marine algo

algorithm/marine/soca_2cice_antarctic.yaml.j2

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+input geometry:
+  mom6_input_nml: mom_input.nml
+  fields metadata: fields_metadata.yaml
+  geom_grid_file: soca_gridspec.nc
+
+output geometry:
+  mom6_input_nml: mom_input.nml
+  fields metadata: fields_metadata.yaml
+  geom_grid_file: soca_gridspec.nc
+
+variable change:
+  variable change name: Soca2Cice
+  do inverse: false
+  seaice edge: 0.9
+  shuffle: false  # seg. fault when true 
+  rescale prior:
+    min hice: 0.5
+    min hsno: 0.1
+  domain: antarctic
+  cice background state:
+    restart: {{ ICE_RST }}
+    grid: ' '
+    ncat: 5
+    ice_lev: 7
+    sno_lev: 1
+    tstep: PT1H
+  cice output:
+    restart: {{ ICE_RST }}
+  output variables: [tocn, socn, hocn, cicen, hicen, hsnon]
+
+states:
+- input:
+     read_from_file: 1
+     basename: ./
+     ocn_filename: {{ OCN_ANA }}
+     ice_filename: {{ ICE_ANA }}
+     date: '{{ FCST_BEGIN }}'
+     state variables: [tocn, socn, hocn, cicen, hicen, hsnon]
+  output:
+     datadir: Data
+     exp: soca2cice
+     type: fc
+     date: '{{ FCST_BEGIN }}'

algorithm/marine/soca_2cice_arctic.yaml.j2

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+input geometry:
+  mom6_input_nml: mom_input.nml
+  fields metadata: ./fields_metadata.yaml
+
+output geometry:
+  mom6_input_nml: mom_input.nml
+  fields metadata: ./fields_metadata.yaml
+
+variable change:
+  variable change name: Soca2Cice
+  do inverse: false
+  seaice edge: 0.8
+  shuffle: false
+  rescale prior:
+    min hice: 0.5
+    min hsno: 0.1
+  domain: arctic
+  cice background state:
+    restart: {{ ICE_RST }}
+    ncat: 5
+    ice_lev: 7
+    sno_lev: 1
+    tstep: PT1H
+  cice output:
+    restart: {{ ICE_RST }}
+  output variables: [tocn, socn, hocn, cicen, hicen, hsnon]
+
+states:
+- input:
+     read_from_file: 1
+     basename: ./
+     ocn_filename: {{ OCN_ANA }}
+     ice_filename: {{ ICE_ANA }}
+     date: '{{ FCST_BEGIN }}'
+     state variables: [tocn, socn, hocn, cicen, hicen, hsnon]
+  output:
+     datadir: Data
+     exp: soca2cice
+     type: fc
+     date: '{{ FCST_BEGIN }}'

algorithm/marine/socaincr2mom6.yaml.j2

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+geometry:
+  mom6_input_nml: mom_input.nml
+  fields metadata: ./fields_metadata.yaml
+
+date: '{{ MARINE_WINDOW_BEGIN_ISO }}'
+
+layers variable: [hocn]
+
+increment variables: [tocn, socn, uocn, vocn, ssh]
+
+vertical geometry:
+  date: '{{ MARINE_WINDOW_BEGIN_ISO }}'
+  basename: ./INPUT/
+  ocn_filename: MOM.res.nc
+  read_from_file: 1
+
+soca increment:
+  date: '{{ MARINE_WINDOW_BEGIN_ISO }}'
+  basename: ./Data/
+  ocn_filename: 'ocn.3dvarfgat_pseudo.incr.{{MARINE_WINDOW_MIDDLE_ISO}}.nc'
+  read_from_file: 1
+
+output increment:
+  datadir: ./
+  date: '{{ MARINE_WINDOW_BEGIN_ISO }}'
+  exp: mom6_iau
+  type: incr
+  output file: inc.nc