Replace separate JEDI radiance bias correction files with tarball #2875

RussTreadon-NOAA · 2024-08-28T19:41:22Z

Description

This PR updates g-w components which handle JEDI radiance bias correction files. Currently, JEDI radiance bias correction files are processed at the satellite_sensor. This PR replaces these multiple files with a single radiance bias correction tarball.

Resolves #2862

Refs:

g-w #2869
GDASApp #1267

Type of change

Maintenance (code refactor, clean-up, new CI test, etc.)

Change characteristics

Is this a breaking change (a change in existing functionality)? NO
Does this change require a documentation update? NO
Does this change require an update to any of the following submodules? YES
- GDAS PR #1267

How has this been tested?

Clone, build, and cycled tests on WCOSS2 (Cactus)
Clone, build, and cycled tests on Hera
Clone, build, and cycled tests on Hercules

Checklist

Any dependent changes have been merged and published
My code follows the style guidelines of this project
I have performed a self-review of my own code
New and existing tests pass with my changes

…AA-EMC#2862)

RussTreadon-NOAA · 2024-08-28T19:43:14Z

This PR is opened as a draft to allow others to comment on the changes while we wait for g-w issue #2869 and GDASApp PR #1267 to be closed.

parm/archive/gdas_restarta.yaml.j2

ush/python/pygfs/task/analysis.py

…cribing (NOAA-EMC#2862)

…A-EMC#2862)

…e bias correction files from tarball (NOAA-EMC#2862)

RussTreadon-NOAA · 2024-09-09T17:28:43Z

Hera tests

Install GDASApp PR #1267 with feature/radbcor at 554c55a inside g-w feature/radbcor at 5985e9f.

All 48 test_gdasapp tests Passed (see comment here). All jobs in g-w C96C48_ufs_hybatmDA CI successfully run to completion.

Hera(hfe05):/scratch1/NCEPDEV/stmp2/Russ.Treadon/EXPDIR/prtest$ rocotostat -d prtest.db -w prtest.xml -c all -s
   CYCLE         STATE           ACTIVATED              DEACTIVATED
202402231800        Done    Sep 07 2024 13:35:14    Sep 07 2024 13:55:14
202402240000        Done    Sep 07 2024 13:35:14    Sep 09 2024 17:25:13

The changes in this PR are ready for review.

ush/python/pygfs/task/atm_analysis.py

ush/python/pygfs/jedi/jedi.py

…on files using jedi class (NOAA-EMC#2862)

RussTreadon-NOAA · 2024-09-11T10:42:34Z

g-w CI tests

g-w feature/radbcor at 386313b along with GDASApp feature/radbcor at 554c55a have been installed on Hera, Hercules, and WCOSS2 (Dogwood).

The following g-w CI is being run on each machine.

Hera: C96C48_hybatmDA, C96C48_ufs_hybatmDA, C96C48_hybatmaerosnowDA, C48mx500_3DVarAOWCDA
Hercules: C96C48_hybatmDA, C96C48_ufs_hybatmDA, C96C48_hybatmaerosnowDA
WCOSS2 (Dogwood): C96C48_hybatmDA, C96C48_ufs_hybatmDA, C96C48_hybatmaerosnowDA

The Hera and Hercules tests are complete. The indicated g-w CI configurations successfully ran to completion on these machines.

The Dogwood g-w CI configurations are still running.

RussTreadon-NOAA · 2024-09-11T13:38:56Z

g-w CI tests on WCOSS2 (Dogwood)

The C96C48_hybatmDA, C96C48_ufs_hybatmDA, and C96C48_hybatmaerosnowDA g-w CI tests successfully ran to completion on Dogwood.

…OAA-EMC#2862)

emcbot · 2024-09-30T15:54:15Z

Experiment C48_ATM FAILED on Hercules in Build# 3 with error logs:

/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C48_ATM_5f7ceebe/logs/2021032312/gfsmetpg2o1.log

Follow link here to view the contents of the above file(s): (link)

emcbot · 2024-09-30T15:54:21Z

Experiment C48_ATM FAILED on Hercules in Build# 3 in
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/EXPDIR/C48_ATM_5f7ceebe

RussTreadon-NOAA · 2024-09-30T16:04:48Z

I do not run C48_ATM because this test does not exercise DA. Log file gfsmetpg2o1.log contains the message

09/30 10:50:15.619 metplus (met_util.py:247) INFO: Check the log file for more information: /work/noaa/stmp/mterry/HERCULES/RUNDIRS/C48_ATM_5f7ceebe/gfs.2021032312/met\
pg2o1.716680/grid2obs_step1/metplus_output/logs/C48_ATM_5f7ceebe/master_metplus_grid2obs_step1_upper_air_gatherbyVSDB_for20210323_runon20240930105013.log
srun: error: hercules-01-01: task 0: Exited with exit code 1

The indicated log file has

DEBUG 1: Default Config File: /work/noaa/epic/role-epic/spack-stack/hercules/spack-stack-1.6.0/envs/gsi-addon-env/install/intel/2021.9.0/met-9.1.3-76sujnp/share/met/co\
nfig/STATAnalysisConfig_default
DEBUG 1: User Config File: /work2/noaa/stmp/CI/HERCULES/2875/gfs/sorc/verif-global.fd/parm/metplus_config/metplus_use_cases/METplusV3.1/grid2obs/met_config/METV9.1/STA\
TAnalysisConfig
ERROR  :
ERROR  : process_search_dirs() -> no STAT files found in the directories specified!
ERROR  :
ERROR  :
ERROR  : main() -> encountered an error value of 1.  Calling clean_up() and usage() before exiting.
ERROR  :

We need someone from VPPGB to examine the log files to figure out what went wrong.

aerorahul · 2024-09-30T16:23:02Z

I do not run C48_ATM because this test does not exercise DA. Log file gfsmetpg2o1.log contains the message

09/30 10:50:15.619 metplus (met_util.py:247) INFO: Check the log file for more information: /work/noaa/stmp/mterry/HERCULES/RUNDIRS/C48_ATM_5f7ceebe/gfs.2021032312/met\
pg2o1.716680/grid2obs_step1/metplus_output/logs/C48_ATM_5f7ceebe/master_metplus_grid2obs_step1_upper_air_gatherbyVSDB_for20210323_runon20240930105013.log
srun: error: hercules-01-01: task 0: Exited with exit code 1

The indicated log file has

DEBUG 1: Default Config File: /work/noaa/epic/role-epic/spack-stack/hercules/spack-stack-1.6.0/envs/gsi-addon-env/install/intel/2021.9.0/met-9.1.3-76sujnp/share/met/co\
nfig/STATAnalysisConfig_default
DEBUG 1: User Config File: /work2/noaa/stmp/CI/HERCULES/2875/gfs/sorc/verif-global.fd/parm/metplus_config/metplus_use_cases/METplusV3.1/grid2obs/met_config/METV9.1/STA\
TAnalysisConfig
ERROR  :
ERROR  : process_search_dirs() -> no STAT files found in the directories specified!
ERROR  :
ERROR  :
ERROR  : main() -> encountered an error value of 1.  Calling clean_up() and usage() before exiting.
ERROR  :

We need someone from VPPGB to examine the log files to figure out what went wrong.

@malloryprow @WalterKolczynski-NOAA Is this related to a change to delay met processing?

WalterKolczynski-NOAA · 2024-09-30T16:27:44Z

@malloryprow @WalterKolczynski-NOAA Is this related to a change to delay met processing?

Are you talking about @DavidHuber-NOAA's PR that removed a race condition (#2907) or mine? Because mine hasn't been merged yet.

aerorahul · 2024-09-30T16:31:02Z

@malloryprow @WalterKolczynski-NOAA Is this related to a change to delay met processing?

Are you talking about @DavidHuber-NOAA's PR that removed a race condition (#2907) or mine? Because mine hasn't been merged yet.

That is the one. Is this failure related to that feature? I think there was work being done in the verif-global repo. If that is the case, we should acknowledge and move ahead.

WalterKolczynski-NOAA · 2024-09-30T16:35:17Z

@malloryprow @WalterKolczynski-NOAA Is this related to a change to delay met processing?

Are you talking about @DavidHuber-NOAA's PR that removed a race condition (#2907) or mine? Because mine hasn't been merged yet.

That is the one. Is this failure related to that feature? I think there was work being done in the verif-global repo. If that is the case, we should acknowledge and move ahead.

Agreed, since the failure is unrelated to this PR, I say we just merge.

malloryprow · 2024-09-30T17:10:30Z

@malloryprow @WalterKolczynski-NOAA Is this related to a change to delay met processing?

Are you talking about @DavidHuber-NOAA's PR that removed a race condition (#2907) or mine? Because mine hasn't been merged yet.

That is the one. Is this failure related to that feature? I think there was work being done in the verif-global repo. If that is the case, we should acknowledge and move ahead.

It does appear to be related

emcbot · 2024-09-30T17:18:59Z

Experiment C96C48_hybatmDA FAILED on Hercules in Build# 3 with error logs:

/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96C48_hybatmDA_5f7ceebe/logs/2021122106/gdasanaldiag.log

Follow link here to view the contents of the above file(s): (link)

emcbot · 2024-09-30T17:19:00Z

Experiment C96_atm3DVar FAILED on Hercules in Build# 3 with error logs:

/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122100/gdasanaldiag.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122100/gfsatmos_prod_f102.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122100/gfsatmos_prod_f108.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122100/gfsatmos_prod_f111.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122100/gfsatmos_prod_f114.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122106/gdasanaldiag.log

Follow link here to view the contents of the above file(s): (link)

emcbot · 2024-09-30T17:19:06Z

Experiment C96C48_hybatmDA FAILED on Hercules in Build# 3 in
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/EXPDIR/C96C48_hybatmDA_5f7ceebe

emcbot · 2024-09-30T17:19:06Z

Experiment C96_atm3DVar FAILED on Hercules in Build# 3 in
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/EXPDIR/C96_atm3DVar_5f7ceebe

emcbot · 2024-09-30T17:25:41Z

Experiment C48_S2SWA_gefs FAILED on Hercules in Build# 3 with error logs:

/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C48_S2SWA_gefs_5f7ceebe/logs/2021032312/wave_post_pnt_mem000.log

Follow link here to view the contents of the above file(s): (link)

emcbot · 2024-09-30T17:25:47Z

Experiment C48_S2SWA_gefs FAILED on Hercules in Build# 3 in
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/EXPDIR/C48_S2SWA_gefs_5f7ceebe

emcbot · 2024-09-30T17:49:06Z

CI Failed on Hercules in Build# 3
Built and ran in directory /work2/noaa/stmp/CI/HERCULES/2875


Experiment C48_ATM_5f7ceebe Terminated with 0
FAIL
FAIL tasks failed and 1 dead at Mon Sep 30 10:54:04 CDT 2024
Experiment C48_ATM_5f7ceebe Terminated: *FAIL*
Error logs:
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C48_ATM_5f7ceebe/logs/2021032312/gfsmetpg2o1.log
Experiment C96_atm3DVar_5f7ceebe Terminated with 0
FAIL
FAIL tasks failed and 14 dead at Mon Sep 30 12:18:41 CDT 2024
Experiment C96_atm3DVar_5f7ceebe Terminated: *FAIL*
Error logs:
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122100/gdasanaldiag.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122100/gfsatmos_prod_f084.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122100/gfsatmos_prod_f087.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122100/gfsatmos_prod_f090.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122100/gfsatmos_prod_f093.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122100/gfsatmos_prod_f096.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122100/gfsatmos_prod_f099.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122100/gfsatmos_prod_f102.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122100/gfsatmos_prod_f105.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122100/gfsatmos_prod_f108.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122100/gfsatmos_prod_f111.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122100/gfsatmos_prod_f114.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122100/gfsatmos_prod_f117.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122100/gfsatmos_prod_f120.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122106/gdasanaldiag.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122106/gfsatmos_prod_f084.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122106/gfsatmos_prod_f087.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122106/gfsatmos_prod_f090.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122106/gfsatmos_prod_f093.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122106/gfsatmos_prod_f096.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122106/gfsatmos_prod_f099.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122106/gfsatmos_prod_f102.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122106/gfsatmos_prod_f105.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122106/gfsatmos_prod_f108.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122106/gfsatmos_prod_f111.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122106/gfsatmos_prod_f114.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122106/gfsatmos_prod_f117.log
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96_atm3DVar_5f7ceebe/logs/2021122106/gfsatmos_prod_f120.log
Experiment C96C48_hybatmDA_5f7ceebe Terminated with 0
FAIL
FAIL tasks failed and 1 dead at Mon Sep 30 12:18:48 CDT 2024
Experiment C96C48_hybatmDA_5f7ceebe Terminated: *FAIL*
Error logs:
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C96C48_hybatmDA_5f7ceebe/logs/2021122106/gdasanaldiag.log
Experiment C48_S2SWA_gefs_5f7ceebe Terminated with 0
FAIL
FAIL tasks failed and 1 dead at Mon Sep 30 12:25:28 CDT 2024
Experiment C48_S2SWA_gefs_5f7ceebe Terminated: *FAIL*
Error logs:
/work2/noaa/stmp/CI/HERCULES/2875/RUNTESTS/COMROOT/C48_S2SWA_gefs_5f7ceebe/logs/2021032312/wave_post_pnt_mem000.log
Experiment C48_S2SW_5f7ceebe Completed 1 Cycles: *SUCCESS* at Mon Sep 30 12:48:57 CDT 2024

replace separate JEDI radiance bias correction files with tarball (NO…

20fb88c

…AA-EMC#2862)

RussTreadon-NOAA self-assigned this Aug 28, 2024

CoryMartin-NOAA requested a review from ypwang19 August 28, 2024 19:44

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RussTreadon-NOAA mentioned this pull request Aug 28, 2024

Replace satellite_sensor based UFSDA radiance bias correction files with tarball #2869

Closed

4 tasks

RussTreadon-NOAA and others added 2 commits August 29, 2024 04:58

Merge branch 'develop' into feature/radbcor

8a219cd

rename JEDI radiance bias correction tarball file to be more self-des…

73aa233

…cribing (NOAA-EMC#2862)

RussTreadon-NOAA mentioned this pull request Aug 29, 2024

Update atmospheric var and lgetkf ctests to use radiance bias correction tarball NOAA-EMC/GDASApp#1267

Merged

RussTreadon-NOAA and others added 5 commits September 6, 2024 01:42

Merge remote-tracking branch 'upstream/develop' into feature/radbcor

00a013f

Merge branch 'NOAA-EMC:develop' into feature/radbcor

3215d9b

Merge branch 'develop' into feature/radbcor

04b4347

update gdas.cd hash to include recent commits to GDASApp develop (NOA…

1203866

…A-EMC#2862)

update pygfs jedi class and atmospheric tasks to extract JEDI radianc…

5985e9f

…e bias correction files from tarball (NOAA-EMC#2862)

Merge branch 'develop' into feature/radbcor

009659c

RussTreadon-NOAA marked this pull request as ready for review September 9, 2024 17:29

DavidNew-NOAA reviewed Sep 9, 2024

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ush/python/pygfs/task/atm_analysis.py Outdated Show resolved Hide resolved

move radiance bias correction staging to jedi class (NOAA-EMC#2868)

73e56a7

DavidNew-NOAA approved these changes Sep 10, 2024

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CoryMartin-NOAA reviewed Sep 10, 2024

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RussTreadon-NOAA and others added 3 commits September 10, 2024 15:03

initial attempt to generalize processing of variational bias correcti…

666d7d6

…on files using jedi class (NOAA-EMC#2862)

move VarBcDir inside initialize_analysis method (NOAA-EMC#2862)

1e4a284

Merge branch 'develop' into feature/radbcor

386313b

RussTreadon-NOAA and others added 2 commits September 11, 2024 09:54

Merge branch 'develop' into feature/radbcor

dd9099e

update sorc/gdas.cd hash to bring in radiance tarball ctest changes (N…

b48e126

…OAA-EMC#2862)

aerorahul added the CI-Hercules-Ready **CM use only** PR is ready for CI testing on Hercules label Sep 30, 2024

emcbot added CI-Hercules-Failed **Bot use only** CI testing on Hercules for this PR has failed and removed CI-Hercules-Running **Bot use only** CI testing on Hercules for this PR is in-progress labels Sep 30, 2024

WalterKolczynski-NOAA approved these changes Sep 30, 2024

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WalterKolczynski-NOAA merged commit e2f56f5 into NOAA-EMC:develop Sep 30, 2024
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RussTreadon-NOAA deleted the feature/radbcor branch September 30, 2024 17:02

emcbot added CI-Hercules-Failed **Bot use only** CI testing on Hercules for this PR has failed and removed CI-Hercules-Failed **Bot use only** CI testing on Hercules for this PR has failed labels Sep 30, 2024

RussTreadon-NOAA mentioned this pull request Oct 8, 2024

wxflow not found in marine da jobs on wcoss2 #2682

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DavidNew-NOAA mentioned this pull request Nov 6, 2024

JCB-based obs+bias staging, Jedi class updates, and marine B-matrix refactoring #2992

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ypwang19 mentioned this pull request Dec 20, 2024

Enable bias correction for aerosol DA #3189

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Replace separate JEDI radiance bias correction files with tarball #2875

Replace separate JEDI radiance bias correction files with tarball #2875

RussTreadon-NOAA commented Aug 28, 2024 •

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Replace separate JEDI radiance bias correction files with tarball #2875

Replace separate JEDI radiance bias correction files with tarball #2875

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