Declarations required for the calculation of absorption coefficients. More...

#include <cmath>
#include <stdexcept>
#include "abs_species_tags.h"
#include "array.h"
#include "energylevelmap.h"
#include "gridded_fields.h"
#include "jacobian.h"
#include "matpackI.h"
#include "messages.h"
#include "mystring.h"
#include "absorptionlines.h"

Classes
class	IsotopologueRecord
	Contains the lookup data for one isotopologue. More...

class	SpeciesRecord
	Contains the lookup data for one species. More...

class	SpeciesAuxData
	Auxiliary data for isotopologues. More...

class	SpecIsoMap

Functions
void	checkIsotopologueRatios (const ArrayOfArrayOfSpeciesTag &abs_species, const SpeciesAuxData &isoratios)
	Check that isotopologue ratios for the given species are correctly defined. More...

void	checkPartitionFunctions (const ArrayOfArrayOfSpeciesTag &abs_species, const SpeciesAuxData &partfun)
	Check that partition functions for the given species are correctly defined. More...

void	fillSpeciesAuxDataWithIsotopologueRatiosFromSpeciesData (SpeciesAuxData &sad)
	Fill SpeciesAuxData with default isotopologue ratios from species data. More...

void	fillSpeciesAuxDataWithPartitionFunctionsFromSpeciesData (SpeciesAuxData &sad)
	Fill SpeciesAuxData with default partition functions from species data. More...

ostream &	operator<< (ostream &os, const SpeciesRecord &sr)
	Output operator for SpeciesRecord. More...

ostream &	operator<< (ostream &os, const SpeciesAuxData &sad)
	Output operator for SpeciesAuxData. More...

Numeric	wavenumber_to_joule (Numeric e)
	A little helper function to convert energy from units of wavenumber (cm^-1) to Joule (J). More...

Index	species_index_from_species_name (String name)
	Return species index for given species name. More...

String	species_name_from_species_index (const Index spec_ind)
	Return species name for given species index. More...

void	set_vmr_from_first_species (Vector &vmr, const String &species_name, const ArrayOfArrayOfSpeciesTag &abs_species, const Matrix &abs_vmrs)
	set_abs_from_first_species. More...

void	xsec_species (Matrix &xsec, Matrix &source, Matrix &phase, ArrayOfMatrix &dxsec_dx, ArrayOfMatrix &dsource_dx, ArrayOfMatrix &dphase_dx, const ArrayOfRetrievalQuantity &jacobian_quantities, const ArrayOfIndex &jacobian_propmat_positions, const Vector &f_grid, const Vector &abs_p, const Vector &abs_t, const EnergyLevelMap &abs_nlte, const Matrix &abs_vmrs, const ArrayOfArrayOfSpeciesTag &abs_species, const AbsorptionLines &band, const Numeric &isot_ratio, const SpeciesAuxData::AuxType &partfun_type, const ArrayOfGriddedField1 &partfun_data)
	Cross-section algorithm. More...

const SpeciesRecord &	SpeciesDataOfBand (const AbsorptionLines &band)
	Returns the species data. More...

Detailed Description

Declarations required for the calculation of absorption coefficients.

This is the file from arts-1-0, back-ported to arts-1-1.

Author: Stefan Buehler, Axel von Engeln

Definition in file absorption.h.

Function Documentation

◆ checkIsotopologueRatios()

void checkIsotopologueRatios	(	const ArrayOfArrayOfSpeciesTag &	abs_species,
		const SpeciesAuxData &	isoratios
	)

Check that isotopologue ratios for the given species are correctly defined.

Definition at line 301 of file absorption.cc.

References ARTS::Var::abs_species(), SpeciesAuxData::getParam(), iso(), SpeciesRecord::Isotopologue(), SpeciesRecord::Name(), Array< base >::nelem(), Absorption::nelem(), SpeciesAuxData::nisotopologues(), SpeciesAuxData::nspecies(), and global_data::species_data.

Referenced by lbl_checkedCalc().

◆ checkPartitionFunctions()

void checkPartitionFunctions	(	const ArrayOfArrayOfSpeciesTag &	abs_species,
		const SpeciesAuxData &	partfun
	)

Check that partition functions for the given species are correctly defined.

Definition at line 356 of file absorption.cc.

References ARTS::Var::abs_species(), SpeciesRecord::Isotopologue(), SpeciesRecord::Name(), Array< base >::nelem(), SpeciesAuxData::nisotopologues(), SpeciesAuxData::nspecies(), and global_data::species_data.

Referenced by lbl_checkedCalc().

◆ fillSpeciesAuxDataWithIsotopologueRatiosFromSpeciesData()

void fillSpeciesAuxDataWithIsotopologueRatiosFromSpeciesData ( SpeciesAuxData & sad )

Fill SpeciesAuxData with default isotopologue ratios from species data.

Definition at line 394 of file absorption.cc.

References SpeciesAuxData::AT_ISOTOPOLOGUE_RATIO, SpeciesAuxData::InitFromSpeciesData(), Absorption::nelem(), SpeciesAuxData::setParam(), and global_data::species_data.

Referenced by isotopologue_ratiosInitFromBuiltin().

◆ fillSpeciesAuxDataWithPartitionFunctionsFromSpeciesData()

void fillSpeciesAuxDataWithPartitionFunctionsFromSpeciesData ( SpeciesAuxData & sad )

Fill SpeciesAuxData with default partition functions from species data.

Definition at line 417 of file absorption.cc.

References SpeciesAuxData::AT_PARTITIONFUNCTION_COEFF, SpeciesAuxData::InitFromSpeciesData(), ConstVectorView::nelem(), Absorption::nelem(), nlinspace(), SpeciesAuxData::setParam(), and global_data::species_data.

Referenced by partition_functionsInitFromBuiltin().

◆ operator<<() [1/2]

ostream& operator<<	(	ostream &	os,
		const SpeciesAuxData &	sad
	)

Output operator for SpeciesAuxData.

Author: Oliver Lemke

Definition at line 474 of file absorption.cc.

References SpeciesAuxData::getParam(), SpeciesAuxData::getTypeString(), iso(), Absorption::nelem(), SpeciesAuxData::nisotopologues(), SpeciesAuxData::nspecies(), global_data::species_data, and species_name_from_species_index().

◆ operator<<() [2/2]

ostream& operator<<	(	ostream &	os,
		const SpeciesRecord &	sr
	)

Output operator for SpeciesRecord.

Incomplete version: only writes SpeciesName.

Author: Jana Mendrok

Definition at line 467 of file absorption.cc.

References SpeciesRecord::Isotopologue(), SpeciesRecord::Name(), and Absorption::nelem().

◆ set_vmr_from_first_species()

void set_vmr_from_first_species	(	Vector &	vmr,
		const String &	species_name,
		const ArrayOfArrayOfSpeciesTag &	abs_species,
		const Matrix &	abs_vmrs
	)

set_abs_from_first_species.

Returns vmr for the profile of the first tag group containing the given species.

Author: Oliver Lemke

Parameters

[out]	vmr	Volume mixing ratio
[in]	species_name	Species Name
[in]	abs_species	WS Input
[in]	abs_vmrs	WS Input

Definition at line 597 of file absorption.cc.

References ARTS::Var::abs_species(), ARTS::Var::abs_vmrs(), find_first_species_tg(), joker, Vector::resize(), and species_index_from_species_name().

Referenced by abs_xsec_per_speciesAddConts().

◆ species_index_from_species_name()

Index species_index_from_species_name ( String name )

Return species index for given species name.

This is useful in connection with other functions that need a species index.

See also: find_first_species_tg.

Parameters

[in] name Species name.

Returns: Species index, -1 means not found.

Author: Stefan Buehler

Date: 2003-01-13

Definition at line 531 of file absorption.cc.

References global_data::SpeciesMap, and my_basic_string< charT >::trim().

Referenced by abs_lookupSetup(), abs_lookupSetupBatch(), abs_lookupTestAccMC(), abs_lookupTestAccuracy(), choose_abs_nls(), GasAbsLookup::Extract(), find_nonlinear_continua(), get_lande_spin_constant(), SpeciesTag::IsIsotopologue(), SpeciesTag::IsSpecies(), parse_a1_sym_hitran(), parse_a1_x_hitran(), postprocess_group1_hitran(), postprocess_group5_hitran(), postprocess_group6_hitran(), postprocess_group6oh_hitran(), refr_index_airMicrowavesEarth(), set_vmr_from_first_species(), QuantumParserHITRAN2004::SetClassGroup(), CIARecord::SetMoleculeName(), SpeciesTag::SpeciesTag(), xml_read_from_stream(), and z_fieldFromHSE().

◆ species_name_from_species_index()

String species_name_from_species_index ( const Index spec_ind )

Return species name for given species index.

This is useful in connection with other functions that use a species index.

Does an assertion that the index really corresponds to a species.

Parameters

[in] spec_ind Species index.

Returns: Species name

Author: Stefan Buehler

Date: 2013-01-04

Definition at line 569 of file absorption.cc.

References SpeciesRecord::Name(), and global_data::species_data.

Referenced by abs_cia_dataReadFromCIA(), abs_cia_dataReadFromXML(), get_species_name(), CIARecord::MoleculeName(), SpeciesTag::Name(), operator<<(), XsecRecord::SpeciesName(), QuantumIdentifier::SpeciesName(), and SpeciesTag::SpeciesNameMain().

◆ SpeciesDataOfBand()

const SpeciesRecord& SpeciesDataOfBand ( const AbsorptionLines & band )

Returns the species data.

Parameters

band	An absorption band

Returns: const ref to the species record

Definition at line 611 of file absorption.cc.

References Absorption::Lines::Species(), and global_data::species_data.

Referenced by abs_lines_per_speciesCreateFromLines().

◆ wavenumber_to_joule()

Numeric wavenumber_to_joule ( Numeric e )

A little helper function to convert energy from units of wavenumber (cm^-1) to Joule (J).

This is used when reading HITRAN or JPL catalogue files, which have the lower state energy in cm^-1.

Returns: Energy in J.

Parameters

[in] e Energy in cm^-1.

Author: Stefan Buehler

Date: 2001-06-26

Definition at line 500 of file absorption.cc.

◆ xsec_species()

void xsec_species	(	Matrix &	xsec,
		Matrix &	source,
		Matrix &	phase,
		ArrayOfMatrix &	dxsec_dx,
		ArrayOfMatrix &	dsource_dx,
		ArrayOfMatrix &	dphase_dx,
		const ArrayOfRetrievalQuantity &	jacobian_quantities,
		const ArrayOfIndex &	jacobian_propmat_positions,
		const Vector &	f_grid,
		const Vector &	abs_p,
		const Vector &	abs_t,
		const EnergyLevelMap &	abs_nlte,
		const Matrix &	abs_vmrs,
		const ArrayOfArrayOfSpeciesTag &	abs_species,
		const AbsorptionLines &	band,
		const Numeric &	isot_ratio,
		const SpeciesAuxData::AuxType &	partfun_type,
		const ArrayOfGriddedField1 &	partfun_data
	)

Cross-section algorithm.

Parameters

[in,out]	xsec	Cross section of one tag group. This is now the true attenuation cross section in units of m^2.
[in,out]	sourceCross	section of one tag group. This is now the true source cross section in units of m^2.
[in,out]	phase	Cross section of one tag group. This is now the true phase cross section in units of m^2.
[in,out]	dxsec	Partial derivatives of xsec.
[in,out]	dsource	Partial derivatives of source.
[in,out]	dphase	Partial derivatives of phase.
[in]	jacobian_quantities	As WSV
[in]	jacobian_propmat_positions	Positions in jacobian_quantities affected by propmat calculations
[in]	f_grid	As WSV
[in]	abs_p	As WSV
[in]	abs_t	As WSV
[in]	abs_nlte	As WSV
[in]	abs_vmrs	As WSV
[in]	abs_species	As WSV
[in]	band	A single absorption band
[in]	isot_ratio	Isotopologue ratio of this species
[in]	partfun_type	Partition function type for this species
[in]	partfun_data	Partition function model data for this species

Author: Richard Larsson

Date: 2019-10-10

Definition at line 616 of file absorption.cc.

References ARTS::Var::abs_nlte(), ARTS::Var::abs_p(), ARTS::Var::abs_species(), ARTS::Var::abs_t(), ARTS::Var::abs_vmrs(), Absorption::Lines::BroadeningSpeciesVMR(), Linefunctions::dDopplerConstant_dT(), Linefunctions::InternalData::dF, Linefunctions::InternalData::dN, Linefunctions::DopplerConstant(), dsingle_partition_function_dT(), ConstMatrixView::empty(), Linefunctions::InternalData::F, ARTS::Var::f_grid(), ARTS::Var::jacobian_quantities(), joker, MapToEigen(), Linefunctions::InternalData::N, Array< base >::nelem(), ConstMatrixView::nrows(), Absorption::Lines::NumLines(), Linefunctions::set_cross_section_of_band(), single_partition_function(), Absorption::Lines::SpeciesMass(), Absorption::Lines::T0(), and temperature_perturbation().

Referenced by abs_xsec_per_speciesAddLines().

Classes

Functions

Detailed Description

Function Documentation

◆ checkIsotopologueRatios()

◆ checkPartitionFunctions()

◆ fillSpeciesAuxDataWithIsotopologueRatiosFromSpeciesData()

◆ fillSpeciesAuxDataWithPartitionFunctionsFromSpeciesData()

◆ operator<<() [1/2]

◆ operator<<() [2/2]

◆ set_vmr_from_first_species()

◆ species_index_from_species_name()

◆ species_name_from_species_index()

◆ SpeciesDataOfBand()

◆ wavenumber_to_joule()

◆ xsec_species()