JCB companion to Global Workflow marine refactoring

algorithm/marine/soca_ensb.yaml.j2

@@ -38,7 +38,7 @@ soca increments:  # Could also be states, but they are read as increments
   pattern: '%mem%'
   template:
     date: '{{ marine_window_begin_iso }}'
-    basename: '{{ enspert_relpath }}/ens/'
+    basename: '{{ marine_enspert_relpath }}/ens/'
     ocn_filename: 'ocean.%mem%.nc'
     ice_filename: 'ice.%mem%.nc'
     read_from_file: 3
@@ -114,7 +114,7 @@ trajectory:
   read_from_file: 1
 
 output increment:
-  datadir: '{{ enspert_relpath }}/'
+  datadir: '{{ marine_enspert_relpath }}/'
   date: '{{ marine_window_begin_iso }}'
   exp: trash
   type: incr

model/marine/marine_background_ensemble.yaml.j2

@@ -0,0 +1,10 @@
+members from template:
+  template:
+    date: '{{ marine_window_middle_iso }}'
+    ocn_filename: "ocean.%mem%.nc"
+    ice_filename: "ice.%mem%.nc"
+    read_from_file: 1
+    basename: {{ marine_enspert_relpath }}/ens/
+    state variables: [sea_water_salinity, sea_water_potential_temperature, sea_surface_height_above_geoid, sea_water_cell_thickness, eastward_sea_water_velocity, northward_sea_water_velocity, sea_ice_area_fraction]
+  pattern: '%mem%'
+  nmembers: {{ marine_number_ensemble_members }}

model/marine/marine_output_increment.yaml.j2

@@ -0,0 +1,4 @@
+datadir: letkf_output/
+date: '{{ marine_window_begin_iso }}'
+exp: letkf.inc
+type: ens

model/marine/marine_output_mean_prior.yaml.j2

@@ -0,0 +1,4 @@
+datadir: letkf_output/
+date: '{{ marine_window_begin_iso }}'
+exp: letkf.mean_prior
+type: fc

model/marine/marine_output_variance_posterior.yaml.j2

@@ -0,0 +1,4 @@
+datadir: letkf_output/
+date: '{{ marine_window_begin_iso }}'
+exp: letkf.var_post
+type: an

model/marine/marine_output_variance_prior.yaml.j2

@@ -0,0 +1,4 @@
+datadir: letkf_output/
+date: '{{ marine_window_begin_iso }}'
+exp: letkf.var_prior
+type: fc

model/marine/marine_posterior_output.yaml.j2

@@ -0,0 +1,4 @@
+datadir: letkf_output/
+date: '{{ marine_window_begin_iso }}'
+exp: letkf
+type: ens

observations/marine/adt_rads_all.yaml.j2

@@ -12,6 +12,11 @@
     simulated variables: [absoluteDynamicTopography]
     io pool:
       max pool size: 1
+{% if marine_letkf_app | default(false) %}
+    distribution:
+      name: Halo
+      halo size: {{ marine_letkf_dist_halo_size }}
+{% endif %}
   get values:
     time interpolation: linear
   obs operator:
@@ -62,7 +67,7 @@
         name: MetaData/longitude
       minvalue: 32
       maxvalue: 56
-{% if letkf_app | default(false) %}
+{% if marine_letkf_app | default(false) %}
   obs localizations:
   - localization method: Rossby
     base value: 100.0e3

observations/marine/icec_amsr2_north.yaml.j2

@@ -12,6 +12,11 @@
     simulated variables: [seaIceFraction]
     io pool:
       max pool size: 1
+{% if marine_letkf_app | default(false) %}
+    distribution:
+      name: Halo
+      halo size: {{ marine_letkf_dist_halo_size }}
+{% endif %}
   get values:
     time interpolation: linear
   obs operator:
@@ -41,15 +46,15 @@
     action:
       name: inflate error
       inflation factor: 2.0
-{% if letkf_app | default(false) %}
-  - filter: Gaussian Thinning
-    horizontal_mesh: 25  #km
-    use_reduced_horizontal_grid: true
-    select_median: true
-    action:
-      name: reduce obs space
-{% endif %}
-{% if letkf_app | default(false) %}
+#{% if marine_letkf_app | default(false) %}
+#  - filter: Gaussian Thinning
+#    horizontal_mesh: 25  #km
+#    use_reduced_horizontal_grid: true
+#    select_median: true
+#    action:
+#      name: reduce obs space
+#{% endif %}
+{% if marine_letkf_app | default(false) %}
   obs localizations:
   - localization method: Rossby
     base value: 100.0e3

observations/marine/icec_amsr2_south.yaml.j2

@@ -12,6 +12,11 @@
     simulated variables: [seaIceFraction]
     io pool:
       max pool size: 1
+{% if marine_letkf_app | default(false) %}
+    distribution:
+      name: Halo
+      halo size: {{ marine_letkf_dist_halo_size }}
+{% endif %}
   get values:
     time interpolation: linear
   obs operator:
@@ -41,15 +46,15 @@
     action:
       name: inflate error
       inflation factor: 2.0
-{% if letkf_app | default(false) %}
-  - filter: Gaussian Thinning
-    horizontal_mesh: 25  #km
-    use_reduced_horizontal_grid: true
-    select_median: true
-    action:
-      name: reduce obs space
-{% endif %}
-{% if letkf_app | default(false) %}
+#{% if marine_letkf_app | default(false) %}
+#  - filter: Gaussian Thinning
+#    horizontal_mesh: 25  #km
+#    use_reduced_horizontal_grid: true
+#    select_median: true
+#    action:
+#      name: reduce obs space
+#{% endif %}
+{% if marine_letkf_app | default(false) %}
   obs localizations:
   - localization method: Rossby
     base value: 100.0e3

observations/marine/icec_generic_passive.yaml.j2

@@ -12,6 +12,11 @@
     simulated variables: [seaIceFraction]
     io pool:
       max pool size: 1
+{% if marine_letkf_app | default(false) %}
+    distribution:
+      name: Halo
+      halo size: {{ marine_letkf_dist_halo_size }}
+{% endif %}
   get values:
     time interpolation: linear
   obs operator:
@@ -57,7 +62,7 @@
     where:
     - variable: {name: GeoVaLs/sea_surface_temperature}
       maxvalue: -4.0
-{% if letkf_app | default(false) %}
+{% if marine_letkf_app | default(false) %}
   obs localizations:
   - localization method: Rossby
     base value: 100.0e3

observations/marine/icec_ssmis_f17_l2.yaml.j2

@@ -12,6 +12,11 @@
     simulated variables: [seaIceFraction]
     io pool:
       max pool size: 1
+{% if marine_letkf_app | default(false) %}
+    distribution:
+      name: Halo
+      halo size: {{ marine_letkf_dist_halo_size }}
+{% endif %}
   get values:
     time interpolation: linear
   obs operator:
@@ -57,7 +62,7 @@
 #    where:
 #    - variable: {name: GeoVaLs/sea_surface_temperature}
 #      maxvalue: -4.0
-{% if letkf_app | default(false) %}
+{% if marine_letkf_app | default(false) %}
   obs localizations:
   - localization method: Rossby
     base value: 100.0e3

observations/marine/insitu_profile_bathy.yaml.j2

@@ -13,6 +13,11 @@
     observed variables: [waterTemperature]
     io pool:
       max pool size: 1
+{% if marine_letkf_app | default(false) %}
+    distribution:
+      name: Halo
+      halo size: {{ marine_letkf_dist_halo_size }}
+{% endif %}
   obs operator:
     name: InsituTemperature
   obs error:
@@ -28,7 +33,7 @@
           - ObsError/waterTemperature
           coefs:
           - 1000.0
-{% if letkf_app | default(false) %}
+{% if marine_letkf_app | default(false) %}
   obs localizations:
   - localization method: Rossby
     base value: 100.0e3

observations/marine/insitu_profile_glider.yaml.j2

@@ -13,6 +13,11 @@
     observed variables: [waterTemperature]
     io pool:
       max pool size: 1
+{% if marine_letkf_app | default(false) %}
+    distribution:
+      name: Halo
+      halo size: {{ marine_letkf_dist_halo_size }}
+{% endif %}
   obs operator:
     name: Composite
     components:
@@ -32,7 +37,7 @@
           - ObsError/waterTemperature
           coefs:
           - 1000.0
-{% if letkf_app | default(false) %}
+{% if marine_letkf_app | default(false) %}
   obs localizations:
   - localization method: Rossby
     base value: 100.0e3

observations/marine/insitu_profile_marinemammal.yaml.j2

@@ -13,6 +13,11 @@
     observed variables: [waterTemperature]
     io pool:
       max pool size: 1
+{% if marine_letkf_app | default(false) %}
+    distribution:
+      name: Halo
+      halo size: {{ marine_letkf_dist_halo_size }}
+{% endif %}
   obs operator:
     name: Composite
     components:
@@ -32,7 +37,7 @@
           - ObsError/waterTemperature
           coefs:
           - 1000.0
-{% if letkf_app | default(false) %}
+{% if marine_letkf_app | default(false) %}
   obs localizations:
   - localization method: Rossby
     base value: 100.0e3

observations/marine/insitu_profile_tesac.yaml.j2

@@ -13,6 +13,11 @@
     observed variables: [waterTemperature]
     io pool:
       max pool size: 1
+{% if marine_letkf_app | default(false) %}
+    distribution:
+      name: Halo
+      halo size: {{ marine_letkf_dist_halo_size }}
+{% endif %}
   obs operator:
     name: Composite
     components:
@@ -30,7 +35,7 @@
           - ObsError/waterTemperature
           coefs:
           - 1000.0
-{% if letkf_app | default(false) %}
+{% if marine_letkf_app | default(false) %}
   obs localizations:
   - localization method: Rossby
     base value: 100.0e3

observations/marine/insitu_profile_tesac_salinity.yaml.j2

@@ -13,6 +13,11 @@
     observed variables: [salinity]
     io pool:
       max pool size: 1
+{% if marine_letkf_app | default(false) %}
+    distribution:
+      name: Halo
+      halo size: {{ marine_letkf_dist_halo_size }}
+{% endif %}
   obs operator:
     name: VertInterp
     observation alias file: ./obsop_name_map.yaml
@@ -32,7 +37,7 @@
           - ObsError/salinity
           coefs:
           - 1000.0
-{% if letkf_app | default(false) %}
+{% if marine_letkf_app | default(false) %}
   obs localizations:
   - localization method: Rossby
     base value: 100.0e3

observations/marine/insitu_profile_tropical.yaml.j2

@@ -13,6 +13,11 @@
     observed variables: [waterTemperature]
     io pool:
       max pool size: 1
+{% if marine_letkf_app | default(false) %}
+    distribution:
+      name: Halo
+      halo size: {{ marine_letkf_dist_halo_size }}
+{% endif %}
   obs operator:
     name: Composite
     components:
@@ -38,7 +43,7 @@
     where:
     - variable: {name: GeoVaLs/sea_surface_temperature}
       maxvalue: -4.0
-{% if letkf_app | default(false) %}
+{% if marine_letkf_app | default(false) %}
   obs localizations:
   - localization method: Rossby
     base value: 100.0e3

observations/marine/insitu_profile_xbtctd.yaml.j2

@@ -13,6 +13,11 @@
     observed variables: [waterTemperature]
     io pool:
       max pool size: 1
+{% if marine_letkf_app | default(false) %}
+    distribution:
+      name: Halo
+      halo size: {{ marine_letkf_dist_halo_size }}
+{% endif %}
   obs operator:
     name: Composite
     components:
@@ -32,7 +37,7 @@
           - ObsError/waterTemperature
           coefs:
           - 1000.0
-{% if letkf_app | default(false) %}
+{% if marine_letkf_app | default(false) %}
   obs localizations:
   - localization method: Rossby
     base value: 100.0e3

observations/marine/insitu_salt_profile_argo.yaml.j2

@@ -18,6 +18,11 @@
     observed variables: [salinity]
     io pool:
       max pool size: 1
+{% if marine_letkf_app | default(false) %}
+    distribution:
+      name: Halo
+      halo size: {{ marine_letkf_dist_halo_size }}
+{% endif %}
   obs operator:
     name: VertInterp
     observation alias file: ./obsop_name_map.yaml
@@ -186,7 +191,7 @@
             - ObsError/salinity
             coefs:
             - 100.0
-{% if letkf_app | default(false) %}
+{% if marine_letkf_app | default(false) %}
   obs localizations:
   - localization method: Rossby
     base value: 100.0e3

observations/marine/insitu_surface_altkob.yaml.j2

@@ -13,6 +13,11 @@
     observed variables: [seaSurfaceTemperature]
     io pool:
       max pool size: 1
+{% if marine_letkf_app | default(false) %}
+    distribution:
+      name: Halo
+      halo size: {{ marine_letkf_dist_halo_size }}
+{% endif %}
   obs operator:
     name: Identity
     observation alias file: obsop_name_map.yaml
@@ -29,7 +34,7 @@
           - ObsError/seaSurfaceTemperature
           coefs:
           - 1000.0
-{% if letkf_app | default(false) %}
+{% if marine_letkf_app | default(false) %}
   obs localizations:
   - localization method: Rossby
     base value: 100.0e3