NOAA-GFDL · adcroft · Oct 25, 2016 · Oct 7, 2016 · Oct 7, 2016 · Oct 7, 2016
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/.datasets b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/.datasets
@@ -0,0 +1 @@
+../../../.datasets
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/.gitignore b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/.gitignore
@@ -0,0 +1,2 @@
+# Undo *.nc in top-level .gitignore
+!*.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/GOLD_IC.2010.11.15.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/GOLD_IC.2010.11.15.nc
@@ -0,0 +1 @@
+.datasets/GOLD_SIS/riga/INPUT/GOLD_IC.2010.11.15.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/Layer_coord.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/Layer_coord.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/Layer_coord50.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/Layer_coord50.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/NOTES b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/NOTES
@@ -0,0 +1,10 @@
+ncks -d ny,160,173 -d nx,286,308 /archive/gold/datasets/GOLD_SIS/riga/mosaic.unpacked/topog.nc topog.nc
+ncks -d ny,320,347 -d nx,572,617 -d nyp,320,348 -d nxp,572,618 /archive/gold/datasets/GOLD_SIS/riga/mosaic.unpacked/ocean_hgrid.nc ocean_hgrid.nc
+ncks -d ny,142,155 -d nx,4,23 -d nyp,142,156 -d nxp,4,24 /archive/gold/datasets/GOLD_SIS/riga/mosaic.unpacked/atmos_hgrid.nc atmos_hgrid.nc
+cp atmos_hgrid.nc land_hgrid.nc
+ncks -d GRID_Y_T,160,173 -d GRID_X_T,286,308 .datasets/GOLD_SIS/riga/INPUT/tideamp.nc tideamp.nc
+ncks -d GRID_Y_T,160,173 -d GRID_X_T,286,308 .datasets/GOLD_SIS/riga/INPUT/sgs_h2.nc sgs_h2.nc
+ncks -d grid_y_T,160,173 -d grid_x_T,286,308 .datasets/GOLD_SIS/riga/INPUT/geothermal_heating_cm2g.nc geothermal_heating_cm2g.nc
+ncks -d LAT,160,173 -d LON,286,308 .datasets/GOLD_SIS/riga/INPUT/seawifs_1998-2006_GOLD_smoothed_2X.nc seawifs_1998-2006_GOLD_smoothed_2X.nc
+ncks -d GRID_Y_T,160,173 -d GRID_X_T,286,308 .datasets/GOLD_SIS/riga/INPUT/gustiness_qscat.nc gustiness_qscat.nc
+ncks -d grid_y_T,160,173 -d grid_x_T,286,308 .datasets/GOLD_SIS/riga/INPUT/salt_restore.nc salt_restore.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/OM3_zgrid.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/OM3_zgrid.nc
@@ -0,0 +1 @@
+.datasets/GOLD_SIS/riga/INPUT/OM3_zgrid.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/WOA05_pottemp_salt.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/WOA05_pottemp_salt.nc
@@ -0,0 +1 @@
+.datasets/obs/WOA05_pottemp_salt.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/analysis_vgrid_lev35.v1.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/analysis_vgrid_lev35.v1.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/atmos_hgrid.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/atmos_hgrid.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/atmos_mosaic.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/atmos_mosaic.nc
@@ -0,0 +1 @@
+.datasets/GOLD_SIS/riga/mosaic.unpacked/atmos_mosaic.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/atmos_mosaic_tile1Xland_mosaic_tile1.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/atmos_mosaic_tile1Xland_mosaic_tile1.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/atmos_mosaic_tile1Xocean_mosaic_tile1.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/atmos_mosaic_tile1Xocean_mosaic_tile1.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/cfc.bc.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/cfc.bc.nc
@@ -0,0 +1 @@
+.datasets/GOLD_SIS/riga/INPUT/cfc.bc.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/geothermal_heating_cm2g.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/geothermal_heating_cm2g.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/grid_spec.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/grid_spec.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/gustiness_qscat.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/gustiness_qscat.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/land_hgrid.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/land_hgrid.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/land_mask.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/land_mask.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/land_mosaic_tile1Xocean_mosaic_tile1.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/land_mosaic_tile1Xocean_mosaic_tile1.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/mosaic.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/mosaic.nc
@@ -0,0 +1 @@
+.datasets/GOLD_SIS/riga/mosaic.unpacked/mosaic.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/ncar_precip_clim.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/ncar_precip_clim.nc
@@ -0,0 +1 @@
+.datasets/GOLD_SIS/riga/INPUT/ncar_precip_clim.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/ncar_rad_clim.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/ncar_rad_clim.nc
@@ -0,0 +1 @@
+.datasets/GOLD_SIS/riga/INPUT/ncar_rad_clim.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/ocean_hgrid.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/ocean_hgrid.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/ocean_mask.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/ocean_mask.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/ocean_mosaic.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/ocean_mosaic.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/ocean_solo.res b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/ocean_solo.res
@@ -0,0 +1,3 @@
+     2        (Calendar: no_calendar=0, thirty_day_months=1, julian=2, gregorian=3, noleap=4)
+     1     1     1     0     0     0        Model start time:   year, month, day, hour, minute, second
+     1     1     6     0     0     0        Current model time: year, month, day, hour, minute, second
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/ocean_vgrid.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/ocean_vgrid.nc
@@ -0,0 +1 @@
+.datasets/GOLD_SIS/riga/mosaic.unpacked/ocean_vgrid.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/q_10_mod.clim.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/q_10_mod.clim.nc
@@ -0,0 +1 @@
+.datasets/GOLD_SIS/riga/INPUT/q_10_mod.clim.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/runoff.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/runoff.nc
@@ -0,0 +1 @@
+.datasets/GOLD_SIS/riga/INPUT/runoff.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/salt_restore.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/salt_restore.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/seawifs_1998-2006_GOLD_smoothed_2X.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/seawifs_1998-2006_GOLD_smoothed_2X.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/sgs_h2.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/sgs_h2.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/slp.clim.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/slp.clim.nc
@@ -0,0 +1 @@
+.datasets/GOLD_SIS/riga/INPUT/slp.clim.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/sst_ice_clim.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/sst_ice_clim.nc
@@ -0,0 +1 @@
+.datasets/GOLD_SIS/riga/INPUT/sst_ice_clim.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/t_10_mod.clim.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/t_10_mod.clim.nc
@@ -0,0 +1 @@
+.datasets/GOLD_SIS/riga/INPUT/t_10_mod.clim.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/tideamp.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/tideamp.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/tke_tidal_cm2p2.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/tke_tidal_cm2p2.nc
@@ -0,0 +1 @@
+.datasets/GOLD_SIS/riga/INPUT/tke_tidal_cm2p2.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/topog.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/topog.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/u_10_mod.clim.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/u_10_mod.clim.nc
@@ -0,0 +1 @@
+.datasets/GOLD_SIS/riga/INPUT/u_10_mod.clim.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/v_10_mod.clim.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/v_10_mod.clim.nc
@@ -0,0 +1 @@
+.datasets/GOLD_SIS/riga/INPUT/v_10_mod.clim.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/vgrid.nc b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/INPUT/vgrid.nc
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/MOM_input b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/MOM_input
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/MOM_override b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/MOM_override
@@ -0,0 +1,25 @@
+! Blank file in which we can put "overrides" for parameters
+NK = 50
+#override USE_REGRIDDING = True
+#override BULKMIXEDLAYER = False
+#override COORD_FILE = "Layer_coord50.nc"
+#override DIABATIC_FIRST = False
+#override REGRID_TIME_SCALE = 0.0
+USE_STORED_SLOPES = True
+USE_NEUTRAL_DIFFUSION = True
+SIMPLE_TKE_TO_KD = True
+REGRIDDING_COORDINATE_MODE = "Z*"
+ALE_COORDINATE_CONFIG = "FILE:vgrid.nc,dz"
+HMIX_FIXED = 0.5
+CFL_TRUNCATE_RAMP_TIME = 7200.
+Z_INIT_ALE_REMAPPING = True
+ENERGETICS_SFC_PBL = True
+
+
+USE_ADVECTION_TEST_TRACER = True
+ADVECTION_TEST_X_ORIGIN = 19.5
+ADVECTION_TEST_Y_ORIGIN = 60.5
+ADVECTION_TEST_X_WIDTH = 1.0
+ADVECTION_TEST_Y_WIDTH = 1.0
+
+
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/MOM_override_offline b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/MOM_override_offline
@@ -0,0 +1,33 @@
+! Blank file in which we can put "overrides" for parameters
+NK = 50
+#override USE_REGRIDDING = True
+#override BULKMIXEDLAYER = False
+#override COORD_FILE = "Layer_coord50.nc"
+#override DIABATIC_FIRST = False
+#override REGRID_TIME_SCALE = 0.0
+
+USE_STORED_SLOPES = True
+USE_NEUTRAL_DIFFUSION = True
+SIMPLE_TKE_TO_KD = True
+REGRIDDING_COORDINATE_MODE = "Z*"
+ALE_COORDINATE_CONFIG = "FILE:vgrid.nc,dz"
+HMIX_FIXED = 0.5
+CFL_TRUNCATE_RAMP_TIME = 7200.
+Z_INIT_ALE_REMAPPING = True
+ENERGETICS_SFC_PBL = True
+
+USE_ADVECTION_TEST_TRACER = True
+ADVECTION_TEST_X_ORIGIN = 19.5
+ADVECTION_TEST_Y_ORIGIN = 60.5
+ADVECTION_TEST_X_WIDTH = 1.0
+ADVECTION_TEST_Y_WIDTH = 1.0
+
+! Related to offline tracer transport
+OFFLINE_TRACER_MODE = True
+OFFLINEDIR = "ONLINE/"
+OFF_SUM_FILE = "00010101.off_sum_1day.nc"
+OFF_SNAP_FILE = "00010101.off_snap_1day.nc"
+START_INDEX = 1
+DT_OFFLINE = 86400
+NUM_OFF_ITER = 30
+NUMTIME = 5
diff --git a/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/MOM_override_online b/ice_ocean_SIS2/Baltic_ALE_z_offline_tracers/MOM_override_online
@@ -0,0 +1,25 @@
+! Blank file in which we can put "overrides" for parameters
+NK = 50
+#override USE_REGRIDDING = True
+#override BULKMIXEDLAYER = False
+#override COORD_FILE = "Layer_coord50.nc"
+#override DIABATIC_FIRST = False
+#override REGRID_TIME_SCALE = 0.0
+USE_STORED_SLOPES = True
+USE_NEUTRAL_DIFFUSION = True
+SIMPLE_TKE_TO_KD = True
+REGRIDDING_COORDINATE_MODE = "Z*"
+ALE_COORDINATE_CONFIG = "FILE:vgrid.nc,dz"
+HMIX_FIXED = 0.5
+CFL_TRUNCATE_RAMP_TIME = 7200.
+Z_INIT_ALE_REMAPPING = True
+ENERGETICS_SFC_PBL = True
+
+
+USE_ADVECTION_TEST_TRACER = True
+ADVECTION_TEST_X_ORIGIN = 19.5
+ADVECTION_TEST_Y_ORIGIN = 60.5
+ADVECTION_TEST_X_WIDTH = 1.0
+ADVECTION_TEST_Y_WIDTH = 1.0
+
+
Original file line number	Diff line number	Diff line change
		@@ -0,0 +1 @@
		.datasets/GOLD_SIS/riga/INPUT/GOLD_IC.2010.11.15.nc
Original file line number	Diff line number	Diff line change
		@@ -0,0 +1 @@
		.datasets/GOLD_SIS/riga/mosaic.unpacked/atmos_mosaic.nc
Original file line number	Diff line number	Diff line change
		@@ -0,0 +1 @@
		.datasets/GOLD_SIS/riga/INPUT/ncar_precip_clim.nc
Original file line number	Diff line number	Diff line change
		@@ -0,0 +1 @@
		.datasets/GOLD_SIS/riga/INPUT/tke_tidal_cm2p2.nc