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totalopac.c
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totalopac.c
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/* This file is part of Exo_Transmit.
Exo_Transmit is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
Exo_Transmit is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU General Public License for more details.
You should have received a copy of the GNU General Public License
along with Exo_Transmit. If not, see <http://www.gnu.org/licenses/>.
*/
/*----------------------- totalopac.c ----------------------------
Author: Eliza Kempton ([email protected])
------------------------------------------------------------------ */
#include <stdio.h>
#include <stdlib.h>
#include <string.h>
#include <math.h>
#include "include.h"
#include "constant.h"
#include "atmos.h"
#include "opac.h"
#include "nrutil.h"
#include "vars.h"
#include "prototypes.h"
/* --- Global variables ------------------------------------------ */
extern struct Opac opac;
extern struct Atmos atmos;
struct Chem chem;
// struct Opac opacCH4;
// struct Opac opacCO2;
// struct Opac opacCO;
// struct Opac opacH2O;
// struct Opac opacNH3;
// struct Opac opacO2;
// struct Opac opacO3;
// struct Opac opacC2H2;
// struct Opac opacC2H4;
// struct Opac opacC2H6;
// struct Opac opacCrH;
// struct Opac opacH2CO;
// struct Opac opacH2S;
// struct Opac opacHCl;
// struct Opac opacHCN;
// struct Opac opacHF;
// struct Opac opacMgH;
// struct Opac opacN2;
// struct Opac opacNO;
// struct Opac opacNO2;
// struct Opac opacOH;
// struct Opac opacOCS;
// struct Opac opacPH3;
// struct Opac opacSH;
// struct Opac opacSiH;
// struct Opac opacSiO;
// struct Opac opacSO2;
// struct Opac opacTiO;
// struct Opac opacVO;
// struct Opac opacK;
// struct Opac opacNa;
struct Opac opacSpec;
struct Opac opacCIA;
/* ---------------------------------------------------------------
* Computes the total opacity due to all of the atmospheric
* constituents.
* --------------------------------------------------------------- */
/* ------- begin ------------ TotalOpac.c ------------------------ */
void TotalOpac() {
double CIA_temp;
double **opac_CIA_H2H2, **opac_CIA_H2He, **opac_CIA_H2H,
**opac_CIA_H2CH4, **opac_CIA_CH4Ar, **opac_CIA_CH4CH4,
**opac_CIA_CO2CO2, **opac_CIA_HeH, **opac_CIA_N2CH4,
**opac_CIA_N2H2, **opac_CIA_N2N2, **opac_CIA_O2CO2,
**opac_CIA_O2N2, **opac_CIA_O2O2;
int i, j, k, ll, a, b;
char **fileArray = getFileArray(); //get file names
vars variables = getVars(); //get planet variables
int chemSelection[34]; //get chemistry selections
getChemSelection(chemSelection);
int NLAMBDA = variables.NLAMBDA; //rename relevant variables
int NPRESSURE = variables.NPRESSURE;
int NTEMP = variables.NTEMP;
int NTAU = variables.NTAU;
int NRADII = variables.NRADII;
double RAYLEIGH = variables.RAYLEIGH;
FILE *f1;
/* Allocate Memory */
atmos.kappa = dmatrix(0, NLAMBDA-1, 0, NTAU-1);
opac_CIA_H2H2 = dmatrix(0, NTEMP-1, 0, NLAMBDA-1);
opac_CIA_H2He = dmatrix(0, NTEMP-1, 0, NLAMBDA-1);
opac_CIA_H2H = dmatrix(0, NTEMP-1, 0, NLAMBDA-1);
opac_CIA_H2CH4 = dmatrix(0, NTEMP-1, 0, NLAMBDA-1);
opac_CIA_CH4Ar = dmatrix(0, NTEMP-1, 0, NLAMBDA-1);
opac_CIA_CH4CH4 = dmatrix(0, NTEMP-1, 0, NLAMBDA-1);
opac_CIA_CO2CO2 = dmatrix(0, NTEMP-1, 0, NLAMBDA-1);
opac_CIA_HeH = dmatrix(0, NTEMP-1, 0, NLAMBDA-1);
opac_CIA_N2CH4 = dmatrix(0, NTEMP-1, 0, NLAMBDA-1);
opac_CIA_N2H2 = dmatrix(0, NTEMP-1, 0, NLAMBDA-1);
opac_CIA_N2N2 = dmatrix(0, NTEMP-1, 0, NLAMBDA-1);
opac_CIA_O2CO2 = dmatrix(0, NTEMP-1, 0, NLAMBDA-1);
opac_CIA_O2N2 = dmatrix(0, NTEMP-1, 0, NLAMBDA-1);
opac_CIA_O2O2 = dmatrix(0, NTEMP-1, 0, NLAMBDA-1);
//populate with zeros
for (i=0; i<NLAMBDA; i++)
for (ll=0; ll<NTAU; ll++)
atmos.kappa[i][ll] = 0.;
// Allocating memory for haze calculations
double **xsec_haze, *xsec_wl, *xsec_radii;
double *haze_ndens, *haze_radii;
xsec_haze = dmatrix(0, NRADII-1, 0, NLAMBDA-1);
xsec_wl = dvector(0, NLAMBDA-1);
xsec_radii = dvector(0, NRADII-1);
haze_ndens = dvector(0, NTAU-1);
haze_radii = dvector(0, NTAU-1);
/* Fill in haze opacities */
if (chemSelection[32] == 1) {
printf("Haze has been selected as an input!\n");
FILE *f1 = fopen("haze_opac/haze_opacities.dat", "r");
if(f1 == NULL){
printf("Haze xsection file was not found. Please make sure the proper "
"cross sections file exists in the haze_opac folder.");
exit(1);
};
printf("Haze file has been opened!\n");
for (int j=0; j<NLAMBDA+3; j++) {
if (j < 2) {
// Skip header lines
fscanf(f1, "%*[^\n]\n");
} else if (j == 2) {
// Column header line; wl + radii
for (k=0; k<NRADII+1; k++) {
if (k == 0) {
fscanf(f1, "%*s");//, &junk);
continue;
} else {
fscanf(f1, "%le", &xsec_radii[k-1]);
};
};
} else {
// Normal columns by wavelength
for (k=0; k<NRADII+1; k++) {
if (k == 0) {
fscanf(f1, "%le", &xsec_wl[j-3]);
} else {
fscanf(f1, "%le", &xsec_haze[k-1][j-3]);
};
}
};
}
// Populate the wavelengths if need be with this wl grid
atmos.lambda = dvector(0, NLAMBDA-1);
for (i=0; i<NLAMBDA; i++) {
atmos.lambda[i] = xsec_wl[i];
};
printf("Haze cross sections have been imported!\n");
fclose(f1);
// The cross sections are now read in, read in the haze number density
// and effective sphere radius (what is used in the fractal code and the
// radiative transfer.
f1 = fopen(fileArray[35], "r");
fscanf(f1, "%*[^\n]\n");
for (k=0; k<NTAU; k++) {
fscanf(f1, "%le", &haze_radii[k]);
fscanf(f1, "%le", &haze_ndens[k]);
};
fclose(f1);
// Apply to the opacity
for (ll=0; ll<NTAU; ll++) {
Locate(NRADII, xsec_radii, haze_radii[ll], &a);
for (i=0; i<NLAMBDA; i++) {
atmos.kappa[i][ll] +=
haze_ndens[ll] * xsec_haze[a][i];
};
};
};
// Allocate memory for the opacity arrays
opacSpec.name = "all";
opacSpec.T = dvector(0, NTEMP-1);
opacSpec.P = dvector(0, NTEMP-1);
opacSpec.NT = NTEMP;
opacSpec.NP = NPRESSURE;
opacSpec.Plog10 = dvector(0, NPRESSURE-1);
opacSpec.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE, 0, NTEMP-1);
opacSpec.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
/* Fill in CH4 opacities */
if(chemSelection[0] == 1){ //If CH4 is selected
// opacCH4.name = "CH4"; //Name it CH4
// opacCH4.T = dvector(0, NTEMP-1); //Declare T, P, Plog10, and kappa arrays
// opacCH4.P = dvector(0, NPRESSURE-1);
// opacCH4.Plog10 = dvector(0, NPRESSURE-1);
// opacCH4.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// /* Declare abundance */
// opacCH4.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[3]); //Read opacity table for CH4
printf("Read CH4 Opacity done\n"); //Confirmation message
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
//if (i % 100 == 0) printf("Kappa: %.3e -> ", atmos.kappa[i][ll]);
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.CH4[ll];
//if (i % 100 == 0) printf("%.3e\n", atmos.kappa[i][ll]);
}
}
// FreeOpacTable(opacCH4); //Free CH4 opacity table
}
//This procedure repeats for all gases!!
/* Fill in CO2 opacities */
if(chemSelection[1] == 1){
//opacCO2.name = "CO2";
//opacCO2.T = dvector(0, NTEMP-1);
//opacCO2.P = dvector(0, NPRESSURE-1);
//opacCO2.Plog10 = dvector(0, NPRESSURE-1);
//opacCO2.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
//opacCO2.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[8]);
printf("Read CO2 Opacity done\n");
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.CO2[ll];
}
}
// FreeOpacTable(opacCO2);
}
/* Fill in CO opacities */
if(chemSelection[2] == 1){
// opacCO.name = "CO";
// opacCO.T = dvector(0, NTEMP-1);
// opacCO.P = dvector(0, NPRESSURE-1);
// opacCO.Plog10 = dvector(0, NPRESSURE-1);
// opacCO.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// opacCO.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[7]);
printf("Read CO Opacity done\n");
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.CO[ll];
}
}
// FreeOpacTable(opacCO);
}
/* Fill in H2O opacities */
if(chemSelection[3] == 1){
//opacH2O.name = "H2O";
//opacH2O.T = dvector(0, NTEMP-1);
//opacH2O.P = dvector(0, NPRESSURE-1);
//opacH2O.Plog10 = dvector(0, NPRESSURE-1);
//opacH2O.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
//opacH2O.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[10]);
printf("Read H2O Opacity done\n");
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.H2O[ll];
}
}
// FreeOpacTable(opacH2O);
}
/* Fill in NH3 opacities */
if(chemSelection[4] == 1){
// opacNH3.name = "NH3";
// opacNH3.T = dvector(0, NTEMP-1);
// opacNH3.P = dvector(0, NPRESSURE-1);
// opacNH3.Plog10 = dvector(0, NPRESSURE-1);
// opacNH3.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// opacNH3.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[17]);
printf("Read NH3 Opacity done\n");
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.NH3[ll];
}
}
// FreeOpacTable(opacNH3);
}
/* Fill in O2 opacities */
if(chemSelection[5] == 1){
// opacO2.name = "O2";
// opacO2.T = dvector(0, NTEMP-1);
// opacO2.P = dvector(0, NPRESSURE-1);
// opacO2.Plog10 = dvector(0, NPRESSURE-1);
// opacO2.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// opacO2.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[20]);
printf("Read O2 Opacity done\n");
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.O2[ll];
}
}
// FreeOpacTable(opacO2);
}
/* Fill in O3 opacities */
if(chemSelection[6] == 1){
// opacO3.name = "O3";
// opacO3.T = dvector(0, NTEMP-1);
// opacO3.P = dvector(0, NPRESSURE-1);
// opacO3.Plog10 = dvector(0, NPRESSURE-1);
// opacO3.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// opacO3.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[21]);
printf("Read O3 Opacity done\n");
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.O3[ll];
}
}
// FreeOpacTable(opacO3);
}
/* Fill in C2H2 opacities */
if(chemSelection[7] == 1){
// opacC2H2.name = "C2H2";
// opacC2H2.T = dvector(0, NTEMP-1);
// opacC2H2.P = dvector(0, NPRESSURE-1);
// opacC2H2.Plog10 = dvector(0, NPRESSURE-1);
// opacC2H2.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// opacC2H2.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[4]);
printf("Read C2H2 Opacity done\n");
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.C2H2[ll];
}
}
// FreeOpacTable(opacC2H2);
}
/* Fill in C2H4 opacities */
if(chemSelection[8] == 1){
// opacC2H4.name = "C2H4";
// opacC2H4.T = dvector(0, NTEMP-1);
// opacC2H4.P = dvector(0, NPRESSURE-1);
// opacC2H4.Plog10 = dvector(0, NPRESSURE-1);
// opacC2H4.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// opacC2H4.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[5]);
printf("Read C2H4 Opacity done\n");
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.C2H4[ll];
}
}
// FreeOpacTable(opacC2H4);
}
/* Fill in C2H6 opacities */
if(chemSelection[9] == 1){
// opacC2H6.name = "C2H6";
// opacC2H6.T = dvector(0, NTEMP-1);
// opacC2H6.P = dvector(0, NPRESSURE-1);
// opacC2H6.Plog10 = dvector(0, NPRESSURE-1);
// opacC2H6.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// opacC2H6.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[6]);
printf("Read C2H6 Opacity done\n");
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.C2H6[ll];
}
}
// FreeOpacTable(opacC2H6);
}
/* Fill in H2CO opacities */
if(chemSelection[10] == 1){
// opacH2CO.name = "H2CO";
// opacH2CO.T = dvector(0, NTEMP-1);
// opacH2CO.P = dvector(0, NPRESSURE-1);
// opacH2CO.Plog10 = dvector(0, NPRESSURE-1);
// opacH2CO.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// opacH2CO.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[9]);
printf("Read H2CO Opacity done\n");
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.H2CO[ll];
}
}
// FreeOpacTable(opacH2CO);
}
/* Fill in H2S opacities */
if(chemSelection[11] == 1){
// opacH2S.name = "H2S";
// opacH2S.T = dvector(0, NTEMP-1);
// opacH2S.P = dvector(0, NPRESSURE-1);
// opacH2S.Plog10 = dvector(0, NPRESSURE-1);
// opacH2S.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// opacH2S.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[11]);
printf("Read H2S Opacity done\n");
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.H2S[ll];
}
}
// FreeOpacTable(opacH2S);
}
/* Fill in HCl opacities */
if(chemSelection[12] == 1){
// opacHCl.name = "HCl";
// opacHCl.T = dvector(0, NTEMP-1);
// opacHCl.P = dvector(0, NPRESSURE-1);
// opacHCl.Plog10 = dvector(0, NPRESSURE-1);
// opacHCl.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// opacHCl.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[13]);
printf("Read HCl Opacity done\n");
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.H2S[ll];
}
}
// FreeOpacTable(opacHCl);
}
/* Fill in HCN opacities */
if(chemSelection[13] == 1){
// opacHCN.name = "HCN";
// opacHCN.T = dvector(0, NTEMP-1);
// opacHCN.P = dvector(0, NPRESSURE-1);
// opacHCN.Plog10 = dvector(0, NPRESSURE-1);
// opacHCN.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// opacHCN.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[12]);
printf("Read HCN Opacity done\n");
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.HCN[ll];
}
}
// FreeOpacTable(opacHCN);
}
/* TK COMMENTING OUT THE SPECIES NOT BEING USED AT ALL */
// /* Fill in HF opacities */
// if(chemSelection[14] == 1){
// // opacHF.name = "HF";
// // opacHF.T = dvector(0, NTEMP-1);
// // opacHF.P = dvector(0, NPRESSURE-1);
// // opacHF.Plog10 = dvector(0, NPRESSURE-1);
// // opacHF.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// // opacHF.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
// ReadOpacTable(opacSpec, fileArray[14]);
//
// printf("Read HF Opacity done\n");
//
// /* interpolate and add to overall atmos.kappa */
// for(ll=0; ll<NTAU; ll++){
// Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
// Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
// for(i=0; i<NLAMBDA; i++){
// atmos.kappa[i][ll] += lint2D(
// opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
// opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
// opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
// atmos.T[ll], atmos.P[ll])
// * atmos.HF[ll];
// }
// }
// printf("Opacity HF added to atmospheric opacity.\n");
//
// // FreeOpacTable(opacHF);
// }
// /* Fill in MgH opacities */
// if(chemSelection[15] == 1){
// // opacMgH.name = "MgH";
// // opacMgH.T = dvector(0, NTEMP-1);
// // opacMgH.P = dvector(0, NPRESSURE-1);
// // opacMgH.Plog10 = dvector(0, NPRESSURE-1);
// // opacMgH.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// // opacMgH.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
// ReadOpacTable(opacSpec, fileArray[15]);
//
// printf("Read MgH Opacity done\n");
//
// for(ll=0; ll<NTAU; ll++){
// Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
// Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
// for(i=0; i<NLAMBDA; i++){
// atmos.kappa[i][ll] += lint2D(
// opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
// opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
// opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
// atmos.T[ll], atmos.P[ll])
// * atmos.MgH[ll];
// }
// }
//
//
// // FreeOpacTable(opacMgH);
// }
/* Fill in N2 opacities */
if(chemSelection[16] == 1){
// opacN2.name = "N2";
// opacN2.T = dvector(0, NTEMP-1);
// opacN2.P = dvector(0, NPRESSURE-1);
// opacN2.Plog10 = dvector(0, NPRESSURE-1);
// opacN2.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// opacN2.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[16]);
printf("Read N2 Opacity done\n");
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.N2[ll];
}
}
// FreeOpacTable(opacN2);
}
/* Fill in NO opacities */
if(chemSelection[17] == 1){
// opacNO.name = "NO";
// opacNO.T = dvector(0, NTEMP-1);
// opacNO.P = dvector(0, NPRESSURE-1);
// opacNO.Plog10 = dvector(0, NPRESSURE-1);
// opacNO.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// opacNO.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[18]);
printf("Read NO Opacity done\n");
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.NO[ll];
}
}
// FreeOpacTable(opacNO);
}
/* Fill in NO2 opacities */
if(chemSelection[18] == 1){
// opacNO2.name = "NO2";
// opacNO2.T = dvector(0, NTEMP-1);
// opacNO2.P = dvector(0, NPRESSURE-1);
// opacNO2.Plog10 = dvector(0, NPRESSURE-1);
// opacNO2.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// opacNO2.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[19]);
printf("Read NO2 Opacity done\n");
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.NO2[ll];
}
}
// FreeOpacTable(opacNO2);
}
/* Fill in OCS opacities */
if(chemSelection[19] == 1){
// opacOCS.name = "OCS";
// opacOCS.T = dvector(0, NTEMP-1);
// opacOCS.P = dvector(0, NPRESSURE-1);
// opacOCS.Plog10 = dvector(0, NPRESSURE-1);
// opacOCS.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// opacOCS.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[22]);
printf("Read OCS Opacity done\n");
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.OCS[ll];
}
}
// FreeOpacTable(opacOCS);
}
/* Fill in OH opacities */
if(chemSelection[20] == 1){
// opacOH.name = "OH";
// opacOH.T = dvector(0, NTEMP-1);
// opacOH.P = dvector(0, NPRESSURE-1);
// opacOH.Plog10 = dvector(0, NPRESSURE-1);
// opacOH.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// opacOH.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[23]);
printf("Read OH Opacity done\n");
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.OH[ll];
}
}
// FreeOpacTable(opacOH);
}
/* Fill in PH3 opacities */
if(chemSelection[21] == 1){
// opacPH3.name = "PH3";
// opacPH3.T = dvector(0, NTEMP-1);
// opacPH3.P = dvector(0, NPRESSURE-1);
// opacPH3.Plog10 = dvector(0, NPRESSURE-1);
// opacPH3.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// opacPH3.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[24]);
printf("Read PH3 Opacity done\n");
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.OH[ll];
}
}
// FreeOpacTable(opacPH3);
}
/* Fill in SH opacities */
if(chemSelection[22] == 1){
// opacSH.name = "SH";
// opacSH.T = dvector(0, NTEMP-1);
// opacSH.P = dvector(0, NPRESSURE-1);
// opacSH.Plog10 = dvector(0, NPRESSURE-1);
// opacSH.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// opacSH.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[25]);
printf("Read SH Opacity done\n");
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.OH[ll];
}
}
// FreeOpacTable(opacSH);
}
/* Fill in SiH opacities */
if(chemSelection[23] == 1){
// opacSiH.name = "SiH";
// opacSiH.T = dvector(0, NTEMP-1);
// opacSiH.P = dvector(0, NPRESSURE-1);
// opacSiH.Plog10 = dvector(0, NPRESSURE-1);
// opacSiH.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// opacSiH.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[27]);
printf("Read SiH Opacity done\n");
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.OH[ll];
}
}
// FreeOpacTable(opacSiH);
}
/* Fill in SiO opacities */
if(chemSelection[24] == 1){
// opacSiO.name = "SiO";
// opacSiO.T = dvector(0, NTEMP-1);
// opacSiO.P = dvector(0, NPRESSURE-1);
// opacSiO.Plog10 = dvector(0, NPRESSURE-1);
// opacSiO.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// opacSiO.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[28]);
printf("Read SiO Opacity done\n");
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.OH[ll];
}
}
// FreeOpacTable(opacSiO);
}
/* Fill in SO2 opacities */
if(chemSelection[25] == 1){
// opacSO2.name = "SO2";
// opacSO2.T = dvector(0, NTEMP-1);
// opacSO2.P = dvector(0, NPRESSURE-1);
// opacSO2.Plog10 = dvector(0, NPRESSURE-1);
// opacSO2.kappa = d3tensor(0, NLAMBDA-1, 0, NPRESSURE-1, 0, NTEMP-1);
// opacSO2.abundance = dmatrix(0, NPRESSURE-1, 0, NTEMP-1);
ReadOpacTable(opacSpec, fileArray[26]);
printf("Read SO2 Opacity done\n");
/* Interpolate and add to overall atmos.kappa */
for(ll=0; ll<NTAU; ll++){
Locate(NTEMP, opacSpec.T, atmos.T[ll], &a);
Locate(NPRESSURE, opacSpec.P, atmos.P[ll], &b);
for(i=0; i<NLAMBDA; i++){
atmos.kappa[i][ll] += lint2D(
opacSpec.T[a], opacSpec.T[a+1], opacSpec.P[b], opacSpec.P[b+1],
opacSpec.kappa[i][b][a], opacSpec.kappa[i][b][a+1],
opacSpec.kappa[i][b+1][a], opacSpec.kappa[i][b+1][a+1],
atmos.T[ll], atmos.P[ll])
* atmos.SO2[ll];
}
}
// FreeOpacTable(opacSO2);
}
/* Fill in TiO opacities */
if(chemSelection[26] == 1){
// opacTiO.name = "TiO";