default number of build jobs is 20, but one could argue for using 40. When researching
this, I looked up what the SRW is compiling with. That system uses 40 cores, which seems a
little excessive, but on testing the global workflow, the actual number of cores being used at
any given time rarely exceeds 16 when running with 40 cores. This is because the builds tend to
use multiple threads in the beginning when compiling low-level modules while the higher-level
modules are more or less serial AND because the GDASApp takes several minutes to initialize
all of its subrepositories by which time the smaller builds are complete.
2) I also updated checkout.sh so that all checkouts are simultaneous. The CPU load for
`git submodule` is quite low, so running 16 instead of 8 jobs at once is not much more expensive.
3) To make this work, I had to add `-j` options to most of the build scripts. The only exception is
build_upp, for which the build script within the UPP is hard coded to use 6 cores.
4) I fixed a few small bugs in the build scripts along the way.
5) Lastly, this reduce the total build time from ~2.5 hours for the entire system (including GDAS
and GSI in the same build) to ~40 minutes when running with `-j 40`.
Resolves #1978
commit 67c050c201f92e855d09211e41a5f51ee1cb5230
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Oct 31 19:00:47 2023 +0000
Add missing export for rCDUMP in stage_ic (#2009)
rCDUMP is needed by the exscript but was never exported by the jjob.
commit 872068cb5ea78b311f7a77e97ee1428ae027cb61
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Oct 31 14:37:55 2023 +0000
Add output error log to user for create_experiment.py on fail in CI (#1974)
Small changes to driver CI bash scripts to recapture error log from `create_experment.py` logger
Fixes #1939
commit b2e4a2e9d269842acbb1b37dd563ee5dee2adf0f
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Oct 31 13:57:02 2023 +0000
Allow CI case to exclude running on certain platforms (#2001)
commit 7cc137116f1619bf1e5a12eaacb98d17da97c223
Author: Jeff Whitaker <jswhit@fastmail.fm>
Date: Tue Oct 31 07:54:24 2023 -0600
Add initial C96/1 deg coupled model support (#1991)
commit 7086ddc4bece6fb2a8c1c2e6090800d4293e410e
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Mon Oct 30 19:58:43 2023 -0400
Add ocean analysis files to HPSS archiving task (#1985)
This PR adds the files under `analysis/ocean` (except those in `bump` and `vrfy`) to the
HPSS archiving job, in `gdasocean_analysis.tar`, which were previously not archived.
Resolves NOAA-EMC/GDASApp/issues/693
commit eabc82ad30c118645c0e6e216162d823882a8139
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Mon Oct 30 10:31:27 2023 -0400
Make the early cycle work with the coupled UFS configured as S2S (#1954)
commit aff6ca7ae559e424dae128d6cfd5da4a4e3049e7
Author: Anil Kumar <108816337+AnilKumar-NOAA@users.noreply.github.com>
Date: Fri Oct 27 14:11:55 2023 -0400
GEFS Staging in exglobal_stage_ic (#1892)
Adjusts source paths for forecast-only ICs in support of extension to ensembles.
New paths omit the resolution (that is captured by the IC id name) and allow for
a member level.
Directories with the reorganized ICs have been added to the three tier-1 machines
under glopara space.
Building on this, also adds capability to stage GEFS ICs.
Resolves #911
commit 77c1ff2bfa26b341b01f41e50ee0ecb31cc4f661
Author: RussTreadon-NOAA <26926959+RussTreadon-NOAA@users.noreply.github.com>
Date: Thu Oct 26 23:44:27 2023 -0400
Update GDASApp hash (#1975)
Update GDASApp hash to bring recent UFSDA development into g-w.
Resolves #1972
commit 962368884991670d3a1e…
kayeekayee
added a commit
to kayeekayee/global-workflow
that referenced
this pull request
Mar 16, 2024
12Jan24 global-workflow
UFS: 29Jan24, 625ac02
FV3: 29Jan24, bd38c56
UPP: 07Nov23, 78f369b
UFS_UTILS: 22Dev23, ce385ce
update pointers for ufs_model and ufs_utils
add GSL C3_MYNN xml suite
Change dt_inner=75 for any configuration running aerosol-aware Thompson (ltaerosol=.true.)
Squashed commit of the following:
commit 25c026ef03a8d8c0db0b7368d2836f0b2e866eae
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Feb 29 20:35:11 2024 +0000
update ufs_model pointer
commit a28617a951c46b765aa996bfe4d28b554ec4e0a4
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Feb 22 06:16:26 2024 +0000
removed unneeded gsl directories
commit 6fb4f90e8572e98c977a1d2ab385f033111f3ea7
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Feb 22 06:08:13 2024 +0000
update ufs_utils.fd pointer
commit 9264f0c09239d046c5cd862d807e9b82f51dc3bd
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Wed Feb 21 19:33:26 2024 +0000
update .gitmodules file
commit f8edfa966147506f2c207728039e3a736cb95415
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Wed Feb 21 19:30:47 2024 +0000
update pointer to ufs_utils.fd
commit 5e0d2ab02d58e6a7a40db55a149a93008b28aa8b
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Wed Feb 21 19:25:52 2024 +0000
update pointer to ufs_model.fd
commit ebc9e1d02987a1c6aa8cabedf2323642748fab3c
Merge: e7a81511 50cb1e6f
Author: Janet Derrico <143837053+jderrico-noaa@users.noreply.github.com>
Date: Thu Feb 15 13:40:33 2024 -0700
Merge pull request #40 from kayeekayee/gsl_ufs_dev
Merge to 2024 Jan 12 NOAA-EMC/develop and update to 2024 Jan 29 UFS
commit 50cb1e6f0c661e4c6e2ef0be4527cce58379b2c9
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Thu Feb 15 20:30:34 2024 +0000
Add pygraf workflow.
commit 38b726125d49cff6cae4c0e5fff2438fc33143c5
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Wed Feb 14 17:43:15 2024 +0000
Add double quote for the arguments when calling setup_expt.py.
commit 053f2025fb0b0679c7d4f84958973c1534ec050c
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 23:57:06 2024 +0000
more fix.
commit 6f80ea2edc5444e275a79b371d02b6e98e963662
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 23:50:01 2024 +0000
more bug fix.
commit 56e283f1f666a38a4a3b30e1528e96eeb5c622e7
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 23:40:02 2024 +0000
Minor bug fix.
commit 2dcfed06ff6789eb77cf92e22b80f5475923fafc
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 23:19:03 2024 +0000
Update parameter for c3 case
Add c3 and mynn template
commit cc46b19ccc7cdb54878340eff79dda9e747abdf7
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 20:51:23 2024 +0000
Update INFO.
Add c3 SDF in the build.
commit a444ed48a23f24724853036e522b4437bf412c59
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 18:42:33 2024 +0000
Update to UFS 2024 Jan 29 version.
commit 88595707c7521cdce37ae1cf78720a7827242b24
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 18:16:46 2024 +0000
Minor bug fix.
commit baa0e9f10b132098d5134efaad712a51ebc26b83
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 17:59:27 2024 +0000
Update parameters for setup_expt.py in p8_ugwpv1.sh to resdetatmos and comroot.
commit 5875f06903f82a47fafb05f89f840e3b099d18d8
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 17:51:11 2024 +0000
Remove old gsl SDFs.
Remove 'rrtmg_lw_pre' from C3 and MYNN SDFs.
commit 9e0d1342f4e1edce96c9b2baeec55c2cffb964cd
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Thu Feb 8 22:14:01 2024 +0000
Merge to 2024 Jan 12 NOAA-EMC/develop.
Squashed commit of the following:
commit c59047614c29f6ec15a4d4a6fa1855929287debd
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Fri Jan 12 19:21:02 2024 -0500
Update hash to ufs-weather-model. The noahmptable.tbl was reorganized, so update link_workflow.sh to use the same one used in UFSWM RT (#2219)
commit c041968e165c07da785376f1441374687b55d6cc
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Jan 12 12:09:35 2024 -0500
Add ocean resolution to setup_expt invocation and retire/reduce COMROT/ROTDIR usage (#2214)
Two series of updates:
1) Update setup scripts to now allow users to provide ocean resolution
2) Housekeeping to retire the `COMROT` variable, replacing it with other variables
as needed, and reduce the `ROTDIR` variable usage.
Both updates change options for the workflow setup API.
Refs #2061
commit 997f97816493d9ed0242e169b6dcf84e5c9338d6
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Fri Jan 12 10:46:36 2024 -0500
Allow use of ocean obs prep in WCDA cycling and remove R2D2 (#2215)
Enables use of ocean obs prep task in WCDA cycling and removes R2D2 from same.
Runs task gdasprepoceanobs before gdasocnanalprep -- obtains ocean data nc4 files from DMPDIR, processes them into IODA format and copies them to COM_OBS.
Replaces the current R2D2 processing.
commit 12a5bb192ab6282d44c008c06dc14947abd37249
Merge: 4cb58020 6492c2da
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Fri Jan 12 09:26:27 2024 -0500
Merge pull request #2217 from DavidHuber-NOAA/update/versions
Update and clean up version and module files
commit 6492c2da5f49bd31575d0bef5278c9a7f8ba3412
Author: David Huber <david.huber@noaa.gov>
Date: Thu Jan 11 11:49:08 2024 -0600
Update orion module/version files for met/metplus #2123
commit 94c9937f0bff380b0ebd6acdcfd2509e1ae99389
Author: DavidHuber <david.huber@noaa.gov>
Date: Thu Jan 11 17:42:53 2024 +0000
Comment met/metplus out from Hera modulefile. #2123
commit 8c32f8b7d00bba6e3e954f149e6548fb27713a3c
Merge: a65e4c67 4cb58020
Author: David Huber <david.huber@noaa.gov>
Date: Thu Jan 11 11:34:44 2024 -0600
Merge branch 'develop' of github.com:noaa-emc/global-workflow into develop
commit a65e4c675f21dbe72198d263e85e894e62b41e13
Author: David Huber <david.huber@noaa.gov>
Date: Thu Jan 11 11:34:19 2024 -0600
Initial update of version/module files #2123
commit 4cb580201af68c1c0e2ae19faf0727dcbbe43b4d
Author: souopgui <souopgui@users.noreply.github.com>
Date: Wed Jan 10 08:30:22 2024 -0600
Fix OpenMP over-allocation of resources in exglobal_atmos_products.sh when running MPMD tasks (#2212)
Fix OpenMP over-allocation of resources running MPMD tasks
Co-authored-by: Innocent Souopgui <isouopgui@redlineperf.com>
commit b056b531faee6929687cb8a588ffafa1a66426fb
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Mon Jan 8 17:28:05 2024 -0500
Add Hercules as valid machine in CI scripts (#2207)
Few updates to CI scripts to include names for hercules that where missed
the first time.
commit 6574d29a8c26b0695614874c344bccc5182363f4
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Mon Jan 8 17:25:47 2024 -0500
Fix invalid GH action and restart file name (#2210)
Resolves a typo that leads to an invalid workflow yaml and fixes the restart filename in restart detection.
Resolves #2205
commit 69605eac299df381ea9e0e329654487e26380ff5
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Mon Jan 8 17:00:28 2024 -0500
Stop attempting to comment link to RTD for non-PRs (#2209)
Adds a check so comments with a link to documentation are only generated
for PRs.
commit 4e160a895bfb31c281e21557dd86c13954a1a967
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Mon Jan 8 13:10:15 2024 -0500
Enable UPP for GOES processing (#2203)
Wnables the creation of special master grib2 files from UPP for
GOES processing
commit c15875b6dbf685327af9316ee43b3d01f0fc815e
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Mon Jan 8 09:56:06 2024 -0500
Port cycling to Hercules (#2196)
Adds cycled support for Hercules (excluding gsi-monitor).
Partially resolves #1588
GSI monitoring is disabled on Hercules due to missing Perl modules. That will be enabled in a later PR.
commit ef6827dd6abdab2996d1e19f9e0ff5d3071e0fdd
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Mon Jan 8 09:43:12 2024 -0500
Refactor rocoto task XML creation (#2189)
Refactors the rocoto task generation to be recursive.
This will allow nested metatasks to loop over multiple variables, which is needed for GEFS product generation.
As part of this refactor, there is no longer separate arguments to designate metatasks.
Instead, task dicts can include a nested 'task_dict' as well as a 'var_dict' containing the variables to loop over.
The nested task dict can then either have another layer, or be the innermost task.
To accommodate the new recursive nature, some defaults that were previously defined in create_wf_task() had to be pushed down into the function that creates the innermost task.
Also, former keywords have been absorbed by the task dict.
Refs #823
Refs #827
commit 2b81cfac16f103fb29b3aeb9748941787abf7287
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Mon Jan 8 09:41:03 2024 -0500
Update fix versions (#2198)
Updates fix versions for a few components:
- Update cice and mom6 versions to support C96/1p00 marine
- Update wave to change betamax setting for glo_025 waves
Resolves #2004
Resolves #2107
commit e7a81511e37f86e881da020e06b95990b470d952
Merge: af47b77c 75ad3754
Author: Janet Derrico <143837053+jderrico-noaa@users.noreply.github.com>
Date: Thu Feb 1 13:14:02 2024 -0700
Merge pull request #37 from jderrico-noaa/gsl_ufs_dev
Add GSL archive script and correct typos/fixed paths
commit 75ad3754f8bef5411c2570b5e392cd08e95cb6cb
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Feb 1 20:00:52 2024 +0000
adding consistent [[ ]] for if statements
commit 67b99668c82a5fd8c42479b9b1bfe8b0bad0be25
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Feb 1 19:37:47 2024 +0000
Updated HOMEgfs in GSL XML templates
commit 4d3719c086e7907a6eeff03112042d392e0d8c5e
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Feb 1 17:27:39 2024 +0000
Correct syntax errors in GSL scripts
Add new GSL archive script for archiving grib2 and ICs, but no netcdf files
commit 4309dd0b3b2d5625e7e1740d7cd3e39aacd5bc29
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Mon Jan 29 18:05:45 2024 +0000
Add GSL diag tables to parm/ufs/fv3
Update GSL template for hera
Create EMC and GSL versions of files under workflow/rocoto
- tasks.py, workflow_tasks.py
commit af47b77c7ee59a11c798995b4362b57e9096b090
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 02:07:43 2024 +0000
Create GSL version of archive script
commit 529d9f71f97b6e643e76a53bc9871901ae861faf
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 01:37:09 2024 +0000
Create GSL version of tracker.sh
- this is a placeholder with changes from last year's HFIP experiment; will likely need to be updated in the future
commit 8457e12c313bee602265b863129734354b019271
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 01:27:42 2024 +0000
Link config.base.emc.dyn_hera to config.base.emc.dyn
commit 7a05f5bd947944d8c3be828aeef9cc03bf9e073a
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 01:22:54 2024 +0000
Create GSL version of hpssarch_gen.sh
- assume we only run cold starts
- archive only 0p25 grib2 files (no 0p50 opr 1p00)
- assume no pgrb2b or flux files are created so no need to archive to HPSS
commit 98f5d6b16437e2a340bf16f83187e389a53f8bf0
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 00:24:06 2024 +0000
Update workflow directory
- add GSL template for jet (based on last year's experiment)
- create EMC and GSL versions of yaml files under hosts; defaults point to GSL files
commit 38a7e5629ceeb23d399643a021e9a0a88468a07c
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 25 18:40:37 2024 +0000
Update atmos_products configuration file for GSL
- set downset to 1 so pgrb2b files are not created
- set FLXGF to "NO" so interpolated sflux.1p00 files are not created
commit fe8a953658d092ce2b597e14f31678624606fd8a
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 25 17:02:25 2024 +0000
Update nodes for gfsfcst task in GSL template for hera to match default configuration in config.ufs
(12x12, 2 threads, 1 write group, 40 write tasks ==> 56 nodes)
Increase walltime to 4:10 for gfsfcst task
commit 9d85b0f6d50e8ed142557fcb87c89d2e5d63c617
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 23 19:08:52 2024 +0000
Added default location for PTMP/STMP in workflow/hosts/hera.yaml
Added GSL XML template for hera
commit 1cf317d327fae78c5469712c9e5a6aa1ffa4b23b
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Wed Jan 17 22:33:13 2024 +0000
Add sjet partition
Make syntax consistent in "if" statements in config.resources
commit 2755e203751f50113849b06769173285e093290b
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Wed Jan 17 22:32:26 2024 +0000
Update configuration files for GSL
- create Hera and Jet versions of config.base.emc.dyn
- correct typo in config.fcst
- create different versions of config.ufs;
default is 12x12, 2 threads, 1 write group/40 write tasks (56 nodes)
commit 3c0c126a376af31866a93aef4cdd0b4145150c58
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 17:32:25 2024 +0000
Add script for remapping 1/4 degree grib2 grids to other domains
commit f217d4ed9a500e9a1bdcc17548729d972a1763ac
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 16:46:25 2024 +0000
Update link script for ufs_utils.fd
commit 5b21b31900955013b4e8106d3ae906b9da93b361
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 16:45:25 2024 +0000
Add GSL archive scripts for initial conditions
commit abb88baf9dd536a3b2ea1e24eaa99cbfe85af799
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 16:42:17 2024 +0000
Move configuration files for getic and init from jobs/rocoto to parm/config/gfs
commit 45b235180719ab79d2514f0317207fbebfb8aedd
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sun Jan 14 03:21:15 2024 +0000
Add suite definition file for v17p8_ugwpv1_c3 to sorc/ufs_model.fd_gsl
commit 147b1fce99254dcb602c333cc559feaa9a396e81
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sun Jan 14 01:57:22 2024 +0000
Add getic and init tasks to workflow to create initial conditions in realtime
commit 4e4e50803d95566e1c7967cf4cfa575391d77f25
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Fri Jan 12 00:44:59 2024 +0000
Change default HPSS_PROJECT to fim
Change restart_interval_gfs to -1 so no files are written ro RERUN_RESTART directory
commit 791d7a27c6b12f07d9c12ce491338e3da59eb1d8
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 11 23:34:36 2024 +0000
Add namelist parameter, nord_tr, for GSL suites
commit c4a41de7ebcda2f80ce69ac94bd2b3a6f5d04ed5
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 11 23:31:22 2024 +0000
Add changes for running v17p8_mynn
- new field table, field_table_thompson_aero_tke_progsigma
- updated namelist parameters in config.fcst
commit 982a1f02e3b880be43f4ae8a3f0ffbb34c056aea
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:26:22 2024 +0000
Add experiment setup script for p8_ugwpv1
commit c5a3697d22fdbb02bb80ddffee2629dddc10c702
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:19:13 2024 +0000
Add memory report to srun command in env/HERA.env
commit ece7e516ca65ec0240899e7d84321310a6887595
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:13:42 2024 +0000
Updated GSL-specific files under ufs_utils.fd_gsl
commit 1b153fc95b93a16eb40b791be7322100fde4a3d4
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 01:52:56 2024 +0000
Create new branch, gsl_ufs_dev, from dev_02jan24_9d901db
Add initial GSL modifications
- changes to workflow files
* GSL paths, projects, entities
- new FV3_GFS_v17_p8_ugwpv1_mynn suite definition file (SDF)
- updated namelist parameters in ush/parsing_namelists_FV3.sh
- create new GSL directories: ufs_model.fd_gsl and ufs_utils.fd_gsl
* new SDFs, add instantaneous flux variables to grib2 configuration files
* add Thompson tracers to initial conditions
- new sync script: rsync_gsl.sh
- new job files: getic.sh, makeinit_link.sh
- modify build_ufs.sh to include MYNN SDF
commit 9d901dbbff4d41586580316bdc094d24760119e6
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Jan 2 10:30:33 2024 -0700
Stop Gempak pgrb2 spec from modifying $DATA (#2147)
This PR addresses issue #1224. The following is accomplished:
- Instances where `DATA` is modified, corrections are made to use a locally defined variable such that `DATA` is no longer modified at run-time;
- Shell linter exceptions are addressed accordingly;
- The respective GEMPAK tasks is added to the Rocoto mesh.
Resolves #1224
commit 31ad23527802f7d07171132cc620f7135c4d8cba
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Jan 2 10:27:30 2024 -0700
Reorganize NPOESS scripts (#2166)
This PR addresses issue #1226. The following is accomplished:
- Using the GEMPAK j-job script `JGFS_ATMOS_GEMPAK_PGRB2_SPEC`, the structure
of `JGFS_ATMOS_PGRB2_SPEC_NPOESS` is updated;
- Environment variables specific to the script `exgfs_atmos_grib2_special_npoess.sh`
are moved accordingly; this specifically applies to the environment variable `FHOUR`,
`SHOUR`, `FHINC`, `SLEEP_TIME`, and `SLEEP_INT`;
- The `SLEEP_TIME` and `SLEEP_INT` parameters can now be defined at the top-level
(if necessary);
- Restart file checks are move to `exgfs_atmos_grib2_special_npoess.sh`; however,
this may not be necessary (see `TODO` note within draft PR.
Resolves #1226
commit 22bd82fa93b49e5ce98eb3f69123956dd5018049
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Jan 2 11:55:03 2024 -0500
Orog fix file reorg and fix directory variable standardization (#2181)
This PR makes updates to use the newly reorganized `orog/20231027`
fix file version and standardizes the fix file directory variables.
Changes:
1. Update UFS_UTILS hash to ce385ce
2. Update fix file version file to use new orog timestamp: `orog_ver=20231027`
3. Add ".mx$(OCNRES)" to `oro_data` filenames in scripts
4. Remove ".mx$(ocn_res)_frac" from the directory names for atmosphere
resolutions under the `/orog` folder
5. Adds fix file directory variables to `config.base`, many of which are pulled
up out of lower scripts; introduce `FIXcpl`
6. Renamed/replaced the following fix file directory variables:
- `FV3JEDI_FIX` --> `FIXgdas`
- `FIXfv3`, `FIX_orog` and `OROFIX` --> `FIXorog`
- `FIX_ugwd` and `OROFIX_ugwd` --> `FIXugwd`
- `FIX_am`, `FIXgsm`, `FIXSYND` --> `FIXam`
- `FIX_lut` --> `FIXlut`
- `FIX_aer` --> `FIXaer`
- `FIX_SFC` --> `FIXsfc`
- `FIX_DIR` --> `FIXgfs`
- `RTMFIX` and `FIXCRTM` --> `CRTM_FIX` (is `CRTM_FIX` in crtm module,
so not using `FIXcrtm`)
7. Correct the defaults for `FIXwave` in wave JJOB scripts
8. Update variable names in `*fixed_files.yaml` files, as well as update naming
convention for `oro_data` files
Resolves #1984
Resolves #1981
Resolves #2175
commit 03d03bf53b43914a55c384cb33eb06f6a9a443a6
Author: Andrew Collard <40322596+ADCollard@users.noreply.github.com>
Date: Tue Jan 2 11:53:44 2024 -0500
Remove HIRS from GSI processing (#2183)
With the update to CRTM 2.4.0.1, an issue with versioning of CRTM HIRS
files has been exposed. This is documented in JCSDA/crtm#42.
As HIRS radiances are no longer used in the GSI, these data should be removed
from processing until a suitable update to CRTM is available.
Resolves #2182
commit a3c50998d35525a39a66d5592fbf327ab3569e8b
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Fri Dec 22 18:07:48 2023 -0500
Update ufs-weather-model version (#2186)
* update model to latest version which includes needed bugfixes for HR3
commit 774c7302e618370ef578bec3ccabc70486d6da1b
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Fri Dec 22 11:34:53 2023 -0500
Fix analysis post processing's handling of 0-padded negative integers (#2187)
This screens for the analysis 'forecast' hour (-001) and handles the '-' and circumvents octal issues.
commit d1251360325faf75af9df0608557fcd10202a883
Author: Barry Baker <bbakernoaa@users.noreply.github.com>
Date: Thu Dec 21 11:23:48 2023 -0500
Fix for restoring cycling aerosols in fo-mode post COM refactor (#2179)
- Update to COM reorg aerosol initialization job
- Address bug in joining paths for data dependency in this job
---------
Co-authored-by: Rahul Mahajan <aerorahul@users.noreply.github.com>
commit e55a05980709288d902ad1bd894164bfa5a18a65
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Dec 20 22:14:01 2023 -0500
Stop calling ufs-utils link script (#2172)
The `link_workflow.sh` script was calling the ufs_utils version of the
same. That step is only necessary if a user is going to run one of the
stand-alone ufs-utils, which is rare.
commit ef3e5ad7c63be1644c82333c95853c3caf2d8995
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Dec 19 22:02:55 2023 -0500
Fix handling of excluded hosts list (#2170)
This PR fixes the issue with `create_experment.py` so that the yaml configuration
file can have a string of list of strings when specifying the host name to exclude
from the CI tests.
commit ea74a5719efc8f0fe631c5ff93426a4299a614f3
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Tue Dec 19 16:21:41 2023 -0500
Add COMOUT_OBS to marine obs prep (#2173)
Adds `COMOUT_OBS` (defined from `COM_OBS_TMPL`) to marine obs prep task to properly handle marine obs prep files. Used to keep obs after IODA conversion, QC, and other prep.
Towards resolving NOAA-EMC/GDASApp#815
commit c2500feace0bb7c04ce67a90dd3182120ee67b2e
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Tue Dec 19 14:55:20 2023 -0500
Return failed status if a build fails. (#2171)
If any of the builds fail, this makes build_all.sh return the sum of the error codes encountered.
Fixes #2168
commit 76fdd81cd84ed812181996a102379d8d964ba27a
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 19 13:24:34 2023 -0500
Update index.rst for new GFSv16.3.12 in ops (#2169)
Refs #2096
commit a81da33e8fe7541a36f68e7a4f14a384cadd36c8
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 19 10:22:21 2023 -0500
Set place=shared for shared jobs on WCOSS2 (develop) (#2156)
Set job as shared when not exclusive on WCOSS2
WCOSS2 defaults to exclusive when it is not specified as
either exclusive (place=exclhost) or shared (place=shared).
Now set shared when job should be shared.
Refs #2135
commit 89aea972f7964dac3f515e8070d7c534812c5fb4
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Dec 15 16:31:06 2023 -0500
Update gfs-utils version for Hercules (#2163)
An update of gfs-utils was misssing from the previous PR that added
initial Hercules support (#2128).
Also includes gfs-utils update for new marine post.
commit 9505cb4abc6ca2643a8ab254d14ca2000747fa44
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Thu Dec 14 16:15:31 2023 -0500
CI Updates to support Hercules (#2155)
If merged, this PR will update the CI scripts so they will run on Hercules for forecast only
NOTE: This is a stop gap to issue #2131 until its block on #1588 is removed.
Resolves #2154
commit c5ca82f04a2efae78389dec1c46b94ef4fb5bbe5
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Thu Dec 14 16:05:33 2023 -0500
Correct fbwind (#2161)
commit f3f3e05e6325e6c2e8ddab186f1ed2f985fec49a
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Thu Dec 14 12:06:23 2023 -0500
Add MOS jobs to rocoto mesh (#2148)
Create separate jobs for GFS MOS - extracted from now-retired vrfy job
Refs #2068
commit bb6151aa50c27253cb9b8f0a6601ddd58526b8b3
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Dec 14 05:38:29 2023 -0500
Replace checkout script with submodules (#2142)
Replaces the checkout script with git submodules. This change brings workflow in
line with other repos and git standards.
Due to these changes, the build system is updated slightly. First, the options that
were formerly used with `checkout.sh` to reduce unneeded builds (`-g` for GSI
and `-u` for UFSDA) are moved to `build_all.sh` instead. This is needed since build
all will not be able to key off directories existing or not to determine which com-
ponents to build. Second, the partial build system is removed. It was rarely, if ever,
used, and parts of it were already ignored with the previous changes to base builds
off whether directories exist. The manage externals file is also removed since that is
also not being used.
Following these changes, clones/checkout will need to either be recursive, or
`git submodule update` will need to be called separately to make sure components
are properly checked out (non-exhaustive list):
```
## Checkout develop (method 1)
git clone --recursive https://github.com/NOAA-EMC/global-workflow destination
## Checkout develop (method 2)
git clone --jobs 8 https://github.com/NOAA-EMC/global-workflow destination
cd destination
git submodule update --init --recursive --jobs 8
## Checkout existing branch some_branch (method 1)
git clone --recursive --jobs 8 -b some_branch https://github.com/NOAA-EMC/global-workflow destination
## Checkout existing branch some_branch (method 2)
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout --recurse-submodules some_branch
## Checkout existing branch some_branch (method 3)
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout some_branch
git submodule update --init --recursive --jobs 8
## Checkout new branch new_branch
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout -b new_branch
git submodule update --init --recursive --jobs 8
```
The git ignore list had to be updated to use explicit paths as the wildcard paths pick
up the ones that are now submodules.
UFS creates files during the build process that are not in its ignore list, so that sub-
module ignores the "dirty" state to avoid confusing users running `git status`.
CI and documentation are also updated to reflect the changes.
Resolves #2141
commit 1332188ce2409e012ec127d44880e49732f7f379
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Dec 13 09:32:57 2023 -0500
Enable radar reflectivity output (#2143)
Turns on radar reflectivity output from FV3. This eliminates missing values appearing in the grib2 files.
commit 24d898ec0ec0c7fcbda6966988f9a986f528ed14
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Wed Dec 13 09:32:24 2023 -0500
Fix Hercules hostname (#2150)
* Allow lower or upper hostname on hercules.
* Add Hercules to issue template.
commit 2896bb8787698be28ad20f2298589e6e95eaf9fb
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 12 09:13:06 2023 -0500
Fix module load typo (#2145)
Fix typo with loading the crtm module in the UPP hack for WCOSS2
Refs #2144
commit 29d34172a67d976f910e78158ff0337e1ef099ca
Author: Cory Martin <cory.r.martin@noaa.gov>
Date: Thu Dec 7 15:12:05 2023 -0500
Update GDAS hash to most recent stable versions (#2138)
commit 93da9f105502e24f1a1a621f05ea49e1fdfe0102
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Dec 7 10:41:05 2023 -0700
Corrected typo in a gempak job gempakncdcupapgif . (#2137)
commit 3483f550db1ae35a680de49f7485ce5a11902dd9
Author: Cory Martin <cory.r.martin@noaa.gov>
Date: Thu Dec 7 12:34:56 2023 -0500
Add support for FGAT and IAU for aerosol DA (#1940)
commit e2664c011bf5fb03a9b1b37878cad423a1fde6f9
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Thu Dec 7 12:33:46 2023 -0500
Enable forecast-only experiments on Hercules (#2128)
This add forecast-only support for Hercules to the global workflow. Partially satisfies #1588.
Co-authored-by: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
commit a29f751aed05312da3d80d396159bb5a906d6ce4
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Wed Dec 6 13:45:56 2023 -0700
Adds GEMPAK and related jobs to rocoto task mesh (#2127)
commit 1fc8b5bf55581de18e786611c65bc3f84bb0c082
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Tue Dec 5 15:47:52 2023 -0500
Separate offline UPP from interpolated grib2 product generation (#2110)
This PR:
- Replaces the use of `JGLOBAL_ATMOS_POST` with `JGLOBAL_ATMOS_UPP`
and `JGLOBAL_ATMOS_PRODUCTS`.
- Introduces `JGLOBAL_ATMOS_PRODUCTS` that is responsible for creating
grib2 products from the master file produced by UPP (inline from the model,
or offline by running `JGLOBAL_ATMOS_UPP`). Rocoto job `atmos_products.sh`,
ex-script `exglobal_atmos_products.sh` are also added along with a
`config.atmos_products`. Updates are made to the relevant `env` files as well as
`config.resources` to reflect the addition of this job.
- reduces the number of cores needed appropriately for forecast products when
there is no offline UPP necessary.
- renames older `fv3gfs_dwn_nems.sh` to `interp_atmos_master.sh` and
`inter_flux.sh` to `interp_atmos_sflux.sh`
- removes `fv3gfs_downstream_nems.sh` as it is absorbed into
`exglobal_atmos_products.sh`
- removes no longer used scripts for `gfs_post.sh`, `gfs_transfer.sh` (DBN alerts
are absorbed into `exglobal_atmos_products.sh`), `post.sh`,
`JGLOBAL_ATMOS_POST`, `ex${RUN}_atmos_post.sh` scripts.
- Rocoto workflow related scripts are updated to add `atmos_products` as a job.
When `WRITE_DOPOST` is `.false.`, `upp.sh` job to run the UPP offline is also
added. Dependencies have been appropriately applied.
- removes `PGB1F` option that creates 1-degree grib1 products that are no longer
needed in GFSv17.
The hacks from (now deleted) `post.sh` had to be reinstated in `upp.sh` to load the
modules from UPP instead of `load_fv3gfs_modules.sh`.
commit 44186f594aaf5f8feea0eadd4c5c3b59de3a825e
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 5 12:28:08 2023 -0500
Update index.rst for new GFSv16.3.11 version (#2121)
Refs #1356
commit e62a3a73cd22701962b7bf210fdfee37f37a5474
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Dec 5 09:08:12 2023 -0700
Splits AWIPS jobs into seperate tasks (#2094)
This PR addresses issue #1228. The following is accomplished:
- Separate rocoto jobs have been created beneath `jobs/rocoto/`
-- `awips_20sh` and `awips_g2sh`; these jobs replace `awips.sh` which was
calling multiple J-jobs within the respective `awips.sh` scripts;
- New tasks has been added to `workflow/rocoto/tasks.py` for the new
AWIPS scripts;
- The `gfs_cycled` and `gfs_forecast_only` modules beneath
`workflow/rocoto` have been updated accordingly.
Resolves #1228
commit 04d97e9aa7ab84b9754ab670074cfb19d543aa26
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Mon Dec 4 13:38:30 2023 -0500
Consolidate VMINMON and cleanup monitor scripts (#2088)
This PR combines the GDAS and GFS versions of the VMINMON JJOB
and ex-driver scripts into single GLOBAL/global versions. Additionally:
* some further cleanup of the GSI-Monitor scripts is done; variable
settings in ex-driver scripts are moved up to the JJOB level
* the fix symlinks are consolidated into a new `fix/mon` subfolder (formerly
`fix/gdas`) and copies of the gfs monitor fix files under `fix/products` are
removed
Resolves #1925
commit a286a11fdcbc31c8bc6d944890bc56294bc8caf6
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Mon Dec 4 17:48:44 2023 +0000
Robust CI Restarts (#2093)
Improved CI robustness for reverting back to **CI-Ready** from any
given state
New Features:
- Improved `scancel` routine (refactored into bash "subroutine")
- Improved messaging (see below) when ever a user changes state
- Any and all previous build scripts and running experiments are killed as
a result of reset to **Ready**
Resolves #2060
commit 73621e9b20b20f85e8b21e4c1e09ed1d80ecd46f
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Sun Dec 3 11:19:19 2023 -0500
Upgrade to spack-stack/1.5.1 and Intel 2022 on non-production machines (#2084)
Update module files to spack-stack/1.5.1 and compilers to Intel 2022+ on all non-production machines.
commit 6d548b250688861eb20a7e0dc852a0e4ba9e64f4
Author: jiandewang <jiande.wang@noaa.gov>
Date: Thu Nov 30 12:00:21 2023 -0500
Add variable tob in diag_table for ocean model output(#2105)
commit c19810cce252fcdb25fd9960c05b08b5f8d8b1ad
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Wed Nov 29 15:17:36 2023 -0500
Added variables to config.prepoceanobs (#2101)
commit c2d78a61a224678fb804eed19f39d1f07408ae5f
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 29 12:39:08 2023 -0500
Add missing cut to VDATE setting in JGFS_ATMOS_VERIFICATION (#2098)
Refs #2097
commit c1c025f91ddac73aea595cc9fa4dd0bea80575fc
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Nov 29 17:15:10 2023 +0000
Add wave init to GEFS (#2089)
Adds the wave init job to GEFS. Since the output would be the same for
every member, the job is only run once for the control, then links are
created in each of the member directories pointing to that copy.
New ww3_multi and ww3_shell templates for GEFS are copied from the
GFS versions.
The GEFS restart frequency is changed to not be zero, and the comment
about not setting it to zero is copied from the gfs config.base. The restart
interval for the GEFS perturbed members is changed to equal that of the
control.
Also fixes a bug where `RUNwave` was not defined for ensemble forecasts,
and another bug in the GEFS stage_ic dependency.
Resolves #2017
commit 64a2470ce29b7d8d5cb85ebcb4048ff82958f64e
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 29 11:26:34 2023 -0500
Adjust permissions for jobs/JGFS_ATMOS_VERIFICATION (#2095)
Add execute permissions (755)
commit 964b77bc6de67291973c2c70598a1f8cb72501c5
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Nov 28 18:45:51 2023 +0000
Make proper j-job for MET+ (#2090)
Creates a proper j-job for the metp job, moving much of the material
from the `jobs/rocoto` script there (some of it within `jjob_header`).
Also updates the old `COMIN` variable for the COM refactor (although
it does not appear used in the verify scripts currently).
This is a partial step towards restoring/improving metp functionality
and remains untested.
Refs #1575
commit 8c11eeb8556619e8db4e0efb6394ce5a2c1aae0f
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 23 10:31:32 2023 -0700
Adds FBWINDS support to global-workflow (#2082)
This PR addresses issue #1221. The following was accomplished:
- A new Rocoto job is added; `jobs/rocoto/fbwinds.sh`;
- `workflow/applications/gfs_cycled.py` is updated to include the `fbwinds` task;
- `workflow/applications/gfs_forecast_only.py` is updated to include the `fbwinds` task;
- A new function is added to `workflow/rocoto/gfs_tasks.py`, `fbwinds` is added as new GFS (only) task;
- `workflow/rocoto/tasks.py` is updated to include the `fbwinds` task.
Resolves #1221
commit 513db190d21f9ede0724a2cd5606372b1d7605de
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 21 22:52:58 2023 -0700
Adds NPOESS support to global-workflow (#2083)
This PR addresses issue #1225. The following was accomplished:
- A new Rocoto job is added; `jobs/rocoto/npoess.sh`;
- `workflow/applications/gfs_cycled.py` is updated to include the `npoess`
task;
- `workflow/applications/gfs_forecast_only.py` is updated to include the
`npoess` task;
- A new function is added to `workflow/rocoto/gfs_tasks.py`, `npoess` is
added as new GFS (only) task;
- `workflow/rocoto/tasks.py` is updated to include the `npoess` task.
Resolves #1225
commit 62d8e99e77ffe44784f4c61c3f2296c6d1a72413
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 20:25:50 2023 -0500
Retire vrfy job (#2080)
Retires the `vrfy` job from the global-workflow system. All associated
scripts, configs, and references to the job are removed.
Additionally, the switches listed in RTD were updated to reflect new
ones added in other PRs for issue #235.
Resolves #2069
Refs #235
commit ea386abf11ecbacef407388e8d57e71b30148a35
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Nov 17 23:59:46 2023 +0000
Enable different coupled settings for ensemble (#2030)
Adds the ability to turn off some coupled components for the ensemble.
To enable this, many settings are moved out of `config.fcst` and into `config.ufs`
so they are calculated after any overrides of `DO_*` have been made. Some
settings also had to be moved out of `config.base` for the same reason. A
switch to turn on gocart is added to `config.ufs`, but unlike the other switches
this one takes no arguments.
The name of the ufs configure template used is converted from a partial file
name to the full file name.
Resolves #1692
commit fe792c0c9a1c46908cbd18c7e71eb836974cf1de
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 17:19:16 2023 -0500
Add --cpus-per-task to srun commands for Hera and Orion (#2077)
This PR adds the `--cpus-per-task` flag to non-CFP `APRUN`/srun commands
in the env files for Orion and Hera. This is needed as a result of an upgrade
to SLURM on Orion that no longer exported the thread value to the
environment. Issue #1996 was a hotfix to add this flag for the analysis job
that was suddenly running slowly after the SLURM upgrade. A similar SLURM
upgrade was done on Hera but the sysadmins there implemented a
workaround so this issue did not appear there.
This PR adds the `--cpus-per-task` flag for both machines...needed on Orion
and as a safety measure on Hera.
Also included in this PR is a fix to indentations in the
`scripts/exglobal_diag.sh` script that was noticed during work for this PR.
Timing differences were not observed for other jobs after adding this srun
flag. Job timings were of a similar variation between control and test runs.
Any potential additional speedup was not observed. The test runs also
reproduced the control runs with `develop`.
Resolves #2044
commit 42c943be305c297a56b104bb50727938c1ba688f
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 15:41:34 2023 -0500
Adjust modules in post.sh for WCOSS2 (#2079)
On WCOSS2 the grib_util module is named a bit different and
needs the libjpeg module loaded beforehand.
commit cd4e6a1987e7fd71dff06766f540b5d32c8b648d
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Fri Nov 17 11:49:32 2023 -0500
Update ufs-weather-model and remove upp hack (#2071)
Updates the model to the most recent commit of ufs-weather-model. This
should allow for the removal of the UPP hack that was added in PR #2042
This required changing nems.configure -> ufs.configure.
Resolves #1942
commit 5a2d97e142aa4999b122fd5a130c63e59ea9f8e2
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 16 22:15:53 2023 +0000
Fix check for existence of preamble functions (#2066)
A few of the setup scripts were checking for the existence of
functions set by the preamble before calling them so they could
also be used stand-alone. However, the `type` command returns `1`
if the function name does not exist, which will cause the script
to die is `set -e` is on. Now the `type` command fails over to an
empty string.
commit ed2ee7c2b1457b71b271a2c40f0dfa356e0f52f8
Author: WenMeng-NOAA <48260754+WenMeng-NOAA@users.noreply.github.com>
Date: Thu Nov 16 16:38:11 2023 -0500
Update UPP products for GFS v17 (#1973)
Updates of generating GFS V17 UPP products to support HR3:
- Update g2tmpl to 1.0.12
- Add changes to launch cfp on WCOSS2 to generate pgrb2/pgrb2b files
- Changes for generating new products (MERRA2, six winter weather variables,
1km HLCY, SDEN) in pgrb2 files
Resolves #1965
Resolves #1994
commit 635c4719e603538ce7cccf9ea6b31f3f84f20849
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 16 20:35:30 2023 +0000
Fix some rocoto dependencies (#2074)
A few small errors/cleanup in the dependencies, mostly in fcst:
A few small errors/cleanup have crept into the dependencies with recent changes,
mostly in fcst:
- Fixed the offset, as it would yield a string rocoto doesn't recognize when the
interval was 24+ hrs
- Removed the duplicate wave dependency. When `waveprep` is included, it
depends on `waveinit` so there is no need to add a `waveinit` dependency.
- Converted an interval in the archive job that was missed in #2039
Resolves #2075
commit d4c7508260975c6b94fc92fd085f39d4faf3f027
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Wed Nov 15 16:44:03 2023 -0500
Fix missing _PREV in ocean restart file location (#2070)
commit 255616d37505c785bdddd5d3e39e8399110b626e
Author: mdtoyNOAA <73618848+mdtoyNOAA@users.noreply.github.com>
Date: Wed Nov 15 12:02:09 2023 -0700
Update functionality for Prototype HR3 UGWP (#1987)
This PR adds/modifies namelist options and activates new 'ccpp' suite definition
files for the updated Unified Gravity Wave Physics (UGWP) in the ufs-weather-
model recently updated for HR3. The changes to UGWP are the use of the GSL
drag suite for orographic gravity wave drag (GWD) and blocking, as well as the
new UGWP Version 1 non-stationary GWD. See
ufs-community/ufs-weather-model#1923 for details.
Resolves #1986
commit be9085e62aae147e3c74602e2f82a99b374fc783
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Wed Nov 15 13:48:58 2023 -0500
Save the required CICE history for the sea-ice DA (#2062)
The hist_avg setting of CICE was changed to be an array.
commit 85f1f5131ffd70061231304ea477bde0559eb67b
Author: Guoqing Ge <guoqing.ge@noaa.gov>
Date: Wed Nov 15 11:47:21 2023 -0700
Use assim_freq to configure "offset" in dependencies (#2039)
Use the assim_freq from config.base to configure "offset" in dependencies
instead of hard-coding them.
Resolves #2038
commit 4e3d82ba3a1fa7cdd4443bcd4cf83b2f8835137c
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 15 13:39:14 2023 -0500
Resolve ENKF archive script bugs (#2065)
Fix two bugs in the exgdas_enkf_earc.sh script:
1) Replace ARCH_LIST with DATA to match changes done in PR #2000
and update path to generated archive list files.
2) Add status check and exit after script attempts to make tarball on HPSS.
Refs #2064
commit 42d7f2f0c48fab898b764e09cfbbd7a9fabbae08
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Nov 14 17:54:29 2023 -0500
Separate tracker and genesis jobs from vrfy job (#2058)
This PR creates new individual jobs for the tracker and genesis jobs that are being
pulled out of the `vrfy` job (issue #235). The `tracker` and `genesis` jobs will be on
by default while the `genesis_fsu` job will be off by default. This mimics the current
settings in the `vrfy` job.
No enhancements or upgrades are made to the jobs themselves in this PR, only to
separate them from the `vrfy` job. However, one change compared to how they
currently run in the `vrfy` job is to no longer run the `tracker` in the gdas suite. This
mimics how the `ens_tracker` package is run in operations (gfs only).
Changes in this PR:
1. Create rocoto job scripts for tracker/genesis jobs.
2. Create configs for tracker/genesis jobs, as well as `config.tropcy` for shared
settings.
3. Add tracker/genesis jobs to `config.resources`; use resources from the ecf scripts
for `ens_tracker` jobs in operations
4. Add tracker/genesis jobs to rocoto setup for both cycled and forecast-only
modes.
5. Update arguments for `jjob_header.sh` script in tracker/genesis JJOB scripts to use
specific job names and configs instead of vrfy.
6. Rename `tracker_ver` to `ens_tracker_ver` in version files to mimic variable within
tracker package.
7. Rename and move tracker/genesis switches to `config.base`.
8. Remove tracker/genesis jobs from `vrfy` job (`jobs/rocoto/vrfy` and `config.vrfy`).
9. Reduce vrfy job resources to accommodate tasks having been removed.
Refs #235
Resolves #1988
Resolves #2048
commit 0a0d6984e094d2a551d5d8331102142e7db13fc2
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Tue Nov 14 14:08:26 2023 -0500
Enable warm starting of the model for forecast-only mode (#2031)
This PR:
- adds an option to warm|cold start the ufs-weather-model when setting up an experiment for GFS/GEFS
- adds the capability to stage FV3 restarts when the atmosphere is warm started from FV3 restarts. This would be used in the GEFS free-forecast for part of the reforecast capability.
- If a coupled model is warm started for the atmosphere, also check if mediator restarts are present. If so, stage mediator restarts to allow restarting the coupled model.
Fixes #2016
commit 2cd6a589305a9ac9d3a9a0d2136e66e42f09d3bf
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 14 12:05:20 2023 -0700
Moves UFS WM configuration files to `COM_CONF` (#2054)
The UFS weather-model (WM) files are place in the COM_CONF path rather than the respective component model COM history paths.
Resolves #2015
commit 6f1693081662f241fafc930b1afc88125f7f5aff
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Nov 14 11:15:02 2023 -0500
Refine fit2obs job in rocoto mesh (#2047)
This PR adjusts the `fit2obs` job in the rocoto mesh to better define when it exists
and how the archive job dependencies accommodate it not being in the first half
cycle.
Changes in PR:
1. Remove the `fit2obs` job from the first half cycle `cycledef`.
2. Adjust the archive job dependencies to now include the `fit2obs` job in the new
logic check added in PR #1983. The `gdasarch` job in the first half cycle will check if
`gdasfit2obs` is complete OR no prior cycle exists. Also cleaned up this new logic
check block some to make it a tad simpler.
3. Also, fix the addition of the `fit2obs` config to the config list in setup scripts. Now
tied to whether `fit2obs` job is on instead of always adding the config to the list.
Resolves #2043
commit 5730a71fa5d311e49d9bb11528b500f27f33d69d
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 14 09:13:11 2023 -0700
Add `waveinit` and `waveprep` to half-cycle. (#2037)
This PR addresses issue #1444. The `waveinit` and `waveprep` tasks have been added to
the GDAS have cycle. The downstream dependencies for the respective GFS and GDAS
forecast tasks have been removed.
Resolves #1444
commit 28d2e93c3857de95b0309a089cd7dac736ccaded
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Nov 14 16:11:47 2023 +0000
Update wave IC source for C384 (#2055)
The default wave grid for C384 has changed since P8, so a single wave
IC on the new grid is available under a different IC name.
commit 81dd2d9855091315611106a5afbdaeaa15e6e4ae
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 9 17:19:57 2023 +0000
Fix analysis and post on Orion (#2046)
Fixes a couple things to get workflow to work on Orion again:
First, while #2042 allowed post to be built, the `upp.x` executable would fail due
to a missing library. Now post jobs (temporarily) uses the UPP modules (plus
others needed for runtime) instead of the normal workflow runtime module. This
should actually fix #2041. This hack can likely be removed once we move to
spack-stack.
Second, the launcher command for the analysis jobs on Orion are updated to
specify the number of CPUs per task. This was necessary as a recent slurm update
on Orion discontinued reading that value from the scheduler. Other jobs will be
handled later (see #2044).
Additionally, a change is made to `module-setup.sh` that will eliminate the
annoyance of `gw_setup.sh` breaking tab completion because undefined variable
checking was turned on for the script but not back off.
Resolves #1996
Resolves #2041
Refs #2044
commit 13d06ded4155cba2d08ef2a2cd553024c5abe29d
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Nov 8 18:25:47 2023 +0000
Hack UPP version (#2042)
The stack UPP was using on Orion was recently deleted, leaving us
unable to build the UFS verison of UPP there. UPP has an updated
version using spack-stack that works, so the checkout script is
modified to check out that version of UPP after UFS has been
checked out.
This temporary hack can be removed once we move to a UFS version
that advances the UPP version to or beyond 78f369b.
Resolves #2041
commit 20f6eceb8ff58f84174a27eb849c1d74566a3e03
Author: jiandewang <jiande.wang@noaa.gov>
Date: Wed Nov 8 11:14:55 2023 -0500
Add basic C1152 settings (#2020)
Adding C1152 setting in host.yaml, config.base and config.stage_ic so that can run C1152 S2SW.
Resolves #2019
commit 5183c43bbbd07285869feacb49d8680afe85929a
Author: Barry Baker <bbakernoaa@users.noreply.github.com>
Date: Tue Nov 7 01:14:40 2023 -0500
Update UFS for dust fix and remove nitrates by default (#1989)
This PR updates the `ufs-weather-model` to the latest hash that included the dust fix (PR #1922).
Along with this I removed the nitrates by default in support of the GEFSv13 EP4 and EP5
experiments. Removed unneeded inputs that should help with speed improvements.
commit 34a73cf2ed5afefc776d9cc73b6ebf439122a1bb
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Mon Nov 6 14:00:51 2023 -0500
Reduce gdas builds to 8 #2029 (#2036)
Reduce the default number of build jobs for the GDASApp to 8 from 16.
This is needed for Orion as the build crashes during a linking step. Though not verified, it
appears this may be caused by using too much memory with 16 builds. The issue disappears
when using 8 build jobs.
Resolves #2029
commit 75269e4bb9764b81589efc7d703825b80e74c8f5
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Mon Nov 6 17:34:47 2023 +0000
Streamline CI reporting to PRs (#2026)
Cleaned up the logs for CI PRs sent to the GitHub Messages:
- Eliminates redundant accumulative reporting
- Reports on all created or skipped experiment instantiations in a single message
- Gives one line report once for each experiment completion
- Single final report completion of CI
See some examples in forked [PR 195](https://github.com/TerrenceMcGuinness-NOAA/global-workflow/pull/195)
Resolves #2007
commit 8d55126bb0b27c79c8bee7f72b014abd34950ff9
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Fri Nov 3 17:06:09 2023 -0400
Implement IAU Cycling Type with Marine Data Assimilation Enabled (#1944)
Allows cycling in IAU mode with the S2S UFS model, soca and the GSI.
Most of the work related to making IAU work was done by @JessicaMeixner-NOAA . Thanks @JessicaMeixner-NOAA !
Resolves #1943
Refs #1776
commit 2563806821d4ae3b57120bc61aa0575139a708f0
Author: jiandewang <jiande.wang@noaa.gov>
Date: Fri Nov 3 11:49:37 2023 -0400
Add two ucx modules in load_ufswm_modules.sh to solve C768 and C1152 S2SW job hanging issue on WCOSS2 (#2021)
commit cbdc09711a83493f363a737d1e3e46c48a09719d
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Nov 3 04:09:33 2023 +0000
Fix staging of MOM data (#2028)
During the update to stage_ic, the copying of the additional res_N files for
0p25 was omitted. These are now properly copied.
Resolves #2027
commit bd4c56d99c23c5c41f0bd5f8a980ef99ee160888
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Thu Nov 2 16:09:59 2023 -0400
changed optional script name vars for ocean analysis (#2025)
commit 93bc918cdabee771c182c6f33cc54a20b5bb86c6
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Thu Nov 2 16:01:18 2023 -0400
Create separate GSI monitor jobs and remove from vrfy job (#1983)
This PR will move the GSI monitor tasks from the `vrfy` job into their own separate jobs in
the rocoto mesh. This takes care of part of issue #235.
Changes in this PR:
1. Create new individual GSI monitor jobs in the rocoto mesh to match how it is done in
operations. The new jobs are: `gdasverfozn`, `gdasverfrad`, `gdasvminmon`, and `gfsvminmon`.
The names correspond to the names in operations and the ecf script names. The jobs are only
added to cycled mode, none of the jobs are run in forecast-only mode.
2. Updates to GSI monitor scripts:
* Update `ush/jjob_header.sh` arguments in JJOB scripts to call new individual job names and
configs.
* Introduce `COM_*` variables and use of the `generate_com` utility. This results in the outputs
landing in `COM` subfolders, like occurs in operations, instead of landing in the online archive.
* Some variable cleanup in JJOB and ush scripts, includes cleaning up usage of `DATA` variable
and its removal at the end of the jobs.
* Add missing exit statements to `JGFS_ATMOS_VMINMON` and `JGDAS_ATMOS_VERFRAD`.
3. Create new rocoto job scripts for the new individual GSI monitor jobs.
4. Create new configs for the new individual GSI monitor jobs.
5. Add new individual GSI monitor jobs to resource configuration, using the same resources as
in operations.
6. Move and rename GSI monitor job switches from `config.vrfy` to `config.base`. Also add
switches to setup system. New switches to control each job being added to the rocoto mesh
are: `DO_VERFOZN`, `DO_VERFRAD`, `DO_VMINMON`
7. Add GSI monitor job output to archival job and into resulting HPSS tarballs or local tarballs.
This now matches what is done in operations.
8. Remove the GSI monitor tasks from the rocoto `vrfy` job and associated `config.vrfy`.
Example output locations and files (not showing contents of oznmon/horiz or oznmon/time for
brevity, see archival script for full list of output files):
```
kate.friedman@dlogin09:/lfs/h2/emc/ptmp/kate.friedman/comrot/testmonitor2> ll gdas.20211221/00/products/atmos/*mon
gdas.20211221/00/products/atmos/minmon:
total 112
-rw-r--r-- 1 kate.friedman emc 14030 Oct 25 15:00 2021122100.costs.txt
-rw-r--r-- 1 kate.friedman emc 84932 Oct 25 15:00 2021122100.cost_terms.txt
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 15:00 2021122100.gnorms.ieee_d
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 15:00 2021122100.reduction.ieee_d
-rw-r--r-- 1 kate.friedman emc 80 Oct 25 15:00 gnorm_data.txt
gdas.20211221/00/products/atmos/oznmon:
total 8
drwxr-sr-x 2 kate.friedman emc 4096 Oct 25 15:05 horiz
drwxr-sr-x 2 kate.friedman emc 4096 Oct 25 15:05 time
gdas.20211221/00/products/atmos/radmon:
total 21036
-rw-r--r-- 1 kate.friedman emc 231 Oct 25 15:12 bad_diag.2021122100
-rw-r--r-- 1 kate.friedman emc 9035 Oct 25 15:12 bad_pen.2021122100
-rw-r--r-- 1 kate.friedman emc 1449 Oct 25 15:12 low_count.2021122100
-rw-r--r-- 1 kate.friedman emc 20523403 Oct 25 15:07 radmon_angle.tar.gz
-rw-r--r-- 1 kate.friedman emc 217272 Oct 25 15:08 radmon_bcoef.tar.gz
-rw-r--r-- 1 kate.friedman emc 502151 Oct 25 15:10 radmon_bcor.tar.gz
-rw-r--r-- 1 kate.friedman emc 264480 Oct 25 15:12 radmon_time.tar.gz
-rw-r--r-- 1 kate.friedman emc 684 Oct 25 15:12 warning.2021122100
kate.friedman@dlogin09:/lfs/h2/emc/ptmp/kate.friedman/comrot/testmonitor2> ll gfs.20211221/00/products/atmos/minmon/
total 88
-rw-r--r-- 1 kate.friedman emc 10530 Oct 25 14:55 2021122100.costs.txt
-rw-r--r-- 1 kate.friedman emc 63882 Oct 25 14:55 2021122100.cost_terms.txt
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 14:55 2021122100.gnorms.ieee_d
-rw-r--r-- 1 kate.friedman emc 608 Oct 25 14:55 2021122100.reduction.ieee_d
-rw-r--r-- 1 kate.friedman emc 80 Oct 25 14:55 gnorm_data.txt
```
Lingering work and considerations:
1. Issue #1925
2. Consider not hardcoding the list of types in archival and perhaps tie it to something reliable or
configurable (maybe into `config.verfozn`?):
`subtyplist="gome_metop-b omi_aura ompslp_npp ompsnp_n20 ompsnp_npp ompstc8_n20 ompstc8_npp sbuv2_n19"`
Resolves #1908
commit 31b05a99b77d0f6eaa8b116485a41a43867d20e1
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 2 12:23:32 2023 -0600
Move analysis post to new stand-alone task (#1979)
This PR addresses issue #1130. A new task `postanl.sh` has been added such that the
`anl` post-processing is not it's own task within the Rocoto workflow. This change
prevents the GDAS experiment from breaking due to failures caused by the `anl` not
being available for the first cycle.
Resolves #1130
commit 247cdf8c7e10e6c98f782799fc51c069b6474e70
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 2 11:18:53 2023 -0600
Corrects missing local variable reference (#2023)
Fixes missing `$` in variable reference in archive job.
Resolves #2022
commit 241742b246da1794646b68e41c3d6fe00b95dd07
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Wed Nov 1 14:19:55 2023 -0400
Updates to prep ocean obs task (#1870)
commit 77be0ec6a3117b9f7e71a19c69ac64c09b521ecd
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Wed Nov 1 12:09:33 2023 -0600
No longer write archive lists COM (#2000)
Changes the respective `.txt` files used for the HPSS archive to the `DATA` path. Each
defined text file has been updated to explicitly write to `DATA` rather than `COM` such
that the files are deleted rather than being archived.
Resolves #760
commit 517b92f9c20c9e44abba3183325e35a95a7334a5
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Tue Oct 31 16:33:11 2023 -0400
Parallelize the build scripts (#1998)
Optimized/parallelized build scripts.
A few notes:
1) The default number of build jobs is 20, but one could argue for using 40. When researching
this, I looked up what the SRW is compiling with. That system uses 40 cores, which seems a
little excessive, but on testing the global workflow, the actual number of cores being used at
any given time rarely exceeds 16 when running with 40 cores. This is because the builds tend to
use multiple threads in the beginning when compiling low-level modules while the higher-level
modules are more or less serial AND because the GDASApp takes several minutes to initialize
all of its subrepositories by which time the smaller builds are complete.
2) I also updated checkout.sh so that all checkouts are simultaneous. The CPU load for
`git submodule` is quite low, so running 16 instead of 8 jobs at once is not much more expensive.
3) To make this work, I had to add `-j` options to most of the build scripts. The only exception is
build_upp, for which the build script within the UPP is hard coded to use 6 cores.
4) I fixed a few small bugs in the build scripts along the way.
5) Lastly, this reduce the total build time from ~2.5 hours for the entire system (including GDAS
and GSI in the same build) to ~40 minutes when running with `-j 40`.
Resolves #1978
commit 67c050c201f92e855d09211e41a5f51ee1cb5230
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Oct 31 19:00:47 2023 +0000
Add missing export for rCDUMP in stage_ic (#2009)
rCDUMP is needed by the exscript but was never exported by the jjob.
commit 872068cb5ea78b311f7a77e97ee1428ae027cb61
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Oct 31 14:37:55 2023 +0000
Add output error log to user for create_experiment.py on fail in CI (#1974)
Small changes to driver CI bash scripts to recapture error log from `create_experment.py` logger
Fixes #1939
commit b2e4a2e9d269842acbb1b37dd563ee5dee2adf0f
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Oct 31 13:57:02 2023 +0000
Allow CI case to exclude running on certain platforms (#2001)
commit 7cc137116f1619bf1e5a12eaacb98d17da97c223
Author: Jeff Whitaker <jswhit@fastmail.fm>
Date: Tue Oct 31 07:54:24 2023 -0600
Add initial C96/1 deg coupled model support (#1991)
commit 7086ddc4bece6fb2a8c1c2e6090800d4293e410e
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Mon Oct 30 19:58:43 2023 -0400
Add ocean analysis files to HPSS archiving task (#1985)
This PR adds the files under `analysis/ocean` (except those in `bump` and `vrfy`) to the
HPSS archiving job, in `gdasocean_analysis.tar`, which were previously not archived.
Resolves NOAA-EMC/GDASApp/issues/693
commit eabc82ad30c118645c0e6e216162d823882a8139
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Mon Oct 30 10:31:27 2023 -0400
Make the early cycle work with the coupled UFS configured as S2S (#1954)
commit aff6ca7ae559e424dae128d6cfd5da4a4e3049e7
Author: Anil Kumar <108816337+AnilKumar-NOAA@users.noreply.github.com>
Date: Fri Oct 27 14:11:55 2023 -0400
GEFS Staging in exglobal_stage_ic (#1892)
Adjusts source paths for forecast-only ICs in support of extension to ensembles.
New paths omit the resolution (that is captured by the IC id name) and allow for
a member level.
Directories with the reorganized ICs have been added to the three tier-1 machines
under glopara space.
Building on this, also adds capability to stage GEFS ICs.
Resolves #911
commit 77c1ff2bfa26b341b01f41e50ee0ecb31cc4f661
Author: RussTreadon-NOAA <26926959+RussTreadon-NOAA@users.noreply.github.com>
Date: Thu Oct 26 23:44:27 2023 -0400
Update GDASApp hash (#1975)
Update GDASApp hash…
kayeekayee
added a commit
to kayeekayee/global-workflow
that referenced
this pull request
Mar 20, 2024
12Jan24 global-workflow
UFS: 29Jan24, 625ac02
FV3: 29Jan24, bd38c56 (GSL: 28Feb24 , a439cc7)
UPP: 07Nov23, 78f369b
UFS_UTILS: 22Dev23, ce385ce
update pointers for ufs_model and ufs_utils
add GSL C3_MYNN xml suite
Squashed commit of the following:
commit db6a85e0ce36cec28714a4c9d6e13565253cf7bb
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Tue Mar 19 19:33:28 2024 +0000
29Jan ufs_model.fd, 29Jan FV3 with C3 files
commit de7b382c4b259d99d39e8857cbcee7efe64c1956
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Mon Mar 18 16:23:05 2024 +0000
update pointer for atmos_cubed_sphere to Feb 1 hash
commit 0fc27835205aaf57bdba228b1769e0ac7b37712e
Merge: b2c8ef81 db06f7c5
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Mar 14 00:17:24 2024 +0000
Merge branch 'gsl_ufs_dev' of https://github.com/NOAA-GSL/global-workflow into gsl_ufs_dev
commit b2c8ef81229b5e9b8e7592cb12c2f3e8e3179d92
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Wed Mar 13 23:51:45 2024 +0000
ccpp pointer updates to framework and physics
commit 484a18df8c9022190c8900c80e40507a6771e314
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Wed Mar 13 23:43:18 2024 +0000
ccpp pointer update in ufs_model.fd/FV3
commit db06f7c57d4cfc863352a4613c8260b0dffd9afe
Merge: 579f90c1 2dbd12a6
Author: Janet Derrico <143837053+jderrico-noaa@users.noreply.github.com>
Date: Wed Mar 13 15:55:48 2024 -0600
Merge pull request #43 from kayeekayee/gsl_ufs_dev
update GSL C3_MYNN files and change dt_inner=75
commit 2dbd12a695c4349071ee8470e597540e71bc0292
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Wed Mar 13 03:48:51 2024 +0000
update GSL C3_MYNN files
commit 579f90c1e0e2896710046c1885f68560ea435fa6
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Mar 7 19:20:46 2024 +0000
update ufs_model.fd submodule pointer
commit 2f2622d68eb8444afde9c1ddad470cfee1b63b99
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Mar 7 19:15:23 2024 +0000
update ufs_model.fd submod pointer
commit 706a0c52bb11af78e016014550ebd6847cc0ee19
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Mar 7 19:12:35 2024 +0000
update ufs_model.fd/FV3 path
commit 352f188f095e19442ade1f3fd167ff2fed501cd2
Merge: 5a8edc76 96545dcb
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Mar 7 17:58:38 2024 +0000
update ufs model pointer
commit 5a8edc766f2f4d3e12c692069d46c02fd766c354
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Mar 7 17:42:00 2024 +0000
update FV3 and UPP
commit 96545dcb63e3f8f7dfc036961d818db15fa1a003
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Wed Mar 6 10:05:39 2024 -0700
update pointer for ufs_model.fd
commit 25c026ef03a8d8c0db0b7368d2836f0b2e866eae
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Feb 29 20:35:11 2024 +0000
update ufs_model pointer
commit a28617a951c46b765aa996bfe4d28b554ec4e0a4
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Feb 22 06:16:26 2024 +0000
removed unneeded gsl directories
commit 6fb4f90e8572e98c977a1d2ab385f033111f3ea7
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Feb 22 06:08:13 2024 +0000
update ufs_utils.fd pointer
commit 9264f0c09239d046c5cd862d807e9b82f51dc3bd
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Wed Feb 21 19:33:26 2024 +0000
update .gitmodules file
commit f8edfa966147506f2c207728039e3a736cb95415
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Wed Feb 21 19:30:47 2024 +0000
update pointer to ufs_utils.fd
commit 5e0d2ab02d58e6a7a40db55a149a93008b28aa8b
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Wed Feb 21 19:25:52 2024 +0000
update pointer to ufs_model.fd
commit ebc9e1d02987a1c6aa8cabedf2323642748fab3c
Merge: e7a81511 50cb1e6f
Author: Janet Derrico <143837053+jderrico-noaa@users.noreply.github.com>
Date: Thu Feb 15 13:40:33 2024 -0700
Merge pull request #40 from kayeekayee/gsl_ufs_dev
Merge to 2024 Jan 12 NOAA-EMC/develop and update to 2024 Jan 29 UFS
commit 50cb1e6f0c661e4c6e2ef0be4527cce58379b2c9
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Thu Feb 15 20:30:34 2024 +0000
Add pygraf workflow.
commit 38b726125d49cff6cae4c0e5fff2438fc33143c5
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Wed Feb 14 17:43:15 2024 +0000
Add double quote for the arguments when calling setup_expt.py.
commit 053f2025fb0b0679c7d4f84958973c1534ec050c
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 23:57:06 2024 +0000
more fix.
commit 6f80ea2edc5444e275a79b371d02b6e98e963662
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 23:50:01 2024 +0000
more bug fix.
commit 56e283f1f666a38a4a3b30e1528e96eeb5c622e7
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 23:40:02 2024 +0000
Minor bug fix.
commit 2dcfed06ff6789eb77cf92e22b80f5475923fafc
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 23:19:03 2024 +0000
Update parameter for c3 case
Add c3 and mynn template
commit cc46b19ccc7cdb54878340eff79dda9e747abdf7
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 20:51:23 2024 +0000
Update INFO.
Add c3 SDF in the build.
commit a444ed48a23f24724853036e522b4437bf412c59
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 18:42:33 2024 +0000
Update to UFS 2024 Jan 29 version.
commit 88595707c7521cdce37ae1cf78720a7827242b24
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 18:16:46 2024 +0000
Minor bug fix.
commit baa0e9f10b132098d5134efaad712a51ebc26b83
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 17:59:27 2024 +0000
Update parameters for setup_expt.py in p8_ugwpv1.sh to resdetatmos and comroot.
commit 5875f06903f82a47fafb05f89f840e3b099d18d8
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 17:51:11 2024 +0000
Remove old gsl SDFs.
Remove 'rrtmg_lw_pre' from C3 and MYNN SDFs.
commit 9e0d1342f4e1edce96c9b2baeec55c2cffb964cd
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Thu Feb 8 22:14:01 2024 +0000
Merge to 2024 Jan 12 NOAA-EMC/develop.
Squashed commit of the following:
commit c59047614c29f6ec15a4d4a6fa1855929287debd
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Fri Jan 12 19:21:02 2024 -0500
Update hash to ufs-weather-model. The noahmptable.tbl was reorganized, so update link_workflow.sh to use the same one used in UFSWM RT (#2219)
commit c041968e165c07da785376f1441374687b55d6cc
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Jan 12 12:09:35 2024 -0500
Add ocean resolution to setup_expt invocation and retire/reduce COMROT/ROTDIR usage (#2214)
Two series of updates:
1) Update setup scripts to now allow users to provide ocean resolution
2) Housekeeping to retire the `COMROT` variable, replacing it with other variables
as needed, and reduce the `ROTDIR` variable usage.
Both updates change options for the workflow setup API.
Refs #2061
commit 997f97816493d9ed0242e169b6dcf84e5c9338d6
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Fri Jan 12 10:46:36 2024 -0500
Allow use of ocean obs prep in WCDA cycling and remove R2D2 (#2215)
Enables use of ocean obs prep task in WCDA cycling and removes R2D2 from same.
Runs task gdasprepoceanobs before gdasocnanalprep -- obtains ocean data nc4 files from DMPDIR, processes them into IODA format and copies them to COM_OBS.
Replaces the current R2D2 processing.
commit 12a5bb192ab6282d44c008c06dc14947abd37249
Merge: 4cb58020 6492c2da
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Fri Jan 12 09:26:27 2024 -0500
Merge pull request #2217 from DavidHuber-NOAA/update/versions
Update and clean up version and module files
commit 6492c2da5f49bd31575d0bef5278c9a7f8ba3412
Author: David Huber <david.huber@noaa.gov>
Date: Thu Jan 11 11:49:08 2024 -0600
Update orion module/version files for met/metplus #2123
commit 94c9937f0bff380b0ebd6acdcfd2509e1ae99389
Author: DavidHuber <david.huber@noaa.gov>
Date: Thu Jan 11 17:42:53 2024 +0000
Comment met/metplus out from Hera modulefile. #2123
commit 8c32f8b7d00bba6e3e954f149e6548fb27713a3c
Merge: a65e4c67 4cb58020
Author: David Huber <david.huber@noaa.gov>
Date: Thu Jan 11 11:34:44 2024 -0600
Merge branch 'develop' of github.com:noaa-emc/global-workflow into develop
commit a65e4c675f21dbe72198d263e85e894e62b41e13
Author: David Huber <david.huber@noaa.gov>
Date: Thu Jan 11 11:34:19 2024 -0600
Initial update of version/module files #2123
commit 4cb580201af68c1c0e2ae19faf0727dcbbe43b4d
Author: souopgui <souopgui@users.noreply.github.com>
Date: Wed Jan 10 08:30:22 2024 -0600
Fix OpenMP over-allocation of resources in exglobal_atmos_products.sh when running MPMD tasks (#2212)
Fix OpenMP over-allocation of resources running MPMD tasks
Co-authored-by: Innocent Souopgui <isouopgui@redlineperf.com>
commit b056b531faee6929687cb8a588ffafa1a66426fb
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Mon Jan 8 17:28:05 2024 -0500
Add Hercules as valid machine in CI scripts (#2207)
Few updates to CI scripts to include names for hercules that where missed
the first time.
commit 6574d29a8c26b0695614874c344bccc5182363f4
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Mon Jan 8 17:25:47 2024 -0500
Fix invalid GH action and restart file name (#2210)
Resolves a typo that leads to an invalid workflow yaml and fixes the restart filename in restart detection.
Resolves #2205
commit 69605eac299df381ea9e0e329654487e26380ff5
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Mon Jan 8 17:00:28 2024 -0500
Stop attempting to comment link to RTD for non-PRs (#2209)
Adds a check so comments with a link to documentation are only generated
for PRs.
commit 4e160a895bfb31c281e21557dd86c13954a1a967
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Mon Jan 8 13:10:15 2024 -0500
Enable UPP for GOES processing (#2203)
Wnables the creation of special master grib2 files from UPP for
GOES processing
commit c15875b6dbf685327af9316ee43b3d01f0fc815e
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Mon Jan 8 09:56:06 2024 -0500
Port cycling to Hercules (#2196)
Adds cycled support for Hercules (excluding gsi-monitor).
Partially resolves #1588
GSI monitoring is disabled on Hercules due to missing Perl modules. That will be enabled in a later PR.
commit ef6827dd6abdab2996d1e19f9e0ff5d3071e0fdd
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Mon Jan 8 09:43:12 2024 -0500
Refactor rocoto task XML creation (#2189)
Refactors the rocoto task generation to be recursive.
This will allow nested metatasks to loop over multiple variables, which is needed for GEFS product generation.
As part of this refactor, there is no longer separate arguments to designate metatasks.
Instead, task dicts can include a nested 'task_dict' as well as a 'var_dict' containing the variables to loop over.
The nested task dict can then either have another layer, or be the innermost task.
To accommodate the new recursive nature, some defaults that were previously defined in create_wf_task() had to be pushed down into the function that creates the innermost task.
Also, former keywords have been absorbed by the task dict.
Refs #823
Refs #827
commit 2b81cfac16f103fb29b3aeb9748941787abf7287
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Mon Jan 8 09:41:03 2024 -0500
Update fix versions (#2198)
Updates fix versions for a few components:
- Update cice and mom6 versions to support C96/1p00 marine
- Update wave to change betamax setting for glo_025 waves
Resolves #2004
Resolves #2107
commit e7a81511e37f86e881da020e06b95990b470d952
Merge: af47b77c 75ad3754
Author: Janet Derrico <143837053+jderrico-noaa@users.noreply.github.com>
Date: Thu Feb 1 13:14:02 2024 -0700
Merge pull request #37 from jderrico-noaa/gsl_ufs_dev
Add GSL archive script and correct typos/fixed paths
commit 75ad3754f8bef5411c2570b5e392cd08e95cb6cb
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Feb 1 20:00:52 2024 +0000
adding consistent [[ ]] for if statements
commit 67b99668c82a5fd8c42479b9b1bfe8b0bad0be25
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Feb 1 19:37:47 2024 +0000
Updated HOMEgfs in GSL XML templates
commit 4d3719c086e7907a6eeff03112042d392e0d8c5e
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Feb 1 17:27:39 2024 +0000
Correct syntax errors in GSL scripts
Add new GSL archive script for archiving grib2 and ICs, but no netcdf files
commit 4309dd0b3b2d5625e7e1740d7cd3e39aacd5bc29
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Mon Jan 29 18:05:45 2024 +0000
Add GSL diag tables to parm/ufs/fv3
Update GSL template for hera
Create EMC and GSL versions of files under workflow/rocoto
- tasks.py, workflow_tasks.py
commit af47b77c7ee59a11c798995b4362b57e9096b090
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 02:07:43 2024 +0000
Create GSL version of archive script
commit 529d9f71f97b6e643e76a53bc9871901ae861faf
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 01:37:09 2024 +0000
Create GSL version of tracker.sh
- this is a placeholder with changes from last year's HFIP experiment; will likely need to be updated in the future
commit 8457e12c313bee602265b863129734354b019271
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 01:27:42 2024 +0000
Link config.base.emc.dyn_hera to config.base.emc.dyn
commit 7a05f5bd947944d8c3be828aeef9cc03bf9e073a
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 01:22:54 2024 +0000
Create GSL version of hpssarch_gen.sh
- assume we only run cold starts
- archive only 0p25 grib2 files (no 0p50 opr 1p00)
- assume no pgrb2b or flux files are created so no need to archive to HPSS
commit 98f5d6b16437e2a340bf16f83187e389a53f8bf0
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 00:24:06 2024 +0000
Update workflow directory
- add GSL template for jet (based on last year's experiment)
- create EMC and GSL versions of yaml files under hosts; defaults point to GSL files
commit 38a7e5629ceeb23d399643a021e9a0a88468a07c
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 25 18:40:37 2024 +0000
Update atmos_products configuration file for GSL
- set downset to 1 so pgrb2b files are not created
- set FLXGF to "NO" so interpolated sflux.1p00 files are not created
commit fe8a953658d092ce2b597e14f31678624606fd8a
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 25 17:02:25 2024 +0000
Update nodes for gfsfcst task in GSL template for hera to match default configuration in config.ufs
(12x12, 2 threads, 1 write group, 40 write tasks ==> 56 nodes)
Increase walltime to 4:10 for gfsfcst task
commit 9d85b0f6d50e8ed142557fcb87c89d2e5d63c617
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 23 19:08:52 2024 +0000
Added default location for PTMP/STMP in workflow/hosts/hera.yaml
Added GSL XML template for hera
commit 1cf317d327fae78c5469712c9e5a6aa1ffa4b23b
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Wed Jan 17 22:33:13 2024 +0000
Add sjet partition
Make syntax consistent in "if" statements in config.resources
commit 2755e203751f50113849b06769173285e093290b
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Wed Jan 17 22:32:26 2024 +0000
Update configuration files for GSL
- create Hera and Jet versions of config.base.emc.dyn
- correct typo in config.fcst
- create different versions of config.ufs;
default is 12x12, 2 threads, 1 write group/40 write tasks (56 nodes)
commit 3c0c126a376af31866a93aef4cdd0b4145150c58
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 17:32:25 2024 +0000
Add script for remapping 1/4 degree grib2 grids to other domains
commit f217d4ed9a500e9a1bdcc17548729d972a1763ac
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 16:46:25 2024 +0000
Update link script for ufs_utils.fd
commit 5b21b31900955013b4e8106d3ae906b9da93b361
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 16:45:25 2024 +0000
Add GSL archive scripts for initial conditions
commit abb88baf9dd536a3b2ea1e24eaa99cbfe85af799
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 16:42:17 2024 +0000
Move configuration files for getic and init from jobs/rocoto to parm/config/gfs
commit 45b235180719ab79d2514f0317207fbebfb8aedd
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sun Jan 14 03:21:15 2024 +0000
Add suite definition file for v17p8_ugwpv1_c3 to sorc/ufs_model.fd_gsl
commit 147b1fce99254dcb602c333cc559feaa9a396e81
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sun Jan 14 01:57:22 2024 +0000
Add getic and init tasks to workflow to create initial conditions in realtime
commit 4e4e50803d95566e1c7967cf4cfa575391d77f25
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Fri Jan 12 00:44:59 2024 +0000
Change default HPSS_PROJECT to fim
Change restart_interval_gfs to -1 so no files are written ro RERUN_RESTART directory
commit 791d7a27c6b12f07d9c12ce491338e3da59eb1d8
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 11 23:34:36 2024 +0000
Add namelist parameter, nord_tr, for GSL suites
commit c4a41de7ebcda2f80ce69ac94bd2b3a6f5d04ed5
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 11 23:31:22 2024 +0000
Add changes for running v17p8_mynn
- new field table, field_table_thompson_aero_tke_progsigma
- updated namelist parameters in config.fcst
commit 982a1f02e3b880be43f4ae8a3f0ffbb34c056aea
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:26:22 2024 +0000
Add experiment setup script for p8_ugwpv1
commit c5a3697d22fdbb02bb80ddffee2629dddc10c702
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:19:13 2024 +0000
Add memory report to srun command in env/HERA.env
commit ece7e516ca65ec0240899e7d84321310a6887595
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:13:42 2024 +0000
Updated GSL-specific files under ufs_utils.fd_gsl
commit 1b153fc95b93a16eb40b791be7322100fde4a3d4
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 01:52:56 2024 +0000
Create new branch, gsl_ufs_dev, from dev_02jan24_9d901db
Add initial GSL modifications
- changes to workflow files
* GSL paths, projects, entities
- new FV3_GFS_v17_p8_ugwpv1_mynn suite definition file (SDF)
- updated namelist parameters in ush/parsing_namelists_FV3.sh
- create new GSL directories: ufs_model.fd_gsl and ufs_utils.fd_gsl
* new SDFs, add instantaneous flux variables to grib2 configuration files
* add Thompson tracers to initial conditions
- new sync script: rsync_gsl.sh
- new job files: getic.sh, makeinit_link.sh
- modify build_ufs.sh to include MYNN SDF
commit 9d901dbbff4d41586580316bdc094d24760119e6
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Jan 2 10:30:33 2024 -0700
Stop Gempak pgrb2 spec from modifying $DATA (#2147)
This PR addresses issue #1224. The following is accomplished:
- Instances where `DATA` is modified, corrections are made to use a locally defined variable such that `DATA` is no longer modified at run-time;
- Shell linter exceptions are addressed accordingly;
- The respective GEMPAK tasks is added to the Rocoto mesh.
Resolves #1224
commit 31ad23527802f7d07171132cc620f7135c4d8cba
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Jan 2 10:27:30 2024 -0700
Reorganize NPOESS scripts (#2166)
This PR addresses issue #1226. The following is accomplished:
- Using the GEMPAK j-job script `JGFS_ATMOS_GEMPAK_PGRB2_SPEC`, the structure
of `JGFS_ATMOS_PGRB2_SPEC_NPOESS` is updated;
- Environment variables specific to the script `exgfs_atmos_grib2_special_npoess.sh`
are moved accordingly; this specifically applies to the environment variable `FHOUR`,
`SHOUR`, `FHINC`, `SLEEP_TIME`, and `SLEEP_INT`;
- The `SLEEP_TIME` and `SLEEP_INT` parameters can now be defined at the top-level
(if necessary);
- Restart file checks are move to `exgfs_atmos_grib2_special_npoess.sh`; however,
this may not be necessary (see `TODO` note within draft PR.
Resolves #1226
commit 22bd82fa93b49e5ce98eb3f69123956dd5018049
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Jan 2 11:55:03 2024 -0500
Orog fix file reorg and fix directory variable standardization (#2181)
This PR makes updates to use the newly reorganized `orog/20231027`
fix file version and standardizes the fix file directory variables.
Changes:
1. Update UFS_UTILS hash to ce385ce
2. Update fix file version file to use new orog timestamp: `orog_ver=20231027`
3. Add ".mx$(OCNRES)" to `oro_data` filenames in scripts
4. Remove ".mx$(ocn_res)_frac" from the directory names for atmosphere
resolutions under the `/orog` folder
5. Adds fix file directory variables to `config.base`, many of which are pulled
up out of lower scripts; introduce `FIXcpl`
6. Renamed/replaced the following fix file directory variables:
- `FV3JEDI_FIX` --> `FIXgdas`
- `FIXfv3`, `FIX_orog` and `OROFIX` --> `FIXorog`
- `FIX_ugwd` and `OROFIX_ugwd` --> `FIXugwd`
- `FIX_am`, `FIXgsm`, `FIXSYND` --> `FIXam`
- `FIX_lut` --> `FIXlut`
- `FIX_aer` --> `FIXaer`
- `FIX_SFC` --> `FIXsfc`
- `FIX_DIR` --> `FIXgfs`
- `RTMFIX` and `FIXCRTM` --> `CRTM_FIX` (is `CRTM_FIX` in crtm module,
so not using `FIXcrtm`)
7. Correct the defaults for `FIXwave` in wave JJOB scripts
8. Update variable names in `*fixed_files.yaml` files, as well as update naming
convention for `oro_data` files
Resolves #1984
Resolves #1981
Resolves #2175
commit 03d03bf53b43914a55c384cb33eb06f6a9a443a6
Author: Andrew Collard <40322596+ADCollard@users.noreply.github.com>
Date: Tue Jan 2 11:53:44 2024 -0500
Remove HIRS from GSI processing (#2183)
With the update to CRTM 2.4.0.1, an issue with versioning of CRTM HIRS
files has been exposed. This is documented in JCSDA/crtm#42.
As HIRS radiances are no longer used in the GSI, these data should be removed
from processing until a suitable update to CRTM is available.
Resolves #2182
commit a3c50998d35525a39a66d5592fbf327ab3569e8b
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Fri Dec 22 18:07:48 2023 -0500
Update ufs-weather-model version (#2186)
* update model to latest version which includes needed bugfixes for HR3
commit 774c7302e618370ef578bec3ccabc70486d6da1b
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Fri Dec 22 11:34:53 2023 -0500
Fix analysis post processing's handling of 0-padded negative integers (#2187)
This screens for the analysis 'forecast' hour (-001) and handles the '-' and circumvents octal issues.
commit d1251360325faf75af9df0608557fcd10202a883
Author: Barry Baker <bbakernoaa@users.noreply.github.com>
Date: Thu Dec 21 11:23:48 2023 -0500
Fix for restoring cycling aerosols in fo-mode post COM refactor (#2179)
- Update to COM reorg aerosol initialization job
- Address bug in joining paths for data dependency in this job
---------
Co-authored-by: Rahul Mahajan <aerorahul@users.noreply.github.com>
commit e55a05980709288d902ad1bd894164bfa5a18a65
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Dec 20 22:14:01 2023 -0500
Stop calling ufs-utils link script (#2172)
The `link_workflow.sh` script was calling the ufs_utils version of the
same. That step is only necessary if a user is going to run one of the
stand-alone ufs-utils, which is rare.
commit ef3e5ad7c63be1644c82333c95853c3caf2d8995
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Dec 19 22:02:55 2023 -0500
Fix handling of excluded hosts list (#2170)
This PR fixes the issue with `create_experment.py` so that the yaml configuration
file can have a string of list of strings when specifying the host name to exclude
from the CI tests.
commit ea74a5719efc8f0fe631c5ff93426a4299a614f3
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Tue Dec 19 16:21:41 2023 -0500
Add COMOUT_OBS to marine obs prep (#2173)
Adds `COMOUT_OBS` (defined from `COM_OBS_TMPL`) to marine obs prep task to properly handle marine obs prep files. Used to keep obs after IODA conversion, QC, and other prep.
Towards resolving NOAA-EMC/GDASApp#815
commit c2500feace0bb7c04ce67a90dd3182120ee67b2e
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Tue Dec 19 14:55:20 2023 -0500
Return failed status if a build fails. (#2171)
If any of the builds fail, this makes build_all.sh return the sum of the error codes encountered.
Fixes #2168
commit 76fdd81cd84ed812181996a102379d8d964ba27a
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 19 13:24:34 2023 -0500
Update index.rst for new GFSv16.3.12 in ops (#2169)
Refs #2096
commit a81da33e8fe7541a36f68e7a4f14a384cadd36c8
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 19 10:22:21 2023 -0500
Set place=shared for shared jobs on WCOSS2 (develop) (#2156)
Set job as shared when not exclusive on WCOSS2
WCOSS2 defaults to exclusive when it is not specified as
either exclusive (place=exclhost) or shared (place=shared).
Now set shared when job should be shared.
Refs #2135
commit 89aea972f7964dac3f515e8070d7c534812c5fb4
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Dec 15 16:31:06 2023 -0500
Update gfs-utils version for Hercules (#2163)
An update of gfs-utils was misssing from the previous PR that added
initial Hercules support (#2128).
Also includes gfs-utils update for new marine post.
commit 9505cb4abc6ca2643a8ab254d14ca2000747fa44
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Thu Dec 14 16:15:31 2023 -0500
CI Updates to support Hercules (#2155)
If merged, this PR will update the CI scripts so they will run on Hercules for forecast only
NOTE: This is a stop gap to issue #2131 until its block on #1588 is removed.
Resolves #2154
commit c5ca82f04a2efae78389dec1c46b94ef4fb5bbe5
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Thu Dec 14 16:05:33 2023 -0500
Correct fbwind (#2161)
commit f3f3e05e6325e6c2e8ddab186f1ed2f985fec49a
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Thu Dec 14 12:06:23 2023 -0500
Add MOS jobs to rocoto mesh (#2148)
Create separate jobs for GFS MOS - extracted from now-retired vrfy job
Refs #2068
commit bb6151aa50c27253cb9b8f0a6601ddd58526b8b3
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Dec 14 05:38:29 2023 -0500
Replace checkout script with submodules (#2142)
Replaces the checkout script with git submodules. This change brings workflow in
line with other repos and git standards.
Due to these changes, the build system is updated slightly. First, the options that
were formerly used with `checkout.sh` to reduce unneeded builds (`-g` for GSI
and `-u` for UFSDA) are moved to `build_all.sh` instead. This is needed since build
all will not be able to key off directories existing or not to determine which com-
ponents to build. Second, the partial build system is removed. It was rarely, if ever,
used, and parts of it were already ignored with the previous changes to base builds
off whether directories exist. The manage externals file is also removed since that is
also not being used.
Following these changes, clones/checkout will need to either be recursive, or
`git submodule update` will need to be called separately to make sure components
are properly checked out (non-exhaustive list):
```
## Checkout develop (method 1)
git clone --recursive https://github.com/NOAA-EMC/global-workflow destination
## Checkout develop (method 2)
git clone --jobs 8 https://github.com/NOAA-EMC/global-workflow destination
cd destination
git submodule update --init --recursive --jobs 8
## Checkout existing branch some_branch (method 1)
git clone --recursive --jobs 8 -b some_branch https://github.com/NOAA-EMC/global-workflow destination
## Checkout existing branch some_branch (method 2)
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout --recurse-submodules some_branch
## Checkout existing branch some_branch (method 3)
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout some_branch
git submodule update --init --recursive --jobs 8
## Checkout new branch new_branch
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout -b new_branch
git submodule update --init --recursive --jobs 8
```
The git ignore list had to be updated to use explicit paths as the wildcard paths pick
up the ones that are now submodules.
UFS creates files during the build process that are not in its ignore list, so that sub-
module ignores the "dirty" state to avoid confusing users running `git status`.
CI and documentation are also updated to reflect the changes.
Resolves #2141
commit 1332188ce2409e012ec127d44880e49732f7f379
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Dec 13 09:32:57 2023 -0500
Enable radar reflectivity output (#2143)
Turns on radar reflectivity output from FV3. This eliminates missing values appearing in the grib2 files.
commit 24d898ec0ec0c7fcbda6966988f9a986f528ed14
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Wed Dec 13 09:32:24 2023 -0500
Fix Hercules hostname (#2150)
* Allow lower or upper hostname on hercules.
* Add Hercules to issue template.
commit 2896bb8787698be28ad20f2298589e6e95eaf9fb
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 12 09:13:06 2023 -0500
Fix module load typo (#2145)
Fix typo with loading the crtm module in the UPP hack for WCOSS2
Refs #2144
commit 29d34172a67d976f910e78158ff0337e1ef099ca
Author: Cory Martin <cory.r.martin@noaa.gov>
Date: Thu Dec 7 15:12:05 2023 -0500
Update GDAS hash to most recent stable versions (#2138)
commit 93da9f105502e24f1a1a621f05ea49e1fdfe0102
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Dec 7 10:41:05 2023 -0700
Corrected typo in a gempak job gempakncdcupapgif . (#2137)
commit 3483f550db1ae35a680de49f7485ce5a11902dd9
Author: Cory Martin <cory.r.martin@noaa.gov>
Date: Thu Dec 7 12:34:56 2023 -0500
Add support for FGAT and IAU for aerosol DA (#1940)
commit e2664c011bf5fb03a9b1b37878cad423a1fde6f9
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Thu Dec 7 12:33:46 2023 -0500
Enable forecast-only experiments on Hercules (#2128)
This add forecast-only support for Hercules to the global workflow. Partially satisfies #1588.
Co-authored-by: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
commit a29f751aed05312da3d80d396159bb5a906d6ce4
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Wed Dec 6 13:45:56 2023 -0700
Adds GEMPAK and related jobs to rocoto task mesh (#2127)
commit 1fc8b5bf55581de18e786611c65bc3f84bb0c082
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Tue Dec 5 15:47:52 2023 -0500
Separate offline UPP from interpolated grib2 product generation (#2110)
This PR:
- Replaces the use of `JGLOBAL_ATMOS_POST` with `JGLOBAL_ATMOS_UPP`
and `JGLOBAL_ATMOS_PRODUCTS`.
- Introduces `JGLOBAL_ATMOS_PRODUCTS` that is responsible for creating
grib2 products from the master file produced by UPP (inline from the model,
or offline by running `JGLOBAL_ATMOS_UPP`). Rocoto job `atmos_products.sh`,
ex-script `exglobal_atmos_products.sh` are also added along with a
`config.atmos_products`. Updates are made to the relevant `env` files as well as
`config.resources` to reflect the addition of this job.
- reduces the number of cores needed appropriately for forecast products when
there is no offline UPP necessary.
- renames older `fv3gfs_dwn_nems.sh` to `interp_atmos_master.sh` and
`inter_flux.sh` to `interp_atmos_sflux.sh`
- removes `fv3gfs_downstream_nems.sh` as it is absorbed into
`exglobal_atmos_products.sh`
- removes no longer used scripts for `gfs_post.sh`, `gfs_transfer.sh` (DBN alerts
are absorbed into `exglobal_atmos_products.sh`), `post.sh`,
`JGLOBAL_ATMOS_POST`, `ex${RUN}_atmos_post.sh` scripts.
- Rocoto workflow related scripts are updated to add `atmos_products` as a job.
When `WRITE_DOPOST` is `.false.`, `upp.sh` job to run the UPP offline is also
added. Dependencies have been appropriately applied.
- removes `PGB1F` option that creates 1-degree grib1 products that are no longer
needed in GFSv17.
The hacks from (now deleted) `post.sh` had to be reinstated in `upp.sh` to load the
modules from UPP instead of `load_fv3gfs_modules.sh`.
commit 44186f594aaf5f8feea0eadd4c5c3b59de3a825e
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 5 12:28:08 2023 -0500
Update index.rst for new GFSv16.3.11 version (#2121)
Refs #1356
commit e62a3a73cd22701962b7bf210fdfee37f37a5474
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Dec 5 09:08:12 2023 -0700
Splits AWIPS jobs into seperate tasks (#2094)
This PR addresses issue #1228. The following is accomplished:
- Separate rocoto jobs have been created beneath `jobs/rocoto/`
-- `awips_20sh` and `awips_g2sh`; these jobs replace `awips.sh` which was
calling multiple J-jobs within the respective `awips.sh` scripts;
- New tasks has been added to `workflow/rocoto/tasks.py` for the new
AWIPS scripts;
- The `gfs_cycled` and `gfs_forecast_only` modules beneath
`workflow/rocoto` have been updated accordingly.
Resolves #1228
commit 04d97e9aa7ab84b9754ab670074cfb19d543aa26
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Mon Dec 4 13:38:30 2023 -0500
Consolidate VMINMON and cleanup monitor scripts (#2088)
This PR combines the GDAS and GFS versions of the VMINMON JJOB
and ex-driver scripts into single GLOBAL/global versions. Additionally:
* some further cleanup of the GSI-Monitor scripts is done; variable
settings in ex-driver scripts are moved up to the JJOB level
* the fix symlinks are consolidated into a new `fix/mon` subfolder (formerly
`fix/gdas`) and copies of the gfs monitor fix files under `fix/products` are
removed
Resolves #1925
commit a286a11fdcbc31c8bc6d944890bc56294bc8caf6
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Mon Dec 4 17:48:44 2023 +0000
Robust CI Restarts (#2093)
Improved CI robustness for reverting back to **CI-Ready** from any
given state
New Features:
- Improved `scancel` routine (refactored into bash "subroutine")
- Improved messaging (see below) when ever a user changes state
- Any and all previous build scripts and running experiments are killed as
a result of reset to **Ready**
Resolves #2060
commit 73621e9b20b20f85e8b21e4c1e09ed1d80ecd46f
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Sun Dec 3 11:19:19 2023 -0500
Upgrade to spack-stack/1.5.1 and Intel 2022 on non-production machines (#2084)
Update module files to spack-stack/1.5.1 and compilers to Intel 2022+ on all non-production machines.
commit 6d548b250688861eb20a7e0dc852a0e4ba9e64f4
Author: jiandewang <jiande.wang@noaa.gov>
Date: Thu Nov 30 12:00:21 2023 -0500
Add variable tob in diag_table for ocean model output(#2105)
commit c19810cce252fcdb25fd9960c05b08b5f8d8b1ad
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Wed Nov 29 15:17:36 2023 -0500
Added variables to config.prepoceanobs (#2101)
commit c2d78a61a224678fb804eed19f39d1f07408ae5f
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 29 12:39:08 2023 -0500
Add missing cut to VDATE setting in JGFS_ATMOS_VERIFICATION (#2098)
Refs #2097
commit c1c025f91ddac73aea595cc9fa4dd0bea80575fc
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Nov 29 17:15:10 2023 +0000
Add wave init to GEFS (#2089)
Adds the wave init job to GEFS. Since the output would be the same for
every member, the job is only run once for the control, then links are
created in each of the member directories pointing to that copy.
New ww3_multi and ww3_shell templates for GEFS are copied from the
GFS versions.
The GEFS restart frequency is changed to not be zero, and the comment
about not setting it to zero is copied from the gfs config.base. The restart
interval for the GEFS perturbed members is changed to equal that of the
control.
Also fixes a bug where `RUNwave` was not defined for ensemble forecasts,
and another bug in the GEFS stage_ic dependency.
Resolves #2017
commit 64a2470ce29b7d8d5cb85ebcb4048ff82958f64e
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 29 11:26:34 2023 -0500
Adjust permissions for jobs/JGFS_ATMOS_VERIFICATION (#2095)
Add execute permissions (755)
commit 964b77bc6de67291973c2c70598a1f8cb72501c5
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Nov 28 18:45:51 2023 +0000
Make proper j-job for MET+ (#2090)
Creates a proper j-job for the metp job, moving much of the material
from the `jobs/rocoto` script there (some of it within `jjob_header`).
Also updates the old `COMIN` variable for the COM refactor (although
it does not appear used in the verify scripts currently).
This is a partial step towards restoring/improving metp functionality
and remains untested.
Refs #1575
commit 8c11eeb8556619e8db4e0efb6394ce5a2c1aae0f
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 23 10:31:32 2023 -0700
Adds FBWINDS support to global-workflow (#2082)
This PR addresses issue #1221. The following was accomplished:
- A new Rocoto job is added; `jobs/rocoto/fbwinds.sh`;
- `workflow/applications/gfs_cycled.py` is updated to include the `fbwinds` task;
- `workflow/applications/gfs_forecast_only.py` is updated to include the `fbwinds` task;
- A new function is added to `workflow/rocoto/gfs_tasks.py`, `fbwinds` is added as new GFS (only) task;
- `workflow/rocoto/tasks.py` is updated to include the `fbwinds` task.
Resolves #1221
commit 513db190d21f9ede0724a2cd5606372b1d7605de
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 21 22:52:58 2023 -0700
Adds NPOESS support to global-workflow (#2083)
This PR addresses issue #1225. The following was accomplished:
- A new Rocoto job is added; `jobs/rocoto/npoess.sh`;
- `workflow/applications/gfs_cycled.py` is updated to include the `npoess`
task;
- `workflow/applications/gfs_forecast_only.py` is updated to include the
`npoess` task;
- A new function is added to `workflow/rocoto/gfs_tasks.py`, `npoess` is
added as new GFS (only) task;
- `workflow/rocoto/tasks.py` is updated to include the `npoess` task.
Resolves #1225
commit 62d8e99e77ffe44784f4c61c3f2296c6d1a72413
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 20:25:50 2023 -0500
Retire vrfy job (#2080)
Retires the `vrfy` job from the global-workflow system. All associated
scripts, configs, and references to the job are removed.
Additionally, the switches listed in RTD were updated to reflect new
ones added in other PRs for issue #235.
Resolves #2069
Refs #235
commit ea386abf11ecbacef407388e8d57e71b30148a35
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Nov 17 23:59:46 2023 +0000
Enable different coupled settings for ensemble (#2030)
Adds the ability to turn off some coupled components for the ensemble.
To enable this, many settings are moved out of `config.fcst` and into `config.ufs`
so they are calculated after any overrides of `DO_*` have been made. Some
settings also had to be moved out of `config.base` for the same reason. A
switch to turn on gocart is added to `config.ufs`, but unlike the other switches
this one takes no arguments.
The name of the ufs configure template used is converted from a partial file
name to the full file name.
Resolves #1692
commit fe792c0c9a1c46908cbd18c7e71eb836974cf1de
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 17:19:16 2023 -0500
Add --cpus-per-task to srun commands for Hera and Orion (#2077)
This PR adds the `--cpus-per-task` flag to non-CFP `APRUN`/srun commands
in the env files for Orion and Hera. This is needed as a result of an upgrade
to SLURM on Orion that no longer exported the thread value to the
environment. Issue #1996 was a hotfix to add this flag for the analysis job
that was suddenly running slowly after the SLURM upgrade. A similar SLURM
upgrade was done on Hera but the sysadmins there implemented a
workaround so this issue did not appear there.
This PR adds the `--cpus-per-task` flag for both machines...needed on Orion
and as a safety measure on Hera.
Also included in this PR is a fix to indentations in the
`scripts/exglobal_diag.sh` script that was noticed during work for this PR.
Timing differences were not observed for other jobs after adding this srun
flag. Job timings were of a similar variation between control and test runs.
Any potential additional speedup was not observed. The test runs also
reproduced the control runs with `develop`.
Resolves #2044
commit 42c943be305c297a56b104bb50727938c1ba688f
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 15:41:34 2023 -0500
Adjust modules in post.sh for WCOSS2 (#2079)
On WCOSS2 the grib_util module is named a bit different and
needs the libjpeg module loaded beforehand.
commit cd4e6a1987e7fd71dff06766f540b5d32c8b648d
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Fri Nov 17 11:49:32 2023 -0500
Update ufs-weather-model and remove upp hack (#2071)
Updates the model to the most recent commit of ufs-weather-model. This
should allow for the removal of the UPP hack that was added in PR #2042
This required changing nems.configure -> ufs.configure.
Resolves #1942
commit 5a2d97e142aa4999b122fd5a130c63e59ea9f8e2
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 16 22:15:53 2023 +0000
Fix check for existence of preamble functions (#2066)
A few of the setup scripts were checking for the existence of
functions set by the preamble before calling them so they could
also be used stand-alone. However, the `type` command returns `1`
if the function name does not exist, which will cause the script
to die is `set -e` is on. Now the `type` command fails over to an
empty string.
commit ed2ee7c2b1457b71b271a2c40f0dfa356e0f52f8
Author: WenMeng-NOAA <48260754+WenMeng-NOAA@users.noreply.github.com>
Date: Thu Nov 16 16:38:11 2023 -0500
Update UPP products for GFS v17 (#1973)
Updates of generating GFS V17 UPP products to support HR3:
- Update g2tmpl to 1.0.12
- Add changes to launch cfp on WCOSS2 to generate pgrb2/pgrb2b files
- Changes for generating new products (MERRA2, six winter weather variables,
1km HLCY, SDEN) in pgrb2 files
Resolves #1965
Resolves #1994
commit 635c4719e603538ce7cccf9ea6b31f3f84f20849
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 16 20:35:30 2023 +0000
Fix some rocoto dependencies (#2074)
A few small errors/cleanup in the dependencies, mostly in fcst:
A few small errors/cleanup have crept into the dependencies with recent changes,
mostly in fcst:
- Fixed the offset, as it would yield a string rocoto doesn't recognize when the
interval was 24+ hrs
- Removed the duplicate wave dependency. When `waveprep` is included, it
depends on `waveinit` so there is no need to add a `waveinit` dependency.
- Converted an interval in the archive job that was missed in #2039
Resolves #2075
commit d4c7508260975c6b94fc92fd085f39d4faf3f027
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Wed Nov 15 16:44:03 2023 -0500
Fix missing _PREV in ocean restart file location (#2070)
commit 255616d37505c785bdddd5d3e39e8399110b626e
Author: mdtoyNOAA <73618848+mdtoyNOAA@users.noreply.github.com>
Date: Wed Nov 15 12:02:09 2023 -0700
Update functionality for Prototype HR3 UGWP (#1987)
This PR adds/modifies namelist options and activates new 'ccpp' suite definition
files for the updated Unified Gravity Wave Physics (UGWP) in the ufs-weather-
model recently updated for HR3. The changes to UGWP are the use of the GSL
drag suite for orographic gravity wave drag (GWD) and blocking, as well as the
new UGWP Version 1 non-stationary GWD. See
ufs-community/ufs-weather-model#1923 for details.
Resolves #1986
commit be9085e62aae147e3c74602e2f82a99b374fc783
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Wed Nov 15 13:48:58 2023 -0500
Save the required CICE history for the sea-ice DA (#2062)
The hist_avg setting of CICE was changed to be an array.
commit 85f1f5131ffd70061231304ea477bde0559eb67b
Author: Guoqing Ge <guoqing.ge@noaa.gov>
Date: Wed Nov 15 11:47:21 2023 -0700
Use assim_freq to configure "offset" in dependencies (#2039)
Use the assim_freq from config.base to configure "offset" in dependencies
instead of hard-coding them.
Resolves #2038
commit 4e3d82ba3a1fa7cdd4443bcd4cf83b2f8835137c
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 15 13:39:14 2023 -0500
Resolve ENKF archive script bugs (#2065)
Fix two bugs in the exgdas_enkf_earc.sh script:
1) Replace ARCH_LIST with DATA to match changes done in PR #2000
and update path to generated archive list files.
2) Add status check and exit after script attempts to make tarball on HPSS.
Refs #2064
commit 42d7f2f0c48fab898b764e09cfbbd7a9fabbae08
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Nov 14 17:54:29 2023 -0500
Separate tracker and genesis jobs from vrfy job (#2058)
This PR creates new individual jobs for the tracker and genesis jobs that are being
pulled out of the `vrfy` job (issue #235). The `tracker` and `genesis` jobs will be on
by default while the `genesis_fsu` job will be off by default. This mimics the current
settings in the `vrfy` job.
No enhancements or upgrades are made to the jobs themselves in this PR, only to
separate them from the `vrfy` job. However, one change compared to how they
currently run in the `vrfy` job is to no longer run the `tracker` in the gdas suite. This
mimics how the `ens_tracker` package is run in operations (gfs only).
Changes in this PR:
1. Create rocoto job scripts for tracker/genesis jobs.
2. Create configs for tracker/genesis jobs, as well as `config.tropcy` for shared
settings.
3. Add tracker/genesis jobs to `config.resources`; use resources from the ecf scripts
for `ens_tracker` jobs in operations
4. Add tracker/genesis jobs to rocoto setup for both cycled and forecast-only
modes.
5. Update arguments for `jjob_header.sh` script in tracker/genesis JJOB scripts to use
specific job names and configs instead of vrfy.
6. Rename `tracker_ver` to `ens_tracker_ver` in version files to mimic variable within
tracker package.
7. Rename and move tracker/genesis switches to `config.base`.
8. Remove tracker/genesis jobs from `vrfy` job (`jobs/rocoto/vrfy` and `config.vrfy`).
9. Reduce vrfy job resources to accommodate tasks having been removed.
Refs #235
Resolves #1988
Resolves #2048
commit 0a0d6984e094d2a551d5d8331102142e7db13fc2
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Tue Nov 14 14:08:26 2023 -0500
Enable warm starting of the model for forecast-only mode (#2031)
This PR:
- adds an option to warm|cold start the ufs-weather-model when setting up an experiment for GFS/GEFS
- adds the capability to stage FV3 restarts when the atmosphere is warm started from FV3 restarts. This would be used in the GEFS free-forecast for part of the reforecast capability.
- If a coupled model is warm started for the atmosphere, also check if mediator restarts are present. If so, stage mediator restarts to allow restarting the coupled model.
Fixes #2016
commit 2cd6a589305a9ac9d3a9a0d2136e66e42f09d3bf
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 14 12:05:20 2023 -0700
Moves UFS WM configuration files to `COM_CONF` (#2054)
The UFS weather-model (WM) files are place in the COM_CONF path rather than the respective component model COM history paths.
Resolves #2015
commit 6f1693081662f241fafc930b1afc88125f7f5aff
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Nov 14 11:15:02 2023 -0500
Refine fit2obs job in rocoto mesh (#2047)
This PR adjusts the `fit2obs` job in the rocoto mesh to better define when it exists
and how the archive job dependencies accommodate it not being in the first half
cycle.
Changes in PR:
1. Remove the `fit2obs` job from the first half cycle `cycledef`.
2. Adjust the archive job dependencies to now include the `fit2obs` job in the new
logic check added in PR #1983. The `gdasarch` job in the first half cycle will check if
`gdasfit2obs` is complete OR no prior cycle exists. Also cleaned up this new logic
check block some to make it a tad simpler.
3. Also, fix the addition of the `fit2obs` config to the config list in setup scripts. Now
tied to whether `fit2obs` job is on instead of always adding the config to the list.
Resolves #2043
commit 5730a71fa5d311e49d9bb11528b500f27f33d69d
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 14 09:13:11 2023 -0700
Add `waveinit` and `waveprep` to half-cycle. (#2037)
This PR addresses issue #1444. The `waveinit` and `waveprep` tasks have been added to
the GDAS have cycle. The downstream dependencies for the respective GFS and GDAS
forecast tasks have been removed.
Resolves #1444
commit 28d2e93c3857de95b0309a089cd7dac736ccaded
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Nov 14 16:11:47 2023 +0000
Update wave IC source for C384 (#2055)
The default wave grid for C384 has changed since P8, so a single wave
IC on the new grid is available under a different IC name.
commit 81dd2d9855091315611106a5afbdaeaa15e6e4ae
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 9 17:19:57 2023 +0000
Fix analysis and post on Orion (#2046)
Fixes a couple things to get workflow to work on Orion again:
First, while #2042 allowed post to be built, the `upp.x` executable would fail due
to a missing library. Now post jobs (temporarily) uses the UPP modules (plus
others needed for runtime) instead of the normal workflow runtime module. This
should actually fix #2041. This hack can likely be removed once we move to
spack-stack.
Second, the launcher command for the analysis jobs on Orion are updated to
specify the number of CPUs per task. This was necessary as a recent slurm update
on Orion discontinued reading that value from the scheduler. Other jobs will be
handled later (see #2044).
Additionally, a change is made to `module-setup.sh` that will eliminate the
annoyance of `gw_setup.sh` breaking tab completion because undefined variable
checking was turned on for the script but not back off.
Resolves #1996
Resolves #2041
Refs #2044
commit 13d06ded4155cba2d08ef2a2cd553024c5abe29d
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Nov 8 18:25:47 2023 +0000
Hack UPP version (#2042)
The stack UPP was using on Orion was recently deleted, leaving us
unable to build the UFS verison of UPP there. UPP has an updated
version using spack-stack that works, so the checkout script is
modified to check out that version of UPP after UFS has been
checked out.
This temporary hack can be removed once we move to a UFS version
that advances the UPP version to or beyond 78f369b.
Resolves #2041
commit 20f6eceb8ff58f84174a27eb849c1d74566a3e03
Author: jiandewang <jiande.wang@noaa.gov>
Date: Wed Nov 8 11:14:55 2023 -0500
Add basic C1152 settings (#2020)
Adding C1152 setting in host.yaml, config.base and config.stage_ic so that can run C1152 S2SW.
Resolves #2019
commit 5183c43bbbd07285869feacb49d8680afe85929a
Author: Barry Baker <bbakernoaa@users.noreply.github.com>
Date: Tue Nov 7 01:14:40 2023 -0500
Update UFS for dust fix and remove nitrates by default (#1989)
This PR updates the `ufs-weather-model` to the latest hash that included the dust fix (PR #1922).
Along with this I removed the nitrates by default in support of the GEFSv13 EP4 and EP5
experiments. Removed unneeded inputs that should help with speed improvements.
commit 34a73cf2ed5afefc776d9cc73b6ebf439122a1bb
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Mon Nov 6 14:00:51 2023 -0500
Reduce gdas builds to 8 #2029 (#2036)
Reduce the default number of build jobs for the GDASApp to 8 from 16.
This is needed for Orion as the build crashes during a linking step. Though not verified, it
appears this may be caused by using too much memory with 16 builds. The issue disappears
when using 8 build jobs.
Resolves #2029
commit 75269e4bb9764b81589efc7d703825b80e74c8f5
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Mon Nov 6 17:34:47 2023 +0000
Streamline CI reporting to PRs (#2026)
Cleaned up the logs for CI PRs sent to the GitHub Messages:
- Eliminates redundant accumulative reporting
- Reports on all created or skipped experiment instantiations in a single message
- Gives one line report once for each experiment completion
- Single final report completion of CI
See some examples in forked [PR 195](https://github.com/TerrenceMcGuinness-NOAA/global-workflow/pull/195)
Resolves #2007
commit 8d55126bb0b27c79c8bee7f72b014abd34950ff9
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Fri Nov 3 17:06:09 2023 -0400
Implement IAU Cycling Type with Marine Data Assimilation Enabled (#1944)
Allows cycling in IAU mode with the S2S UFS model, soca and the GSI.
Most of the work related to making IAU work was done by @JessicaMeixner-NOAA . Thanks @JessicaMeixner-NOAA !
Resolves #1943
Refs #1776
commit 2563806821d4ae3b57120bc61aa0575139a708f0
Author: jiandewang <jiande.wang@noaa.gov>
Date: Fri Nov 3 11:49:37 2023 -0400
Add two ucx modules in load_ufswm_modules.sh to solve C768 and C1152 S2SW job hanging issue on WCOSS2 (#2021)
commit cbdc09711a83493f363a737d1e3e46c48a09719d
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Nov 3 04:09:33 2023 +0000
Fix staging of MOM data (#2028)
During the update to stage_ic, the copying of the additional res_N files for
0p25 was omitted. These are now properly copied.
Resolves #2027
commit bd4c56d99c23c5c41f0bd5f8a980ef99ee160888
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Thu Nov 2 16:09:59 2023 -0400
changed optional script name vars for ocean analysis (#2025)
commit 93bc918cdabee771c182c6f33cc54a20b5bb86c6
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Thu Nov 2 16:01:18 2023 -0400
Create separate GSI monitor jobs and remove from vrfy job (#1983)
This PR will move the GSI monitor tasks from the `vrfy` job into their own separate jobs in
the rocoto mesh. This takes care of part of issue #235.
Changes in this PR:
1. Create new individual GSI monitor jobs in the rocoto mesh to match how it is done in
operations. The new jobs are: `gdasverfozn`, `gdasverfrad`, `gdasvminmon`, and `gfsvminmon`.
The names correspond to the names in operations and the ecf script names. The jobs are only
added to cycled mode, none of the jobs are run in forecast-only mode.
2. Updates to GSI monitor scripts:
* Update `ush/jjob_header.sh` arguments in JJOB scripts to call new individual job names and
configs.
* Introduce `COM_*` variables and use of the `generate_com` utility. This results in the outputs
landing in `COM` subfolders, like occurs in operations, instead of landing in the online archive.
* Some variable cleanup in JJOB and ush scripts, includes cleaning up usage of `DATA` variable
and its removal at the end of the jobs.
* Add missing exit statements to `JGFS_ATMOS_VMINMON` and `JGDAS_ATMOS_VERFRAD`.
3. Create new rocoto job scripts for the new individual GSI monitor jobs.
4. Create new configs for the new individual GSI monitor jobs.
5. Add new individual GSI monitor jobs to resource configuration, using the same resources as
in operations.
6. Move and rename GSI monitor job switches from `config.vrfy` to `config.base`. Also add
switches to setup system. New switches to control each job being added to the rocoto mesh
are: `DO_VERFOZN`, `DO_VERFRAD`, `DO_VMINMON`
7. Add GSI monitor job output to archival job and into resulting HPSS tarballs or local tarballs.
This now matches what is done in operations.
8. Remove the GSI monitor tasks from the rocoto `vrfy` job and associated `config.vrfy`.
Example output locations and files (not showing contents of oznmon/horiz or oznmon/time for
brevity, see archival script for full list of output files):
```
kate.friedman@dlogin09:/lfs/h2/emc/ptmp/kate.friedman/comrot/testmonitor2> ll gdas.20211221/00/products/atmos/*mon
gdas.20211221/00/products/atmos/minmon:
total 112
-rw-r--r-- 1 kate.friedman emc 14030 Oct 25 15:00 2021122100.costs.txt
-rw-r--r-- 1 kate.friedman emc 84932 Oct 25 15:00 2021122100.cost_terms.txt
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 15:00 2021122100.gnorms.ieee_d
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 15:00 2021122100.reduction.ieee_d
-rw-r--r-- 1 kate.friedman emc 80 Oct 25 15:00 gnorm_data.txt
gdas.20211221/00/products/atmos/oznmon:
total 8
drwxr-sr-x 2 kate.friedman emc 4096 Oct 25 15:05 horiz
drwxr-sr-x 2 kate.friedman emc 4096 Oct 25 15:05 time
gdas.20211221/00/products/atmos/radmon:
total 21036
-rw-r--r-- 1 kate.friedman emc 231 Oct 25 15:12 bad_diag.2021122100
-rw-r--r-- 1 kate.friedman emc 9035 Oct 25 15:12 bad_pen.2021122100
-rw-r--r-- 1 kate.friedman emc 1449 Oct 25 15:12 low_count.2021122100
-rw-r--r-- 1 kate.friedman emc 20523403 Oct 25 15:07 radmon_angle.tar.gz
-rw-r--r-- 1 kate.friedman emc 217272 Oct 25 15:08 radmon_bcoef.tar.gz
-rw-r--r-- 1 kate.friedman emc 502151 Oct 25 15:10 radmon_bcor.tar.gz
-rw-r--r-- 1 kate.friedman emc 264480 Oct 25 15:12 radmon_time.tar.gz
-rw-r--r-- 1 kate.friedman emc 684 Oct 25 15:12 warning.2021122100
kate.friedman@dlogin09:/lfs/h2/emc/ptmp/kate.friedman/comrot/testmonitor2> ll gfs.20211221/00/products/atmos/minmon/
total 88
-rw-r--r-- 1 kate.friedman emc 10530 Oct 25 14:55 2021122100.costs.txt
-rw-r--r-- 1 kate.friedman emc 63882 Oct 25 14:55 2021122100.cost_terms.txt
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 14:55 2021122100.gnorms.ieee_d
-rw-r--r-- 1 kate.friedman emc 608 Oct 25 14:55 2021122100.reduction.ieee_d
-rw-r--r-- 1 kate.friedman emc 80 Oct 25 14:55 gnorm_data.txt
```
Lingering work and considerations:
1. Issue #1925
2. Consider not hardcoding the list of types in archival and perhaps tie it to something reliable or
configurable (maybe into `config.verfozn`?):
`subtyplist="gome_metop-b omi_aura ompslp_npp ompsnp_n20 ompsnp_npp ompstc8_n20 ompstc8_npp sbuv2_n19"`
Resolves #1908
commit 31b05a99b77d0f6eaa8b116485a41a43867d20e1
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 2 12:23:32 2023 -0600
Move analysis post to new stand-alone task (#1979)
This PR addresses issue #1130. A new task `postanl.sh` has been added such that the
`anl` post-processing is not it's own task within the Rocoto workflow. This change
prevents the GDAS experiment from breaking due to failures caused by the `anl` not
being available for the first cycle.
Resolves #1130
commit 247cdf8c7e10e6c98f782799fc51c069b6474e70
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 2 11:18:53 2023 -0600
Corrects missing local variable reference (#2023)
Fixes missing `$` in variable reference in archive job.
Resolves #2022
commit 241742b246da1794646b68e41c3d6fe00b95dd07
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Wed Nov 1 14:19:55 2023 -0400
Updates to prep ocean obs task (#1870)
commit 77be0ec6a3117b9f7e71a19c69ac64c09b521ecd
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Wed Nov 1 12:09:33 2023 -0600
No longer write archive lists COM (#2000)
Changes the respective `.txt` files used for the HPSS archive to the `DATA` path. Each
defined text file has been updated to explicitly write to `DATA` rather than `COM` such
that the files are deleted rather than being archived.
Resolves #760
commit 517b92f9c20c9e44abba3183325e35a95a7334a5
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Tue Oct 31 16:33:11 2023 -0400
Parallelize the build scripts (#1998)
Optimized/parallelized build scripts.
A few notes:
1) The default number of build jobs is 20, but one could argue for using 40. When researching
this, I looked up what the SRW is compiling with. That system uses 40 cores, which seems a
little excessive, but on testing the global workflow, the actual number of cores being used at
any given time rarely exceeds 16 when running with 40 cores. This is because the builds tend to
use multiple threads in the beginning when compiling low-level modules while the higher-level
modules are more or less serial AND because the GDASApp takes several minutes to initialize
all of its subrepositories by which time the smaller builds are complete.
2) I also updated checkout.sh so that all checkouts are simultaneous. The CPU load for
`git submodule` is quite low, so running 16 instead of 8 jobs at once is not much more expensive.
3) To make this work, I had to add `-j` options to most of the build scripts. The only exception is
build_upp, for which the build script within the UPP is hard coded to use 6 cores.
4) I fixed a few small bugs in the build scripts along the way.
5) Lastly, this reduce the total build time from ~2.5 hours for the entire system (including GDAS
and GSI in the same build) to ~40 minutes when running with `-j 40`.
Resolves #1978
commit 67c050c201f92e855d09211e41a5f51ee1cb5230
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tu…
kayeekayee
added a commit
to kayeekayee/global-workflow
that referenced
this pull request
Mar 20, 2024
12Jan24 global-workflow
UFS: 29Jan24, 625ac02
FV3: 29Jan24, bd38c56 (GSL: 28Feb24 , a439cc7)
UPP: 07Nov23, 78f369b
UFS_UTILS: 22Dev23, ce385ce
update pointers for ufs_model and ufs_utils
add GSL C3_MYNN xml suite
Change dt_inner=75 for any configuration running aerosol-aware Thompson (ltaerosol=.true.)
Squashed commit of the following:
commit db6a85e0ce36cec28714a4c9d6e13565253cf7bb
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Tue Mar 19 19:33:28 2024 +0000
29Jan ufs_model.fd, 29Jan FV3 with C3 files
commit de7b382c4b259d99d39e8857cbcee7efe64c1956
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Mon Mar 18 16:23:05 2024 +0000
update pointer for atmos_cubed_sphere to Feb 1 hash
commit 0fc27835205aaf57bdba228b1769e0ac7b37712e
Merge: b2c8ef81 db06f7c5
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Mar 14 00:17:24 2024 +0000
Merge branch 'gsl_ufs_dev' of https://github.com/NOAA-GSL/global-workflow into gsl_ufs_dev
commit b2c8ef81229b5e9b8e7592cb12c2f3e8e3179d92
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Wed Mar 13 23:51:45 2024 +0000
ccpp pointer updates to framework and physics
commit 484a18df8c9022190c8900c80e40507a6771e314
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Wed Mar 13 23:43:18 2024 +0000
ccpp pointer update in ufs_model.fd/FV3
commit db06f7c57d4cfc863352a4613c8260b0dffd9afe
Merge: 579f90c1 2dbd12a6
Author: Janet Derrico <143837053+jderrico-noaa@users.noreply.github.com>
Date: Wed Mar 13 15:55:48 2024 -0600
Merge pull request #43 from kayeekayee/gsl_ufs_dev
update GSL C3_MYNN files and change dt_inner=75
commit 2dbd12a695c4349071ee8470e597540e71bc0292
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Wed Mar 13 03:48:51 2024 +0000
update GSL C3_MYNN files
commit 579f90c1e0e2896710046c1885f68560ea435fa6
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Mar 7 19:20:46 2024 +0000
update ufs_model.fd submodule pointer
commit 2f2622d68eb8444afde9c1ddad470cfee1b63b99
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Mar 7 19:15:23 2024 +0000
update ufs_model.fd submod pointer
commit 706a0c52bb11af78e016014550ebd6847cc0ee19
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Mar 7 19:12:35 2024 +0000
update ufs_model.fd/FV3 path
commit 352f188f095e19442ade1f3fd167ff2fed501cd2
Merge: 5a8edc76 96545dcb
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Mar 7 17:58:38 2024 +0000
update ufs model pointer
commit 5a8edc766f2f4d3e12c692069d46c02fd766c354
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Mar 7 17:42:00 2024 +0000
update FV3 and UPP
commit 96545dcb63e3f8f7dfc036961d818db15fa1a003
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Wed Mar 6 10:05:39 2024 -0700
update pointer for ufs_model.fd
commit 25c026ef03a8d8c0db0b7368d2836f0b2e866eae
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Feb 29 20:35:11 2024 +0000
update ufs_model pointer
commit a28617a951c46b765aa996bfe4d28b554ec4e0a4
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Feb 22 06:16:26 2024 +0000
removed unneeded gsl directories
commit 6fb4f90e8572e98c977a1d2ab385f033111f3ea7
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Feb 22 06:08:13 2024 +0000
update ufs_utils.fd pointer
commit 9264f0c09239d046c5cd862d807e9b82f51dc3bd
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Wed Feb 21 19:33:26 2024 +0000
update .gitmodules file
commit f8edfa966147506f2c207728039e3a736cb95415
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Wed Feb 21 19:30:47 2024 +0000
update pointer to ufs_utils.fd
commit 5e0d2ab02d58e6a7a40db55a149a93008b28aa8b
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Wed Feb 21 19:25:52 2024 +0000
update pointer to ufs_model.fd
commit ebc9e1d02987a1c6aa8cabedf2323642748fab3c
Merge: e7a81511 50cb1e6f
Author: Janet Derrico <143837053+jderrico-noaa@users.noreply.github.com>
Date: Thu Feb 15 13:40:33 2024 -0700
Merge pull request #40 from kayeekayee/gsl_ufs_dev
Merge to 2024 Jan 12 NOAA-EMC/develop and update to 2024 Jan 29 UFS
commit 50cb1e6f0c661e4c6e2ef0be4527cce58379b2c9
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Thu Feb 15 20:30:34 2024 +0000
Add pygraf workflow.
commit 38b726125d49cff6cae4c0e5fff2438fc33143c5
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Wed Feb 14 17:43:15 2024 +0000
Add double quote for the arguments when calling setup_expt.py.
commit 053f2025fb0b0679c7d4f84958973c1534ec050c
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 23:57:06 2024 +0000
more fix.
commit 6f80ea2edc5444e275a79b371d02b6e98e963662
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 23:50:01 2024 +0000
more bug fix.
commit 56e283f1f666a38a4a3b30e1528e96eeb5c622e7
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 23:40:02 2024 +0000
Minor bug fix.
commit 2dcfed06ff6789eb77cf92e22b80f5475923fafc
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 23:19:03 2024 +0000
Update parameter for c3 case
Add c3 and mynn template
commit cc46b19ccc7cdb54878340eff79dda9e747abdf7
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 20:51:23 2024 +0000
Update INFO.
Add c3 SDF in the build.
commit a444ed48a23f24724853036e522b4437bf412c59
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 18:42:33 2024 +0000
Update to UFS 2024 Jan 29 version.
commit 88595707c7521cdce37ae1cf78720a7827242b24
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 18:16:46 2024 +0000
Minor bug fix.
commit baa0e9f10b132098d5134efaad712a51ebc26b83
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 17:59:27 2024 +0000
Update parameters for setup_expt.py in p8_ugwpv1.sh to resdetatmos and comroot.
commit 5875f06903f82a47fafb05f89f840e3b099d18d8
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Tue Feb 13 17:51:11 2024 +0000
Remove old gsl SDFs.
Remove 'rrtmg_lw_pre' from C3 and MYNN SDFs.
commit 9e0d1342f4e1edce96c9b2baeec55c2cffb964cd
Author: kayee.wong <kayee.wong@noaa.gov>
Date: Thu Feb 8 22:14:01 2024 +0000
Merge to 2024 Jan 12 NOAA-EMC/develop.
Squashed commit of the following:
commit c59047614c29f6ec15a4d4a6fa1855929287debd
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Fri Jan 12 19:21:02 2024 -0500
Update hash to ufs-weather-model. The noahmptable.tbl was reorganized, so update link_workflow.sh to use the same one used in UFSWM RT (#2219)
commit c041968e165c07da785376f1441374687b55d6cc
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Jan 12 12:09:35 2024 -0500
Add ocean resolution to setup_expt invocation and retire/reduce COMROT/ROTDIR usage (#2214)
Two series of updates:
1) Update setup scripts to now allow users to provide ocean resolution
2) Housekeeping to retire the `COMROT` variable, replacing it with other variables
as needed, and reduce the `ROTDIR` variable usage.
Both updates change options for the workflow setup API.
Refs #2061
commit 997f97816493d9ed0242e169b6dcf84e5c9338d6
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Fri Jan 12 10:46:36 2024 -0500
Allow use of ocean obs prep in WCDA cycling and remove R2D2 (#2215)
Enables use of ocean obs prep task in WCDA cycling and removes R2D2 from same.
Runs task gdasprepoceanobs before gdasocnanalprep -- obtains ocean data nc4 files from DMPDIR, processes them into IODA format and copies them to COM_OBS.
Replaces the current R2D2 processing.
commit 12a5bb192ab6282d44c008c06dc14947abd37249
Merge: 4cb58020 6492c2da
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Fri Jan 12 09:26:27 2024 -0500
Merge pull request #2217 from DavidHuber-NOAA/update/versions
Update and clean up version and module files
commit 6492c2da5f49bd31575d0bef5278c9a7f8ba3412
Author: David Huber <david.huber@noaa.gov>
Date: Thu Jan 11 11:49:08 2024 -0600
Update orion module/version files for met/metplus #2123
commit 94c9937f0bff380b0ebd6acdcfd2509e1ae99389
Author: DavidHuber <david.huber@noaa.gov>
Date: Thu Jan 11 17:42:53 2024 +0000
Comment met/metplus out from Hera modulefile. #2123
commit 8c32f8b7d00bba6e3e954f149e6548fb27713a3c
Merge: a65e4c67 4cb58020
Author: David Huber <david.huber@noaa.gov>
Date: Thu Jan 11 11:34:44 2024 -0600
Merge branch 'develop' of github.com:noaa-emc/global-workflow into develop
commit a65e4c675f21dbe72198d263e85e894e62b41e13
Author: David Huber <david.huber@noaa.gov>
Date: Thu Jan 11 11:34:19 2024 -0600
Initial update of version/module files #2123
commit 4cb580201af68c1c0e2ae19faf0727dcbbe43b4d
Author: souopgui <souopgui@users.noreply.github.com>
Date: Wed Jan 10 08:30:22 2024 -0600
Fix OpenMP over-allocation of resources in exglobal_atmos_products.sh when running MPMD tasks (#2212)
Fix OpenMP over-allocation of resources running MPMD tasks
Co-authored-by: Innocent Souopgui <isouopgui@redlineperf.com>
commit b056b531faee6929687cb8a588ffafa1a66426fb
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Mon Jan 8 17:28:05 2024 -0500
Add Hercules as valid machine in CI scripts (#2207)
Few updates to CI scripts to include names for hercules that where missed
the first time.
commit 6574d29a8c26b0695614874c344bccc5182363f4
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Mon Jan 8 17:25:47 2024 -0500
Fix invalid GH action and restart file name (#2210)
Resolves a typo that leads to an invalid workflow yaml and fixes the restart filename in restart detection.
Resolves #2205
commit 69605eac299df381ea9e0e329654487e26380ff5
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Mon Jan 8 17:00:28 2024 -0500
Stop attempting to comment link to RTD for non-PRs (#2209)
Adds a check so comments with a link to documentation are only generated
for PRs.
commit 4e160a895bfb31c281e21557dd86c13954a1a967
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Mon Jan 8 13:10:15 2024 -0500
Enable UPP for GOES processing (#2203)
Wnables the creation of special master grib2 files from UPP for
GOES processing
commit c15875b6dbf685327af9316ee43b3d01f0fc815e
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Mon Jan 8 09:56:06 2024 -0500
Port cycling to Hercules (#2196)
Adds cycled support for Hercules (excluding gsi-monitor).
Partially resolves #1588
GSI monitoring is disabled on Hercules due to missing Perl modules. That will be enabled in a later PR.
commit ef6827dd6abdab2996d1e19f9e0ff5d3071e0fdd
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Mon Jan 8 09:43:12 2024 -0500
Refactor rocoto task XML creation (#2189)
Refactors the rocoto task generation to be recursive.
This will allow nested metatasks to loop over multiple variables, which is needed for GEFS product generation.
As part of this refactor, there is no longer separate arguments to designate metatasks.
Instead, task dicts can include a nested 'task_dict' as well as a 'var_dict' containing the variables to loop over.
The nested task dict can then either have another layer, or be the innermost task.
To accommodate the new recursive nature, some defaults that were previously defined in create_wf_task() had to be pushed down into the function that creates the innermost task.
Also, former keywords have been absorbed by the task dict.
Refs #823
Refs #827
commit 2b81cfac16f103fb29b3aeb9748941787abf7287
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Mon Jan 8 09:41:03 2024 -0500
Update fix versions (#2198)
Updates fix versions for a few components:
- Update cice and mom6 versions to support C96/1p00 marine
- Update wave to change betamax setting for glo_025 waves
Resolves #2004
Resolves #2107
commit e7a81511e37f86e881da020e06b95990b470d952
Merge: af47b77c 75ad3754
Author: Janet Derrico <143837053+jderrico-noaa@users.noreply.github.com>
Date: Thu Feb 1 13:14:02 2024 -0700
Merge pull request #37 from jderrico-noaa/gsl_ufs_dev
Add GSL archive script and correct typos/fixed paths
commit 75ad3754f8bef5411c2570b5e392cd08e95cb6cb
Author: jderrico-noaa <janet.m.derrico@noaa.gov>
Date: Thu Feb 1 20:00:52 2024 +0000
adding consistent [[ ]] for if statements
commit 67b99668c82a5fd8c42479b9b1bfe8b0bad0be25
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Feb 1 19:37:47 2024 +0000
Updated HOMEgfs in GSL XML templates
commit 4d3719c086e7907a6eeff03112042d392e0d8c5e
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Feb 1 17:27:39 2024 +0000
Correct syntax errors in GSL scripts
Add new GSL archive script for archiving grib2 and ICs, but no netcdf files
commit 4309dd0b3b2d5625e7e1740d7cd3e39aacd5bc29
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Mon Jan 29 18:05:45 2024 +0000
Add GSL diag tables to parm/ufs/fv3
Update GSL template for hera
Create EMC and GSL versions of files under workflow/rocoto
- tasks.py, workflow_tasks.py
commit af47b77c7ee59a11c798995b4362b57e9096b090
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 02:07:43 2024 +0000
Create GSL version of archive script
commit 529d9f71f97b6e643e76a53bc9871901ae861faf
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 01:37:09 2024 +0000
Create GSL version of tracker.sh
- this is a placeholder with changes from last year's HFIP experiment; will likely need to be updated in the future
commit 8457e12c313bee602265b863129734354b019271
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 01:27:42 2024 +0000
Link config.base.emc.dyn_hera to config.base.emc.dyn
commit 7a05f5bd947944d8c3be828aeef9cc03bf9e073a
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 01:22:54 2024 +0000
Create GSL version of hpssarch_gen.sh
- assume we only run cold starts
- archive only 0p25 grib2 files (no 0p50 opr 1p00)
- assume no pgrb2b or flux files are created so no need to archive to HPSS
commit 98f5d6b16437e2a340bf16f83187e389a53f8bf0
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sat Jan 27 00:24:06 2024 +0000
Update workflow directory
- add GSL template for jet (based on last year's experiment)
- create EMC and GSL versions of yaml files under hosts; defaults point to GSL files
commit 38a7e5629ceeb23d399643a021e9a0a88468a07c
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 25 18:40:37 2024 +0000
Update atmos_products configuration file for GSL
- set downset to 1 so pgrb2b files are not created
- set FLXGF to "NO" so interpolated sflux.1p00 files are not created
commit fe8a953658d092ce2b597e14f31678624606fd8a
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 25 17:02:25 2024 +0000
Update nodes for gfsfcst task in GSL template for hera to match default configuration in config.ufs
(12x12, 2 threads, 1 write group, 40 write tasks ==> 56 nodes)
Increase walltime to 4:10 for gfsfcst task
commit 9d85b0f6d50e8ed142557fcb87c89d2e5d63c617
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 23 19:08:52 2024 +0000
Added default location for PTMP/STMP in workflow/hosts/hera.yaml
Added GSL XML template for hera
commit 1cf317d327fae78c5469712c9e5a6aa1ffa4b23b
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Wed Jan 17 22:33:13 2024 +0000
Add sjet partition
Make syntax consistent in "if" statements in config.resources
commit 2755e203751f50113849b06769173285e093290b
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Wed Jan 17 22:32:26 2024 +0000
Update configuration files for GSL
- create Hera and Jet versions of config.base.emc.dyn
- correct typo in config.fcst
- create different versions of config.ufs;
default is 12x12, 2 threads, 1 write group/40 write tasks (56 nodes)
commit 3c0c126a376af31866a93aef4cdd0b4145150c58
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 17:32:25 2024 +0000
Add script for remapping 1/4 degree grib2 grids to other domains
commit f217d4ed9a500e9a1bdcc17548729d972a1763ac
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 16:46:25 2024 +0000
Update link script for ufs_utils.fd
commit 5b21b31900955013b4e8106d3ae906b9da93b361
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 16:45:25 2024 +0000
Add GSL archive scripts for initial conditions
commit abb88baf9dd536a3b2ea1e24eaa99cbfe85af799
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 16 16:42:17 2024 +0000
Move configuration files for getic and init from jobs/rocoto to parm/config/gfs
commit 45b235180719ab79d2514f0317207fbebfb8aedd
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sun Jan 14 03:21:15 2024 +0000
Add suite definition file for v17p8_ugwpv1_c3 to sorc/ufs_model.fd_gsl
commit 147b1fce99254dcb602c333cc559feaa9a396e81
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Sun Jan 14 01:57:22 2024 +0000
Add getic and init tasks to workflow to create initial conditions in realtime
commit 4e4e50803d95566e1c7967cf4cfa575391d77f25
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Fri Jan 12 00:44:59 2024 +0000
Change default HPSS_PROJECT to fim
Change restart_interval_gfs to -1 so no files are written ro RERUN_RESTART directory
commit 791d7a27c6b12f07d9c12ce491338e3da59eb1d8
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 11 23:34:36 2024 +0000
Add namelist parameter, nord_tr, for GSL suites
commit c4a41de7ebcda2f80ce69ac94bd2b3a6f5d04ed5
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Thu Jan 11 23:31:22 2024 +0000
Add changes for running v17p8_mynn
- new field table, field_table_thompson_aero_tke_progsigma
- updated namelist parameters in config.fcst
commit 982a1f02e3b880be43f4ae8a3f0ffbb34c056aea
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:26:22 2024 +0000
Add experiment setup script for p8_ugwpv1
commit c5a3697d22fdbb02bb80ddffee2629dddc10c702
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:19:13 2024 +0000
Add memory report to srun command in env/HERA.env
commit ece7e516ca65ec0240899e7d84321310a6887595
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 02:13:42 2024 +0000
Updated GSL-specific files under ufs_utils.fd_gsl
commit 1b153fc95b93a16eb40b791be7322100fde4a3d4
Author: Judy.K.Henderson <Judy.K.Henderson@noaa.gov>
Date: Tue Jan 9 01:52:56 2024 +0000
Create new branch, gsl_ufs_dev, from dev_02jan24_9d901db
Add initial GSL modifications
- changes to workflow files
* GSL paths, projects, entities
- new FV3_GFS_v17_p8_ugwpv1_mynn suite definition file (SDF)
- updated namelist parameters in ush/parsing_namelists_FV3.sh
- create new GSL directories: ufs_model.fd_gsl and ufs_utils.fd_gsl
* new SDFs, add instantaneous flux variables to grib2 configuration files
* add Thompson tracers to initial conditions
- new sync script: rsync_gsl.sh
- new job files: getic.sh, makeinit_link.sh
- modify build_ufs.sh to include MYNN SDF
commit 9d901dbbff4d41586580316bdc094d24760119e6
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Jan 2 10:30:33 2024 -0700
Stop Gempak pgrb2 spec from modifying $DATA (#2147)
This PR addresses issue #1224. The following is accomplished:
- Instances where `DATA` is modified, corrections are made to use a locally defined variable such that `DATA` is no longer modified at run-time;
- Shell linter exceptions are addressed accordingly;
- The respective GEMPAK tasks is added to the Rocoto mesh.
Resolves #1224
commit 31ad23527802f7d07171132cc620f7135c4d8cba
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Jan 2 10:27:30 2024 -0700
Reorganize NPOESS scripts (#2166)
This PR addresses issue #1226. The following is accomplished:
- Using the GEMPAK j-job script `JGFS_ATMOS_GEMPAK_PGRB2_SPEC`, the structure
of `JGFS_ATMOS_PGRB2_SPEC_NPOESS` is updated;
- Environment variables specific to the script `exgfs_atmos_grib2_special_npoess.sh`
are moved accordingly; this specifically applies to the environment variable `FHOUR`,
`SHOUR`, `FHINC`, `SLEEP_TIME`, and `SLEEP_INT`;
- The `SLEEP_TIME` and `SLEEP_INT` parameters can now be defined at the top-level
(if necessary);
- Restart file checks are move to `exgfs_atmos_grib2_special_npoess.sh`; however,
this may not be necessary (see `TODO` note within draft PR.
Resolves #1226
commit 22bd82fa93b49e5ce98eb3f69123956dd5018049
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Jan 2 11:55:03 2024 -0500
Orog fix file reorg and fix directory variable standardization (#2181)
This PR makes updates to use the newly reorganized `orog/20231027`
fix file version and standardizes the fix file directory variables.
Changes:
1. Update UFS_UTILS hash to ce385ce
2. Update fix file version file to use new orog timestamp: `orog_ver=20231027`
3. Add ".mx$(OCNRES)" to `oro_data` filenames in scripts
4. Remove ".mx$(ocn_res)_frac" from the directory names for atmosphere
resolutions under the `/orog` folder
5. Adds fix file directory variables to `config.base`, many of which are pulled
up out of lower scripts; introduce `FIXcpl`
6. Renamed/replaced the following fix file directory variables:
- `FV3JEDI_FIX` --> `FIXgdas`
- `FIXfv3`, `FIX_orog` and `OROFIX` --> `FIXorog`
- `FIX_ugwd` and `OROFIX_ugwd` --> `FIXugwd`
- `FIX_am`, `FIXgsm`, `FIXSYND` --> `FIXam`
- `FIX_lut` --> `FIXlut`
- `FIX_aer` --> `FIXaer`
- `FIX_SFC` --> `FIXsfc`
- `FIX_DIR` --> `FIXgfs`
- `RTMFIX` and `FIXCRTM` --> `CRTM_FIX` (is `CRTM_FIX` in crtm module,
so not using `FIXcrtm`)
7. Correct the defaults for `FIXwave` in wave JJOB scripts
8. Update variable names in `*fixed_files.yaml` files, as well as update naming
convention for `oro_data` files
Resolves #1984
Resolves #1981
Resolves #2175
commit 03d03bf53b43914a55c384cb33eb06f6a9a443a6
Author: Andrew Collard <40322596+ADCollard@users.noreply.github.com>
Date: Tue Jan 2 11:53:44 2024 -0500
Remove HIRS from GSI processing (#2183)
With the update to CRTM 2.4.0.1, an issue with versioning of CRTM HIRS
files has been exposed. This is documented in JCSDA/crtm#42.
As HIRS radiances are no longer used in the GSI, these data should be removed
from processing until a suitable update to CRTM is available.
Resolves #2182
commit a3c50998d35525a39a66d5592fbf327ab3569e8b
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Fri Dec 22 18:07:48 2023 -0500
Update ufs-weather-model version (#2186)
* update model to latest version which includes needed bugfixes for HR3
commit 774c7302e618370ef578bec3ccabc70486d6da1b
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Fri Dec 22 11:34:53 2023 -0500
Fix analysis post processing's handling of 0-padded negative integers (#2187)
This screens for the analysis 'forecast' hour (-001) and handles the '-' and circumvents octal issues.
commit d1251360325faf75af9df0608557fcd10202a883
Author: Barry Baker <bbakernoaa@users.noreply.github.com>
Date: Thu Dec 21 11:23:48 2023 -0500
Fix for restoring cycling aerosols in fo-mode post COM refactor (#2179)
- Update to COM reorg aerosol initialization job
- Address bug in joining paths for data dependency in this job
---------
Co-authored-by: Rahul Mahajan <aerorahul@users.noreply.github.com>
commit e55a05980709288d902ad1bd894164bfa5a18a65
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Dec 20 22:14:01 2023 -0500
Stop calling ufs-utils link script (#2172)
The `link_workflow.sh` script was calling the ufs_utils version of the
same. That step is only necessary if a user is going to run one of the
stand-alone ufs-utils, which is rare.
commit ef3e5ad7c63be1644c82333c95853c3caf2d8995
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Dec 19 22:02:55 2023 -0500
Fix handling of excluded hosts list (#2170)
This PR fixes the issue with `create_experment.py` so that the yaml configuration
file can have a string of list of strings when specifying the host name to exclude
from the CI tests.
commit ea74a5719efc8f0fe631c5ff93426a4299a614f3
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Tue Dec 19 16:21:41 2023 -0500
Add COMOUT_OBS to marine obs prep (#2173)
Adds `COMOUT_OBS` (defined from `COM_OBS_TMPL`) to marine obs prep task to properly handle marine obs prep files. Used to keep obs after IODA conversion, QC, and other prep.
Towards resolving NOAA-EMC/GDASApp#815
commit c2500feace0bb7c04ce67a90dd3182120ee67b2e
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Tue Dec 19 14:55:20 2023 -0500
Return failed status if a build fails. (#2171)
If any of the builds fail, this makes build_all.sh return the sum of the error codes encountered.
Fixes #2168
commit 76fdd81cd84ed812181996a102379d8d964ba27a
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 19 13:24:34 2023 -0500
Update index.rst for new GFSv16.3.12 in ops (#2169)
Refs #2096
commit a81da33e8fe7541a36f68e7a4f14a384cadd36c8
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 19 10:22:21 2023 -0500
Set place=shared for shared jobs on WCOSS2 (develop) (#2156)
Set job as shared when not exclusive on WCOSS2
WCOSS2 defaults to exclusive when it is not specified as
either exclusive (place=exclhost) or shared (place=shared).
Now set shared when job should be shared.
Refs #2135
commit 89aea972f7964dac3f515e8070d7c534812c5fb4
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Dec 15 16:31:06 2023 -0500
Update gfs-utils version for Hercules (#2163)
An update of gfs-utils was misssing from the previous PR that added
initial Hercules support (#2128).
Also includes gfs-utils update for new marine post.
commit 9505cb4abc6ca2643a8ab254d14ca2000747fa44
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Thu Dec 14 16:15:31 2023 -0500
CI Updates to support Hercules (#2155)
If merged, this PR will update the CI scripts so they will run on Hercules for forecast only
NOTE: This is a stop gap to issue #2131 until its block on #1588 is removed.
Resolves #2154
commit c5ca82f04a2efae78389dec1c46b94ef4fb5bbe5
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Thu Dec 14 16:05:33 2023 -0500
Correct fbwind (#2161)
commit f3f3e05e6325e6c2e8ddab186f1ed2f985fec49a
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Thu Dec 14 12:06:23 2023 -0500
Add MOS jobs to rocoto mesh (#2148)
Create separate jobs for GFS MOS - extracted from now-retired vrfy job
Refs #2068
commit bb6151aa50c27253cb9b8f0a6601ddd58526b8b3
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Dec 14 05:38:29 2023 -0500
Replace checkout script with submodules (#2142)
Replaces the checkout script with git submodules. This change brings workflow in
line with other repos and git standards.
Due to these changes, the build system is updated slightly. First, the options that
were formerly used with `checkout.sh` to reduce unneeded builds (`-g` for GSI
and `-u` for UFSDA) are moved to `build_all.sh` instead. This is needed since build
all will not be able to key off directories existing or not to determine which com-
ponents to build. Second, the partial build system is removed. It was rarely, if ever,
used, and parts of it were already ignored with the previous changes to base builds
off whether directories exist. The manage externals file is also removed since that is
also not being used.
Following these changes, clones/checkout will need to either be recursive, or
`git submodule update` will need to be called separately to make sure components
are properly checked out (non-exhaustive list):
```
## Checkout develop (method 1)
git clone --recursive https://github.com/NOAA-EMC/global-workflow destination
## Checkout develop (method 2)
git clone --jobs 8 https://github.com/NOAA-EMC/global-workflow destination
cd destination
git submodule update --init --recursive --jobs 8
## Checkout existing branch some_branch (method 1)
git clone --recursive --jobs 8 -b some_branch https://github.com/NOAA-EMC/global-workflow destination
## Checkout existing branch some_branch (method 2)
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout --recurse-submodules some_branch
## Checkout existing branch some_branch (method 3)
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout some_branch
git submodule update --init --recursive --jobs 8
## Checkout new branch new_branch
git clone https://github.com/NOAA-EMC/global-workflow destination
cd destination
git checkout -b new_branch
git submodule update --init --recursive --jobs 8
```
The git ignore list had to be updated to use explicit paths as the wildcard paths pick
up the ones that are now submodules.
UFS creates files during the build process that are not in its ignore list, so that sub-
module ignores the "dirty" state to avoid confusing users running `git status`.
CI and documentation are also updated to reflect the changes.
Resolves #2141
commit 1332188ce2409e012ec127d44880e49732f7f379
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Dec 13 09:32:57 2023 -0500
Enable radar reflectivity output (#2143)
Turns on radar reflectivity output from FV3. This eliminates missing values appearing in the grib2 files.
commit 24d898ec0ec0c7fcbda6966988f9a986f528ed14
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Wed Dec 13 09:32:24 2023 -0500
Fix Hercules hostname (#2150)
* Allow lower or upper hostname on hercules.
* Add Hercules to issue template.
commit 2896bb8787698be28ad20f2298589e6e95eaf9fb
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 12 09:13:06 2023 -0500
Fix module load typo (#2145)
Fix typo with loading the crtm module in the UPP hack for WCOSS2
Refs #2144
commit 29d34172a67d976f910e78158ff0337e1ef099ca
Author: Cory Martin <cory.r.martin@noaa.gov>
Date: Thu Dec 7 15:12:05 2023 -0500
Update GDAS hash to most recent stable versions (#2138)
commit 93da9f105502e24f1a1a621f05ea49e1fdfe0102
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Dec 7 10:41:05 2023 -0700
Corrected typo in a gempak job gempakncdcupapgif . (#2137)
commit 3483f550db1ae35a680de49f7485ce5a11902dd9
Author: Cory Martin <cory.r.martin@noaa.gov>
Date: Thu Dec 7 12:34:56 2023 -0500
Add support for FGAT and IAU for aerosol DA (#1940)
commit e2664c011bf5fb03a9b1b37878cad423a1fde6f9
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Thu Dec 7 12:33:46 2023 -0500
Enable forecast-only experiments on Hercules (#2128)
This add forecast-only support for Hercules to the global workflow. Partially satisfies #1588.
Co-authored-by: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
commit a29f751aed05312da3d80d396159bb5a906d6ce4
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Wed Dec 6 13:45:56 2023 -0700
Adds GEMPAK and related jobs to rocoto task mesh (#2127)
commit 1fc8b5bf55581de18e786611c65bc3f84bb0c082
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Tue Dec 5 15:47:52 2023 -0500
Separate offline UPP from interpolated grib2 product generation (#2110)
This PR:
- Replaces the use of `JGLOBAL_ATMOS_POST` with `JGLOBAL_ATMOS_UPP`
and `JGLOBAL_ATMOS_PRODUCTS`.
- Introduces `JGLOBAL_ATMOS_PRODUCTS` that is responsible for creating
grib2 products from the master file produced by UPP (inline from the model,
or offline by running `JGLOBAL_ATMOS_UPP`). Rocoto job `atmos_products.sh`,
ex-script `exglobal_atmos_products.sh` are also added along with a
`config.atmos_products`. Updates are made to the relevant `env` files as well as
`config.resources` to reflect the addition of this job.
- reduces the number of cores needed appropriately for forecast products when
there is no offline UPP necessary.
- renames older `fv3gfs_dwn_nems.sh` to `interp_atmos_master.sh` and
`inter_flux.sh` to `interp_atmos_sflux.sh`
- removes `fv3gfs_downstream_nems.sh` as it is absorbed into
`exglobal_atmos_products.sh`
- removes no longer used scripts for `gfs_post.sh`, `gfs_transfer.sh` (DBN alerts
are absorbed into `exglobal_atmos_products.sh`), `post.sh`,
`JGLOBAL_ATMOS_POST`, `ex${RUN}_atmos_post.sh` scripts.
- Rocoto workflow related scripts are updated to add `atmos_products` as a job.
When `WRITE_DOPOST` is `.false.`, `upp.sh` job to run the UPP offline is also
added. Dependencies have been appropriately applied.
- removes `PGB1F` option that creates 1-degree grib1 products that are no longer
needed in GFSv17.
The hacks from (now deleted) `post.sh` had to be reinstated in `upp.sh` to load the
modules from UPP instead of `load_fv3gfs_modules.sh`.
commit 44186f594aaf5f8feea0eadd4c5c3b59de3a825e
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Dec 5 12:28:08 2023 -0500
Update index.rst for new GFSv16.3.11 version (#2121)
Refs #1356
commit e62a3a73cd22701962b7bf210fdfee37f37a5474
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Dec 5 09:08:12 2023 -0700
Splits AWIPS jobs into seperate tasks (#2094)
This PR addresses issue #1228. The following is accomplished:
- Separate rocoto jobs have been created beneath `jobs/rocoto/`
-- `awips_20sh` and `awips_g2sh`; these jobs replace `awips.sh` which was
calling multiple J-jobs within the respective `awips.sh` scripts;
- New tasks has been added to `workflow/rocoto/tasks.py` for the new
AWIPS scripts;
- The `gfs_cycled` and `gfs_forecast_only` modules beneath
`workflow/rocoto` have been updated accordingly.
Resolves #1228
commit 04d97e9aa7ab84b9754ab670074cfb19d543aa26
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Mon Dec 4 13:38:30 2023 -0500
Consolidate VMINMON and cleanup monitor scripts (#2088)
This PR combines the GDAS and GFS versions of the VMINMON JJOB
and ex-driver scripts into single GLOBAL/global versions. Additionally:
* some further cleanup of the GSI-Monitor scripts is done; variable
settings in ex-driver scripts are moved up to the JJOB level
* the fix symlinks are consolidated into a new `fix/mon` subfolder (formerly
`fix/gdas`) and copies of the gfs monitor fix files under `fix/products` are
removed
Resolves #1925
commit a286a11fdcbc31c8bc6d944890bc56294bc8caf6
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Mon Dec 4 17:48:44 2023 +0000
Robust CI Restarts (#2093)
Improved CI robustness for reverting back to **CI-Ready** from any
given state
New Features:
- Improved `scancel` routine (refactored into bash "subroutine")
- Improved messaging (see below) when ever a user changes state
- Any and all previous build scripts and running experiments are killed as
a result of reset to **Ready**
Resolves #2060
commit 73621e9b20b20f85e8b21e4c1e09ed1d80ecd46f
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Sun Dec 3 11:19:19 2023 -0500
Upgrade to spack-stack/1.5.1 and Intel 2022 on non-production machines (#2084)
Update module files to spack-stack/1.5.1 and compilers to Intel 2022+ on all non-production machines.
commit 6d548b250688861eb20a7e0dc852a0e4ba9e64f4
Author: jiandewang <jiande.wang@noaa.gov>
Date: Thu Nov 30 12:00:21 2023 -0500
Add variable tob in diag_table for ocean model output(#2105)
commit c19810cce252fcdb25fd9960c05b08b5f8d8b1ad
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Wed Nov 29 15:17:36 2023 -0500
Added variables to config.prepoceanobs (#2101)
commit c2d78a61a224678fb804eed19f39d1f07408ae5f
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 29 12:39:08 2023 -0500
Add missing cut to VDATE setting in JGFS_ATMOS_VERIFICATION (#2098)
Refs #2097
commit c1c025f91ddac73aea595cc9fa4dd0bea80575fc
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Nov 29 17:15:10 2023 +0000
Add wave init to GEFS (#2089)
Adds the wave init job to GEFS. Since the output would be the same for
every member, the job is only run once for the control, then links are
created in each of the member directories pointing to that copy.
New ww3_multi and ww3_shell templates for GEFS are copied from the
GFS versions.
The GEFS restart frequency is changed to not be zero, and the comment
about not setting it to zero is copied from the gfs config.base. The restart
interval for the GEFS perturbed members is changed to equal that of the
control.
Also fixes a bug where `RUNwave` was not defined for ensemble forecasts,
and another bug in the GEFS stage_ic dependency.
Resolves #2017
commit 64a2470ce29b7d8d5cb85ebcb4048ff82958f64e
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 29 11:26:34 2023 -0500
Adjust permissions for jobs/JGFS_ATMOS_VERIFICATION (#2095)
Add execute permissions (755)
commit 964b77bc6de67291973c2c70598a1f8cb72501c5
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Nov 28 18:45:51 2023 +0000
Make proper j-job for MET+ (#2090)
Creates a proper j-job for the metp job, moving much of the material
from the `jobs/rocoto` script there (some of it within `jjob_header`).
Also updates the old `COMIN` variable for the COM refactor (although
it does not appear used in the verify scripts currently).
This is a partial step towards restoring/improving metp functionality
and remains untested.
Refs #1575
commit 8c11eeb8556619e8db4e0efb6394ce5a2c1aae0f
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 23 10:31:32 2023 -0700
Adds FBWINDS support to global-workflow (#2082)
This PR addresses issue #1221. The following was accomplished:
- A new Rocoto job is added; `jobs/rocoto/fbwinds.sh`;
- `workflow/applications/gfs_cycled.py` is updated to include the `fbwinds` task;
- `workflow/applications/gfs_forecast_only.py` is updated to include the `fbwinds` task;
- A new function is added to `workflow/rocoto/gfs_tasks.py`, `fbwinds` is added as new GFS (only) task;
- `workflow/rocoto/tasks.py` is updated to include the `fbwinds` task.
Resolves #1221
commit 513db190d21f9ede0724a2cd5606372b1d7605de
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 21 22:52:58 2023 -0700
Adds NPOESS support to global-workflow (#2083)
This PR addresses issue #1225. The following was accomplished:
- A new Rocoto job is added; `jobs/rocoto/npoess.sh`;
- `workflow/applications/gfs_cycled.py` is updated to include the `npoess`
task;
- `workflow/applications/gfs_forecast_only.py` is updated to include the
`npoess` task;
- A new function is added to `workflow/rocoto/gfs_tasks.py`, `npoess` is
added as new GFS (only) task;
- `workflow/rocoto/tasks.py` is updated to include the `npoess` task.
Resolves #1225
commit 62d8e99e77ffe44784f4c61c3f2296c6d1a72413
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 20:25:50 2023 -0500
Retire vrfy job (#2080)
Retires the `vrfy` job from the global-workflow system. All associated
scripts, configs, and references to the job are removed.
Additionally, the switches listed in RTD were updated to reflect new
ones added in other PRs for issue #235.
Resolves #2069
Refs #235
commit ea386abf11ecbacef407388e8d57e71b30148a35
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Nov 17 23:59:46 2023 +0000
Enable different coupled settings for ensemble (#2030)
Adds the ability to turn off some coupled components for the ensemble.
To enable this, many settings are moved out of `config.fcst` and into `config.ufs`
so they are calculated after any overrides of `DO_*` have been made. Some
settings also had to be moved out of `config.base` for the same reason. A
switch to turn on gocart is added to `config.ufs`, but unlike the other switches
this one takes no arguments.
The name of the ufs configure template used is converted from a partial file
name to the full file name.
Resolves #1692
commit fe792c0c9a1c46908cbd18c7e71eb836974cf1de
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 17:19:16 2023 -0500
Add --cpus-per-task to srun commands for Hera and Orion (#2077)
This PR adds the `--cpus-per-task` flag to non-CFP `APRUN`/srun commands
in the env files for Orion and Hera. This is needed as a result of an upgrade
to SLURM on Orion that no longer exported the thread value to the
environment. Issue #1996 was a hotfix to add this flag for the analysis job
that was suddenly running slowly after the SLURM upgrade. A similar SLURM
upgrade was done on Hera but the sysadmins there implemented a
workaround so this issue did not appear there.
This PR adds the `--cpus-per-task` flag for both machines...needed on Orion
and as a safety measure on Hera.
Also included in this PR is a fix to indentations in the
`scripts/exglobal_diag.sh` script that was noticed during work for this PR.
Timing differences were not observed for other jobs after adding this srun
flag. Job timings were of a similar variation between control and test runs.
Any potential additional speedup was not observed. The test runs also
reproduced the control runs with `develop`.
Resolves #2044
commit 42c943be305c297a56b104bb50727938c1ba688f
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Nov 17 15:41:34 2023 -0500
Adjust modules in post.sh for WCOSS2 (#2079)
On WCOSS2 the grib_util module is named a bit different and
needs the libjpeg module loaded beforehand.
commit cd4e6a1987e7fd71dff06766f540b5d32c8b648d
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Fri Nov 17 11:49:32 2023 -0500
Update ufs-weather-model and remove upp hack (#2071)
Updates the model to the most recent commit of ufs-weather-model. This
should allow for the removal of the UPP hack that was added in PR #2042
This required changing nems.configure -> ufs.configure.
Resolves #1942
commit 5a2d97e142aa4999b122fd5a130c63e59ea9f8e2
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 16 22:15:53 2023 +0000
Fix check for existence of preamble functions (#2066)
A few of the setup scripts were checking for the existence of
functions set by the preamble before calling them so they could
also be used stand-alone. However, the `type` command returns `1`
if the function name does not exist, which will cause the script
to die is `set -e` is on. Now the `type` command fails over to an
empty string.
commit ed2ee7c2b1457b71b271a2c40f0dfa356e0f52f8
Author: WenMeng-NOAA <48260754+WenMeng-NOAA@users.noreply.github.com>
Date: Thu Nov 16 16:38:11 2023 -0500
Update UPP products for GFS v17 (#1973)
Updates of generating GFS V17 UPP products to support HR3:
- Update g2tmpl to 1.0.12
- Add changes to launch cfp on WCOSS2 to generate pgrb2/pgrb2b files
- Changes for generating new products (MERRA2, six winter weather variables,
1km HLCY, SDEN) in pgrb2 files
Resolves #1965
Resolves #1994
commit 635c4719e603538ce7cccf9ea6b31f3f84f20849
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 16 20:35:30 2023 +0000
Fix some rocoto dependencies (#2074)
A few small errors/cleanup in the dependencies, mostly in fcst:
A few small errors/cleanup have crept into the dependencies with recent changes,
mostly in fcst:
- Fixed the offset, as it would yield a string rocoto doesn't recognize when the
interval was 24+ hrs
- Removed the duplicate wave dependency. When `waveprep` is included, it
depends on `waveinit` so there is no need to add a `waveinit` dependency.
- Converted an interval in the archive job that was missed in #2039
Resolves #2075
commit d4c7508260975c6b94fc92fd085f39d4faf3f027
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Wed Nov 15 16:44:03 2023 -0500
Fix missing _PREV in ocean restart file location (#2070)
commit 255616d37505c785bdddd5d3e39e8399110b626e
Author: mdtoyNOAA <73618848+mdtoyNOAA@users.noreply.github.com>
Date: Wed Nov 15 12:02:09 2023 -0700
Update functionality for Prototype HR3 UGWP (#1987)
This PR adds/modifies namelist options and activates new 'ccpp' suite definition
files for the updated Unified Gravity Wave Physics (UGWP) in the ufs-weather-
model recently updated for HR3. The changes to UGWP are the use of the GSL
drag suite for orographic gravity wave drag (GWD) and blocking, as well as the
new UGWP Version 1 non-stationary GWD. See
ufs-community/ufs-weather-model#1923 for details.
Resolves #1986
commit be9085e62aae147e3c74602e2f82a99b374fc783
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Wed Nov 15 13:48:58 2023 -0500
Save the required CICE history for the sea-ice DA (#2062)
The hist_avg setting of CICE was changed to be an array.
commit 85f1f5131ffd70061231304ea477bde0559eb67b
Author: Guoqing Ge <guoqing.ge@noaa.gov>
Date: Wed Nov 15 11:47:21 2023 -0700
Use assim_freq to configure "offset" in dependencies (#2039)
Use the assim_freq from config.base to configure "offset" in dependencies
instead of hard-coding them.
Resolves #2038
commit 4e3d82ba3a1fa7cdd4443bcd4cf83b2f8835137c
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Nov 15 13:39:14 2023 -0500
Resolve ENKF archive script bugs (#2065)
Fix two bugs in the exgdas_enkf_earc.sh script:
1) Replace ARCH_LIST with DATA to match changes done in PR #2000
and update path to generated archive list files.
2) Add status check and exit after script attempts to make tarball on HPSS.
Refs #2064
commit 42d7f2f0c48fab898b764e09cfbbd7a9fabbae08
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Nov 14 17:54:29 2023 -0500
Separate tracker and genesis jobs from vrfy job (#2058)
This PR creates new individual jobs for the tracker and genesis jobs that are being
pulled out of the `vrfy` job (issue #235). The `tracker` and `genesis` jobs will be on
by default while the `genesis_fsu` job will be off by default. This mimics the current
settings in the `vrfy` job.
No enhancements or upgrades are made to the jobs themselves in this PR, only to
separate them from the `vrfy` job. However, one change compared to how they
currently run in the `vrfy` job is to no longer run the `tracker` in the gdas suite. This
mimics how the `ens_tracker` package is run in operations (gfs only).
Changes in this PR:
1. Create rocoto job scripts for tracker/genesis jobs.
2. Create configs for tracker/genesis jobs, as well as `config.tropcy` for shared
settings.
3. Add tracker/genesis jobs to `config.resources`; use resources from the ecf scripts
for `ens_tracker` jobs in operations
4. Add tracker/genesis jobs to rocoto setup for both cycled and forecast-only
modes.
5. Update arguments for `jjob_header.sh` script in tracker/genesis JJOB scripts to use
specific job names and configs instead of vrfy.
6. Rename `tracker_ver` to `ens_tracker_ver` in version files to mimic variable within
tracker package.
7. Rename and move tracker/genesis switches to `config.base`.
8. Remove tracker/genesis jobs from `vrfy` job (`jobs/rocoto/vrfy` and `config.vrfy`).
9. Reduce vrfy job resources to accommodate tasks having been removed.
Refs #235
Resolves #1988
Resolves #2048
commit 0a0d6984e094d2a551d5d8331102142e7db13fc2
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Tue Nov 14 14:08:26 2023 -0500
Enable warm starting of the model for forecast-only mode (#2031)
This PR:
- adds an option to warm|cold start the ufs-weather-model when setting up an experiment for GFS/GEFS
- adds the capability to stage FV3 restarts when the atmosphere is warm started from FV3 restarts. This would be used in the GEFS free-forecast for part of the reforecast capability.
- If a coupled model is warm started for the atmosphere, also check if mediator restarts are present. If so, stage mediator restarts to allow restarting the coupled model.
Fixes #2016
commit 2cd6a589305a9ac9d3a9a0d2136e66e42f09d3bf
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 14 12:05:20 2023 -0700
Moves UFS WM configuration files to `COM_CONF` (#2054)
The UFS weather-model (WM) files are place in the COM_CONF path rather than the respective component model COM history paths.
Resolves #2015
commit 6f1693081662f241fafc930b1afc88125f7f5aff
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Nov 14 11:15:02 2023 -0500
Refine fit2obs job in rocoto mesh (#2047)
This PR adjusts the `fit2obs` job in the rocoto mesh to better define when it exists
and how the archive job dependencies accommodate it not being in the first half
cycle.
Changes in PR:
1. Remove the `fit2obs` job from the first half cycle `cycledef`.
2. Adjust the archive job dependencies to now include the `fit2obs` job in the new
logic check added in PR #1983. The `gdasarch` job in the first half cycle will check if
`gdasfit2obs` is complete OR no prior cycle exists. Also cleaned up this new logic
check block some to make it a tad simpler.
3. Also, fix the addition of the `fit2obs` config to the config list in setup scripts. Now
tied to whether `fit2obs` job is on instead of always adding the config to the list.
Resolves #2043
commit 5730a71fa5d311e49d9bb11528b500f27f33d69d
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Nov 14 09:13:11 2023 -0700
Add `waveinit` and `waveprep` to half-cycle. (#2037)
This PR addresses issue #1444. The `waveinit` and `waveprep` tasks have been added to
the GDAS have cycle. The downstream dependencies for the respective GFS and GDAS
forecast tasks have been removed.
Resolves #1444
commit 28d2e93c3857de95b0309a089cd7dac736ccaded
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Nov 14 16:11:47 2023 +0000
Update wave IC source for C384 (#2055)
The default wave grid for C384 has changed since P8, so a single wave
IC on the new grid is available under a different IC name.
commit 81dd2d9855091315611106a5afbdaeaa15e6e4ae
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Nov 9 17:19:57 2023 +0000
Fix analysis and post on Orion (#2046)
Fixes a couple things to get workflow to work on Orion again:
First, while #2042 allowed post to be built, the `upp.x` executable would fail due
to a missing library. Now post jobs (temporarily) uses the UPP modules (plus
others needed for runtime) instead of the normal workflow runtime module. This
should actually fix #2041. This hack can likely be removed once we move to
spack-stack.
Second, the launcher command for the analysis jobs on Orion are updated to
specify the number of CPUs per task. This was necessary as a recent slurm update
on Orion discontinued reading that value from the scheduler. Other jobs will be
handled later (see #2044).
Additionally, a change is made to `module-setup.sh` that will eliminate the
annoyance of `gw_setup.sh` breaking tab completion because undefined variable
checking was turned on for the script but not back off.
Resolves #1996
Resolves #2041
Refs #2044
commit 13d06ded4155cba2d08ef2a2cd553024c5abe29d
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Nov 8 18:25:47 2023 +0000
Hack UPP version (#2042)
The stack UPP was using on Orion was recently deleted, leaving us
unable to build the UFS verison of UPP there. UPP has an updated
version using spack-stack that works, so the checkout script is
modified to check out that version of UPP after UFS has been
checked out.
This temporary hack can be removed once we move to a UFS version
that advances the UPP version to or beyond 78f369b.
Resolves #2041
commit 20f6eceb8ff58f84174a27eb849c1d74566a3e03
Author: jiandewang <jiande.wang@noaa.gov>
Date: Wed Nov 8 11:14:55 2023 -0500
Add basic C1152 settings (#2020)
Adding C1152 setting in host.yaml, config.base and config.stage_ic so that can run C1152 S2SW.
Resolves #2019
commit 5183c43bbbd07285869feacb49d8680afe85929a
Author: Barry Baker <bbakernoaa@users.noreply.github.com>
Date: Tue Nov 7 01:14:40 2023 -0500
Update UFS for dust fix and remove nitrates by default (#1989)
This PR updates the `ufs-weather-model` to the latest hash that included the dust fix (PR #1922).
Along with this I removed the nitrates by default in support of the GEFSv13 EP4 and EP5
experiments. Removed unneeded inputs that should help with speed improvements.
commit 34a73cf2ed5afefc776d9cc73b6ebf439122a1bb
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Mon Nov 6 14:00:51 2023 -0500
Reduce gdas builds to 8 #2029 (#2036)
Reduce the default number of build jobs for the GDASApp to 8 from 16.
This is needed for Orion as the build crashes during a linking step. Though not verified, it
appears this may be caused by using too much memory with 16 builds. The issue disappears
when using 8 build jobs.
Resolves #2029
commit 75269e4bb9764b81589efc7d703825b80e74c8f5
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Mon Nov 6 17:34:47 2023 +0000
Streamline CI reporting to PRs (#2026)
Cleaned up the logs for CI PRs sent to the GitHub Messages:
- Eliminates redundant accumulative reporting
- Reports on all created or skipped experiment instantiations in a single message
- Gives one line report once for each experiment completion
- Single final report completion of CI
See some examples in forked [PR 195](https://github.com/TerrenceMcGuinness-NOAA/global-workflow/pull/195)
Resolves #2007
commit 8d55126bb0b27c79c8bee7f72b014abd34950ff9
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Fri Nov 3 17:06:09 2023 -0400
Implement IAU Cycling Type with Marine Data Assimilation Enabled (#1944)
Allows cycling in IAU mode with the S2S UFS model, soca and the GSI.
Most of the work related to making IAU work was done by @JessicaMeixner-NOAA . Thanks @JessicaMeixner-NOAA !
Resolves #1943
Refs #1776
commit 2563806821d4ae3b57120bc61aa0575139a708f0
Author: jiandewang <jiande.wang@noaa.gov>
Date: Fri Nov 3 11:49:37 2023 -0400
Add two ucx modules in load_ufswm_modules.sh to solve C768 and C1152 S2SW job hanging issue on WCOSS2 (#2021)
commit cbdc09711a83493f363a737d1e3e46c48a09719d
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Nov 3 04:09:33 2023 +0000
Fix staging of MOM data (#2028)
During the update to stage_ic, the copying of the additional res_N files for
0p25 was omitted. These are now properly copied.
Resolves #2027
commit bd4c56d99c23c5c41f0bd5f8a980ef99ee160888
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Thu Nov 2 16:09:59 2023 -0400
changed optional script name vars for ocean analysis (#2025)
commit 93bc918cdabee771c182c6f33cc54a20b5bb86c6
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Thu Nov 2 16:01:18 2023 -0400
Create separate GSI monitor jobs and remove from vrfy job (#1983)
This PR will move the GSI monitor tasks from the `vrfy` job into their own separate jobs in
the rocoto mesh. This takes care of part of issue #235.
Changes in this PR:
1. Create new individual GSI monitor jobs in the rocoto mesh to match how it is done in
operations. The new jobs are: `gdasverfozn`, `gdasverfrad`, `gdasvminmon`, and `gfsvminmon`.
The names correspond to the names in operations and the ecf script names. The jobs are only
added to cycled mode, none of the jobs are run in forecast-only mode.
2. Updates to GSI monitor scripts:
* Update `ush/jjob_header.sh` arguments in JJOB scripts to call new individual job names and
configs.
* Introduce `COM_*` variables and use of the `generate_com` utility. This results in the outputs
landing in `COM` subfolders, like occurs in operations, instead of landing in the online archive.
* Some variable cleanup in JJOB and ush scripts, includes cleaning up usage of `DATA` variable
and its removal at the end of the jobs.
* Add missing exit statements to `JGFS_ATMOS_VMINMON` and `JGDAS_ATMOS_VERFRAD`.
3. Create new rocoto job scripts for the new individual GSI monitor jobs.
4. Create new configs for the new individual GSI monitor jobs.
5. Add new individual GSI monitor jobs to resource configuration, using the same resources as
in operations.
6. Move and rename GSI monitor job switches from `config.vrfy` to `config.base`. Also add
switches to setup system. New switches to control each job being added to the rocoto mesh
are: `DO_VERFOZN`, `DO_VERFRAD`, `DO_VMINMON`
7. Add GSI monitor job output to archival job and into resulting HPSS tarballs or local tarballs.
This now matches what is done in operations.
8. Remove the GSI monitor tasks from the rocoto `vrfy` job and associated `config.vrfy`.
Example output locations and files (not showing contents of oznmon/horiz or oznmon/time for
brevity, see archival script for full list of output files):
```
kate.friedman@dlogin09:/lfs/h2/emc/ptmp/kate.friedman/comrot/testmonitor2> ll gdas.20211221/00/products/atmos/*mon
gdas.20211221/00/products/atmos/minmon:
total 112
-rw-r--r-- 1 kate.friedman emc 14030 Oct 25 15:00 2021122100.costs.txt
-rw-r--r-- 1 kate.friedman emc 84932 Oct 25 15:00 2021122100.cost_terms.txt
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 15:00 2021122100.gnorms.ieee_d
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 15:00 2021122100.reduction.ieee_d
-rw-r--r-- 1 kate.friedman emc 80 Oct 25 15:00 gnorm_data.txt
gdas.20211221/00/products/atmos/oznmon:
total 8
drwxr-sr-x 2 kate.friedman emc 4096 Oct 25 15:05 horiz
drwxr-sr-x 2 kate.friedman emc 4096 Oct 25 15:05 time
gdas.20211221/00/products/atmos/radmon:
total 21036
-rw-r--r-- 1 kate.friedman emc 231 Oct 25 15:12 bad_diag.2021122100
-rw-r--r-- 1 kate.friedman emc 9035 Oct 25 15:12 bad_pen.2021122100
-rw-r--r-- 1 kate.friedman emc 1449 Oct 25 15:12 low_count.2021122100
-rw-r--r-- 1 kate.friedman emc 20523403 Oct 25 15:07 radmon_angle.tar.gz
-rw-r--r-- 1 kate.friedman emc 217272 Oct 25 15:08 radmon_bcoef.tar.gz
-rw-r--r-- 1 kate.friedman emc 502151 Oct 25 15:10 radmon_bcor.tar.gz
-rw-r--r-- 1 kate.friedman emc 264480 Oct 25 15:12 radmon_time.tar.gz
-rw-r--r-- 1 kate.friedman emc 684 Oct 25 15:12 warning.2021122100
kate.friedman@dlogin09:/lfs/h2/emc/ptmp/kate.friedman/comrot/testmonitor2> ll gfs.20211221/00/products/atmos/minmon/
total 88
-rw-r--r-- 1 kate.friedman emc 10530 Oct 25 14:55 2021122100.costs.txt
-rw-r--r-- 1 kate.friedman emc 63882 Oct 25 14:55 2021122100.cost_terms.txt
-rw-r--r-- 1 kate.friedman emc 808 Oct 25 14:55 2021122100.gnorms.ieee_d
-rw-r--r-- 1 kate.friedman emc 608 Oct 25 14:55 2021122100.reduction.ieee_d
-rw-r--r-- 1 kate.friedman emc 80 Oct 25 14:55 gnorm_data.txt
```
Lingering work and considerations:
1. Issue #1925
2. Consider not hardcoding the list of types in archival and perhaps tie it to something reliable or
configurable (maybe into `config.verfozn`?):
`subtyplist="gome_metop-b omi_aura ompslp_npp ompsnp_n20 ompsnp_npp ompstc8_n20 ompstc8_npp sbuv2_n19"`
Resolves #1908
commit 31b05a99b77d0f6eaa8b116485a41a43867d20e1
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 2 12:23:32 2023 -0600
Move analysis post to new stand-alone task (#1979)
This PR addresses issue #1130. A new task `postanl.sh` has been added such that the
`anl` post-processing is not it's own task within the Rocoto workflow. This change
prevents the GDAS experiment from breaking due to failures caused by the `anl` not
being available for the first cycle.
Resolves #1130
commit 247cdf8c7e10e6c98f782799fc51c069b6474e70
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Nov 2 11:18:53 2023 -0600
Corrects missing local variable reference (#2023)
Fixes missing `$` in variable reference in archive job.
Resolves #2022
commit 241742b246da1794646b68e41c3d6fe00b95dd07
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Wed Nov 1 14:19:55 2023 -0400
Updates to prep ocean obs task (#1870)
commit 77be0ec6a3117b9f7e71a19c69ac64c09b521ecd
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Wed Nov 1 12:09:33 2023 -0600
No longer write archive lists COM (#2000)
Changes the respective `.txt` files used for the HPSS archive to the `DATA` path. Each
defined text file has been updated to explicitly write to `DATA` rather than `COM` such
that the files are deleted rather than being archived.
Resolves #760
commit 517b92f9c20c9e44abba3183325e35a95a7334a5
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Tue Oct 31 16:33:11 2023 -0400
Parallelize the build scripts (#1998)
Optimized/parallelized build scripts.
A few notes:
1) The default number of build jobs is 20, but one could argue for using 40. When researching
this, I looked up what the SRW is compiling with. That system uses 40 cores, which seems a
little excessive, but on testing the global workflow, the actual number of cores being used at
any given time rarely exceeds 16 when running with 40 cores. This is because the builds tend to
use multiple threads in the beginning when compiling low-level modules while the higher-level
modules are more or less serial AND because the GDASApp takes several minutes to initialize
all of its subrepositories by which time the smaller builds are complete.
2) I also updated checkout.sh so that all checkouts are simultaneous. The CPU load for
`git submodule` is quite low, so running 16 instead of 8 jobs at once is not much more expensive.
3) To make this work, I had to add `-j` options to most of the build scripts. The only exception is
build_upp, for which the build script within the UPP is hard coded to use 6 cores.
4) I fixed a few small bugs in the build scripts along the way.
5) Lastly, this reduce the total build time from ~2.5 hours for the entire system (including GDAS
and GSI in the same build) to ~40 minutes when running with `-j 40`.
Resolves #1978
commit 67c050c201f92e8…
WalterKolczynski-NOAA
pushed a commit
that referenced
this pull request
Mar 28, 2024
…2421) This PR addresses issue #2329. The following is accomplished: - All submodule RDHPCS Hera stacks are updated to be compatible with the Rocky-8 distro spack-stack; - The global-workflow version files `versions/build.hera.ver` and `versions/run.hera.ver` are updated for Rocky-8; - All submodule hashes have been updated to be compliant with the Rocky-8 distro spack-stack (see the reference PRs below); - Update to `parm/config/config.base` is made for not yet compliant packages; - Relevant updates are made to `modulefiles/module_base.hera.lua` and `modulefiles/module_gwsetup.lua`. Resolves #2329 Refs: [#958](NOAA-EMC/GDASApp#958) [#49](NOAA-EMC/gfs-utils#49) [#124](NOAA-EMC/GSI-Monitor#124) [#31](NOAA-EMC/GSI-utils#31) [#2167](ufs-community/ufs-weather-model#2167) [#2143](ufs-community/ufs-weather-model#2143) [#913](ufs-community/UFS_UTILS#913) Co-authored-by: Rahul Mahajan <aerorahul@users.noreply.github.com> Co-authored-by: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
kayeekayee
added a commit
to kayeekayee/global-workflow
that referenced
this pull request
Apr 11, 2024
Squashed commit of the following:
commit c54fe98c4fe8d811907366d4ba6ff16347bf174c
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Apr 2 15:58:49 2024 -0400
Move bash utility functions out of preamble (#2447)
The preamble was accumulating a bunch of utility functions. These
functions are now moved to a separate file that is sourced by the
preamble. The only functions remaining in the preamble are those related
to script control and logging (`set_trace()`, `set_strict()`,
`postamble()`).
Resolves #2346
commit 4a39c8afc0555a8f2d621efb55589b9b309a416c
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Tue Apr 2 18:00:21 2024 +0000
Reenable the minimization monitor on Hera (#2446)
This allows the minimization monitor to run on Hera Rocky 8.
A missing perl module was added (List/MoreUtils.pm), but had to be
installed under the perl/5.38.0 installation, thus that module needs to
be loaded.
Resolves #2439
commit 0eaa53771b5e8d476d3b5feabd3181c8dc48629a
Author: Travis Elless <113720457+TravisElless-NOAA@users.noreply.github.com>
Date: Tue Apr 2 00:31:14 2024 -0400
Fix rotating member bugs (#2443)
When PR #2427 introduced the rotating subset of member guess states for
the early-cycle EnKF, the rotating member calculation function was
omitted from the DOSFCANL_ENKF if block in the enkf surface script. This
PR adds this feature to this section. This PR also removes hard coded
values that were included in this function and are replaced with a
variable equal to the number of late cycle members.
Resolves #2441
commit 39ba9d720c38ac85239a1eb1696c78df82396644
Author: CatherineThomas-NOAA <59020064+CatherineThomas-NOAA@users.noreply.github.com>
Date: Mon Apr 1 17:48:42 2024 -0400
Remove the reset of upper layer humidity (#2449)
# Description
The parameter "nudge_qv" resets the upper layer humidity to HALOE
climatology when cold starting. This parameter has been set to ".true."
but is no longer needed using v16+ ICs and will now be set to ".false."
by default.
Resolves: #2448
commit 7f6bf216566e92bbe072ebe4b64d26cc60fb53f1
Author: Jiarui Dong <Jiarui.Dong@noaa.gov>
Date: Mon Apr 1 13:08:33 2024 -0400
Archive the snow DA analysis into HPSS (#2414)
This PR adds the capabilities to archive the snow analysis output into
HPSS. Changes are made to archive the snow stats, letkfoi yaml file and
snow analysis into HPSS.
commit c1b11a2559e618f61866498b5dad503ba74d8332
Author: Neil Barton <103681022+NeilBarton-NOAA@users.noreply.github.com>
Date: Mon Apr 1 13:05:57 2024 -0400
Add GEFS ENS Atmos options (#2392)
This PR adds the FV3 atmos perturbation options when running GEFS. This
is needed for GEFS reforecasts and GEFS operational forecasts.
This PR continues to address the below issues
#1720
#1921
Co-authored-by: Rahul Mahajan <aerorahul@users.noreply.github.com>
Co-authored-by: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Co-authored-by: Bing Fu <48262811+bingfu-NOAA@users.noreply.github.com>
commit 834ce31348a627e14d448cdbe33d4ec0dabe99e4
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Fri Mar 29 13:17:08 2024 -0400
Refactor gempak jobs for new COM and style (#2374)
Updates the gempak jobs to fit the new COM structure while also
refactoring them some to improve the style. Despite these technical
changes, the overall structure is left unchanged for most scripts,
though some have been rewritten to make the needed changes easier. Some
of these scripts had already been updated some in the original COM
refactor and thus needed fewer updates.
Style updates includes converting all gempak scripts to bash, making
them shellcheck compliant, and removing trailing whitespace. Further
refactoring to improve maintainability will be needed in the future (see
#2341, #2342, #2343, #2348).
The GFS gif scripts were identical except the forecast hour, so they are
collapsed down into two: one for f000 and one for other forecast hours.
The gempak executables have short path limits. To get around this
without having the gempak module recompiled, target directories (mostly
relevant for the gempak meta jobs) are symlinked into the working
directory to drasticly reduce the path lengths.
Part of this update includes replacing existing MPMD calls with the new
standard `ush/run_mpmd.sh` script.
A new function, `wait_for_file()`, is introduced to standardize waiting
for a file to be available.
Gempak forecast hours are often hard-coded within scripts. In addition
to issues with maintainability, this causes problems for shorter
forecasts, such as we typically run for testing purposes. For now, we
simply check the values against the forecast length and reduce if
necessary. Future work (#2348) will be needed to remove these hard-coded
values with variables set in the config file (or just use update gempak
products to match standard output time variables).
One-degree gempak files have been updated to include `1p00` in the
filename.
Several gempak job dependencies are corrected.
Fake gempak data for external models is being staged on tier-1 machines
to allow testing.
**Output has not been verified.** Future PRs will likely be needed to
bring full functionality online.
Resolves #2158
Resolves #2152
Resolves #2151
Resolves #2249
Resolves #2247
Refs #2157
Refs #2348
commit 20635b0639656769842218d544ec7ce2436337c5
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Fri Mar 29 08:15:29 2024 +0000
Turn GEFS CI test on for Hera (#2442)
Re-enabling gefs case to test gefs system builds in Jenkins on Hera.
Co-authored-by: TerrenceMcGuinness-NOAA <terry.mcguinness@noaa.gov>
Co-authored-by: terrance.mcguinness <terrance.mcguinness@noaa.gov>
Co-authored-by: Walter.Kolczynski <Walter.Kolczynski@noaa.gov>
commit ba6a9d5fa6a079b1e3fdd424a493252bbf499c5d
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Thu Mar 28 17:34:22 2024 -0400
Modify APP based on RUN (#2413)
There is a need to change which coupled components are on depending on
the current `RUN`. To facilitate this, the `APP` is modified prior to
the setting of the `DO_<component>` variables based on `RUN`, turning
off components as desired.
This new system also replaces the `DO_<component>_ENKF` switches that
were formerly used to turn components off for the ensemble.
Also expands allows apps for cycled to include S2SWA.
Resolves #2318
commit 3ff7a92c25564ddf984cb09cb5667ae8fafe01a0
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Thu Mar 28 17:48:00 2024 +0000
Fix post log arg check and don't create build semaphore (#2440)
Two Hot Fixes to Jenkins latest updates:
1. Logic fixed in checking for mutually exclusive use of gists and repo
for publishing error files
2. Removed creation of build success file semaphore forcing complete
rebuild as the default behavior for rerun/restarts
Co-authored-by: TerrenceMcGuinness-NOAA <terry.mcguinness@noaa.gov>
Co-authored-by: terrance.mcguinness <terrance.mcguinness@noaa.gov>
commit d6be3b5c3a1b8fd025a303b40e0660e2914906a7
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Wed Mar 27 20:56:18 2024 -0600
Update global-workflow and subcomponents to Hera/Rocky 8 partition (#2421)
This PR addresses issue #2329. The following is accomplished:
- All submodule RDHPCS Hera stacks are updated to be compatible with the
Rocky-8 distro spack-stack;
- The global-workflow version files `versions/build.hera.ver` and
`versions/run.hera.ver` are updated for Rocky-8;
- All submodule hashes have been updated to be compliant with the
Rocky-8 distro spack-stack (see the reference PRs below);
- Update to `parm/config/config.base` is made for not yet compliant
packages;
- Relevant updates are made to `modulefiles/module_base.hera.lua` and
`modulefiles/module_gwsetup.lua`.
Resolves #2329
Refs: [#958](https://github.com/NOAA-EMC/GDASApp/issues/958)
[#49](https://github.com/NOAA-EMC/gfs-utils/issues/49)
[#124](https://github.com/NOAA-EMC/GSI-Monitor/issues/124)
[#31](https://github.com/NOAA-EMC/GSI-utils/issues/31)
[#2167](https://github.com/ufs-community/ufs-weather-model/issues/2167)
[#2143](https://github.com/ufs-community/ufs-weather-model/issues/2143)
[#913](https://github.com/ufs-community/UFS_UTILS/issues/913)
Co-authored-by: Rahul Mahajan <aerorahul@users.noreply.github.com>
Co-authored-by: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
commit 47302153f13f6b23539be841b78ed78664599c08
Author: Travis Elless <113720457+TravisElless-NOAA@users.noreply.github.com>
Date: Wed Mar 27 21:14:57 2024 -0400
Add a rotating subset of members for early-cycle enkf (#2427)
The early-cycle EnKF needs the ability to run with fewer members than
the late-cycle due to operational resource constraints. Because of this
requirement, the introduction of a rotating subset of member first-guess
states used by the early-cycle ensemble is also needed in order to
preserve the rotating member initial condition functionality currently
used by the GEFS.
Co-authored-by: Travis J Elless <telless@Orion-login-1.HPC.MsState.Edu>
Co-authored-by: travis elless <travis.j.elless@dlogin07.dogwood.wcoss2.ncep.noaa.gov>
commit 94c282ef6fdcd47076e932bcadb5bdd55236aa05
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Wed Mar 27 20:28:15 2024 +0000
Uploading error logs to GitHub from Jenkins CI Runs (#2429)
This PR enhances the user experience within GitHub for when errors occur
during build and running of CI cases from within the PR messages. This
is done by uploading the error logs to GitHub Gists and then publishing
the links to them along with the full paths of the logs on disk.
This PR adds the python Class **GitHubPR** in
`${HOMEgfs}/ci/scripts/utils/githubpr.py` by inhearting the GitHub Class
from **pyGitHub**. We use this module to introduce a helper python
utility that can publish a list of log files into a GitHub Gist and/or
the designated branch **error_logs** in the **emcbot** repo
**ci-global-workflows** for storing error log files for review from any
git configured terminal. This upload feature will also create
persistence of errors over time.
Also the `build_all.sh -k` script has been updated to support a "quick
kill" feature (thanks David) that stops the parallel builds whenever one
fails and creates an error_log file that has the paths to the error
files that are also uploaded and published in the PR messages in GitHub.
Co-authored-by: TerrenceMcGuinness-NOAA <terry.mcguinness@noaa.gov>
Co-authored-by: terrance.mcguinness <terrance.mcguinness@noaa.gov>
Co-authored-by: DavidHuber <david.huber@noaa.gov>
Co-authored-by: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
commit 6c5065e2e83a45b14505e7575aa4500482ef7452
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Wed Mar 27 03:39:16 2024 -0400
Add option to use traditional threading in the UFS (#2384)
# Description
This PR:
- adds the option of running the ufs-weather-model with traditional
threading in addition to ESMF-managed threading. See new toggle
`USE_ESMF_THREADING=YES|NO` set in `config.fcst`
- does not change the current default of using ESMF-managed threading.
Traditional threading use might need a little more fine tuning for the
job-card specification. This will be achieved when the UFSWM RT
completely switches over to traditional threading
- updates the hash of the ufs-weather-model to the PR
https://github.com/ufs-community/ufs-weather-model/pull/2172
Resolves #2277
In addition to the above stated objectives, this PR also addresses open
issues. In particular, this PR:
- adds a newline at the end of `diag_table_aod`. Fixes #2407
@zhanglikate
- reserves more memory on WCOSS2 for offline UPP when running at C768.
Fixes #2408 @WenMeng-NOAA
Co-authored-by: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
commit bc1c46dfd7393c5164abcdc2dfa76a9c4bc834b8
Author: RussTreadon-NOAA <26926959+RussTreadon-NOAA@users.noreply.github.com>
Date: Tue Mar 26 22:27:30 2024 -0400
Correct GDASApp paths (#2435)
The changes in this PR
- account for changes in GDASApp directory structure
- generalize how the path to the GDASApp python ioda library is
specified
Resolves #2434
commit f0b912be6f2cf2fac590272253f19cb082fbf5f2
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Mon Mar 25 21:46:32 2024 +0000
Fix *earc jobs where the number of members isn't a multiple of 10 (#2424)
This limits the earc search for ensemble members to the maximum number
of members, which prevents attempting to send non-existent members to
HPSS if the number of ensemble members is not a multiple of 10.
Resolves #2390s
commit daeb0c855017f8ffd6f06870744b825b276097f3
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Fri Mar 22 17:40:04 2024 +0000
hotfix to update full path to error logs on CI case fail (#2425)
This hotfix PR prepends the full path to the error logs on disk to be
communitated correctly to the GitHub message to the PR that is being
processed when there is a failure in from a case.
commit 50f75526549245f2b5d984cdb44e402852e086ec
Author: YaliMao-NOAA <53870326+YaliMao-NOAA@users.noreply.github.com>
Date: Thu Mar 21 16:58:25 2024 +0000
Add WAFS jobs, scripts and ush to GFS v17 workflow repository (#2412)
# Description
This PR adds WAFS jobs, scripts and ush to GFS v17 workflow repository
---------
Co-authored-by: yali mao <yali.mao@clogin04.cactus.wcoss2.ncep.noaa.gov>
Co-authored-by: Rahul Mahajan <aerorahul@users.noreply.github.com>
Co-authored-by: yali mao <yali.mao@clogin09.cactus.wcoss2.ncep.noaa.gov>
commit 03ba78ae3df589211d2776254c6e8584ecdc226f
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Thu Mar 21 13:33:50 2024 +0000
Hotfix: send the correct number of build jobs for the UFS (#2423)
This fixes a bug in build_ufs.sh that was causing the UFS to always
build with 8 jobs (except on the cloud).
commit 4d1bf5266f00b35778ea47896f438e3ef612628d
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Mar 20 14:00:31 2024 -0400
Updates to RTD documentation (#2418)
Updates to the RTD documentation include:
- Textual updates
- Better definition of GDA subfolder structure
- Added note about GDAur having been discontinued
- Adjust copyright and author information
- Fix Git version table and update its contents
- Add "Table of Contents" header before table of contents on front page
- Add AWS ICs path to init page
- Add link to UFS_UTILS gdas_init RTD documentation
- Add note about bash to `gw_setup.sh` section and added a warning block
Refs #2395
commit afe874ee8b28942e459796cd1005ec598458a5b7
Author: Neil Barton <103681022+NeilBarton-NOAA@users.noreply.github.com>
Date: Tue Mar 19 14:35:02 2024 -0400
Add GEFS Ocean Perturbation Options (#2385)
This PR adds the MOM6 ocean perturbation options when running GEFS. This
is needed for GEFS reforecasts and GEFS operational forecasts.
This PR continues to address the below issues
https://github.com/NOAA-EMC/global-workflow/issues/1720
https://github.com/NOAA-EMC/global-workflow/issues/1921
Fixes #2403
commit fa855baa851b0cb635edd1b9ae1bfed5112d41e5
Author: Clara Draper <33430543+ClaraDraper-NOAA@users.noreply.github.com>
Date: Mon Mar 18 12:49:14 2024 -0600
Add initial GSI-based soil analysis capability (#2263)
First set of changes for adding the new soil analysis, from the
assimilation of screen-level T and q. The changes here enable the
screen-level observations to be assimilated in the Hybrid (Var and EnKF)
update, and the soil temperature and soil moisture updates to be made in
the EnKF only. The functionality is turned on by setting GSI_SOILANAL to
YES in config.base.
Resolves #1479
commit e9700d84b521907ee23e1584712f80e25e60f08e
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Mon Mar 18 09:32:13 2024 -0400
re-enable ci/cases/pr/C48mx500_3DVarAOWCDA.yaml (#2405)
Updates to re-enable C48mx500_3DVarAOWCDA CI test after it was disabled
in https://github.com/NOAA-EMC/global-workflow/pull/2371
Fixes github.com/NOAA-EMC/global-workflow/issues/2404
commit 3ccffeee120340ab580fc9d96b552970c9f42a8f
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Mon Mar 18 09:30:35 2024 -0400
Parse jediyaml only once (#2387)
`JEDIYAML` was being parsed 3 times; once in `get_obs_dict`, second in
`get_bias_dict` and a third time in `initialize` for the specific
component analysis task.
This PR:
- eliminates the duplications and constructs the `jedi_config`
dictionary just once. The dictionary is written out before calling the
executable.
- updates hash to gdasapp
- updates configs for snow, aerosol, atmvar and atmens JEDI-DA to
include `JEDI_FIX_YAML` and `CRTM_FIX_YAML` . This allows greater
flexibility and control over the contents of these fix data sets to be
copied into the run directory.
- Combines snowDA and aerosolDA into a single test
Co-authored-by: Cory Martin <cory.r.martin@noaa.gov>
Co-authored-by: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
commit a5f24951c5bef142747c6f6cc6abd474f0b53ac2
Author: CatherineThomas-NOAA <59020064+CatherineThomas-NOAA@users.noreply.github.com>
Date: Fri Mar 15 14:47:54 2024 -0400
Fix ensemble archive groups to include all members (#2402)
The number of groups used in the ensemble archive step (earc) needs to
include a task for the ensemble stat files such as the mean and the
spread, resulting in `n_groups+1` tasks for `earc`.
Resolves: #2390
commit 056cfdca9e7fd7426a315fcbffc38d8ee2891212
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Fri Mar 15 18:30:23 2024 +0000
GitHub message error paths (#2401)
Add feature to message paths to error logs of failed experiments to
GitHub Messaging the PR from Jenkins.
commit d897ee4936d62160811d936248c8555187f81b65
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Thu Mar 14 12:37:49 2024 -0400
Missed a comma from the hotfix this AM (#2399)
This PR is a hotfix to the hotfix from earlier this AM. A comma was
missing.
commit 906540acacf1b2ce4c0489d0d9d4913f53a4e8ad
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Thu Mar 14 10:40:03 2024 -0400
Fix KeyError issue in ocean/ice postprocessing job. (#2398)
The jjob for ocean and ice pp, only defines the component specific
history and grib directory. This causes an error in the exscript trying
to pull keys for both ocean and ice. Fix this. Surprised this has not
caused failures before today
Co-authored-by: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
commit c27f243ce24c60261718f15628f6ab30d7b09f7b
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Wed Mar 13 13:31:57 2024 -0400
Remove documentation about generating ICs using global-workflow (#2397)
Removes instructions on generating ics using global-workflow and
directs the user to use ufs-utils.
commit 0edbdc197441582f9c402da0f3a7f144b88960c7
Author: DavidNew-NOAA <134300700+DavidNew-NOAA@users.noreply.github.com>
Date: Tue Mar 12 16:30:45 2024 -0400
Changed config.atmanl to allow non-hybrid background error yamls (#2394)
# Description
Makes change so that if DOHYBVAR equals "NO", then the JEDI background
error yaml is set to staticb_${STATICB_TYPE}.yaml.j2 rather than
hybvar_${STATICB_TYPE}.yaml.j2. This allows GDAS to run without hybvar,
which may be necessary for development purposes.
This is all accomplished by a simple switch in config.atmanl.
commit ccb1f528489e740bb2adc4958146552323dd8709
Author: RussTreadon-NOAA <26926959+RussTreadon-NOAA@users.noreply.github.com>
Date: Tue Mar 12 10:45:39 2024 -0400
Add JEDI atmosphere only CI (#2357)
The PR contains a minimal set of changes to enable JEDI atmospheric DA
CI testing. Prototype JEDI atmospheric cycling has begun. The JEDI
atmosphere DA CI case provides an automated way to see if future PRs
impact JEDI atmospheric cycling.
Resolves #2294
Dependency: GDASApp PR
[#937](https://github.com/NOAA-EMC/GDASApp/pull/937)
commit b96f5ebbb1968bd539336652b87a2faa8ce68fd4
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Tue Mar 12 07:58:40 2024 -0400
Add switch to control `debug=true` on WCOSS2 for development testing (#2388)
Adds a switch (`DEBUG_POSTSCRIPT`) to control whether
`debug=true` is set when submitting development rocoto jobs to PBS
schedulers (currently just WCOSS2).
There isn't an equivalent flag to set for SLURM on the RDHPCS.
Have added this new switch to documentation.
Refs #619
commit 02d650500353663d0b193ef14003897daa5dd86c
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Mon Mar 11 21:51:16 2024 +0000
Rewrote pr_list_database.py to use wxflow's SQLiteDB Class (#2376)
This PR updates the `pr_list_database.py` code to use **wxflow**
SQLiteDB Class
- Improved code's readability
- Uses better code style matching project's software culture
- Better docstring standards
Co-authored-by: tmcguinness <terry.mcguinness@noaa.gov>
Co-authored-by: Rahul Mahajan <aerorahul@users.noreply.github.com>
Co-authored-by: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
commit a3374607d01fbdabbec0660afb82b5eb3677b4af
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Fri Mar 8 16:08:42 2024 -0500
Return ocnanalrun npes resource setting back to previous value (#2386)
Variable `npes` in `ocnanalrun` entry of `config.resources` was
erroneously changed in
https://github.com/NOAA-EMC/global-workflow/pull/2299 and this PR
changes it back.
Resolves https://github.com/NOAA-EMC/GDASApp/issues/962
commit d7e9bde84aebe922039589bd2bcd65832c1074eb
Author: BoCui-NOAA <53531984+BoCui-NOAA@users.noreply.github.com>
Date: Thu Mar 7 16:14:28 2024 -0500
Add new BUFR table file parm/product/bufr_ij9km.txt for GFSv17 C1152 (#2383)
This PR will add a new table file parm/product/bufr_ij9km.txt, and
modify ush/gfs_bufr.sh to choose the different bufr table files based on
the GFSv17 run resolution, i.e. use file bufr_ij9km.txt for C1152 or
bufr_ij13km.txt, for C768.
Resolves #2382
commit 4a525bef3bbed2ea60a71f71b3740c82df125c36
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Thu Mar 7 16:12:31 2024 -0500
Add global-workflow infrastructure for ocean analysis recentering task (#2299)
Adds jjob, rocoto script, config file, and basic `config.resources`
entry for ocean analysis recentering task
This PR is a dependency for further work on the associated issue within
global-workflow and GDASApp
Refs https://github.com/NOAA-EMC/GDASApp/issues/912
commit f83d17a937006add55241ed453e42f4fcbae50aa
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Thu Mar 7 09:29:14 2024 -0500
Clean out non-gfs top level variables (#2366)
Clean out non-gfs top level variables that are duplicates or no longer needed.
Also standardize how we set these variables in scripts.
Refs #2332
commit c7b306e052497aef0022cd53550a168d2c5b6e5b
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Wed Mar 6 16:16:08 2024 -0500
Forgotten templated DO_VRFY_OCEANDA (#2379)
# Description
This PR adds the possibility to use the switch for the ocean and sea-ice
DA verify task from the yaml configuration.
- fixes
[GDASApp/issues/954](https://github.com/NOAA-EMC/GDASApp/issues/954)
commit ba6a4fdf6e245b57530f2b20e6f0ccf567115720
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Tue Mar 5 19:09:48 2024 +0000
Add Hercules support for the GSI monitor (#2373)
# Description
This updates the GSI monitor hash and updates the modulefiles to add
support for the monitor on Hercules.
commit 732a874a2c6793296f136afb23545fab9869b181
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Mon Mar 4 16:04:26 2024 -0500
Reformat snowDA templates to jinja2 (#2371)
# Description
This PR:
- replaces use of non-jinja2 templates in the yaml templates.
Specifically `$( )` in favor of pure jinja2.
- uses jinja2's built-in capability to include templates within
templates, thereby allowing to assemble a completely rendered template
before passing it to for e.g. yaml loader.
- requires updates to `wxflow` and `gdasapp`
- Changes in `wxflow` in `parse_j2yaml` are **not** backwards compatible
Additionally, this PR:
- renames `config.base.emc.dyn` to `config.base`. Resolves #2347
commit d1fa41106e991556606b0f62a15bf45f469f4f79
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Sat Mar 2 04:54:26 2024 +0000
Reduce Jenkins messaging to GitHub (#2370)
This PR updates the Jenkins Pipeline code with safeguards against the
errors caused when Jenkins fails to authenticate with GitHub to message
or update a label. This was achieved simply by:
- Reducing the number out messages sent to the GitHub PR
- Putting try blocks around most of the update label calls
Co-authored-by: tmcguinness <terry.mcguinness@noaa.gov>
commit 52fa3cb32d8b50e47f391b82ea8901435fc88aff
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Fri Mar 1 12:36:27 2024 -0700
Adding debug option for all build scripts (#2326)
This PR addresses issue #300 that allows building in `debug` mode.
Co-authored-by: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Co-authored-by: Rahul Mahajan <aerorahul@users.noreply.github.com>
commit 91738cbf871d8cdce46912e2c11e304d567a2aae
Author: DWesl <22566757+DWesl@users.noreply.github.com>
Date: Fri Mar 1 13:46:42 2024 -0500
Sort list of coupler restart files for restart time determination (#2360)
The loop in the following conditional seems to assume the list is
sorted, so make that explicit in the array construction.
commit 23c25527ad2a62275cd9105bd103b8520a28e573
Author: Neil Barton <103681022+NeilBarton-NOAA@users.noreply.github.com>
Date: Fri Mar 1 13:45:39 2024 -0500
Update stage IC to handle ocean perturbations (#2364)
This PR adds the option to stage ocean perturbation files for ensemble
forecasts. These perturbation files are used in GEFS forecasts.
A new variable is introduced in config.base to use the ocean
perturbation files.
This PR does not include using these perturbation files. A future PR
will address this.
commit 8efe05f475b81e7cf6376745d5f1ce31987cb4eb
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Fri Mar 1 07:41:56 2024 -0500
Turn on C48mx500_3DVarAOWCDA test on hera (#2363)
This PR activates the C48mx500_3DVarAOWCDA test on hera. This required
an update of the gdas app.
commit 5166593945e9ecc04dfa3409752576c08797d09f
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Thu Feb 29 20:14:41 2024 +0000
Move Jenkinsfile into ci subdirectory (#2355)
Just moves the Jenkinsfile into the ci directory
Co-authored-by: tmcguinness <terry.mcguinness@noaa.gov>
commit b7af315bb9dea77b37c6d030b71060b87bedf33e
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Wed Feb 28 22:20:58 2024 +0000
Fix rocoto forecast hour determination for GEFS (#2351)
The function that generates the list of forecast hours for rocoto was
trying to use variables that are not defined for GEFS, causing workflow
generation to fail. The function is updated to not try to load these
variables before loading the ones actually used for GFS/ GEFS.
Also turns GEFS CI test back on and adds an entry to stage C192 ICs
(note: these have not been placed in the centralized location.)
commit d3a49271b6c3816a9feeb7f6fb474797bacf1d7e
Author: Cory Martin <cory.r.martin@noaa.gov>
Date: Wed Feb 28 09:38:49 2024 -0500
Rename the land DA jobs to snow DA to better reflect what they are doing (#2330)
This PR renames all of the land DA jobs to snow DA to better reflect
that this is a JEDI-based snow analysis capability and not a more
generic land surface analysis.
commit 2693810d6ea9d9b20090777ff3a98e3d072c76d7
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Tue Feb 27 01:25:51 2024 -0500
Update ufs-waether-model hash (#2338)
Routine update of ufs-weather-model hash.
Other small updates:
* removes comment referencing closed issue.
* Updates the CICE diag frequency to once per day as recommend here:
https://github.com/NOAA-EMC/global-workflow/issues/1810#issuecomment-1686278925
* Updated amount of time for C384 gdas forecast as it was running out of
time
* Removed unused variable wave_sys_ver
commit 9608852784871ebf03d92b53bde891b6dcab8684
Author: RussTreadon-NOAA <26926959+RussTreadon-NOAA@users.noreply.github.com>
Date: Mon Feb 26 14:10:01 2024 -0500
Update JEDI ATM to use .nc for obs and generalize x,y layout (#2336)
# Description
The changes in this PR are twofold
1. replace `.nc4` suffix for JEDI ATM observation related files with
`.nc`
2. use templated variables to specify `{layout_x, layout_y}` for JEDI
ATM variational and local ensemble apps
The first change conforms with the Unidata recommendation that netCDF
files end with the suffix `.nc`. The second change replaces hardwired
JEDI ATM var and ens `{layout_x, layout_y}` in `config.resources` with a
more flexible approach.
Resolves #2335
commit c5c84660f10f0ef9ce939231b2f7fda498b39a29
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Mon Feb 26 10:18:50 2024 -0500
Remove FIX* variables for fix subfolders (#2337)
Remove `FIX*` variables for fix subfolders and replace them with the remaining `FIXgfs` variable and the subfolder name (e.g. `${FIXam}` -> `${FIXgfs}/am`).
The UFS_UTILS and GDASApp repos were similarly updated. This PR includes a new UFS_UTILS hash.
The updated GDASAPP hash was already committed within the spack-stack/1.6.0 PR #2239.
Resolves #2184
commit 950c38a093c6a4e2b67e18c76390280d8bfbaef7
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Fri Feb 23 21:15:46 2024 +0000
Fix several Jenkins issues (#2334)
Jenkins Updates Resolving final kinks:
- Removed all `git` shell commands and now exclusively use Software Control
Manger (**scm**) plugin.
- Add feature for skipping hosts per configuration specified in case yaml files.
- Solved and tested false positive builds and experiments.
- Tested archiving of task error log on case fail
- First case fail quits pipeline and cancels all pending scheduled jobs
- Duel build per yaml configuration arguments supported
- All designated case files in PR directory pass on intended host (fully tested
on Hera)
Remaining updates:
- Fist build fail short circuit when building sub-modules and archiving build
error log.
- Re-build/no-build built in logic for Replay and Rerunning previously failed
experiments.
commit c67393a203285792b852da0d83fd10fa47155669
Merge: 6f9afff07 79d305e8c
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Fri Feb 23 14:18:15 2024 +0000
Merge pull request #2239 from DavidHuber-NOAA/ss160
Update to spack-stack 1.6.0
Includes all submodules except the UFS, which will be updated at a later time.
commit 79d305e8cbc339208ea6fe0475ddc56af94a285b
Author: David Huber <david.huber@noaa.gov>
Date: Thu Feb 22 14:53:57 2024 -0600
Disable snow DA tests
commit 0459203e97211b041520b39e93a188951396ba33
Author: David Huber <david.huber@noaa.gov>
Date: Thu Feb 22 12:55:51 2024 -0600
Update GDASApp hash to current develop
commit 5c96eb2272fe6117f9e4a4c0c790db58e4870d46
Author: David Huber <david.huber@noaa.gov>
Date: Thu Feb 22 12:37:47 2024 -0600
Update GDAS hash to allow modified snow DA analysis
commit 79144f2403a33d08140577cc3e8a61d6c4924403
Merge: abbb0b8a7 6f9afff07
Author: DavidHuber <david.huber@noaa.gov>
Date: Thu Feb 22 15:14:39 2024 +0000
Merge remote-tracking branch 'origin/develop' into ss160
commit abbb0b8a76b39d34433802fd4e3d7973fb9f0a39
Merge: 4ad837ea1 4529e8cf3
Author: DavidHuber <david.huber@noaa.gov>
Date: Thu Feb 22 15:11:03 2024 +0000
Merge remote-tracking branch 'henry/feature/gwdev_issue_2129' into ss160
commit 4ad837ea157b98d2bd173cb696c4d30d142e5540
Merge: 516b2a270 7ca45db8f
Author: DavidHuber <david.huber@noaa.gov>
Date: Thu Feb 22 15:10:24 2024 +0000
Merge remote-tracking branch 'henry/feature/gfsv17_issue_2125' into ss160
commit 516b2a270234bdab5714ef2705c83dd3835b134d
Author: DavidHuber <david.huber@noaa.gov>
Date: Thu Feb 22 14:19:16 2024 +0000
Updated GDAS to include rocoto/1.3.6 on Hera.
commit 6f9afff073dd589096f992a3448fb7f0e62c9804
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Wed Feb 21 13:09:44 2024 -0500
Add some flexibility for ocean/ice output (#2327)
This adds functionality to have ocean/ice output frequency be separate from the atm model. One time was created because there's an assumption in the post that these are the same. This could be further modified to remove this assumption.
Refs #1629
commit f6d3015ab9f9fd23ce0081baa2edbc5d9f5f3e16
Author: David Huber <david.huber@noaa.gov>
Date: Tue Feb 20 09:53:08 2024 -0600
Update GDASApp hash to include SS/1.6.0 support.
commit 0bf340bce2f865c582e5305f0c5984cd3affe74e
Author: David Huber <david.huber@noaa.gov>
Date: Tue Feb 20 09:07:32 2024 -0600
Construct SS paths from version variables.
commit 3330cd7310bde8090b68720c225656074676d6b2
Author: David Huber <david.huber@noaa.gov>
Date: Tue Feb 20 09:06:19 2024 -0600
Removed MET/METplus 'not available' comments
commit fdc638ca1616b347912caec77e5abc2d3e6f18af
Author: David Huber <david.huber@noaa.gov>
Date: Tue Feb 20 08:35:15 2024 -0600
Move SS module path to version files.
commit d7d28a6b65b84c8d821abd2c13d0c068bd5ad6d8
Author: David Huber <david.huber@noaa.gov>
Date: Tue Feb 20 07:53:15 2024 -0600
Update comment about METplus support.
commit a812f88af3fc043d57494840e81a7527723858e4
Author: David Huber <david.huber@noaa.gov>
Date: Tue Feb 20 07:45:45 2024 -0600
Update verif-global to latest WCOSS2 support.
commit d81f07fbf53666a37ab01bd463152e10252869ae
Author: David Huber <david.huber@noaa.gov>
Date: Tue Feb 20 07:41:38 2024 -0600
Clean up build_upp.sh.
-Corrected whitespace (tabs instead of spaces)
-Removed debug print statement
-Alphebetized flags
commit ae7eb194cbe2213e564807dd7bc03a28d493eff2
Author: David Huber <69919478+DavidHuber-NOAA@users.noreply.github.com>
Date: Fri Feb 16 16:15:40 2024 -0500
Fix whitespace in build_upp.sh.
Co-authored-by: Rahul Mahajan <aerorahul@users.noreply.github.com>
commit 48b34d0f388a398bb91f7c3b1e5f8338f4beb7b9
Author: David Huber <david.huber@dlogin05.dogwood.wcoss2.ncep.noaa.gov>
Date: Fri Feb 16 20:56:55 2024 +0000
Added verif-global support back to WCOSS2.
commit 4529e8cf3736ffbacf615a27e99f4d1beec391aa
Author: henrywinterbottom-wxdev <henry.winterbottom.wxdev@gmail.com>
Date: Fri Feb 16 11:12:01 2024 -0700
Bug fix.
commit 8e4f94d13d32849b2862a9d59aa070f4103c61ae
Author: henrywinterbottom-wxdev <henry.winterbottom.wxdev@gmail.com>
Date: Fri Feb 16 11:04:41 2024 -0700
Updates requested by reviewer Rahul Mahajan.
commit 4624ce21c99ab303afa10c1dd8ddcce7b6f715ca
Author: henrywinterbottom-wxdev <henry.winterbottom.wxdev@gmail.com>
Date: Fri Feb 16 10:52:11 2024 -0700
Updates requested by reviewer; testing -- DO NOT REVIEW.
commit ed25bbd0b26a893d32ce4a10b368dec2bb722424
Author: henrywinterbottom-wxdev <henry.winterbottom.wxdev@gmail.com>
Date: Fri Feb 16 09:33:59 2024 -0700
Linter corrections.
commit 6a0b7bf214815c13eec98a93bd3abe9978de04e4
Merge: f9fb64ef8 2415b7b4f
Author: David Huber <david.huber@noaa.gov>
Date: Fri Feb 16 09:50:22 2024 -0600
Merge branch 'ss160' of github.com:DavidHuber-NOAA/global-workflow into ss160
commit f9fb64ef802b683d7b369f8e8268d423ab581481
Merge: 777d97d3a a23b7f2fd
Author: David Huber <david.huber@noaa.gov>
Date: Fri Feb 16 09:49:42 2024 -0600
Merge remote-tracking branch 'emc/develop' into ss160
commit 7ca45db8fa32c84ef117ff2938a650822c81a786
Merge: 73bc76bfd a23b7f2fd
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Fri Feb 16 07:46:35 2024 -0700
Merge branch 'NOAA-EMC:develop' into feature/gfsv17_issue_2125
commit eb2ed53857eb3387735488a1ce5d701ff680e3db
Merge: 9929277dc a23b7f2fd
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Fri Feb 16 07:46:24 2024 -0700
Merge branch 'NOAA-EMC:develop' into feature/gwdev_issue_2129
commit a23b7f2fdca5be700d257e28052a0104f2173a0f
Author: RussTreadon-NOAA <26926959+RussTreadon-NOAA@users.noreply.github.com>
Date: Fri Feb 16 09:37:58 2024 -0500
Add JEDI 3DEnVar atmosphere only CI test stub (#2309)
commit cf83885548bb3a6740c033f42479ce2ad283a4a9
Author: Jessica Meixner <jessica.meixner@noaa.gov>
Date: Fri Feb 16 01:55:02 2024 -0500
Add unstructured grid for HR3/GFS (#2230)
This adds the capability to use unstructured grids in the global workflow,
which will be used in HR3. There are new fix files for a low-resolution
100km grid and a grid closer to our targeted GFSv17 grid which has the
resolution combined from the older multi_1 and GFSv16 grids.
The fix file update is here: NOAA-EMC/global-workflow#2229
Note: This now means that GFS tests need a new build option:
`./build_all.sh -w` So that PDLIB=ON is turned on for compiling relevant
UFS and WW3 codes.
Resolves NOAA-EMC/global-workflow#1547
commit 9929277dc7d0ad90f5366faf4b5f2278969a0aa2
Merge: eb8791ccb 094e3b86d
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Feb 15 15:05:50 2024 -0700
Merge branch 'NOAA-EMC:develop' into feature/gwdev_issue_2129
commit 094e3b86da44f1d3fc1d99f68f6fdfcd36deb09f
Author: Cory Martin <cory.r.martin@noaa.gov>
Date: Thu Feb 15 14:43:55 2024 -0500
Move IMS remapping files from COM_OBS to FIXgdas (#2322)
* Add in IMS obs fix directory and update submodule for gdas
commit d465ea06e8b2a8f3a5eb1120647c1e2ce5197d66
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Thu Feb 15 19:25:02 2024 +0000
Set HOMEgfs for module_setup in CI driver (#2321)
Hotfixes to CI Bash system from updates with sourcing
`detect_machine.sh` in `ush/module-setup.sh` using **HOMEgfs**.
commit 2415b7b4f3e6c376aca27707510001141cc9dd92
Author: David Huber <david.huber@noaa.gov>
Date: Thu Feb 15 19:21:17 2024 +0000
Load default rocoto on Jet.
commit eb8791ccbe684828dc529d0e553551969274fc22
Merge: 60d5ee64b 638684e0b
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Feb 15 11:56:40 2024 -0700
Merge branch 'NOAA-EMC:develop' into feature/gwdev_issue_2129
commit 777d97d3a1c9f5ec5e8af3ca40a41224ec7099a1
Author: David Huber <david.huber@noaa.gov>
Date: Thu Feb 15 12:34:59 2024 -0600
Fixed Orion cdo version.
commit ef0723503c72f295de93521c7102c43e75c47417
Author: DavidHuber <david.huber@noaa.gov>
Date: Thu Feb 15 16:29:32 2024 +0000
Revert UFS hash.
commit 0ce8c0dbc13227884fef1c637e93616a28c68d34
Author: DavidHuber <david.huber@noaa.gov>
Date: Thu Feb 15 14:55:48 2024 +0000
Fix git version in Hera's gwsetup module.
commit 3080a34253e8e24105bf2be72b6a872b1c072935
Author: DavidHuber <david.huber@noaa.gov>
Date: Wed Feb 14 20:52:34 2024 +0000
Fixed xarray version for SS/1.6.0.
commit 49392dd47ff84b6586052aeae6879d7d8050b746
Author: DavidHuber <david.huber@noaa.gov>
Date: Wed Feb 14 20:29:41 2024 +0000
Updated GSI-Utils hash to head of develop.
commit c3553f0d8e6a05c6234e7c14a179983aa44fd6f3
Merge: 4568653a6 638684e0b
Author: DavidHuber <david.huber@noaa.gov>
Date: Wed Feb 14 20:28:14 2024 +0000
Merge remote-tracking branch 'origin/develop' into ss160
commit 4568653a67aa37c902379db628fb10f69fe7190f
Author: David Huber <david.huber@noaa.gov>
Date: Wed Feb 14 14:22:13 2024 -0600
Reupgrade Hercules to SS/1.6.0
commit 638684e0bfcd06700cc8695f09824891a0a1eee1
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Feb 14 14:55:21 2024 -0500
Remove `finddate.sh` from system (#2308)
* Retire finddate.sh usage from system
* Update gfs-utils hash to 7a84c88 - New hash includes removal of finddate.sh
Refs #2279
commit 2b160f8470bed16c513ca4a5665e2b6d4448c50e
Author: DavidHuber <david.huber@noaa.gov>
Date: Wed Feb 14 18:31:28 2024 +0000
Reenable METplus jobs on Hercules.
commit 8f5900265a31e894060bbe9c89b262f4df0b1760
Author: DavidHuber <david.huber@noaa.gov>
Date: Wed Feb 14 18:30:23 2024 +0000
Update GSI hashes.
commit 73bc76bfd47f2cff54df55e15d9ed8969683367d
Author: henrywinterbottom-wxdev <henry.winterbottom.wxdev@gmail.com>
Date: Wed Feb 14 09:27:37 2024 -0700
Updates based on user request.
commit e4bc674cf3b2df10e0b0dfd50a8ecb0f4f7825d8
Author: henrywinterbottom-wxdev <henry.winterbottom.wxdev@gmail.com>
Date: Wed Feb 14 08:03:45 2024 -0700
Corrected based on reviewer review.
commit 60d5ee64bda7a16c1f2dc20c8badcd7c8fc4e592
Merge: 40f2cf6cd 1aaef05d3
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Feb 13 18:08:33 2024 -0700
Merge branch 'NOAA-EMC:develop' into feature/gwdev_issue_2129
commit 03304112347a673b7a0fcc404703bb10960bc47a
Merge: 929b90330 1aaef05d3
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Feb 13 17:58:12 2024 -0700
Merge branch 'NOAA-EMC:develop' into feature/gfsv17_issue_2125
commit 1aaef05d317cd1eec548ef2b9842679c531cef8b
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Tue Feb 13 18:15:59 2024 -0500
Jenkins Pipeline updates for Canceling Jobs (#2307)
Tuning updates for Jenkins Pipeline :
- Added short circuit for all parallel runs of cases on error of any
- Fixed canceling of all scheduled jobs on first case error
- Added feature to save error log files to Jenkins Archive facility on fail
commit 64048926627f8c9edb087de286095e3b93a214c2
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Tue Feb 13 14:57:37 2024 -0500
Ocean/ice product generation for GFS and GEFS (#2286)
This PR does several things:
1. the model output for ocean and ice in the `COM/` directory are now
named per EE2 convention for coupled model.
E.g `gfs.ocean.t12z.6hr_avg.f120.nc` and `gfs.ocean.t12z.daily.f120.nc`
2. The products are generated using the `ocnicepost.fd` utility developed
by @DeniseWorthen in https://github.com/NOAA-EMC/gfs-utils and
converted to grib2 using example scripts provided by @GwenChen-NOAA
using `wgrib2`.
3. NetCDF products on the native grid are also generated by subsetting
variables from the raw model output. This is done with `xarray`.
4. updates the hash of https://github.com/NOAA-EMC/gfs-utils to include
fixes in `ocnicepost.fd`
5. removes NCL related scripting that was previously used for ocean/ice
interpolation and `reg2grb2` used for converting to grib2.
6. updates archive scripts to accommodate updated file names
7. removes intermediate ocean processed files such as 2D/3D/xsect data-
sets
8. separate jobs are added for ocean and ice product generation.
9. removes intermediate restarts for the mediator and only saves the medi-
ator restart at the end of the forecast in `COM`.
10. Increases memory for offline UPP when run at C768. The program
segfaults with an OOM when memory is self allocated based on PEs by
the scheduler on Hera.
11. Enables ocean/ice ensemble product generation for GEFS
12. Some minor clean-ups
Fixes #935
Fixes #1317
Fixes #1864
commit 40f2cf6cd70ac94e01babc96982f37ae1b0c7e79
Author: henrywinterbottom-wxdev <henry.winterbottom.wxdev@gmail.com>
Date: Tue Feb 13 10:18:53 2024 -0700
Implemented ush/detect_machine.sh for host determination and removed redundant checks for expected file paths.
commit 929b90330c7eb345011c2c850915e0004ca26b11
Merge: 2d08d015a 3f99f700c
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Tue Feb 13 08:31:06 2024 -0700
Merge branch 'NOAA-EMC:develop' into feature/gfsv17_issue_2125
commit 3f99f700c987526c8eb754b3f4c7b698b3e9b1dc
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Tue Feb 13 00:57:18 2024 -0500
Add wave post jobs to GEFS (#2292)
Adds the wave post jobs for gridded and points to GEFS. Boundary
point jobs are added even though the current GEFS buoy file does
not contain any (tested by manually subbing in the GFS buoy file).
Resolves #827
commit 842adf38087aec9f1c0bca9567e4b11d494e14c7
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Mon Feb 12 12:50:08 2024 -0500
Added additional test cases to the pr list in Jenkins (#2306)
C48mx500_3DVarAOWCDA, C96C48_hybatmDA, and C96_atmsnowDA
Co-authored-by: terrance.mcguinness <terrance.mcguinness@noaa.gov>
commit bb4ca65fe5524f76e40b97346339f1dda6680ce1
Author: CatherineThomas-NOAA <59020064+CatherineThomas-NOAA@users.noreply.github.com>
Date: Mon Feb 12 14:50:41 2024 +0000
Redo v16.3 config.base changes for DA increments (#2304)
Include the additional hydrometeors to the
INCREMENTS_TO_ZERO and INCVARS_ZERO_STRAT
variables in config.base that were modified
in v16.3.
Resolves: #2303
commit 061992bb6160554430cf688adf6184f01b732098
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Sat Feb 10 01:33:36 2024 -0500
Fix Jenkins success reporting (#2302)
Moving the post section back outside of main Run Experiments
stage. This allows the system to correctly report the **Success**
status until after all tests pass.
_Had originally moved them in attempts to solve "Not an SCM
GitHub Job" issue and cause the reporting to misbehave._
Also ran through Jenkins linter and updated some messaging
that was incorrectly reporting system build type.
commit 28ccf78073a20ba1e4d3b379d164109b54ff6708
Merge: b972f66fc 54daa31ce
Author: David Huber <david.huber@noaa.gov>
Date: Fri Feb 9 14:00:43 2024 -0600
Merge remote-tracking branch 'emc/develop' into ss160
commit b972f66fc924790c48f38d395e7141fa78ef9d90
Author: David Huber <david.huber@noaa.gov>
Date: Fri Feb 9 10:47:00 2024 -0600
Fix SS versions for CI modules.
commit 4b01d8eeca26c3b3d843a4b1e7b1618f281de68f
Author: David Huber <david.huber@noaa.gov>
Date: Fri Feb 9 10:44:30 2024 -0600
Revert Hercules modules to SS/1.5.1.
commit 54daa31ce0a3c23d4d74def5e54436a39a899ed4
Author: TerrenceMcGuinness-NOAA <terrence.mcguinness@cox.net>
Date: Thu Feb 8 15:48:38 2024 -0500
Jenkins Declartive Pipeline for CI with gfs/gefs multibuilds (#2246)
Adding top level Jenkins file for CI tests running on Jenkins Controller:
- Declarative Multi-branch Pipeline (has enhanced restart capabilities
on a per section bases)
- Starts Pipeline from Label PR same as BASH system (for now)
- Progress and restarts can me managed with CAC Login at [EPIC OAR
Jenkins](https://jenkins.epic.oarcloud.noaa.gov)
- Has logic for multi **gfs/gefs** system builds (arguments based on a
configuration file `ci/casts/yamls/build.yaml`)
- Any number of **systems** may be added by manual adding an ele-
ment to the matrix in the Jenkinsfile
- _It may be possible to dynamic add matrix values with a specialty
plug-in_
- Currently only runs on **Orion** and **Hera** using `mterry` account
Resolves #2119
Resolves #2118
commit 43429e23c12c1f2050b3a3f356abdec98dc73ea0
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Thu Feb 8 15:30:28 2024 -0500
Enable AO WCDA test (#1963)
This PR:
- adds GSI + SOCA C48 5-deg ocean 3DVar test (courtesy @guillaumevernieres)
- adds a toggle to optionally disable ocnanalvrfy job.
commit 2d08d015afb9c850577efd9754add16b10c45ae6
Merge: 4745d4a06 f56352874
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Thu Feb 8 07:24:54 2024 -0700
Merge branch 'NOAA-EMC:develop' into feature/gfsv17_issue_2125
commit f56352874d6dc133a4f1181f77c8f91ca38a6416
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Wed Feb 7 15:09:12 2024 -0500
Update JGLOBAL_FORECAST for octal error (#2295)
Add "10#" to ENSMEM value > 0 check to handle octal errors.
commit 4745d4a06148cc6c702c647e12ede4875e3a5862
Author: henrywinterbottom-wxdev <henry.winterbottom.wxdev@gmail.com>
Date: Wed Feb 7 08:45:49 2024 -0700
Removed jlogfile references.
commit 5894ca2bf11e8ab7910c69781a9fbe51352a7e8c
Author: henrywinterbottom-wxdev <henry.winterbottom.wxdev@gmail.com>
Date: Wed Feb 7 08:32:16 2024 -0700
Removed dummy variable passed to perl scripts.
commit dae884a7c48b4a30c1844685c3d0ef50c9b78344
Author: henrywinterbottom-wxdev <henry.winterbottom.wxdev@gmail.com>
Date: Wed Feb 7 08:29:49 2024 -0700
Removed jlogfile and postmsg references within gempak scripts.
commit 801058ffb0cbbfe101fd5b686aed79c5bf7538c1
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Wed Feb 7 00:41:59 2024 -0700
Consolidate `npe_node_max` (#2289)
- The environment variable `npe_node_max` is removed from all
files beneath `global-workflow/env`;
- The environment variable `npe_node_max` is removed from
`parm/config/gefs/config.ufs` and `parm/config/gfs/config.ufs`;
- The environment variable `npe_node_max` is maintained only
within `parm/config/gefs/config.resources` and
`parm/config/gfs/config.resources`.
Resolves #2133
commit b0325e0157598702cbba6c3cc09af0120881e2b4
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Wed Feb 7 00:40:20 2024 -0700
Removes files module loading file no longer used by the GW (#2281)
Removes `module-setup.csh.inc` and `module-setup.sh.inc`.
The module `ush/module-setup.sh` is updated such that it now sources
`ush/detect_machine.sh` to determine which supported platform the
global-workflow is being execute on.
Resolves #2130
commit 1ccc9896b361f2aaef8e6e7592a06ae4cfb7c491
Author: Walter Kolczynski - NOAA <Walter.Kolczynski@noaa.gov>
Date: Mon Feb 5 14:16:07 2024 -0500
Remove EnKF forecast groups (#2280)
Removes the grouping of EnKF forecasts so each job only runs
one forecast. Member and MEMDIR are now set at the workflow
manager (rocoto) level. This change makes much of the system
simpler (especially dependencies) and allows the elimination of
the separate efcs scripts.
Metatask names of updated jobs have been updated to make
them a little less opaque by using the same name name as its
constituent tasks (e.g. the forecast metatask is named
`enkgdasfcst`, not `enkfgdasefcs`). Metatasks that weren't
updated retain the same names as before for now.
Resolves #2254
commit 9f3383fd8d8322428a40b94764a172a16872995e
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Mon Feb 5 12:15:13 2024 -0700
Updated detect_machine.sh using that from UFS WM. (#2252)
Updates `ush/detect_machine.sh` to match the UFS weather-model
`tests/detect_machine.sh` prepared by @BrianCurtis-NOAA
Resolves #2228
commit 7d68b0b164f0ffcd56867ae4fdab67905d9589eb
Author: CatherineThomas-NOAA <59020064+CatherineThomas-NOAA@users.noreply.github.com>
Date: Sun Feb 4 22:02:41 2024 +0000
Update global_cycle for fractional grid (#2262)
The hash for ufs_utils is updated to include the changes for
fractional grid support within global_cycle. This commit also
removes the hack to skip global_cycle in cycling mode with
v17 physics.
Resolves: #1775
Refs: ufs-community/UFS_UTILS#815
Refs: ufs-community/UFS_UTILS#891
commit ed592a6ecfabc0d0b64a6e276531b7bc5ae3b8ea
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Sat Feb 3 02:55:14 2024 -0500
Retire cycle-specific FHMAX_GFS variables (#2278)
This PR retires the `FHMAX_GFS_${cyc}` variables that allowed users to specify
different gfs forecast lengths for each cycle. This function is no longer supported
in global-workflow. The `FHMAX_GFS_*` variables will be removed and will no
longer be checked to set the final `FHMAX_GFS` variable. The same forecast
length will be set for every cycle.
This PR also includes a small fix to add new post parm files into the `.gitignore`
file. This was intended to be included in a different PR but that PR is on hold for
further testing so it is being included here to get it into `develop` sooner.
Resolves #2218
commit 977e2d67b268477321aa26fc56073dd373e4f979
Author: Henry R. Winterbottom <49202169+HenryWinterbottom-NOAA@users.noreply.github.com>
Date: Fri Feb 2 07:49:09 2024 -0700
New GDASApp hash. (#2285)
commit b5f2bd9ec5632c4be43004604eed0e130dfe1735
Merge: 4d667421d 0400e1f35
Author: David Huber <david.huber@noaa.gov>
Date: Tue Jan 30 13:55:00 2024 -0600
Merge branch 'ss160' of github.com:DavidHuber-NOAA/global-workflow into ss160
commit 0400e1f3558be8e34c1298d32e14999c9dd46f8c
Author: David Huber <david.huber@noaa.gov>
Date: Tue Jan 30 09:57:11 2024 -0600
Fix gfs_utils Orion spack-stack env path.
commit 6bbe823e729291db326d108765d3a92a99552a58
Author: DWesl <22566757+DWesl@users.noreply.github.com>
Date: Mon Jan 29 21:15:30 2024 -0500
Use seq to generate the list of times, instead of a bash for-loop (#2264)
I'm running a year-long forecast, which means I get a large portion of the log file dedicated to these loops.
`seq ${START} ${STEP} ${STOP}` will generate a sequence going from START to STOP by STEP, including STOP if relevant. That seems to be the purpose of these loops. It will by default separate the list with newlines, but `seq -s ' ' ${START} ${STEP} ${STOP}` will separate them with spaces instead, more closely mimicing the previous behavior.
I would like this to be two lines in the log, rather than a few hundred, and this may also be faster, though probably more for reasons of fewer writes to disk than because bash isn't designed for arithmetic.
commit d5bee38979cde547861261d1cd150f3a61601d4b
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Mon Jan 29 14:35:02 2024 -0500
Correct typos in GFS config.resources (#2267)
This PR corrects some typos in `parm/config/gfs/config.resources` that were
introduced in PR #2216. The esfc job was failing in tests on WCOSS2 due to
insufficient memory. This lead to discovering the other typos. The esfc job
completes without error after its memory is set back to `80GB` from the
incorrect `8GB`.
Resolves #2266
commit 81557beca9eecd878e7b25b3822e30a4276f4a16
Author: David Huber <david.huber@noaa.gov>
Date: Mon Jan 29 12:13:31 2024 -0600
Update monitor hash to noaa-emc with SS/1.6.0 support.
commit 2238dd6ac0094ba2ff5e1027e964ef29ad33352c
Author: DavidHuber <david.huber@noaa.gov>
Date: Mon Jan 29 13:21:30 2024 +0000
Update Orion, Hercules, S4 modulefiles.
commit 6ffd94fd95f54ceb940f0c9201774ad73fbb055b
Author: DavidHuber <david.huber@noaa.gov>
Date: Fri Jan 26 16:01:23 2024 +0000
Update GDAS hash to include SS/1.6.0 support.
commit be11f85f28cf832e5fbb390fdd387f1bdecb5f82
Merge: 56b968080 04e0772d9
Author: DavidHuber <david.huber@noaa.gov>
Date: Fri Jan 26 15:34:24 2024 +0000
Merge branch 'ss160' of github.com:DavidHuber-NOAA/global-workflow into ss160
commit 8ff344844e28c3b2d03a0356f88b14635f318c12
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Fri Jan 26 10:12:18 2024 -0500
Add a yaml for snow DA testing. (#2199)
- adds a new test yaml C96_atmsnowDA.yaml for 3DVar atmosphere with GSI and Land (Snow) DA with JEDI
- moves a few yamls from platforms/ to yamls/
- adds ability to overwrite a previously created experiment as an addition to user input.
---------
Co-authored-by: Cory Martin <cory.r.martin@noaa.gov>
commit 04e0772d9d3e77ac5a24ce4570d48cb41424a08b
Author: David Huber <david.huber@noaa.gov>
Date: Fri Jan 26 07:16:25 2024 -0600
Update ufs_utils hash for spack-stack/1.6.0 support.
commit 3d44ff38c5c3324c22fc104fe3259b4ac864c6d6
Author: Barry Baker <bbakernoaa@users.noreply.github.com>
Date: Thu Jan 25 14:33:27 2024 -0500
GOCART ExtData biogenic climatology fix (#2253)
Updates the ExtData for biogenic emissions to be climatology rather than
for current time. Fixes an issue which will crash by default for other years.
commit 66f58b8ab1a9524d6be95271f27a06c2f32e5f78
Author: Guillaume Vernieres <guillaume.vernieres@noaa.gov>
Date: Thu Jan 25 13:16:41 2024 -0500
Added missing container case in gfs/config.resources (#2258)
fixes #2257
commit 553b4f2e74ef610115436b75f7f6df100babd8dd
Author: WenMeng-NOAA <48260754+WenMeng-NOAA@users.noreply.github.com>
Date: Thu Jan 25 13:00:45 2024 -0500
Fix post parm links (#2243)
Change symbolic links under parm/post with the latest version of develop branch from UPP repository and enable MERRA2 aerosol fields.
Resolves #2259
commit 4d667421d5eefea2347ea1dd8097e39e167d7201
Merge: 6c058039e afa09e356
Author: David Huber <david.huber@noaa.gov>
Date: Thu Jan 25 07:49:08 2024 -0600
Merge branch 'ss160' of github.com:DavidHuber-NOAA/global-workflow into ss160
commit 6c058039e209c67ea477d37d2d6f76b7a2fa68ac
Author: David Huber <david.huber@noaa.gov>
Date: Thu Jan 25 07:48:42 2024 -0600
Fix wgrib2/gfs_utils on Hercules.
commit ee6f536ea0228c60f5a8bec4037cd6f7ea63b816
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Thu Jan 25 07:43:13 2024 -0500
Update GFS version to v16.3.13 in index.rst (#2256)
GFSv16.3.13 WAFS update was implemented
Refs #2013
commit 2445d44d0d66f35512080b0bd5867501660793bb
Author: RussTreadon-NOAA <26926959+RussTreadon-NOAA@users.noreply.github.com>
Date: Thu Jan 25 06:17:11 2024 -0500
Simplify and extend load_ufsda_modules to Hercules (#2245)
GDASApp jobs do not run on Hercules because `ush/load_ufsda_modules.sh` does
not include logic to load the appropriate GDASApp modules on Hercules. This PR
extends `load_ufsda_modules.sh` functionality to Hercules, thereby enabling
GDASApp jobs to run on Hercules.
Resolves #2244
commit 56b9680803f109720f6439276a0e5783a9c49352
Author: DavidHuber <david.huber@noaa.gov>
Date: Wed Jan 24 19:47:34 2024 +0000
Update hashes (revert WCOSS2 modules).
commit afa09e356503f1befc162df9a79dc9ce7414dc22
Author: DavidHuber <david.huber@noaa.gov>
Date: Wed Jan 24 18:59:40 2024 +0000
New (cleaner history) gdas hash.
commit a9eaec23d5103ea766342ff81d77df8e0f6d9a58
Author: DavidHuber <david.huber@noaa.gov>
Date: Wed Jan 24 18:52:27 2024 +0000
Update gdasapp to include ss/1.6.0 support.
commit 5ef8eb24eeaeaff9c9a03767d929f2114fd4840f
Merge: 4c463548b e400068a2
Author: DavidHuber <david.huber@noaa.gov>
Date: Wed Jan 24 17:08:54 2024 +0000
Merge branch 'ss160' of github.com:DavidHuber-NOAA/global-workflow into ss160
commit 4c463548b0c38f36c13c01716fa0b1e91544e440
Author: DavidHuber <david.huber@noaa.gov>
Date: Wed Jan 24 17:05:12 2024 +0000
Reenable verif-global support
commit f775755df5f1579edfafbce9a7b47034907d023f
Author: DavidHuber <david.huber@noaa.gov>
Date: Wed Jan 24 16:59:10 2024 +0000
Assign fcsthrs for awips_g2 job.
commit e400068a2951e5fa3b130369861b4a60ece01491
Author: David Huber <david.huber@noaa.gov>
Date: Mon Jan 22 15:01:07 2024 -0600
More gsi-addon path fixes.
commit f663d4786f226f8164d348d403e8d105cc3d801b
Author: David Huber <david.huber@noaa.gov>
Date: Mon Jan 22 14:41:59 2024 -0600
Fix gsi-addon paths for hercules, orion, and S4.
commit e304bbeb364067e411fb50801796d000b44d9147
Author: DavidHuber <david.huber@noaa.gov>
Date: Mon Jan 22 18:59:34 2024 +0000
Better optimize build jobs (more ufs jobs).
commit ccc6e2d445d4c2e2f44fb907c7bc972b1e69f6ff
Author: DavidHuber <david.huber@noaa.gov>
Date: Mon Jan 22 18:56:18 2024 +0000
Reenable verif-global. #2195
commit 3ef3411f856b0c5a9cf51686f3a51a2252596690
Merge: 4365f63e5 f4d187f4e
Author: DavidHuber <david.huber@noaa.gov>
Date: Mon Jan 22 18:39:10 2024 +0000
Merge remote-tracking branch 'origin/develop' into ss160
commit 4365f63e54e2ddb9b88e768a6e88a92504b5d482
Author: DavidHuber <david.huber@noaa.gov>
Date: Mon Jan 22 18:37:25 2024 +0000
Corrected the SS env. name in the version files. #2195
commit f4d187f4e45fe89583d18987d68a883490827104
Author: AndrewEichmann-NOAA <58948505+AndrewEichmann-NOAA@users.noreply.github.com>
Date: Mon Jan 22 12:28:28 2024 -0500
Converts obsproc to obsprep in prepoceanobs config file (#2236)
Converts obsproc to obsprep in prepoceanobs config file as a compliment to mutually depended GDASApp PR NOAA-EMC/GDASApp#858
The motivations are explained in refs NOAA-EMC/GDASApp#857
commit 9a09d3082208ad206cf6e7103a53bfb7c4946f4a
Author: DavidHuber <david.huber@noaa.gov>
Date: Fri Jan 19 21:23:50 2024 +0000
Corrected gsi-addon-dev spelling.
commit 21ff6458aac9372b26cc223f6a114953a137067e
Author: DavidHuber <david.huber@noaa.gov>
Date: Fri Jan 19 21:11:34 2024 +0000
Update modulefiles, submodules to spack-stack 1.6.0. #2195
commit d4c55d1011f8b0385d25b62ac04710837ed8413e
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Fri Jan 19 15:43:37 2024 -0500
Update typing hint for WCOSS version of python (#2238)
The typing hint `typing.List` was deprecated with python 3.9 in favor
of using the primitive `list[str]`, but the functional version of python
on WCOSS2 is <3.9, causing `setup_xml.py` to fail there. This replaces
`list[str]` as a typing hint with the deprecated form until the supported
version on WCOSS2 is >=3.9.
commit 491928712ae1dabac62750450c9cad8f538c2a3e
Author: Barry Baker <bbakernoaa@users.noreply.github.com>
Date: Thu Jan 18 22:31:27 2024 -0500
GOCART Emission updates for GEFSv13 and GDAS (#2201)
This PR addresses several things needed for more recent simulations using
GOCART2G as well as preparing for the GEFSv13 30 year run. The main
updates are:
- Update CEDS to use monthly emission files instead of daily. This will
drastically reduce the number of files needed. No science change
- Update biogenic MEGAN inputs to use a climatology rather than the
offline biogenic previously used. This is needed to deal with simulations
where the current dataset is not available.
- Update volcanic SO4 emissions to use degassing emissions only. This is
to support the need for more recent simulations where data is not available.
commit 13d25cfc3614de978bfd4b7f273d1f13cb820878
Author: Kate Friedman <kate.friedman@noaa.gov>
Date: Thu Jan 18 22:29:43 2024 -0500
Add `POSTAMBLE_CMD` into preamble postamble (#2235)
This PR adds the ability to run a command at the end of jobs via the
preamble's postamble function. A new command can be set via
`POSTAMBLE_CMD` and will be invoked at the end of jobs. Users can
add the command to the top of an env file to have every job run it or
it can be placed within a job if-block in the env file to run for just that
job.
Resolves #1145
commit 7759163c668eb6ccc11dc1ecd39c0dc5d433cdc1
Author: Rahul Mahajan <aerorahul@users.noreply.github.com>
Date: Thu Jan 18 01:13:49 2024 -0500
Add option to…
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
Add this suggestion to a batch that can be applied as a single commit.
This suggestion is invalid because no changes were made to the code.
Suggestions cannot be applied while the pull request is closed.
Suggestions cannot be applied while viewing a subset of changes.
Only one suggestion per line can be applied in a batch.
Add this suggestion to a batch that can be applied as a single commit.
Applying suggestions on deleted lines is not supported.
You must change the existing code in this line in order to create a valid suggestion.
Outdated suggestions cannot be applied.
This suggestion has been applied or marked resolved.
Suggestions cannot be applied from pending reviews.
Suggestions cannot be applied on multi-line comments.
Suggestions cannot be applied while the pull request is queued to merge.
Suggestion cannot be applied right now. Please check back later.
Description
Turns on radar reflectivity output from FV3. This eliminates missing values appearing in the grib2 files.
Resolves #1513
Type of change
Change characteristics
How has this been tested?
Checklist