NOAA-EMC · DavidHuber-NOAA · Dec 12, 2025 · Nov 25, 2025 · Nov 25, 2025 · Nov 26, 2025
@@ -22,7 +22,7 @@ indent_style = tab
 indent_size = 4
 max_line_length = 79
 
-[jobs/*]
+[dev/jobs/*]
 indent_style = space
 indent_size = 4
 shell_variant = bash

@@ -74,7 +74,6 @@ jobs/JGLOBAL_MARINE_* @guillaumevernieres @AndrewEichmann-NOAA
 jobs/JGLOBAL_OCEANICE_PRODUCTS @JesseMeng-NOAA @ChristopherHill-NOAA
 jobs/JGLOBAL_OFFLINE_ATMOS_ANALYSIS @CoryMartin-NOAA
 jobs/JGLOBAL_PREP_EMISSIONS @bbakernoaa
-jobs/JGLOBAL_PREP_OBS_AERO @CoryMartin-NOAA
 jobs/JGLOBAL_PREP_OCEAN_OBS @guillaumevernieres @AndrewEichmann-NOAA
 jobs/JGLOBAL_*SNOW* @jiaruidong2017
 jobs/JGLOBAL_STAGE_IC @DavidHuber-NOAA @aerorahul
@@ -161,6 +160,7 @@ ush/gaussian_sfcanl.sh @BrianCurtis-NOAA
 ush/getdump.sh @DavidHuber-NOAA @aerorahul 
 ush/getges.sh @DavidHuber-NOAA @aerorahul 
 ush/getgfsnctime @CoryMartin-NOAA
+ush/getioda.sh @nicholasesposito @CoryMartin-NOAA @RussTreadon-NOAA
 ush/getncdimlen @CoryMartin-NOAA
 ush/gfs_bfr2gpk.sh @BoCui-NOAA
 ush/gfs_bufr.sh @BoCui-NOAA
@@ -209,7 +209,6 @@ ush/python/pygfs/task/__init__.py @aerorahul
 ush/python/pygfs/task/aero_analysis.py @DavidNew-NOAA @CoryMartin-NOAA
 ush/python/pygfs/task/aero_bmatrix.py @DavidNew-NOAA @CoryMartin-NOAA
 ush/python/pygfs/task/aero_emissions.py @bbakernoaa
-ush/python/pygfs/task/aero_prepobs.py @CoryMartin-NOAA
 ush/python/pygfs/task/analysis.py @DavidNew-NOAA @RussTreadon-NOAA
 ush/python/pygfs/task/analysis_stats.py @CoryMartin-NOAA @DavidNew-NOAA
 ush/python/pygfs/task/archive.py @DavidHuber-NOAA

@@ -1,6 +1,5 @@
 name: Bug Report
 description: Report something that is incorrect or broken
-labels: ["triage"]
 type: "bug"
 projects: ["NOAA-EMC/41"]
 

@@ -1,6 +1,5 @@
 name: New Feature
 description: New capability is desired
-labels: ["triage"]
 type: "feature"
 projects: ["NOAA-EMC/41"]
 

@@ -41,6 +41,11 @@
 
 # Change characteristics
 <!-- Choose YES or NO from each of the following and delete the other -->
+- Is this change expected to change outputs (e.g. value changes to existing outputs, new files stored in COM, files removed from COM, filename changes, additions/subtractions to archives)? YES/NO (If YES, please indicate to which system(s))
+  - [ ] GFS
+  - [ ] GEFS
+  - [ ] SFS
+  - [ ] GCAFS
 - Is this a breaking change (a change in existing functionality)? YES/NO
 - Does this change require a documentation update? YES/NO
 - Does this change require an update to any of the following submodules? YES/NO (If YES, please add a link to any PRs that are pending.)

@@ -0,0 +1,105 @@
+name: bash_code_analysis
+on:
+  # push:
+  #   branches:
+  #     - develop
+  pull_request:
+
+  workflow_dispatch:
+
+permissions:
+  contents: read
+
+jobs:
+
+  shfmt:
+    runs-on: ubuntu-22.04
+
+    permissions:
+      contents: read  # for actions/checkout to fetch code
+      pull-requests: read  # to get PR metadata
+      security-events: write
+
+    steps:
+      - name: Checkout code
+        uses: actions/checkout@v6
+        with:
+          fetch-depth: 0
+
+      # Switch to this action once whole repo is shfmt compliant
+      # - name: shfmt scan
+      #   uses: reviewdog/action-shfmt@v1
+      #   with:
+      #     filter_mode: nofilter
+      #     level: warning
+      #     reporter: github-pr-review
+
+      - name: Install shfmt
+        uses: mfinelli/setup-shfmt@v4
+      - name: shfmt scan
+        run: shfmt -d dev/jobs dev/job_cards dev/scripts dev/ush ush
+
+  shellcheck:
+    runs-on: ubuntu-22.04
+
+    permissions:
+      contents: read  # for actions/checkout to fetch code
+      pull-requests: read  # to get PR metadata
+      security-events: write
+
+    steps:
+      - name: Checkout code
+        uses: actions/checkout@v6
+        with:
+          submodules: false
+
+      - name: Shellcheck Scan
+        uses: reviewdog/action-shellcheck@v1
+        with:
+          filter_mode: nofilter
+          level: warning
+          reporter: github-pr-review
+          path: |
+            dev/jobs
+            dev/job_cards
+            dev/scripts
+            dev/ush
+            ush
+          pattern: |
+            config.*
+            J*
+            *.env
+            *.sh
+            *.bash
+
+  differential_shellcheck:
+    # Run again on just changes until whole repo is compliant
+    runs-on: ubuntu-22.04
+
+    permissions:
+      contents: read  # for actions/checkout to fetch code
+      pull-requests: read  # to get PR metadata
+      security-events: write
+
+    steps:
+      - name: Checkout code
+        uses: actions/checkout@v6
+        with:
+          submodules: false
+
+      - name: Shellcheck Scan
+        uses: reviewdog/action-shellcheck@v1
+        with:
+          filter_mode: added
+          level: warning
+          reporter: github-pr-review
+          check_all_files_with_shebangs: true
+          pattern: |
+            config.*
+            J*
+            *.env
+            *.sh
+            *.bash
+
+
+
@@ -1,5 +1,11 @@
-name: pynorms
-on: [push, pull_request]
+name: python_code_analysis
+on:
+  push:
+    branches:
+      - develop
+  pull_request:
+
+  workflow_dispatch:
 
 jobs:
   check_norms:

@@ -150,7 +150,7 @@ sorc/ocnicepost.fd
 #------------------------------
 # jobs symlinks
 # scripts symlinks
-scripts/exglobal_prep_ocean_obs.py
+dev/scripts/exglobal_prep_ocean_obs.py
 # ush symlinks
 ush/bufr2ioda_insitu_profile_argo.py
 ush/bufr2ioda_insitu_profile_bathy.py
@@ -169,18 +169,19 @@ ush/fv3gfs_make_orog.sh
 ush/global_chgres.sh
 ush/global_chgres_driver.sh
 ush/global_cycle_driver.sh
+ush/gsi_satbias2ioda_all.sh
 ush/jediinc2fv3.py
 ush/imsfv3_scf2ioda.py
 ush/bufr_snocvr_snomad.py
 ush/atparse.bash
-ush/run_bufr2ioda.py
 ush/bufr2ioda_insitu*
 ush/python/gsincdiag_to_ioda
 ush/python/ufsda
 ush/python/pyiodaconv
 ush/python/soca
 ush/python/gen_bufr2ioda_json.py
 ush/python/gen_bufr2ioda_yaml.py
+ush/python/run_bufr2ioda.py
 ush/spoc
 # ush log file
 ush/fetch-fix-data.log

@@ -11,6 +11,9 @@ experiment:
   edate: 2021032312
   yaml: {{ HOMEgfs }}/dev/ci/cases/yamls/gfs_defaults_ci.yaml
 
+skip_ci_on_hosts:
+  - wcoss2
+
 workflow:
   engine: rocoto
   rocoto:

@@ -9,12 +9,13 @@ experiment:
   nens: 30
   interval: 24
   start: cold
-  gefstype: near-real-time
+  gefstype: gefs-real-time
   comroot: {{ 'RUNTESTS' | getenv }}/COMROOT
   expdir: {{ 'RUNTESTS' | getenv }}/EXPDIR
   idate: 2024112500
   edate: 2024112500
   yaml: {{ HOMEgfs }}/dev/ci/cases/yamls/gefs_defaults_ci.yaml
+  icsdir: /lfs/h2/emc/ens/noscrub/eric.sinsky/RETRO_ICS
 
 # TODO run on supported platforms once the gefs forecast and subsequent tasks can succeed with RETRO ICs
 # Add this to run the stage ic job 'icsdir: /lfs/h2/emc/ens/noscrub/eric.sinsky/RETRO_ICS'

@@ -0,0 +1,31 @@
+experiment:
+  net: gfs
+  mode: cycled
+  pslot: {{ 'pslot' | getenv }}
+  app: ATM
+  resdetatmos: 96
+  resensatmos: 48
+  comroot: {{ 'RUNTESTS' | getenv }}/COMROOT
+  expdir: {{ 'RUNTESTS' | getenv }}/EXPDIR
+  icsdir: {{ 'ICSDIR_ROOT' | getenv }}/C96C48/20250808
+  idate: 2024022318
+  edate: 2024022406
+  nens: 2
+  interval: 24
+  start: warm
+  yaml: {{ HOMEgfs }}/dev/ci/cases/yamls/ufsgsi_hybatmDA_defaults.ci.yaml
+
+skip_ci_on_hosts:
+  - gaeac5
+  - gaeac6
+  - orion
+  - hercules
+  - awsepicglobalworkflow
+
+workflow:
+  engine: rocoto
+  rocoto:
+    maxtries: 2
+    cyclethrottle: 3
+    taskthrottle: 25
+    verbosity: 2
@@ -15,9 +15,7 @@ experiment:
   yaml: {{ HOMEgfs }}/dev/ci/cases/yamls/gcafs_cycled_defaults_ci.yaml
 
 skip_ci_on_hosts:
-  - orion
   - gaeac5
-  - hercules
   - awsepicglobalworkflow
   - ursa
 

@@ -3,3 +3,4 @@ defaults:
 base:
   DO_TEST_MODE: "NO"
   AERO_ANL_RUNS: "gcdas"
+  USE_IODADIR: "YES"
@@ -13,3 +13,4 @@ base:
   FHMAX_GFS: 384
   FHMAX_HF_GFS: 120
   DO_TEST_MODE: "NO"
+  DO_ARCHCOM: "YES"
@@ -5,6 +5,8 @@ base:
   DO_JEDIATMVAR: "YES"
   DO_JEDIATMENS: "YES"
   DO_TEST_MODE: "NO"
+  CASE_ANL: "C48"
+  USE_IODADIR: "YES"
 atmanl:
   LAYOUT_X_ATMANL: 4
   LAYOUT_Y_ATMANL: 4
@@ -23,5 +25,7 @@ esfc:
   DONST: "NO"
 nsst:
   NST_MODEL: "1"
+prepatmiodaobs:
+  DO_CONVERT_IODA: "YES"
 sfcanl:
   DONST: "NO"