#include "transition.h"
#include "species.h"
#include "container_classes.h"

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Functions
void	database_readin (void)

void	dBaseTrim ()

void	dBaseUpdateCollCoeffs (void)

void	dBase_solve (void)

void	checkTransitionListOfLists (vector< TransitionList > &)

TransitionList::iterator	findTrans_byQuantNumb (const string speciesLabel, const long n_hi, const long l_hi, const long S_hi, const long n_lo, const long l_lo, const long S_lo)

TransitionList::iterator	findTrans_byWLAng (string speciesLabel, const double wl_Ang, double &wl_err)

Variables
bool	lgStatesAdded

bool	lgLinesAdded

qList	AnonStates

char **	chSpecies

vector< species >	dBaseSpecies

vector< qList >	dBaseStates

vector< multi_arr< int, 2 > >	ipdBaseTrans

vector< TransitionList >	dBaseTrans

multi_arr< CollRateCoeffArray, 2 >	AtmolCollRateCoeff

vector< multi_arr < CollSplinesArray, 3 > >	AtmolCollSplines

vector< StoutCollArray >	StoutCollData

long int	nSpecies

TransitionProxy::iterator	TauDummy

multi_arr< int, 3 >	ipExtraLymanLines

vector< vector< TransitionList > >	ExtraLymanLines

TransitionList	UTALines

long int	nLevel1

TransitionList	HFLines

vector< vector< TransitionList > >	Transitions

vector< TransitionList >	AllTransitions

multi_arr< int, 2 >	ipFe2LevN

TransitionList	Fe2LevN

multi_arr< int, 3 >	ipSatelliteLines

vector< vector< TransitionList > >	SatelliteLines

bool	lgHydroMalloc

const int	NI_NDP = 9

const int	NWINDDIM = 6744

long	nWindLine

TransitionList	TauLine2

realnum *	cs1_flag_lev2

Function Documentation

void checkTransitionListOfLists ( vector< TransitionList > & )

Definition at line 39 of file taulines.cpp.

Referenced by ContCreatePointers().

void database_readin ( void )

Definition at line 42 of file species.cpp.

References AllTransitions, AS_LOCAL_ONLY_TRY, ASSERT, atmdat, atmdat_CHIANTI_readin(), atmdat_LAMDA_readin(), atmdat_STOUT_readin(), AtmolCollRateCoeff, AtmolCollSplines, cdEXIT, CHARS_SPECIES, t_atmdat::chCloudyChiantiFile, t_atmdat::chdBaseSources, t_input::chDelimiter, t_elementnames::chElementSym, t_atmdat::chLamdaFile, t_atmdat::chStoutFile, t_atmdat::chVersion, database_prep(), dBaseSpecies, dBaseStates, dBaseTrans, DEBUG_ENTRY, DEBUGSTATE, elementnames, EXIT_FAILURE, FFmtRead(), FILENAME_PATH_LENGTH_2, findspecies(), fixit, fprintf(), input, Singleton< t_version >::Inst(), ioQQQ, ipdBaseTrans, ipNCOLLIDER, t_save::ipSDSFile, t_atmdat::iVersionLength, t_atmdat::lgCalpgmOn, t_atmdat::lgChiantiOn, t_atmdat::lgdBaseSourceExists, t_atmdat::lgLamdaOn, t_save::lgSDSOn, t_atmdat::lgStoutOn, LIMELM, nSpecies, null_mole, open_data(), read_whole_line(), save, set_fractionation(), speciesCheck(), states_nelemfill(), states_popfill(), states_propprint(), StoutCollData, TotalInsanity(), toupper(), trim_levels(), trimTrailingWhiteSpace(), and uncaps().

Referenced by atmdat_readin().

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void dBase_solve ( void )

Definition at line 271 of file species2.cpp.

References abund, atmdat, atoms, cdEXIT, colliders, CollisionZero(), conv, CoolAdd(), t_oxy::d5007r, t_atoms::d5200r, t_oxy::d6300, dBaseAbund(), dBaseSpecies, dBaseStates, dBaseTrans, t_thermal::dCooldT, DEBUG_ENTRY, depart(), t_hydro::dstfe2lya, DumpLine(), t_thermal::elementcool, TransitionProxy::Emis(), EmLineZero(), energy(), TransitionProxy::EnergyWN(), t_ionbal::ExcitationGround, EXIT_FAILURE, fp_equal(), fprintf(), EmissionProxy::gf(), hydro, ionbal, ioQQQ, ipELECTRON, ipH1s, ipH2p, ipH_LIKE, ipHYDROGEN, ipIRON, t_atmdat::ipSpecIon, iso_sp, LEVEL_ACTIVE, LEVEL_INACTIVE, t_conv::lgSearch, LIMELM, MALLOC, max(), MAX2, MIN2, nSpecies, nzone, oxy, phycon, avx_ptr< T, lgBC >::ptr0(), t_atoms::rateMg2, secondaries, set_xIntensity(), t_thermal::setHeating(), setXtraRatesCa2(), setXtraRatesFe2(), setXtraRatesO1(), SMALLFLOAT, t_phycon::sqrte, t_iso_sp::st, t_phycon::te, thermal, TotalInsanity(), t_iso_sp::trans(), vexp(), and t_secondaries::x12tot.

Referenced by CoolEvaluate().

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void dBaseTrim ( )

Definition at line 61 of file species2.cpp.

References abund, conv, dBaseAbund(), dBaseSpecies, dBaseStates, dBaseTrans, DEBUG_ENTRY, dense, nSpecies, t_conv::nTotalIoniz, and t_dense::xNucleiTotal.

Referenced by CoolEvaluate().

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void dBaseUpdateCollCoeffs ( void )

Definition at line 102 of file species2.cpp.

References atmdat, AtmolCollRateCoeff, ChiantiCollRate(), CollisionProxy::col_str(), t_atmdat::collstrDefault, genericState::database(), dBaseSpecies, dBaseTrans, DEBUG_ENTRY, ipATOM_H, ipATOM_HE, ipELECTRON, ipH2, ipH2_ORTHO, ipH2_PARA, ipHE_PLUS, ipNCOLLIDER, ipPROTON, LeidenCollRate(), t_atmdat::lgGbarOn, MakeCS(), nSpecies, phycon, CollisionProxy::rate_coef_ul(), CollisionProxy::rate_coef_ul_set(), t_phycon::sqrte, StoutCollRate(), t_phycon::te, and TotalInsanity().

Referenced by CoolEvaluate().

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TransitionList::iterator findTrans_byQuantNumb	(	const string	speciesLabel,
		const long	n_hi,
		const long	l_hi,
		const long	S_hi,
		const long	n_lo,
		const long	l_lo,
		const long	S_lo
	)

findTrans_byQuantNumb Identify transition of a given species by its quantum numbers.

Parameters

speciesLabel	(in) label of species, e.g., "H 1"
n_hi	(in) principal quantum number of upper level in transition
l_hi	(in) orbital angular momentum of upper level
S_hi	(in) multiplicity of upper level
n_lo	(in) principal quantum number of lower level
l_lo	(in) orbital angular momentum of lower level
S_lo	(in) multiplicity of lower level

Returns: pointer to transition in species list of transitions. If no match is found, return value is past the end of the entire list.

Definition at line 57 of file taulines.cpp.

References AllTransitions.

TransitionList::iterator findTrans_byWLAng	(	string	speciesLabel,
		const double	wl_Ang,
		double &	wl_err
	)

findTrans_byWLAng Identify transition of a given species by wavelength.

Parameters

speciesLabel	(in) label of species, e.g., "H 1"
wavelength	(in) transition wavelength, in Angstrom
wl_err	(out) error in wavelength match

Returns: pointer to transition in species list of transitions. If no match is found, return value is past the end of the entire list.

Definition at line 91 of file taulines.cpp.

References AllTransitions.

Variable Documentation

vector<TransitionList> AllTransitions

Definition at line 9 of file taulines.cpp.

Referenced by ContCreatePointers(), ConvIterCheck(), database_readin(), findTrans_byQuantNumb(), findTrans_byWLAng(), HyperfineCreate(), diatomics::init(), InitSimPostparse(), iso_allocate(), read_level2_lines(), read_UTA_lines(), and RT_line_all_escape().

qList AnonStates

Referenced by iso_allocate().

multi_arr<CollRateCoeffArray,2> AtmolCollRateCoeff

Definition at line 19 of file taulines.cpp.

Referenced by atmdat_LAMDA_readin(), database_readin(), dBaseUpdateCollCoeffs(), and LeidenCollRate().

vector< multi_arr<CollSplinesArray,3> > AtmolCollSplines

Definition at line 20 of file taulines.cpp.

Referenced by atmdat_CHIANTI_readin(), CHIANTI_Upsilon(), and database_readin().

char** chSpecies

Definition at line 14 of file taulines.cpp.

Referenced by TransitionProxy::chLabel().

realnum* cs1_flag_lev2

Definition at line 37 of file taulines.cpp.

Referenced by CoolDima(), and read_level2_lines().

vector<species> dBaseSpecies

vector<qList> dBaseStates

Definition at line 16 of file taulines.cpp.

Referenced by atmdat_CHIANTI_readin(), atmdat_LAMDA_readin(), atmdat_STOUT_readin(), ContCreatePointers(), database_prep(), database_readin(), dBase_solve(), dBaseAbund(), dBaseTrim(), ion_photo(), states_nelemfill(), states_popfill(), states_propprint(), and trim_levels().

vector<TransitionList> dBaseTrans

vector<vector<TransitionList> > ExtraLymanLines

Definition at line 25 of file taulines.cpp.

Referenced by ContCreatePointers(), iso_allocate(), iso_create(), lines(), RT_line_all(), RT_line_driving(), RT_tau_inc(), RT_tau_init(), RT_tau_reset(), SaveLineStuff(), and state_get_put().

TransitionList Fe2LevN

TransitionList HFLines

extern transition TauLines[NTAULINES+1]; these are the public parts of the hyperfine structure line transfer info data gathered from hyperfine.dat using routines in hyperfine.c the structure containing the hfs line information

Referenced by cdTemp(), ContCreatePointers(), CoolHyperfine(), FindNeg(), FndLineHt(), H21_cm_pops(), HyperfineCreate(), HyperfineCS(), iter_end_check(), lines(), lines_setup(), PresTotCurrent(), PrtComment(), PrtFinal(), PrtLinePres(), prtmet(), radius_increment(), RT_diffuse(), RT_line_all(), RT_line_driving(), RT_tau_inc(), RT_tau_init(), RT_tau_reset(), SaveDo(), SaveLineData(), and state_get_put().

vector< multi_arr<int,2> > ipdBaseTrans

Definition at line 17 of file taulines.cpp.

Referenced by atmdat_CHIANTI_readin(), atmdat_LAMDA_readin(), atmdat_STOUT_readin(), database_readin(), and trim_levels().

multi_arr<int,3> ipExtraLymanLines

this is the set of extra lines, ExtraLymanLines[ipISO][ipZ][n]

Definition at line 24 of file taulines.cpp.

Referenced by ContCreatePointers(), iso_allocate(), iso_create(), lines(), RT_line_all(), RT_line_driving(), RT_tau_inc(), RT_tau_init(), RT_tau_reset(), SaveLineStuff(), and state_get_put().

multi_arr<int,2> ipFe2LevN

Definition at line 31 of file taulines.cpp.

multi_arr<int,3> ipSatelliteLines

lines forming from doubly excited states

Definition at line 34 of file taulines.cpp.

Referenced by ContCreatePointers(), DoSatelliteLines(), iso_allocate(), iso_satellite(), iso_satellite_update(), RT_diffuse(), RT_line_all(), RT_line_driving(), RT_tau_inc(), RT_tau_init(), RT_tau_reset(), and SaveLineData().

bool lgHydroMalloc

this will be set true once space is allocated for the HydroLines array. from then on any HYDROGENIC LEVELS command will be ignored, this is set to false in cddefines.c

Definition at line 32 of file cdinit.cpp.

Referenced by iso_create(), and ParseDatabaseISO().

bool lgLinesAdded

Definition at line 12 of file taulines.cpp.

Referenced by TransitionProxy::AddLine2Stack(), ContCreatePointers(), and InitCoreload().

bool lgStatesAdded

Definition at line 11 of file taulines.cpp.

Referenced by TransitionProxy::AddHiState(), TransitionProxy::AddLoState(), ContCreatePointers(), and InitCoreload().

const int NI_NDP = 9

Definition at line 91 of file taulines.h.

long int nLevel1

this is the number of level 1 lines, and is set in atmdat_readin by counter number of data lines in level1.dat

Definition at line 27 of file taulines.cpp.

long int nSpecies

Definition at line 22 of file taulines.cpp.

Referenced by atmdat_readin(), ContCreatePointers(), ConvIterCheck(), CoolEvaluate(), CoolSum(), database_readin(), dBase_solve(), dBaseTrim(), dBaseUpdateCollCoeffs(), FindNeg(), FndLineHt(), IterStart(), lines(), lines_general(), PresTotCurrent(), PrtLinePres(), prtmet(), RT_diffuse(), RT_line_all(), RT_line_driving(), RT_OTS(), RT_tau_inc(), RT_tau_init(), RT_tau_reset(), SaveDo(), SaveLineData(), SaveLineStuff(), states_nelemfill(), states_popfill(), states_propprint(), and TempChange().

const int NWINDDIM = 6744

number of level 2 lines, dim for WindLine array

Definition at line 96 of file taulines.h.

long nWindLine

this is set to 0 with no atom_level2 command, normally equal to NWINDDIM, definition is in cddefines.c

Definition at line 19 of file cdinit.cpp.

Referenced by atmdat_readin(), ContCreatePointers(), CoolDima(), CoolSum(), FindNeg(), FndLineHt(), lines(), lines_setup(), ParseDont(), PresTotCurrent(), PrtColumns(), PrtComment(), PrtLinePres(), prtmet(), read_level2_lines(), RT_diffuse(), RT_line_all(), RT_line_driving(), RT_OTS(), RT_tau_inc(), RT_tau_init(), RT_tau_reset(), SaveLineData(), SaveLineStuff(), and state_get_put().

vector<vector<TransitionList> > SatelliteLines

Definition at line 35 of file taulines.cpp.

Referenced by ContCreatePointers(), DoSatelliteLines(), iso_allocate(), iso_satellite(), iso_satellite_update(), RT_diffuse(), RT_line_all(), RT_line_driving(), RT_tau_inc(), RT_tau_init(), RT_tau_reset(), and SaveLineData().

vector< StoutCollArray > StoutCollData

Definition at line 21 of file taulines.cpp.

Referenced by atmdat_STOUT_readin(), database_readin(), and StoutCollRate().

TransitionProxy::iterator TauDummy

this is a dummy optical depth array for non-existant lines

Definition at line 121 of file taulines.cpp.

TransitionList TauLine2

pointers to element and ion, TauLine2[line number][pointer within vector]

Referenced by ContCreatePointers(), CoolDima(), CoolSum(), FindNeg(), FndLineHt(), lines(), lines_setup(), PresTotCurrent(), PrtComment(), PrtLinePres(), prtmet(), read_level2_lines(), RT_diffuse(), RT_line_all(), RT_line_driving(), RT_OTS(), RT_tau_inc(), RT_tau_init(), RT_tau_reset(), SaveLineData(), SaveLineStuff(), and state_get_put().

vector<vector<TransitionList> > Transitions

main line arrays for hydrogenic ions<br>

first dimension is atomic number
second dim is upper level
third dim is lower level
nta dim is set of pointers for quantities within line transfer arrays
in the forc translation, the upper level was too low by 1, since the
fortran was starting at 1. the lower dim was not changed by translation
since it started from ip1s = 0
any place where the third dim has -1 is probably a remnant from forc and is wrong

Definition at line 30 of file taulines.cpp.

Referenced by iso_allocate().

TransitionList UTALines

the set of inner shell lines

Referenced by ContCreatePointers(), lines(), lines_setup(), prtmet(), read_UTA_lines(), RT_line_all(), RT_line_driving(), RT_tau_inc(), RT_tau_init(), RT_tau_reset(), SaveLineData(), SaveLineStuff(), state_get_put(), and UpdateUTAs().

Functions

Variables

Function Documentation

Variable Documentation