init_sim_postparse.cpp

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/* This file is part of Cloudy and is copyright (C)1978-2013 by Gary J. Ferland and
 * others.  For conditions of distribution and use see copyright notice in license.txt */
/*InitSimPostparse initialization at start of simulation, 
 * called from cloudy after parser, 
 * called one time per sim in grid 
 * not called for every iteration */
#include "cddefines.h" 
#include "dense.h"
#include "deuterium.h"
#include "struc.h"
#include "rfield.h"
#include "elementnames.h"
#include "atoms.h"
#include "physconst.h"
#include "iterations.h"
#include "pressure.h"
#include "mole.h"
#include "trace.h"
#include "radius.h"
#include "thermal.h"
#include "heavy.h"
#include "wind.h"
#include "init.h" 
#include "iso.h"
#include "h2.h"
#include "co.h"
#include "monitor_results.h"
#include "taulines.h"

/*InitSimPostparse initialization after parser, 
 * called one time for each simulation in a grid, 
 * only before first iteration
 * sets initial or zeros values before start of a simulation */
void InitSimPostparse( void )
{
        DEBUG_ENTRY( "InitSimPostparse()" );
        static double one=1.0;

        struc.nzonePreviousIteration = -1;

        thermal.thist = 0.;
        thermal.tlowst = 1e20f;
        thermal.nUnstable = 0;
        thermal.lgUnstable = false;

        colliders.init();
        
        mole_global.init();
        mole_global.zero();

        for( long nelem=ipHYDROGEN; nelem<LIMELM; ++nelem )
        {
                for( long ion=0; ion<nelem+2; ++ion )
                        mole.set_location( nelem, ion,  &(dense.xIonDense[nelem][ion]) );
        }

        findspecieslocal("e-")->location = &(dense.eden);
        findspecieslocal("grn")->location = &(mole.grain_area);
        findspecieslocal("PHOTON")->location = &one;
        findspecieslocal("CRPHOT")->location = &one;
        findspecieslocal("CRP")->location = &one;
        if( deut.lgElmtOn )
        {
                findspecieslocal("D")->location = &(deut.xIonDense[0]);
                findspecieslocal("D+")->location = &(deut.xIonDense[1]);
        }

        /* >> chng 06 Nov 24 rjrw: Move reaction definitions here so they can be controlled by parsed commands */
        mole_create_react();

        //mole_cmp_num_in_out_reactions();

        for( diatom_iter diatom = diatoms.begin(); diatom != diatoms.end(); ++diatom )
                (*diatom)->H2_Reset();

        /* zero out diffuse Lya emission */
        for( long nelem=ipHYDROGEN; nelem<LIMELM; ++nelem )
                for( long ion=0; ion<=nelem; ++ion )
                        Heavy.xLyaHeavy[nelem][ion] = 0;

        /* convert STOP RADIUS command to STOP THICKNESS command now that inner radius is known */
        if( radius.StopRadius[0] > 0. )
        {
                for( long j=0; j < iterations.iter_malloc; j++ )
                {
                        if( radius.StopRadius[j] > radius.Radius )
                                radius.StopThickness[j] = radius.StopRadius[j] - radius.Radius;
                        else
                        {
                                fprintf( ioQQQ, " PROBLEM stopping radius is <= inner radius. Bailing out.\n" );
                                cdEXIT(EXIT_FAILURE);
                        }
                }
        }

        /* this term applies centrifugal acceleration if DISK option on wind command */
        wind.DiskRadius = 0;
        if( wind.lgDisk )
                wind.DiskRadius = radius.Radius;

        iterations.lgLastIt = false;

        rfield_opac_zero( 0 , rfield.nupper );

        rfield.lgUSphON = false;

        /* where cloud is optically thick to brems */
        rfield.ipEnergyBremsThin = 0;
        rfield.EnergyBremsThin = 0.;
        rfield.comtot = 0.;
        rfield.cmcool = 0.;
        rfield.cinrat = 0.;
        rfield.extin_mag_B_point = 0.;
        rfield.extin_mag_V_point = 0.;
        rfield.extin_mag_B_extended = 0.;
        rfield.extin_mag_V_extended = 0.;
        rfield.EnerGammaRay = 7676.;

        for( vector<TransitionList>::iterator it = AllTransitions.begin(); it != AllTransitions.end(); ++it )
        {
                for( TransitionList::iterator tr = it->begin(); tr != it->end(); ++tr )
                {
                        tr->Emis().TauTrack().clear();
                }
        }

        /* usually computed in pressure_change, but not called before first zone */
        wind.AccelGravity = (realnum)(GRAV_CONST*wind.comass*SOLAR_MASS/POW2(radius.Radius)*
                (1.-wind.DiskRadius/radius.Radius) );
        if( trace.lgTrace && trace.lgWind )
        {
                fprintf(ioQQQ," InitSimPostparse sets AccelGravity %.3e lgDisk?%c\n",
                        wind.AccelGravity , 
                        TorF(wind.lgDisk) );
        }

        /* pressure related variables */
        pressure.PresInteg = 0.;
        pressure.PresIntegElecThin = 0.;
        pressure.pinzon = 0.;

        /* update iso sequence level information */
        for( long ipISO=ipH_LIKE; ipISO<NISO; ++ipISO )
        {
                for( long nelem=ipISO; nelem < LIMELM; ++nelem )
                {
                        iso_sp[ipISO][nelem].Reset();
                        /* these elements that are turned off */
                        if( nelem>ipHELIUM && !dense.lgElmtOn[nelem] )
                        {
                                iso_sp[ipISO][nelem].numLevels_max = 0;
                                iso_sp[ipISO][nelem].nCollapsed_max = 0;
                                iso_sp[ipISO][nelem].n_HighestResolved_max = 0;

                                iso_sp[ipISO][nelem].numLevels_local = 0;
                                iso_sp[ipISO][nelem].nCollapsed_local = 0;
                                iso_sp[ipISO][nelem].n_HighestResolved_local = 0;
                        }
                        else
                        {
                                iso_update_num_levels( ipISO, nelem );
                                /* must always have at least one collapsed level, unless compiling recomb data file. */
                                ASSERT( iso_sp[ipISO][nelem].nCollapsed_max > 0 || iso_ctrl.lgCompileRecomb[ipISO] );
                        }
                }
        }

        if( iso_ctrl.lgPrintNumberOfLevels )
        {
                fprintf(ioQQQ,"\n\n Number of levels in ions treated by iso sequences.\n");
                fprintf(ioQQQ," ISO   Element  hi-n(l-resolved) #(l-resolved)  n(collapsed)\n");
                /* option to print number of levels for each element */
                for( long ipISO=ipH_LIKE; ipISO<NISO; ++ipISO )
                {
                        for( long nelem=ipISO; nelem<LIMELM; ++nelem )
                        {
                                /* print number of levels */
                                fprintf(ioQQQ," %s  %s    %4li            %4li           %4li \n",
                                        iso_ctrl.chISO[ipISO] ,
                                        elementnames.chElementSym[nelem],
                                        iso_sp[ipISO][nelem].n_HighestResolved_max,
                                        iso_sp[ipISO][nelem].numLevels_max-iso_sp[ipISO][nelem].nCollapsed_max,
                                        iso_sp[ipISO][nelem].nCollapsed_max);
                        }
                }
        }
        atoms.p2nit = 0.;
        atoms.d5200r = 0.;

        MonitorResults.SumErrorCaseMonitor = 0.;
        MonitorResults.nSumErrorCaseMonitor = 0;

        return;
}