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Call teh ATRAN webinterface for the computation of the atmospheric transmittance

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This commit is contained in:
Lukas Klass 2020-10-03 18:30:52 +02:00
parent d29ca5a774
commit 009a01597b
3 changed files with 236 additions and 56 deletions
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44
docs/source/configuration/optical_components.rst
View File

@ -12,6 +12,8 @@ Attributes:
Atmosphere
----------
This component models the behaviour of an atmosphere which has a spectral transmittance and a spectral emission.
It is possible to read the transmittance of the atmosphere from a CSV file, from an output file of ATRAN or call the webversion of ATRAN to compute the transmission profile.
The atmospheric emission can bei either read from a CSV file or computed as a grey body radiator of a given temperature and emissivity = 1 - transmission.
.. code-block:: xml
@ -21,18 +23,52 @@ This component models the behaviour of an atmosphere which has a spectral transm
<optical_component type="Atmosphere" transmittance="PathToATRANFile" temp="200" temp_unit="K"/>
.. code-block:: xml
<optical_component type="Atmosphere" altitude="41000" altitude_unit="ft" wl_min="16" wl_min_unit="um"
wl_max="24" wl_max_unit="um" latitude="39" latitude_unit="degree" water_vapor="0"
water_vapor_unit="um" n_layers="2" zenith_angle="0" zenith_angle_unit="degree" resolution="0"
temp="240" temp_unit="K"/>
Attributes:
* | **transmittance:** str
| The path to the file containing the spectral transmittance coefficients. For details on the required file structure see also :ref:`reading_csv`.
* | **atran:** str
| Path to a file containing the output of ATRAN. In this case, the parameter emission is not available. Instead the parameter temp is used for the atmospheric emission.
| Path to a file containing the output of ATRAN.
* | **altitude:** float
| The observatory altitude for the call to ATRAN.
* | **altitude_unit:** str, *optional* = "ft"
| The unit of the observatory altitude for the call to ATRAN.
* | **wl_min:** float
| The minimum wavelength for the call to ATRAN.
* | **wl_min_unit:** str, *optional* = "um"
| The unit of the minimum wavelength for the call to ATRAN.
* | **wl_max:** float
| The maximum wavelength for the call to ATRAN.
* | **wl_max_unit:** str, *optional* = "um"
| The unit of the maximum wavelength for the call to ATRAN.
* | **latitude:** float, *optional*
| The observatory latitude for the call to ATRAN.
* | **latitude_unit:** str, *optional* = "degree"
| The unit of the observatory latitude for the call to ATRAN.
* | **water_vapor:** float, *optional*
| The water vapor overburden for the call to ATRAN.
* | **water_vapor_unit:** str, *optional* = "um"
| The unit of the water vapor overburden for the call to ATRAN.
* | **n_layers:** float, *optional*
| The number of atmospheric layers for the call to ATRAN.
* | **zenith_angle:** float, *optional*
| The zenith angle for the call to ATRAN.
* | **zenith_angle_unit:** str, *optional* = "degree"
| The unit of the zenith angle for the call to ATRAN (0 is towards the zenith).
* | **resolution:** float, *optional*
| The resolution for smoothing for the call to ATRAN (0 for no smoothing).
* | **emission:** str, *optional*
| The path to the file containing the spectral radiance of the emission. For details on the required file structure see also :ref:`reading_csv`. This option is only available, if the parameter transmittance is given.
| The path to the file containing the spectral radiance of the emission. For details on the required file structure see also :ref:`reading_csv`.
* | **temp:** float, *optional*
| The atmospheric temperature used for black body emission (only available for an ATRAN input).
| The atmospheric temperature used for grey body emission.
* | **temp_unit:** str, *optional* = "K"
| Unit of the atmospheric temperature used for black body emission using the complement of the ATRAN tranmittance.
| Unit of the atmospheric temperature used for black body emission using the complement of the transmittance.
StrayLight
----------

245
esbo_etc/classes/optical_component/Atmosphere.py
View File

@ -7,6 +7,9 @@ import astropy.units as u
from astropy.io import ascii
from astropy.modeling.models import BlackBody
from typing import Union
import re
import requests as req
import numpy as np
class Atmosphere(AOpticalComponent):
@ -14,6 +17,9 @@ class Atmosphere(AOpticalComponent):
A class to model the atmosphere including the atmosphere's spectral transmittance and emission.
"""
# defining the ATRAN-endpoint
ATRAN = "https://atran.arc.nasa.gov"
def __init__(self, **kwargs):
"""
Initialize a new atmosphere model
@ -27,6 +33,22 @@ class Atmosphere(AOpticalComponent):
The format of the file will be guessed by `astropy.io.ascii.read()`.
atran : str
Path to the ATRAN output file containing the spectral transmittance-coefficients of the atmosphere.
altitude : u.Quantity
The observatory altitude in feet.
wl_min : u.Quantity
The minimal wavelength to consider in micrometer.
wl_max : u.Quantity
The maximal wavelength to consider in micrometer.
latitude : u.Quantity
The observatory's latitude in degrees.
water_vapor : u.Quantity
The water vapor overburden in microns (0 if unknown).
n_layers : int
The number of considered atmopsheric layers.
zenith_angle : u.Quantity
The zenith angle of the observation in degrees (0 is towards the zenith).
resolution : int
The resolution for smoothing (0 for no smoothing).
emission : str
Path to the file containing the spectral radiance of the atmosphere.
The format of the file will be guessed by `astropy.io.ascii.read()`.
@ -36,14 +58,28 @@ class Atmosphere(AOpticalComponent):
args = dict()
if "atran" in kwargs:
args = self._fromATRAN(**kwargs)
args = self._fromATRAN(**{x: kwargs[x] for x in kwargs.keys() if x not in ["emission", "temp"]})
elif "altitude" in kwargs:
logger.info("Requesting ATRAN transmission profile.")
data = self.__call_ATRAN(**{x: kwargs[x] for x in kwargs.keys() if x not in ["parent", "temp"]})
args = self._fromATRAN(parent=kwargs["parent"], atran=data)
elif "transmittance" in kwargs:
args = self._fromFiles(**kwargs)
args = self._fromFiles(**{x: kwargs[x] for x in kwargs.keys() if x not in ["emission", "temp"]})
else:
logger.error("Wrong parameters for class Atmosphere.")
if "temp" in kwargs:
# Create black body
bb = self.__gb_factory(kwargs["temp"])
# Calculate emission
args["emission"] = SpectralQty(args["transmittance"].wl, bb(args["transmittance"].wl)) * (
-1 * args["transmittance"] + 1)
elif "emission" in kwargs:
args["emission"] = SpectralQty.fromFile(kwargs["emission"], wl_unit_default=u.nm,
qty_unit_default=u.W / (u.m ** 2 * u.nm * u.sr))
super().__init__(parent=args["parent"], transreflectivity=args["transmittance"], noise=args["emission"])
def _fromFiles(self, parent: IRadiant, transmittance: str, emission: str = None):
def _fromFiles(self, parent: IRadiant, transmittance: str):
"""
Initialize a new atmosphere model from two files
@ -54,9 +90,6 @@ class Atmosphere(AOpticalComponent):
transmittance : str
Path to the file containing the spectral transmittance-coefficients of the atmosphere.
The format of the file will be guessed by `astropy.io.ascii.read()`.
emission : str
Path to the file containing the spectral radiance of the atmosphere.
The format of the file will be guessed by `astropy.io.ascii.read()`.
Returns
-------
@ -66,14 +99,9 @@ class Atmosphere(AOpticalComponent):
# Read the transmittance
transmittance = SpectralQty.fromFile(transmittance, wl_unit_default=u.nm,
qty_unit_default=u.dimensionless_unscaled)
if emission is None:
emission = 0
else:
emission = SpectralQty.fromFile(emission, wl_unit_default=u.nm,
qty_unit_default=u.W / (u.m ** 2 * u.nm * u.sr))
return {"parent": parent, "transmittance": transmittance, "emission": emission}
return {"parent": parent, "transmittance": transmittance}
def _fromATRAN(self, parent: IRadiant, atran: str, temp: u.Quantity = None):
def _fromATRAN(self, parent: IRadiant, atran: str):
"""
Initialize a new atmosphere model from an ATRAN output file
@ -83,8 +111,6 @@ class Atmosphere(AOpticalComponent):
The parent element of the atmosphere from which the electromagnetic radiation is received.
atran : str
Path to the ATRAN output file containing the spectral transmittance-coefficients of the atmosphere.
temp : u.Quantity
The atmospheric temperature for the atmosphere's black body radiation.
Returns
-------
@ -92,54 +118,109 @@ class Atmosphere(AOpticalComponent):
The arguments for the class instantiation.
"""
# Read the file
data = ascii.read(atran, format=None)
# Set units
data["col2"].unit = u.um
data["col3"].unit = u.dimensionless_unscaled
data = self.__parse_ATRAN(atran)
# Create spectral quantity
transmittance = SpectralQty(data["col2"].quantity, data["col3"].quantity)
return {"parent": parent, "transmittance": transmittance}
if temp is not None:
# Create black body
bb = self.__gb_factory(temp)
# Calculate emission
emission = SpectralQty(transmittance.wl, bb(transmittance.wl)) * transmittance
else:
emission = 0
return {"parent": parent, "transmittance": transmittance, "emission": emission}
@staticmethod
def check_config(conf: Entry) -> Union[None, str]:
@u.quantity_input(altitude="length", latitude="angle", water_vapor="length", zenith_angle="angle", wl_min="length",
wl_max="length")
def __call_ATRAN(self, altitude: u.Quantity, wl_min: u.Quantity, wl_max: u.Quantity,
latitude: u.Quantity = 39 * u.degree, water_vapor: u.Quantity = 0 * u.um, n_layers: int = 2,
zenith_angle: u.Quantity = 0 * u.degree, resolution: int = 0):
"""
Check the configuration for this class
Call the online version of ATRAN provided by SOFIA
Parameters
----------
conf : Entry
The configuration entry to be checked.
altitude : u.Quantity
The observatory altitude in feet.
wl_min : u.Quantity
The minimal wavelength to consider in micrometer.
wl_max : u.Quantity
The maximal wavelength to consider in micrometer.
latitude : u.Quantity
The observatory's latitude in degrees.
water_vapor : u.Quantity
The water vapor overburden in microns (0 if unknown).
n_layers : int
The number of considered atmopsheric layers.
zenith_angle : u.Quantity
The zenith angle of the observation in degrees (0 is towards the zenith).
resolution : int
The resolution for smoothing (0 for no smoothing).
Returns
-------
mes : Union[None, str]
The error message of the check. This will be None if the check was successful.
data : str
The ATRAN computation results
"""
if hasattr(conf, "transmittance"):
mes = conf.check_file("transmittance")
if mes is not None:
return mes
if hasattr(conf, "emission"):
mes = conf.check_file("emission")
if mes is not None:
return mes
else:
mes = conf.check_file("atran")
if mes is not None:
return mes
if hasattr(conf, "temp"):
mes = conf.check_quantity("temp", u.K)
if mes is not None:
return mes
# Select closest latitude from ATRAN options
latitude_ = min(np.array([9, 30, 39, 43, 59]) * u.degree, key=lambda x: abs(x - latitude.to(u.degree)))
# Select closest number of layers from ATRAN options
n_layers_ = min([2, 3, 4, 5], key=lambda x: abs(x - n_layers))
# Assemble the data payload
data = {'Altitude': altitude.to(u.imperial.ft).value,
'Obslat': '%d deg' % latitude_.value,
'WVapor': water_vapor.to(u.um).value,
'NLayers': n_layers_,
'ZenithAngle': zenith_angle.to(u.degree).value,
'WaveMin': wl_min.to(u.um).value,
'WaveMax': wl_max.to(u.um).value,
'Resolution': resolution}
# Send data to ATRAN via POST request
res = req.post(url=self.ATRAN + "/cgi-bin/atran/atran.cgi", data=data)
# Check if request was successful
if not res.ok:
logger.error("Error: Request returned status code " + str(res.status_code))
# Extract the content of the reply
content = res.text
# Check if any ATRAN error occured
match = re.search('<CENTER><H2>ERROR!!</H2></CENTER><CENTER>(.*)</CENTER>', content)
if match:
logger.error("Error: " + match.group(1))
# Extract link to ATRAN result file
match = re.search('href="(/atran_calc/atran.(?:plt|smo).\\d*.dat)"', content)
# Check if link was found
if not match:
logger.error("Error: Link to data file not found.")
# Request the ATRAN result via GET request
res = req.get(self.ATRAN + match.group(1))
# Check if request was successful
if not res.ok:
logger.error("Error: Request returned status code " + str(res.status_code))
# Extract the content of the reply
data = res.text
# Check if result is empty
if data == "":
logger.error("Error: Request returned empty response.")
return data
@staticmethod
def __parse_ATRAN(table: str):
"""
Parse an ATRAN result file and convert it to an astropy table
Parameters
----------
table : str
Path to the file or content of the file.
Returns
-------
data : astropy.Table
The parsed table object.
"""
# Read the file
data = ascii.read(table, format=None)
# Set units
data["col2"].unit = u.um
data["col3"].unit = u.dimensionless_unscaled
return data
@staticmethod
@u.quantity_input(temp=[u.Kelvin, u.Celsius])
@ -161,3 +242,65 @@ class Atmosphere(AOpticalComponent):
"""
bb = BlackBody(temperature=temp, scale=em * u.W / (u.m ** 2 * u.nm * u.sr))
return lambda wl: bb(wl)
@staticmethod
def check_config(conf: Entry) -> Union[None, str]:
"""
Check the configuration for this class
Parameters
----------
conf : Entry
The configuration entry to be checked.
Returns
-------
mes : Union[None, str]
The error message of the check. This will be None if the check was successful.
"""
if hasattr(conf, "transmittance"):
mes = conf.check_file("transmittance")
if mes is not None:
return mes
elif hasattr(conf, "atran"):
mes = conf.check_file("atran")
if mes is not None:
return mes
else:
mes = conf.check_quantity("altitude", u.imperial.ft)
if mes is not None:
return mes
mes = conf.check_quantity("wl_min", u.um)
if mes is not None:
return mes
mes = conf.check_quantity("wl_max", u.um)
if mes is not None:
return mes
if hasattr(conf, "latitude"):
mes = conf.check_quantity("latitude", u.degree)
if mes is not None:
return mes
if hasattr(conf, "water_vapor"):
mes = conf.check_quantity("water_vapor", u.um)
if mes is not None:
return mes
if hasattr(conf, "n_layers"):
mes = conf.check_float("n_layers")
if mes is not None:
return mes
if hasattr(conf, "zenith_angle"):
mes = conf.check_quantity("zenith_angle", u.degree)
if mes is not None:
return mes
if hasattr(conf, "resolution"):
mes = conf.check_float("resolution")
if mes is not None:
return mes
if hasattr(conf, "emission"):
mes = conf.check_file("emission")
if mes is not None:
return mes
elif hasattr(conf, "temp"):
mes = conf.check_quantity("temp", u.K)
if mes is not None:
return mes

3
requirements.txt
View File

@ -7,4 +7,5 @@ halo~=0.0.29
pyfiglet~=0.8.post1
Sphinx~=3.1.2
sphinx-rtd-theme~=0.5.0
sphinx-rtd-theme~=0.5.0
requests~=2.24.0