from pyarts.workspace import Workspace
from pyarts.classes.EnergyLevelMap import EnergyLevelMap
from pyarts.classes import from_workspace
# Get a workspace
ws = Workspace()
datapath = "../"
elm1 = EnergyLevelMap()
elm1.readxml(datapath +
"controlfiles/artscomponents/nlte/testdata/nlte_testdata.xml")
ws.ReadXML(
ws.nlte_field,
datapath + "controlfiles/artscomponents/nlte/testdata/nlte_testdata.xml")
elm2 = from_workspace(ws.nlte_field)
assert elm1, "Bad read"
assert elm1 == elm2, "Bad read"
assert elm1.data
elm3 = EnergyLevelMap()
elm3.set(elm1)
assert elm3 == elm2
elm4 = EnergyLevelMap()
elm1.savexml("tmp.elm.xml", "binary")
elm4.readxml("tmp.elm.xml")
assert elm4 == elm1
class _ARTS:
def __init__(self,
ws=None,
threads=None,
nstreams=4,
scale_vmr=True,
verbosity=0):
"""Initialize a wrapper for an ARTS workspace.
Parameters:
ws (pyarts.workspace.Workspace): An ARTS workspace.
threads (int): Number of threads to use.
Default is all available threads.
nstreams (int): Number of viewing angles to base the radiative
flux calculation on.
scale_vmr (bool): Control whether dry volume mixing ratios are
scaled with the water-vapor concentration (default is `False.`)
verbosity (int): Control the ARTS verbosity from 0 (quiet) to 2.
"""
from pyarts.workspace import Workspace, arts_agenda
self.nstreams = nstreams
self.scale_vmr = scale_vmr
if ws is None:
self.ws = Workspace(verbosity=verbosity)
self.ws.execute_controlfile("general/general.arts")
self.ws.execute_controlfile("general/continua.arts")
self.ws.execute_controlfile("general/agendas.arts")
self.ws.execute_controlfile("general/planet_earth.arts")
# Agenda settings
self.ws.Copy(self.ws.abs_xsec_agenda, self.ws.abs_xsec_agenda__noCIA)
self.ws.Copy(self.ws.iy_main_agenda, self.ws.iy_main_agenda__Emission)
self.ws.Copy(self.ws.iy_space_agenda,
self.ws.iy_space_agenda__CosmicBackground)
self.ws.Copy(self.ws.iy_surface_agenda,
self.ws.iy_surface_agenda__UseSurfaceRtprop)
self.ws.Copy(
self.ws.propmat_clearsky_agenda,
self.ws.propmat_clearsky_agenda__LookUpTable,
)
self.ws.Copy(self.ws.ppath_agenda,
self.ws.ppath_agenda__FollowSensorLosPath)
self.ws.Copy(self.ws.ppath_step_agenda,
self.ws.ppath_step_agenda__GeometricPath)
@arts_agenda
def p_eq_agenda(workspace):
workspace.water_p_eq_fieldMK05()
self.ws.Copy(self.ws.water_p_eq_agenda, p_eq_agenda)
@arts_agenda
def cloudbox_agenda(workspace):
workspace.iyInterpCloudboxField()
self.ws.Copy(self.ws.iy_cloudbox_agenda, cloudbox_agenda)
# Number of Stokes components to be computed
self.ws.IndexSet(self.ws.stokes_dim, 1)
self.ws.jacobianOff() # No jacobian calculation
self.ws.cloudboxOff() # Clearsky = No scattering
# Set Absorption Species
self.ws.abs_speciesSet(species=[
"O2, O2-CIAfunCKDMT100",
"H2O, H2O-SelfContCKDMT252, H2O-ForeignContCKDMT252",
"O3",
"CO2, CO2-CKDMT252",
"N2, N2-CIAfunCKDMT252, N2-CIArotCKDMT252",
"N2O",
"CH4",
"CO",
])
# Surface handling
self.ws.VectorSetConstant(self.ws.surface_scalar_reflectivity, 1, 0.0)
self.ws.Copy(
self.ws.surface_rtprop_agenda,
self.ws.
surface_rtprop_agenda__Specular_NoPol_ReflFix_SurfTFromt_surface,
)
# Read lookup table
abs_lookup = os.getenv("KONRAD_LOOKUP_TABLE",
join(dirname(__file__), "data/abs_lookup.xml"))
if not isfile(abs_lookup):
raise FileNotFoundError(
"Could not find ARTS absorption lookup table.\n"
"To perform ARTS calculations you have to download the lookup "
"table at:\n\n https://doi.org/10.5281/zenodo.3885410\n\n"
"Afterwards, use the following environment variable to tell "
"konrad where to find it:\n\n"
" $ export KONRAD_LOOKUP_TABLE='/path/to/abs_lookup.xml'")
self.ws.ReadXML(self.ws.abs_lookup, abs_lookup)
self.ws.f_gridFromGasAbsLookup()
self.ws.abs_lookupAdapt()
# Sensor settings
self.ws.sensorOff() # No sensor properties
# Atmosphere
self.ws.AtmosphereSet1D()
# Set number of OMP threads
if threads is not None:
self.ws.SetNumberOfThreads(threads)
def calc_lookup_table(self, filename=None, fnum=2**15, wavenumber=None):
"""Calculate an absorption lookup table.
The lookup table is constructed to cover surface temperatures
between 200 and 400 K, and water vapor mixing ratio up to 40%.
The frequency grid covers the whole outgoing longwave spectrum
from 10 to 3,250 cm^-1.
References:
An absorption lookup table can be found at
https://doi.org/10.5281/zenodo.3885410
Parameters:
filename (str): (Optional) path to an ARTS XML file
to store the lookup table.
fnum (int): Number of frequencies in frequency grid.
Ignored if `wavenumber` is set.
wavenumber (ndarray): Wavenumber grid [m-1].
"""
# Create a frequency grid
if wavenumber is None:
wavenumber = np.linspace(10e2, 3_250e2, fnum)
self.ws.f_grid = ty.physics.wavenumber2frequency(wavenumber)
# Read line catagloge and create absorption lines.
self.ws.ReadSplitARTSCAT(
abs_lines=self.ws.abs_lines,
abs_species=self.ws.abs_species,
basename="hitran_split_artscat5/",
fmin=0.0,
fmax=1e99,
globalquantumnumbers="",
localquantumnumbers="",
ignore_missing=0,
)
# Set line shape and cut off.
self.ws.abs_linesSetLineShapeType(self.ws.abs_lines, "VP")
self.ws.abs_linesSetNormalization(self.ws.abs_lines, "VVH")
self.ws.abs_linesSetCutoff(self.ws.abs_lines, "ByLine", 750e9)
self.ws.abs_lines_per_speciesCreateFromLines()
self.ws.abs_lines_per_speciesCompact()
# Create a standard atmosphere
p_grid = get_quadratic_pgrid(1_200e2, 0.5, 80)
atmosphere = Atmosphere(p_grid)
atmosphere["T"][
-1, :] = 300.0 + 5.0 * np.log(atmosphere["plev"] / 1000e2)
atmosphere.tracegases_rcemip()
atmosphere["O2"][:] = 0.2095
atmosphere["CO2"][:] = 1.5 * 348e-6
h2o = 0.01 * (p_grid / 1000e2)**0.2
atmosphere["H2O"][:] = h2o[:-1]
# Convert the konrad atmosphere into an ARTS atm_fields_compact.
atm_fields_compact = atmosphere.to_atm_fields_compact()
self.ws.atm_fields_compact = atm_fields_compact
self.ws.atm_fields_compactAddConstant(
atm_fields_compact=self.ws.atm_fields_compact,
name="abs_species-N2",
value=0.7808,
condensibles=["abs_species-H2O"],
)
# Setup the lookup table calculation
self.ws.AtmFieldsAndParticleBulkPropFieldFromCompact()
self.ws.vmr_field.value = self.ws.vmr_field.value.clip(min=0.0)
self.ws.atmfields_checkedCalc()
self.ws.abs_lookupSetup(p_step=1.0) # Do not refine p_grid
self.ws.abs_t_pert = np.arange(-160, 61, 20)
nls_idx = [
i for i, tag in enumerate(self.ws.abs_species.value)
if "H2O" in tag[0]
]
self.ws.abs_speciesSet(
abs_species=self.ws.abs_nls,
species=[", ".join(self.ws.abs_species.value[nls_idx[0]])],
)
self.ws.abs_nls_pert = np.array(
[10**x for x in [-9, -7, -5, -3, -1, 0, 0.5, 1, 1.5, 2]])
# Run checks
self.ws.abs_xsec_agenda_checkedCalc()
self.ws.lbl_checkedCalc()
# Calculate actual lookup table.
self.ws.abs_lookupCalc()
if filename is not None:
self.ws.WriteXML("binary", self.ws.abs_lookup, filename)
def set_atmospheric_state(self, atmosphere, t_surface):
"""Set and check the atmospheric fields."""
import pyarts
atm_fields_compact = atmosphere.to_atm_fields_compact()
# Scale dry-air VMRs with H2O and CO2 content.
if self.scale_vmr:
variable_vmrs = (atm_fields_compact.get("abs_species-H2O")[0] +
atm_fields_compact.get("abs_species-CO2")[0])
else:
t3_shape = atm_fields_compact.get("abs_species-H2O")[0].shape
variable_vmrs = np.zeros(t3_shape)
for species in atm_fields_compact.grids[0]:
if (species.startswith("abs_species-") and "H2O" not in species
and "CO2" not in species):
atm_fields_compact.scale(species, 1 - variable_vmrs)
# Compute the N2 VMR as a residual of the full atmosphere composition.
n2 = pyarts.types.GriddedField3(
grids=atm_fields_compact.grids[1:],
data=0.7808 * (1 - variable_vmrs),
)
self.ws.atm_fields_compact = atm_fields_compact
self.ws.atm_fields_compactAddSpecies(
atm_fields_compact=self.ws.atm_fields_compact,
name="abs_species-N2",
value=n2,
)
self.ws.AtmFieldsAndParticleBulkPropFieldFromCompact()
self.ws.vmr_field = self.ws.vmr_field.value.clip(min=0)
# Surface & TOA
# Add pressure layers to the surface and top-of-the-atmosphere to
# ensure consistent atmosphere boundaries between ARTS and RRTMG.
self.ws.t_surface = np.array([[t_surface]])
self.ws.z_surface = np.array([[0.0]])
self.ws.z_field.value[0, 0, 0] = 0.0
# Perform configuration and atmosphere checks
self.ws.atmfields_checkedCalc()
self.ws.propmat_clearsky_agenda_checkedCalc()
self.ws.atmgeom_checkedCalc()
self.ws.cloudbox_checkedCalc()
def calc_spectral_irradiance_field(self, atmosphere, t_surface):
"""Calculate the spectral irradiance field."""
self.set_atmospheric_state(atmosphere, t_surface)
# get the zenith angle grid and the integrations weights
self.ws.AngularGridsSetFluxCalc(N_za_grid=self.nstreams,
N_aa_grid=1,
za_grid_type="double_gauss")
# calculate intensity field
self.ws.Tensor3Create("trans_field")
self.ws.spectral_radiance_fieldClearskyPlaneParallel(
trans_field=self.ws.trans_field,
use_parallel_za=0,
)
self.ws.spectral_irradiance_fieldFromSpectralRadianceField()
return (
self.ws.f_grid.value.copy(),
self.ws.p_grid.value.copy(),
self.ws.spectral_irradiance_field.value.copy(),
self.ws.trans_field.value[:, 1:, 0].copy().prod(axis=1),
)
def calc_optical_thickness(self, atmosphere, t_surface):
"""Calculate the spectral irradiance field."""
self.set_atmospheric_state(atmosphere, t_surface)
self.ws.propmat_clearsky_fieldCalc()
tau = np.trapz(
y=self.ws.propmat_clearsky_field.value[:, :, 0, 0, :, 0, 0],
x=self.ws.z_field.value[:, 0, 0],
axis=-1,
)
return self.ws.f_grid.value.copy(), tau
@staticmethod
def integrate_spectral_irradiance(frequency, irradiance):
"""Integrate the spectral irradiance field over the frequency.
Parameters:
frequency (ndarray): Frequency [Hz].
irradiance (ndarray): Spectral irradiance [W m^-2 / Hz].
Returns:
ndarray, ndarray: Downward flux, upward, flux [W m^-2]
"""
F = np.trapz(irradiance, frequency, axis=0)[:, 0, 0, :]
# Fluxes
lw_down = -F[:, 0]
lw_up = F[:, 1]
return lw_down, lw_up
def calc_spectral_olr(self, atmosphere, surface):
"""Calculate the outgoing longwave radiation as function of wavenumber.
Parameters:
atmosphere (konrad.atmosphere.Atmosphere): Atmosphere model.
surface (konrad.surface.Surface): Surface model.
Returns:
ndarray: Outgoing longwave radiation [W m^-2 / cm^-1]
"""
f, _, irradiance_field, _ = self.calc_spectral_irradiance_field(
atmosphere=atmosphere, t_surface=surface["temperature"][0])
return f, irradiance_field[:, -1, 0, 0, 1]
from pyarts.workspace import Workspace
from pyarts.classes.ScatteringMetaData import ScatteringMetaData
from pyarts.classes.SingleScatteringData import SingleScatteringData
from pyarts.classes import from_workspace
# Get a workspace
ws = Workspace()
datapath = "../../arts-xml-data/" if not os.getenv("ARTS_XML_DATA_DIR") else os.getenv("ARTS_XML_DATA_DIR")
fn1 = os.path.join(datapath, 'scattering/H2O_ice/MieSphere_R1.00000e+00um.meta.xml')
fn2 = os.path.join(datapath, 'scattering/H2O_ice/MieSphere_R1.00000e+00um.xml')
smd1 = ScatteringMetaData()
smd1.readxml(fn1)
smd2 = from_workspace(ws.scat_meta_single)
ws.ReadXML(ws.scat_meta_single, fn1)
smd3 = ScatteringMetaData()
smd3.set(smd2)
assert smd1 == smd2
assert smd1 == smd3
ssd1 = SingleScatteringData()
ssd1.readxml(fn2)
ssd2 = from_workspace(ws.scat_data_single)
ws.ReadXML(ws.scat_data_single, fn2)
ssd3 = SingleScatteringData()
ssd3.set(ssd2)
assert ssd1 == ssd2
assert ssd1 == ssd3
rq2.target.type = "Special"
rq2.target.subtype = "SurfaceString"
rq2.target.perturbation = 0.0
rq2.grids = ArrayOfVector([p, lat, lon])
rq2.target.string_key = "I am a string"
rq2.target.quantumidentity = qn
rq2.target.specieslist = aost
arq.append(rq2)
rq2.target.type = "Line"
rq2.target.subtype = "VMR"
arq.append(rq2)
rq2.target.type = "Special"
rq2.target.subtype = "ArrayOfSpeciesTagVMR"
arq.append(rq2)
arq2 = ArrayOfRetrievalQuantity()
arq.savexml("tmp.arq.xml", "ascii")
arq2.readxml("tmp.arq.xml")
try:
assert arq == arq2
except:
ws.ReadXML(ws.jacobian_quantities, "tmp.arq.xml")
assert arq == arq2
Warning("We had a failure that should not be!!!")
import os
from pyarts.workspace import Workspace
from pyarts.classes.SpeciesAuxData import SpeciesAuxData
from pyarts.classes import from_workspace
# Get a workspace
ws = Workspace()
datapath = "../../arts-xml-data/" if not os.getenv(
"ARTS_XML_DATA_DIR") else os.getenv("ARTS_XML_DATA_DIR")
fn = os.path.join(datapath, 'planets/Mars/isotopratio_Mars.xml')
sad1 = SpeciesAuxData()
sad1.readxml(fn)
sad2 = from_workspace(ws.isotopologue_ratios)
ws.ReadXML(ws.isotopologue_ratios, fn)
sad3 = SpeciesAuxData()
sad3.set(sad2)
sad4 = SpeciesAuxData()
sad1.savexml("tmp.sad.xml", "binary")
sad4.readxml("tmp.sad.xml")
assert sad1 == sad4
assert sad1 == sad2
assert sad1 == sad3
from pyarts.workspace import Workspace
from pyarts.classes.CIARecord import CIARecord, ArrayOfCIARecord
from pyarts.classes import from_workspace
# Get a workspace
ws = Workspace()
datapath = "../../arts-xml-data/" if not os.getenv(
"ARTS_XML_DATA_DIR") else os.getenv("ARTS_XML_DATA_DIR")
fn = os.path.join(datapath,
"spectroscopy/cia/borysow/Borysow_CIA_JUICE_SWI.xml")
acr1 = ArrayOfCIARecord()
assert not acr1, "Bad init"
acr1.readxml(fn)
ws.ReadXML(ws.abs_cia_data, fn)
acr2 = from_workspace(ws.abs_cia_data)
assert acr1, "Bad read"
assert acr1 == acr2, "Bad read"
assert isinstance(acr1[0], CIARecord), "Bad type"
acr3 = ArrayOfCIARecord()
acr3.set(acr1)
assert acr1 == acr3, "Bad read"
acr1.savexml("tmp.acr.xml", "binary")
acr3 = ArrayOfCIARecord()
acr3.readxml("tmp.acr.xml")
assert acr3 == acr1
