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Add polynomial functions for Arctic ICs
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@cbegeman
cbegeman committed Mar 13, 2023
1 parent f8af494 commit 7e9f59d
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163 changes: 118 additions & 45 deletions compass/ocean/tests/turbulence_closure/initial_state.py
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Original file line number Diff line number Diff line change
@@ -1,5 +1,6 @@
import xarray
import numpy
import xarray as xr
import numpy as np
import matplotlib.pyplot as plt

from compass.ocean.tests.turbulence_closure.boundary_values import add_boundary_arrays
from random import random, seed
Expand Down Expand Up @@ -57,13 +58,27 @@ def run(self):
y_nonperiodic = section.getboolean('y_nonperiodic')
disturbance_amplitude = section.getfloat('disturbance_amplitude')
surface_temperature = section.getfloat('surface_temperature')
interior_temperature_shape = section.get('interior_temperature_shape')
interior_salinity_shape = section.get('interior_salinity_shape')
surface_salinity = section.getfloat('surface_salinity')
mixed_layer_salinity_gradient = section.getfloat('mixed_layer_salinity_gradient')
mixed_layer_temperature_gradient = section.getfloat('mixed_layer_temperature_gradient')
mixed_layer_depth_salinity = section.getfloat('mixed_layer_depth_salinity')
mixed_layer_depth_temperature = section.getfloat('mixed_layer_depth_temperature')
interior_salinity_gradient = section.getfloat('interior_salinity_gradient')
interior_temperature_gradient = section.getfloat('interior_temperature_gradient')
interior_temperature_c0 = section.getfloat('interior_temperature_c0')
interior_temperature_c1 = section.getfloat('interior_temperature_c1')
interior_temperature_c2 = section.getfloat('interior_temperature_c2')
interior_temperature_c3 = section.getfloat('interior_temperature_c3')
interior_temperature_c4 = section.getfloat('interior_temperature_c4')
interior_temperature_c5 = section.getfloat('interior_temperature_c4')
interior_salinity_c0 = section.getfloat('interior_salinity_c0')
interior_salinity_c1 = section.getfloat('interior_salinity_c1')
interior_salinity_c2 = section.getfloat('interior_salinity_c2')
interior_salinity_c3 = section.getfloat('interior_salinity_c3')
interior_salinity_c4 = section.getfloat('interior_salinity_c4')
interior_salinity_c5 = section.getfloat('interior_salinity_c4')
surface_heat_flux = section.getfloat('surface_heat_flux')
surface_freshwater_flux = section.getfloat('surface_freshwater_flux')
wind_stress_zonal = section.getfloat('wind_stress_zonal')
Expand All @@ -86,64 +101,122 @@ def run(self):
xCell = ds.xCell
yCell = ds.yCell

ds['bottomDepth'] = bottom_depth * xarray.ones_like(xCell)
ds['ssh'] = xarray.zeros_like(xCell)
ds['bottomDepth'] = bottom_depth * xr.ones_like(xCell)
ds['ssh'] = xr.zeros_like(xCell)

init_vertical_coord(config, ds)

dsForcing['windStressZonal'] = wind_stress_zonal * xarray.ones_like(xCell)
dsForcing['windStressMeridional'] = wind_stress_meridional * xarray.ones_like(xCell)
dsForcing['sensibleHeatFlux'] = surface_heat_flux * xarray.ones_like(xCell)
dsForcing['rainFlux'] = surface_freshwater_flux * xarray.ones_like(xCell)
dsForcing['windStressZonal'] = wind_stress_zonal * xr.ones_like(xCell)
dsForcing['windStressMeridional'] = wind_stress_meridional * xr.ones_like(xCell)
dsForcing['sensibleHeatFlux'] = surface_heat_flux * xr.ones_like(xCell)
dsForcing['rainFlux'] = surface_freshwater_flux * xr.ones_like(xCell)

write_netcdf(dsForcing, 'init_mode_forcing_data.nc')

normalVelocity = xarray.zeros_like(ds.xEdge)
normalVelocity, _ = xarray.broadcast(normalVelocity, ds.refBottomDepth)
normalVelocity = xr.zeros_like(ds.xEdge)
normalVelocity, _ = xr.broadcast(normalVelocity, ds.refBottomDepth)
normalVelocity = normalVelocity.transpose('nEdges', 'nVertLevels')

temperature = xarray.zeros_like(ds.layerThickness)

salinity = xarray.zeros_like(ds.layerThickness)

surf_indices = numpy.where(ds.refZMid.values >= -mixed_layer_depth_temperature)[0]

if len(surf_indices) > 0:
temperature[0,:,surf_indices] = surface_temperature + mixed_layer_temperature_gradient* \
ds.zMid[0,:,surf_indices].values

int_indices = numpy.where(ds.refZMid.values < -mixed_layer_depth_temperature)[0]

if len(int_indices) > 0:
temperature[0,:,int_indices] = surface_temperature - mixed_layer_temperature_gradient* \
mixed_layer_depth_temperature + interior_temperature_gradient* \
(ds.zMid[0,:,int_indices] + \
mixed_layer_depth_temperature)

temperature[0,:,0] += disturbance_amplitude*2*(numpy.random.rand(len(ds.xCell.values)) - 0.5)

surf_indices = numpy.where(ds.refZMid.values >= -mixed_layer_depth_salinity)[0]
if len(surf_indices) > 0:
salinity[0,:,surf_indices] = surface_salinity - mixed_layer_salinity_gradient * \
ds.zMid[0,:,surf_indices]

int_indices = numpy.where(ds.refZMid.values < -mixed_layer_depth_salinity)[0]
if len(int_indices) > 0:
salinity[0,:,int_indices] = surface_salinity - mixed_layer_salinity_gradient* \
mixed_layer_depth_salinity + interior_salinity_gradient* \
(ds.zMid[0,:,int_indices] + \
mixed_layer_depth_salinity)
temperature = xr.zeros_like(ds.layerThickness)

salinity = xr.zeros_like(ds.layerThickness)

zMid = ds.refZMid.values

temperature_at_mld = (surface_temperature -
mixed_layer_temperature_gradient * mixed_layer_depth_temperature)
if interior_temperature_shape == 'linear':
initial_temperature = np.where(
zMid >= -mixed_layer_depth_temperature,
surface_temperature + mixed_layer_temperature_gradient * zMid,
temperature_at_mld + interior_temperature_gradient * zMid)
elif interior_temperature_shape == 'polynomial':
initial_temperature = np.where(
zMid >= -mixed_layer_depth_temperature,
surface_temperature + mixed_layer_temperature_gradient * zMid,
interior_temperature_c0 +
interior_temperature_c1 * zMid +
interior_temperature_c2 * zMid**2. +
interior_temperature_c3 * zMid**3. +
interior_temperature_c4 * zMid**4. +
interior_temperature_c5 * zMid**5.)
else:
print('interior_temperature_shape is not supported')

salinity_at_mld = (surface_salinity -
mixed_layer_salinity_gradient * mixed_layer_depth_salinity)
if interior_salinity_shape == 'linear':
initial_salinity = np.where(
zMid >= -mixed_layer_depth_salinity,
surface_salinity + mixed_layer_salinity_gradient * zMid,
salinity_at_mld + interior_salinity_gradient * zMid)
elif interior_salinity_shape == 'polynomial':
initial_salinity = np.where(
zMid >= -mixed_layer_depth_salinity,
surface_salinity + mixed_layer_salinity_gradient * zMid,
interior_salinity_c0 +
interior_salinity_c1 * zMid +
interior_salinity_c2 * zMid**2. +
interior_salinity_c3 * zMid**3. +
interior_salinity_c4 * zMid**4. +
interior_salinity_c5 * zMid**5.)
else:
print('interior_salinity_shape is not supported')
# surf_indices = np.where(ds.refZMid.values >= -mixed_layer_depth_temperature)[0]
#
# if len(surf_indices) > 0:
# temperature[0,:,surf_indices] = surface_temperature + mixed_layer_temperature_gradient* \
# ds.zMid[0,:,surf_indices].values
#
# int_indices = np.where(ds.refZMid.values < -mixed_layer_depth_temperature)[0]
#
# if len(int_indices) > 0:
# temperature[0,:,int_indices] = surface_temperature - mixed_layer_temperature_gradient* \
# mixed_layer_depth_temperature + interior_temperature_gradient* \
# (ds.zMid[0,:,int_indices] + \
# mixed_layer_depth_temperature)
#
# temperature[0,:,0] += disturbance_amplitude*2*(np.random.rand(len(ds.xCell.values)) - 0.5)
#
# surf_indices = np.where(ds.refZMid.values >= -mixed_layer_depth_salinity)[0]
# if len(surf_indices) > 0:
# salinity[0,:,surf_indices] = surface_salinity - mixed_layer_salinity_gradient * \
# ds.zMid[0,:,surf_indices]
#
# int_indices = np.where(ds.refZMid.values < -mixed_layer_depth_salinity)[0]
# if len(int_indices) > 0:
# salinity[0,:,int_indices] = surface_salinity - mixed_layer_salinity_gradient* \
# mixed_layer_depth_salinity + interior_salinity_gradient* \
# (ds.zMid[0,:,int_indices] + \
# mixed_layer_depth_salinity)

normalVelocity = normalVelocity.expand_dims(dim='Time', axis=0)

ds['normalVelocity'] = normalVelocity

temperature[0, :, :] = initial_temperature
salinity[0, :, :] = initial_salinity
ds['temperature'] = temperature
ds['salinity'] = salinity
ds['fCell'] = coriolis_parameter * xarray.ones_like(xCell)
ds['fEdge'] = coriolis_parameter * xarray.ones_like(ds.xEdge)
ds['fVertex'] = coriolis_parameter * xarray.ones_like(ds.xVertex)
ds['fCell'] = coriolis_parameter * xr.ones_like(xCell)
ds['fEdge'] = coriolis_parameter * xr.ones_like(ds.xEdge)
ds['fVertex'] = coriolis_parameter * xr.ones_like(ds.xVertex)

ds = add_boundary_arrays(ds, x_nonperiodic, y_nonperiodic)

write_netcdf(ds, 'ocean.nc')

plt.figure(dpi=100)
plt.plot(initial_temperature, zMid, 'k-')
plt.xlabel('PT (C)')
plt.ylabel('z (m)')
plt.savefig(f'pt_depth_t0h.png',
bbox_inches='tight', dpi=200)
plt.close()

plt.figure(dpi=100)
plt.plot(initial_salinity, zMid, 'k-')
plt.xlabel('SA (g/kg)')
plt.ylabel('z (m)')
plt.savefig(f'sa_depth_t0h.png',
bbox_inches='tight', dpi=200)
plt.close()
22 changes: 22 additions & 0 deletions compass/ocean/tests/turbulence_closure/turbulence_closure.cfg
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Original file line number Diff line number Diff line change
Expand Up @@ -40,12 +40,34 @@ mixed_layer_temperature_gradient = 0
# Salinity gradient in the mixed layer (PSU/m)
mixed_layer_salinity_gradient = 0

# Interior temperature shape, linear or polynomial
interior_temperature_shape = linear

# Temperature gradient in the interior (^oC/m)
interior_temperature_gradient = 0.1

# Temperature polynomial coefficients
interior_temperature_c0 = 271.65
interior_temperature_c1 = -0.42
interior_temperature_c2 = -8.0e-3
interior_temperature_c3 = -6.75e-5
interior_temperature_c4 = -2.66e-7
interior_temperature_c5 = -4.02e-10

# Interior salinity shape, linear or polynomial
interior_salinity_shape = linear

# Salinity gradient in the interior (PSU/m)
interior_salinity_gradient = 0

# Salinity polynomial coefficients
interior_salinity_c0 = 22.36
interior_salinity_c1 = -0.3
interior_salinity_c2 = -3.83e-3
interior_salinity_c3 = -2.54e-5
interior_salinity_c4 = -8.53e-8
interior_salinity_c5 = -1.18e-10

# Disturbance amplitude (added to initiate convection faster; ^oC)
disturbance_amplitude = 0.005

Expand Down

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