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input.cc
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input.cc
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/**
* @file dragon.cc
* @author Daniele Gaggero, Carmelo Evoli, Pedro De La Torre Luque
* @email [email protected]
* @brief Implementation of the DRAGON class. See the .h file
*/
#include "input.h"
#include "constants.h"
#include "tinyxml.h"
#include "errorcode.h"
#include <string>
#include <stdlib.h>
#include <algorithm>
#include <sstream>
#include <vector>
using namespace std;
vector<double> Input::ReadInjectionStructure(string name, TiXmlElement* el1) {
double result = 1.;
int rho_counter = 0;
vector<double> hold;
while (result > 0) {
stringstream rho_name;
rho_name << name << rho_counter;
result = QueryDoubleAttribute(rho_name.str(),el1);
if (result>0) {
cout << "Reading " << rho_name.str() << " = " << result << endl;
hold.push_back(result);
rho_counter++;
}
}
return hold;
}
int Input::QueryIntAttribute(string obj, TiXmlElement* el) {
TiXmlElement* el1 = el->FirstChildElement(obj);
int result = -1;
if (el1) el1->QueryIntAttribute("value", &result);
return result;
}
int Input::QueryIntAttributeWithDefault(string obj, TiXmlElement* el, int def) {
TiXmlElement* el1 = el->FirstChildElement(obj);
int result = def;
if (el1) el1->QueryIntAttribute("value", &result);
return result;
}
double Input::QueryDoubleAttribute(string obj, TiXmlElement* el) {
TiXmlElement* el1 = el->FirstChildElement(obj);
double result = -1.0;
if (el1) el1->QueryDoubleAttribute("value", &result);
return result;
}
double Input::QueryDoubleAttributeWithDefault(string obj, TiXmlElement* el, double def) {
TiXmlElement* el1 = el->FirstChildElement(obj);
double result = def;
if (el1) el1->QueryDoubleAttribute("value", &result);
return result;
}
string Input::QueryStringAttribute(string obj, TiXmlElement* el) {
TiXmlElement* el1 = el->FirstChildElement(obj);
string result ("error");
if (el1) el1->QueryStringAttribute("value", &result);
return result;
}
int Input::LoadFile(const string inputfilename) {
TiXmlDocument* doc = new TiXmlDocument(inputfilename.c_str());
ringmin = 0;
ringmax = 0;
TiXmlElement* el = NULL;
TiXmlElement* el1 = NULL;
TiXmlElement* el2 = NULL;
if (doc->LoadFile(inputfilename.c_str(), TIXML_DEFAULT_ENCODING)) {
// I/O
el = doc->FirstChildElement("Output");
int found = inputfilename.rfind('/');
if (found == string::npos) found = -1;
filename = string(inputfilename, found+1, inputfilename.size()-4-(found+1));
DontNormalize = false;
DontNormalize = el->FirstChildElement("DontNormalize");
OnlyPrimaries = false;
OnlyPrimaries = el->FirstChildElement("OnlyPrimaries");
partialstore = ( el->FirstChildElement("partialstore") );
fullstore = ( el->FirstChildElement("fullstore") );
if (!(fullstore || partialstore)) cerr << "Warning: your results will not be saved." << endl;
//MW130801
timestepstore = ( el->FirstChildElement("timestepstore") );
feedback = QueryIntAttribute("feedback", el);
// Grid
Rmin = 0.0;
el = doc->FirstChildElement("Grid");
if (el) {el->QueryStringAttribute("type", &gridtype);
el1 = el->FirstChildElement("Observer");
if (el1){
xobs = QueryDoubleAttribute("x", el1);
yobs = QueryDoubleAttribute("y", el1);
zobs = QueryDoubleAttribute("z", el1);
robs = sqrt(xobs*xobs + yobs*yobs);
if (feedback >0) cout << "Observer is sitting at x = " << xobs << " y = " << yobs << " z = " << zobs << endl;
}
else{ //DG28.11.2013
if (feedback >0) cout<<"Using default values for the position of the observer: x = 8.3 kpc; y = 0; z= 0 " << endl;
if (feedback >0) cout<<"You can specify a <Observer> block with x y and z coordinates if you want to change these values" << endl;
xobs = 8.3; yobs = 0.; zobs = 0.; robs=xobs;
//exit(110);
}
Rmax = QueryDoubleAttribute("Rmax", el);
zmax = QueryDoubleAttribute("L", el);
numr = QueryIntAttribute("DimR", el);
numz = QueryIntAttribute("DimZ", el);
dimz_equidistant = true;
el1 = el->FirstChildElement("DimZ_division");
if (el1)
{
dimz_equidistant = false;
el1->QueryStringAttribute("points", &divz);
numz = count(divz.begin(), divz.end(), ';') + 1; //reset dimension
}
if (gridtype == "3D") {
// Matze: nonequidistant z grid
numx = QueryIntAttribute("DimX", el);
dimx_equidistant = true;
el1 = el->FirstChildElement("DimX_division");
if (el1)
{
dimx_equidistant = false;
el1->QueryStringAttribute("points", &divx);
numx = std::count(divx.begin(), divx.end(), ';') + 1;
}
numy = QueryIntAttribute("DimY", el);
dimy_equidistant = true;
el1 = el->FirstChildElement("DimY_division");
if (el1)
{
dimy_equidistant = false;
el1->QueryStringAttribute("points", &divy);
numy = std::count(divy.begin(), divy.end(), ';') + 1;
}
}
else
{
dimr_equidistant = true;
el1 = el->FirstChildElement("DimR_division");
if (el1)
{
dimr_equidistant = false;
el1->QueryStringAttribute("points", &divr);
numr = std::count(divr.begin(), divr.end(), ';') + 1;
}
}
Ekmin = QueryDoubleAttribute("Ekmin", el);
Ekmax = QueryDoubleAttribute("Ekmax", el);
Ekfact = QueryDoubleAttribute("Ekfactor", el);
el1 = el->FirstChildElement("NuclearChain");
if (el1) {
Zmax = QueryIntAttribute("Zmax", el1);
Zmin = QueryIntAttribute("Zmin", el1);
if ( Zmax != 0 ) prop_nuclei = true; else prop_nuclei = false; // CHECK
prop_secap = ( el1->FirstChildElement("PropSecAntiProton") );
prop_secdeuteron = ( el1->FirstChildElement("PropSecAntiDeuteron") );
prop_lep = ( el1->FirstChildElement("PropLepton") );
prop_TPP = ( el1->FirstChildElement("PropTPP") );
prop_extracomp = ( el1->FirstChildElement("PropExtraComponent") );
Kcapture = ( el1->FirstChildElement("Kcapture") );
}
else {
cerr << "You must specify the Nuclear Chain!" << endl;
exit(NONUCCHAIN);
}
DoubleRun = false;
el1 = el->FirstChildElement("DoubleRun");
if (el1) {
DoubleRun = true;
if (feedback >0) cout << "A second iteration of the nuclear chain will be performed in order to take the beta- decays into account properly. " << endl;
}
LB_shape = "Cuboid";
LB_ax = LB_ay = LB_az = -1; //MW: if not set, let grid.cc decide over default values
el1 = el->FirstChildElement("LocalBubble");
if (el1) {
el1->QueryStringAttribute("type", &LB_shape);
LB_ax = QueryDoubleAttribute("SemiX", el1);
LB_ay = QueryDoubleAttribute("SemiY", el1);
LB_az = QueryDoubleAttribute("SemiZ", el1);
LB_smearing = "None";
el2 = el1->FirstChildElement("Smearing");
if (el2) el2->QueryStringAttribute("type", &LB_smearing);
}
}
else {
cerr << "You must specify a GRID!" << endl;
exit(NOGRID);
}
// Algorithm
TESTMODE = false;
el = doc->FirstChildElement("Algorithm");
if (!el) {
cerr << "You did not set specific algorithm. It will be set to default" << endl;
Nrept = 20;
dtfactor = 0.25;
dtmin = 1.e-6;
dtmax = 1.e3;
ADI = false;
OpSplit = true;
tol = 1.e-4;
alpha = 0.09;
}
else {
el1 = el->FirstChildElement("OpSplit");
OpSplit = (el1);
if (OpSplit) {
Nrept = QueryIntAttribute("Nrept", el1);
dtfactor = QueryDoubleAttribute("Dtfactor", el1);
dtmin = QueryDoubleAttribute("Dtmin", el1);
dtmax = QueryDoubleAttribute("Dtmax", el1);
}
el1 = el->FirstChildElement("ADI");
ADI = (el1);
if (ADI) {
tol = QueryDoubleAttribute("Tolerance", el1);
alpha = QueryDoubleAttribute("Alpha", el1);
//MW: not functional at the moment
cerr << "ADI is not functional at the moment! Because of nonequidistant Grid. Greets, Matthias." << endl;
ADI=false;
}
el1 = el->FirstChildElement("TestMode");
if (el1) TESTMODE = true;
else TESTMODE = false;
el1 = el->FirstChildElement("MovingSource");
if (el1) MOVING = true;
else MOVING = false;
if (MOVING) {
source_x0 = QueryDoubleAttribute("x0", el1);
source_y0 = QueryDoubleAttribute("y0", el1);
source_z0 = QueryDoubleAttribute("z0", el1);
source_vx = QueryDoubleAttribute("source_vx", el1);
source_vy = QueryDoubleAttribute("source_vy", el1);
source_vz = QueryDoubleAttribute("source_vz", el1);
}
}
// Galaxy
el = doc->FirstChildElement("Galaxy");
string gmod;
// Gas
el1 = el->FirstChildElement("Gas");
if (el1) el1->QueryStringAttribute("type", &gmod);
if (gmod == "BronfFerr") gas_model = BronfFerr;
else if (gmod == "NS") gas_model = NS;
else if (gmod == "Galprop") gas_model = Galprop;
else if (gmod == "Uniform") gas_model = UniformGas;
else cerr << "Your gas model is not implemented. You chose: " << gmod << endl;
// ISRF
ISRF_model = GalpropISRF; //default value
el1 = el->FirstChildElement("ISRF");
if (el1) el1->QueryStringAttribute("type", &gmod);
if (gmod == "Galprop") ISRF_model = GalpropISRF;
else if (gmod == "Uniform") ISRF_model = UniformISRF;
else {
cout << "implementing the standard Galprop-like ISRF " << endl;
ISRF_model = GalpropISRF;
}
// SNR
el1 = el->FirstChildElement("SNR");
if (el1) el1->QueryStringAttribute("type", &gmod);
else {
cerr << "You have to specify a SNR distribution model" << endl;
exit(NOSNR);
}
if (gmod == "Lorimer") SNR_model = Lorimer;
else if (gmod == "Galprop") SNR_model = Galprop_;
else if (gmod == "Ferriere") SNR_model = Ferriere;
else if (gmod == "CaseBhattacharya") SNR_model = CaseBhattacharya;
else if (gmod == "GiguereKaspi") SNR_model = GiguereKaspi;
else if (gmod == "PointSource"){
SNR_model = PointSource;
pointsrc_x = QueryDoubleAttributeWithDefault("PointX", el1, 0);
pointsrc_y = QueryDoubleAttributeWithDefault("PointY", el1, 0);
pointsrc_z = QueryDoubleAttributeWithDefault("PointZ", el1, 0);
cout <<" PointSource " << pointsrc_x << " " << pointsrc_y << " " << pointsrc_z << endl;
}
else if (gmod == "OneRing") {
SNR_model = Ring;
ringmin = QueryDoubleAttribute("RingMin", el1);
ringmax = QueryDoubleAttribute("RingMax", el1);
if (ringmin >= ringmax) {
cerr << "Please reconsider your settings for the Ring SNR distribution. Ringmin = " << ringmin << " Ringmax = " << ringmax << endl;
exit(PROBRING);
}
}
else if (gmod == "Rings") {
SNR_model = Rings;
rings_period = QueryDoubleAttribute("RingsPeriod", el1);
rings_phase = QueryDoubleAttribute("RingsPhase", el1);
}
else if (gmod == "Blasi") SNR_model = BlasiSmooth;
else if (gmod == "OnlyExtra") //MW130828
{
if(prop_extracomp) SNR_model = OnlyExtra;
}
else {
cerr << "Your SNR model is not implemented. You chose: " << gmod << endl;
exit(SNRMODEL);
}
// SNR - extra component
el1 = el->FirstChildElement("SNR_Extra");
if (el1)
{
el1->QueryStringAttribute("type", &gmod);
if (gmod == "Lorimer") SNR_model_Extra = Lorimer;
else if (gmod == "Ferriere") SNR_model_Extra = Ferriere;
else if (gmod == "CaseBhattacharya") SNR_model_Extra = CaseBhattacharya;
else if (gmod == "GiguereKaspi") SNR_model_Extra = GiguereKaspi;
else if (gmod == "PointSource"){
SNR_model_Extra = PointSource;
pointsrc_Extra_x = QueryDoubleAttributeWithDefault("PointX", el1, 0);
pointsrc_Extra_y = QueryDoubleAttributeWithDefault("PointY", el1, 0);
pointsrc_Extra_z = QueryDoubleAttributeWithDefault("PointZ", el1, 0);
cout <<"SNR_Extra" << " " << SNR_model_Extra << " " << pointsrc_Extra_x << " " << pointsrc_Extra_y << " " << pointsrc_Extra_z << endl;
}
else if (gmod == "Ring") {
SNR_model_Extra = Ring;
ringmin_extra = QueryDoubleAttribute("RingMin", el1);
ringmax_extra = QueryDoubleAttribute("RingMax", el1);
if (ringmin_extra >= ringmax_extra) {
cerr << "Please reconsider your settings for the Ring SNR distribution for the extra component. Ringmin = " << ringmin_extra << " Ringmax = " << ringmax_extra << endl;
exit(PROBRING);
}
}
else if (gmod == "Blasi") SNR_model_Extra = BlasiSmooth;
else {
cerr << "Your SNR model for the extra component is not implemented. You chose: " << gmod << endl;
}
}
else {
if(SNR_model == OnlyExtra)
{
cerr << "You have to specify a SNR distribution model. You chose OnlyExtra but then gave no extra component." << endl;
exit(NOSNR);
}
}
// XCO
el1 = el->FirstChildElement("XCOmode");
if (el1) el1->QueryStringAttribute("type", &gmod);
else {
cerr << "You have to specify a XCO distribution model" << endl;
exit(NOXCO);
}
if (gmod == "SM96") xco_mode = SM96; //Strong And Mattox 1996 -- constant value equal to 1.9 in standard units
else if (gmod == "galprop_2004") xco_mode = galprop_2004;
else if (gmod == "galprop_2010") xco_mode = galprop_2010;
else if (gmod == "constant") {
xco_mode = constant;
xco_constant = QueryDoubleAttribute("XCO_constant", el1);
}
else if (gmod == "dragon") {
xco_mode = dragon;
xco_inner = QueryDoubleAttribute("XCO_inner", el1);
xco_outer = QueryDoubleAttribute("XCO_outer", el1);
}
else {
cerr << "Your XCO model is not implemented. You chose: " << gmod << endl;
exit(XCOMODEL);
}
// Diffusion
el1 = el->FirstChildElement("Diffusion");
if (el1)
{
DiffT = Isotropic;
el2 = el1->FirstChildElement("AnisotropicDiffusion");
if (el2) {
DiffT = Anisotropic;
Dpar = QueryDoubleAttribute("DPar_1e28", el2)*1.e28/kpc/kpc*Myr;
etaTpar = QueryDoubleAttribute("etaTPar", el2);
DeltaPar = QueryDoubleAttribute("DeltaPar", el2);
Dperp = QueryDoubleAttribute("DPerp_1e28", el2)*1.e28/kpc/kpc*Myr;
etaTperp = QueryDoubleAttribute("etaTPerp", el2);
DeltaPerp = QueryDoubleAttribute("DeltaPerp", el2);
}
el1->QueryStringAttribute("type", &gmod);
if (gmod == "Constant") set_profile = Constant;
else if (gmod == "Exp") set_profile = Exp;
else if (gmod == "Blasi") set_profile = Blasi;
else if (gmod == "Expr") set_profile = Expr;
else if (gmod == "Qtau") set_profile = Qtau;
else if (gmod == "Test") set_profile = Test;
else if (gmod == "ExpRadial") set_profile = ExpRadial;
else {
cerr << "Your Diffusion model is not implemented. You chose: " << gmod << endl;
exit(DIFFMODEL);
}
D0 = QueryDoubleAttribute("D0_1e28", el1)*1.e28/kpc/kpc*Myr;
D_ref_rig = QueryDoubleAttribute("DiffRefRig", el1);
delta = QueryDoubleAttribute("Delta", el1);
delta_h = QueryDoubleAttribute("Delta_h", el1);
if(delta_h==-1) delta_h = delta; //default value
VariableDelta = QueryIntAttributeWithDefault("VariableDelta",el1,0);
diff_threshold = QueryDoubleAttributeWithDefault("DiffusionThreshold",el1,11.);
if (VariableDelta == 1) {
delta_A = QueryDoubleAttributeWithDefault("deltaA",el1,0.);
delta_B = QueryDoubleAttributeWithDefault("deltaB",el1,delta);
}
rho_b = QueryDoubleAttribute("rho_b", el1);
if(rho_b==-1) rho_b = 1000.; //default value
zt = QueryDoubleAttribute("zt", el1);
etaT = QueryDoubleAttribute("etaT", el1);
index_radial = QueryDoubleAttribute("index_radial", el1);
if(index_radial==-1) index_radial = 0; //default value
}
else {
cerr << "No Diffusion " << gmod << endl;
exit(DIFFMODEL);
}
// Reacceleration
el1 = el->FirstChildElement("Reacceleration");
if (!el1) REACC = false;
else {
REACC = true;
el1->QueryStringAttribute("type", &gmod);
if (gmod == "Ptuskin94") diff_reacc = Ptuskin94;
else if (gmod == "Ptuskin03") diff_reacc = Ptuskin03;
else {
cerr << "Your Reacceleration model is not implemented. You chose: " << gmod << endl;
exit(REACCMODEL);
}
// cout << QueryDoubleAttribute("vA_kms", el1) << endl;
vAlfven = QueryDoubleAttribute("vA_kms", el1)*km*Myr/kpc;
}
// Convection
el1 = el->FirstChildElement("Convection");
if (!el1) CONVECTION = false;
else {
//f_b = 0;//default value
//z_k =0.1;//default value
conv_index_radial = 0; //default value
conv_threshold = 0;//default value
CONVECTION = true; //
el1->QueryStringAttribute("type", &gmod);
if (gmod == "Constant") set_profile_conv = Constant;
else if (gmod == "Radial") set_profile_conv = Radial;
else set_profile_conv = Constant;
//
v0 = QueryDoubleAttribute("v0_kms", el1)*km*Myr/kpc;
//f_b = QueryDoubleAttribute("f_b", el1);
//if(f_b == -1) f_b = 0; //default value
//vb=v0*f_b;
//
//DG28.11.2013 solved little bug pointed out by Simon
f_b = QueryDoubleAttributeWithDefault("f_b", el1, 1.);
vb=v0*f_b;
//z_k = QueryDoubleAttribute("z_k_kpc", el1);
//if(z_k == -1) z_k =0.1; //default value
z_k = QueryDoubleAttributeWithDefault("z_k_kpc", el1, 0.1);
//
dvdz = QueryDoubleAttribute("dvdz_kmskpc", el1)*km*Myr/kpc;
conv_index_radial = QueryDoubleAttribute("conv_index_radial",el1);
if(conv_index_radial == -1) conv_index_radial = 0; //default value
conv_threshold = QueryDoubleAttribute("conv_threshold",el1);
if(conv_threshold == -1) conv_threshold = 0; //default value
}
if (feedback >0) cout << "Convection settings read " << endl;
// Magnetic field
string bf;
el1 = el->FirstChildElement("MagneticField");
if (!el1) cerr << "You did not specify a magnetic field model. A null magnetic field will be used." << endl;
else {
el1->QueryStringAttribute("type", &bf);
if (bf == "Pshirkov") BM = Pshirkov;
//else if (bf == "Azimuthal") BM = Azimuthal;
//else if (bf == "Spiral") BM = Spiral;
//else if (bf == "Prouda") BM = Prouda;
//else if (bf == "Wmap") BM = Wmap;
else if (bf == "Farrar") BM = Farrar;
else if (bf == "Uniform") BM = Uniform;
else if (bf == "Simple") BM = Simple;
//else if (bf == "Tkachev") BM = Tkachev;
else if (bf == "ToyModel") { BM = ToyModel; //useful to test anisotropic diffusion
cout << "ToyModel mag field selected in input file" << endl;
}
else {
cerr << "Your specified Magnetic Field model " << bf << " has not been implemented yet." << endl;
exit(NO_BMODEL);
}
B0disk = QueryDoubleAttribute("B0disk", el1);
B0halo = QueryDoubleAttribute("B0halo", el1);
B0turb = QueryDoubleAttribute("B0turb", el1);
if (feedback >0) cout << "B0 disk/halo/turb = " << B0disk << " " << B0halo << " " << B0turb << endl;
betaFarrar = QueryDoubleAttribute("betaFarrar", el1);
b0 = QueryDoubleAttribute("b0", el1);
if(b0 == -1) b0=6.1e-6; //default value
if (bf == "ToyModel") {
bx = QueryDoubleAttributeWithDefault("bx", el1, 1.e-6);
by = QueryDoubleAttributeWithDefault("by", el1, 0.);
bz = QueryDoubleAttributeWithDefault("bz", el1, 0.);
bturb = QueryDoubleAttributeWithDefault("bturb", el1, 0.);
}
}
el1 = el->FirstChildElement("CrossSection");
if (el1) {
el1->QueryStringAttribute("type", &gmod);
if (gmod == "GalpropXSec") spallationxsec = GalpropXSec;
else if (gmod == "Webber03") spallationxsec = Webber03;
else if (gmod == "DRAGON2") spallationxsec = DRAGON2;
else if (gmod == "Fluka") {
spallationxsec = Fluka;
// cout << "Fluka E grid " << Ekmin << " " << Ekmax << endl;
// Ekfact = pow(10., 1./16.);
// if(Ekmin <= 0.01) {
// Ekmin = 0.01;
// } else {
// int iemin = int(log10(Ekmin/0.01)*16.);
// Ekmin = 0.01*pow(10., float(iemin)/16.);
// }
// if(Ekmax >= 0.01*pow(Ekfact, 160.)){
// Ekmax = 0.01*pow(Ekfact, 160.);
// } else {
// int iemax = int(log10(Ekmax/0.01)*16.)+1;
// if(iemax>160) {
// iemax = 160;
// }
// cout << "iemax = " << iemax << endl;
// Ekmax = 0.01*pow(10., float(iemax)/16.);
// }
// cout << "Fluka E grid " << Ekmin << " " << Ekmax << endl;
}
else {
cerr << "Your cross section model has not been implemented yet. You chose " << gmod << endl;
//exit(XSECMODEL);
cerr << "Setting the default XSec model: DRAGON2 algorithm" << endl;
spallationxsec = DRAGON2;
}
el1->QueryStringAttribute("leptopt", &gmod);
if (gmod == "GalpropTable") ly = GalpropTable;
else if (gmod == "Kamae") ly = Kamae;
else if (gmod == "Pohl") ly = Pohl;
else if (gmod == "Fluka") ly = FlukaLep;
else {
if (feedback >0) cout << "You did not choose any lepton yield. It will be set to Kamae." << endl;
ly = Kamae;
}
el1->QueryIntAttribute("ApCs", &antiproton_cs);
//antiproton_cs = QueryIntAttribute("ApCs", el);
if ( antiproton_cs != 2 ){
cout<<"ApCs value not valid!"<<endl;
exit(111);
}
el1->QueryStringAttribute("apopt", &gmod);
if (gmod == "GalpropFunction") apy = GalpropFunction;
else if (gmod == "QGSJET") apy = QGSJET; // M.Kachelriess, S.Ostapchenko, submitted to PRD
else if (gmod == "Fluka") apy = FlukaAp;
else if (gmod == "Winkler") apy = Winkler;
else {
if (feedback >0) cout << "You did not choose any antiproton yield. It will be set to Winkler." << endl;
apy = Winkler;
}
}
else {
cerr << "You have to choose a Cross section model." << endl;
exit(NOXSEC);
}
// Matthias: factors for Local Bubble and Spiral Arms
el1 = el->FirstChildElement("LocalBubble");
LB_diff = LB_delta = LB_convec = LB_vA = LB_source = LB_DMsource = LB_gastotal = LB_gasH2 = LB_gasHI = LB_gasHII = LB_MagField = LB_ISRF = 1;
if(el1)
{
LB_diff = QueryDoubleAttributeWithDefault("FactorDiffCoeff" , el1, 1);
LB_delta = QueryDoubleAttributeWithDefault("FactorDiffDelta" , el1, 1); //MW: not implemented yet!
LB_convec = QueryDoubleAttributeWithDefault("FactorConvection" , el1, 1);
LB_vA = QueryDoubleAttributeWithDefault("FactorReaccCoeff" , el1, 1);
LB_source = QueryDoubleAttributeWithDefault("FactorSource" , el1, 1);
LB_DMsource = QueryDoubleAttributeWithDefault("FactorDMSource" , el1, 1);
LB_gastotal = QueryDoubleAttributeWithDefault("FactorGasTotal" , el1, 1);
LB_gasH2 = QueryDoubleAttributeWithDefault("FactorGasH2" , el1, 1);
LB_gasHI = QueryDoubleAttributeWithDefault("FactorGasHI" , el1, 1);
LB_gasHII = QueryDoubleAttributeWithDefault("FactorGasHII" , el1, 1);
LB_MagField = QueryDoubleAttributeWithDefault("FactorMagneticField", el1, 1);
LB_ISRF = QueryDoubleAttributeWithDefault("FactorISRF" , el1, 1);
}
SA_type = "None";
el1 = el->FirstChildElement("SpiralArms");
SA_diff = SA_convec = SA_vA = SA_source = SA_DMsource = SA_gasH2 = SA_gasHI = SA_gasHII = SA_MagField = SA_ISRFStar = SA_ISRFDust = 0;
SA_cut_diff = SA_cut_convec = SA_cut_vA = 100;
SA_cut_source = SA_cut_DMsource = SA_cut_gasH2 = SA_cut_gasHI = SA_cut_gasHII = SA_cut_MagField = SA_cut_ISRF = 1e16;
//MW130625: have to separate ISRF contribution: Starlight and Dust
if(el1)
{
el1->QueryStringAttribute("type", &SA_type); //"CII" or "NII", or "None"
//MW130623: Trying to coin these powers "Kappa"
SA_diff = QueryDoubleAttributeWithDefault("KappaDiffCoeff" , el1, 0);
SA_convec = QueryDoubleAttributeWithDefault("KappaConvection" , el1, 0);
SA_vA = QueryDoubleAttributeWithDefault("KappaReaccCoeff" , el1, 0);
SA_source = QueryDoubleAttributeWithDefault("KappaSource" , el1, 0);
SA_DMsource = QueryDoubleAttributeWithDefault("KappaDMSource" , el1, 0);
SA_gasH2 = QueryDoubleAttributeWithDefault("KappaGasH2" , el1, 0);
SA_gasHI = QueryDoubleAttributeWithDefault("KappaGasHI" , el1, 0);
SA_gasHII = QueryDoubleAttributeWithDefault("KappaGasHII" , el1, 0);
SA_MagField = QueryDoubleAttributeWithDefault("KappaMagneticField", el1, 0);
SA_ISRFStar = QueryDoubleAttributeWithDefault("KappaISRFStarlight", el1, 0);
SA_ISRFDust = QueryDoubleAttributeWithDefault("KappaISRFDust" , el1, 0);
SA_cut_diff = QueryDoubleAttributeWithDefault("CutDiffCoeff" , el1, 100);
SA_cut_convec = QueryDoubleAttributeWithDefault("CutConvection" , el1, 100);
SA_cut_vA = QueryDoubleAttributeWithDefault("CutReaccCoeff" , el1, 100);
SA_cut_source = QueryDoubleAttributeWithDefault("CutSource" , el1, 1e16);
SA_cut_DMsource = QueryDoubleAttributeWithDefault("CutDMSource" , el1, 1e16);
SA_cut_gasH2 = QueryDoubleAttributeWithDefault("CutGasH2" , el1, 1e16);
SA_cut_gasHI = QueryDoubleAttributeWithDefault("CutGasHI" , el1, 1e16);
SA_cut_gasHII = QueryDoubleAttributeWithDefault("CutGasHII" , el1, 1e16);
SA_cut_MagField = QueryDoubleAttributeWithDefault("CutMagneticField", el1, 1e16);
SA_cut_ISRF = QueryDoubleAttributeWithDefault("CutISRF" , el1, 1e16);
if (SA_type == "Daniele" || SA_type == "Blasi" || SA_type == "BlasiModel") {
num_arms = QueryIntAttribute("NumArms", el1);
spiral_width = QueryDoubleAttributeWithDefault("SpiralWidth", el1, 0.4);
cout << "You specified a spiral arm structure! " << endl;
for (int i_arms = 0; i_arms < num_arms; i_arms++)
{
ostringstream Kstring, r0string, theta0string;
Kstring << "K_" << i_arms+1;
r0string << "r0_" << i_arms+1;
theta0string << "theta0_" << i_arms+1;
arms_Kvec.push_back( QueryDoubleAttribute(Kstring.str().c_str(), el1) );
arms_r0vec.push_back( QueryDoubleAttribute(r0string.str().c_str(), el1) );
arms_theta0vec.push_back( QueryDoubleAttribute(theta0string.str().c_str(), el1) );
cout << "Arm number " << i_arms << " K = " << arms_Kvec.back() << " r0 = " << arms_r0vec.back() << " theta0 = " << arms_theta0vec.back() << endl;
}
}
}
// Flags fk 130701
el = doc->FirstChildElement("Flags");
DIFFUSION = (el) ? QueryIntAttribute("diff_flag", el) : true;
CONVECTION = (el) ? QueryIntAttribute("conv_flag", el) : CONVECTION;
REACC = (el) ? QueryIntAttribute("reacc_flag", el) : REACC;
ELOSS = (el) ? QueryIntAttribute("eloss_flag", el) : true;
RDECAY = (el) ? QueryIntAttribute("decay_flag", el) : true;
SPALL = (el) ? QueryIntAttribute("spall_flag", el) : true;
if(!DIFFUSION)
{
D0 = 0.; // for D0=0 there is no diffusion
REACC = 0; // diffusive Reacceleration makes no sense without Diffusion
}
// Cosmic Rays
el = doc->FirstChildElement("CR");
if (!el) {
cerr << "You must set CR properties." << endl;
exit(NOCR);
}
else {
el->QueryStringAttribute("type", &gmod);
if (gmod == "PowerLawBreak") Spectrum = PowerLawBreak;
else if (gmod == "ExpSuppressed") Spectrum = ExpSuppressed;
else {
if (feedback >0) cout << "You did not choose any spectral shape. It will be set to PowerLawBreak." << endl;
Spectrum = PowerLawBreak;
}
// DG30.09.2013 NEW implementation of injection slopes for the nuclei and electrons with arbitrary number of breaks
// Nuclear slopes and break positions (arbitrary number of breaks)
UseInjectionIndexAllNuclei = false;
if (prop_nuclei==true) {
el1 = el->FirstChildElement("InjectionIndexAllNuclei");
if (!el1){
if (feedback >0) cout << "You did not specify an InjectionIndexAllNuclei, using .source.param values." << endl;
}
else if (el1) {
UseInjectionIndexAllNuclei = true;
cout << "Using the same injection index for all species from xml file " << endl;
inp_break_positions = ReadInjectionStructure("rho_", el1);
inp_inj_indexes = ReadInjectionStructure("alpha_", el1);
cutoff_rig = QueryDoubleAttribute("CutoffRig",el1);
}
}
//Electron slopes and break positions (arbitrary number of breaks)
if (prop_lep==true) {
el1 = el->FirstChildElement("InjectionIndexElectrons");
if (!el1) {
cerr << "You must set electron injection properties." << endl;
exit(NOCR);
}
else {
inp_break_el_positions = ReadInjectionStructure("rho_", el1);
inp_inj_el_indexes = ReadInjectionStructure("alpha_", el1);
cout << "+++ Electron indexes +++" << endl;
for (int i=0; i<inp_inj_el_indexes.size(); i++)
cout << inp_inj_el_indexes[i] << " "<<endl;
cout << endl;
cutoff_rig_el = QueryDoubleAttributeWithDefault("CutoffRigEl",el1, 1.e12);
cout << "electron cutoff at " << cutoff_rig_el << endl;
}
}
//ExtraComponent slopes and break positions (arbitrary number of breaks)
if (prop_extracomp==true) {
el1 = el->FirstChildElement("InjectionIndexExtraComponent");
if (!el1) {
cerr << "You must set extra component injection properties." << endl;
exit(NOCR);
}
else {
inp_break_extra_positions = ReadInjectionStructure("rho_", el1);
inp_inj_extra_indexes = ReadInjectionStructure("alpha_", el1);
cout << "+++ Extra component indexes +++" << endl;
for (int i=0; i<inp_inj_extra_indexes.size(); i++)
cout << inp_inj_extra_indexes[i] << " "<<endl;
cout << endl;
cutoff_rig_extra = QueryDoubleAttributeWithDefault("CutoffRigExtra",el1, 1.e12);
cout << "extra component cutoff at " << cutoff_rig_extra << endl;
}
}
//Normalization energies and corresponding fluxes
cutoff_rig = QueryDoubleAttribute("CutoffRig",el);
sp_ref_rig_norm = QueryDoubleAttribute("ProtNormEn_GeV", el);
sp_ref_rig_el = QueryDoubleAttribute("ElNormEn_GeV", el);
sp_ref_rig_el_extra = QueryDoubleAttribute("ElNormEnExtra_GeV", el);
cout << "norm energy of the extra component = " << sp_ref_rig_el_extra << endl;
spect_norm = QueryDoubleAttribute("ProtNormFlux", el);
spect_norm_el = QueryDoubleAttribute("ElNormFlux", el);
spect_norm_el_extra = QueryDoubleAttribute("ElNormFluxExtra", el);
cout << "norm energy of the extra component = " << spect_norm_el_extra << endl;
//Add the possibility to put a exp cutoff again and reorder this stuff (DG) -----------------------
//sp_ref_rig = QueryDoubleAttribute("NucRigBreak", el);
//sp_ref_rig_exp_el = QueryDoubleAttribute("ElRigExp", el);;
//sp_ref_rig_exp = QueryDoubleAttribute("NucRigExp", el);
//exp_cut_index_el = QueryDoubleAttribute("ExpCutIndexEl", el);
//cutoff_rig = QueryDoubleAttribute("ElCutoffRig", el);
//spect_ind_el_low = QueryDoubleAttribute("ElSpect_index_below_Rig", el);
//spect_ind_el = QueryDoubleAttribute("ElSpect_index_above_Rig", el);
//sp_ref_rig_break_el = QueryDoubleAttribute("ElBreakRig", el);
//-------------------------------------------------------------------------------------------------
//This is for the extra component
//spect_ind_el_low_extra = QueryDoubleAttribute("ElSpect_index_below_RigExtra", el);
// spect_ind_el_extra = QueryDoubleAttribute("ElSpect_index_above_RigExtra", el);
// sp_ref_rig_break_el_extra = QueryDoubleAttribute("ElBreakRigExtra", el);
// cutoff_rig_extra = QueryDoubleAttribute("ElCutoffRigExtra", el);
sourcedata = string(inputfilename, 0, inputfilename.size()-4);
sourcedata += ".source.param";
//cout << "Check sourcedata: " << sourcedata << endl;
//antiproton_cs = QueryIntAttribute("ApCs", el);
//scaling = ( el->FirstChildElement("Scaling") );
}
el = doc->FirstChildElement("DarkMatter");
//if (!el) cerr << "You did not set DM properties." << endl;
if (el) {
el1 = el->FirstChildElement("MovingClump");
if (el1) MOVING_CLUMP = true;
else MOVING_CLUMP = false;
if (MOVING_CLUMP) {
clump_x0 = QueryDoubleAttribute("clump_x0", el1);
clump_y0 = QueryDoubleAttribute("clump_y0", el1);
clump_z0 = QueryDoubleAttribute("clump_z0", el1);
clump_vx = QueryDoubleAttribute("clump_vx", el1);
clump_vy = QueryDoubleAttribute("clump_vy", el1);
clump_vz = QueryDoubleAttribute("clump_vz", el1);
clump_norm = QueryDoubleAttribute("clump_norm", el1);
clump_size = QueryDoubleAttributeWithDefault("clump_size", el1, 0.1);
clump_inj = QueryDoubleAttribute("clump_inj", el1);
clump_cutoff = QueryDoubleAttribute("clump_cutoff", el1);
clump_deltat = QueryDoubleAttribute("clump_deltat",el1);
analytical_refinement = ( el1->FirstChildElement("AnalyticalRefinement") );
stop_after_timestep = QueryDoubleAttributeWithDefault("StopAfterTimestep",el1,-1);
cout << "I read all the MOVING CLUMP parameters " << endl;
//if (gmod == "Delta") DMs = Delta;
}
propDM = true;
prop_DMap = ( el->FirstChildElement("PropDMAntiProton") );
prop_DMdeuteron = ( el->FirstChildElement("PropDMAntiDeuteron") );
prop_DMel = ( el->FirstChildElement("PropDMLepton") );
mx = QueryDoubleAttribute("Mass", el);
taudec = QueryDoubleAttribute("LifeTime", el);
sigmav = QueryDoubleAttribute("SigmaV", el);
rhos = QueryDoubleAttribute("SSDensity", el);
EkDelta = QueryDoubleAttribute("EkDelta", el);
dmmode = QueryIntAttribute("Channel", el);
el->QueryStringAttribute("Profile", &gmod);
if (gmod == "Iso") dmprof = ISO;
else if (gmod == "NFW") dmprof = NFW;
else if (gmod == "Kra") dmprof = Kra;
else if (gmod == "Moore") dmprof = Moore;
else if (gmod == "Einasto") dmprof = Einasto;
else {
cerr << "Your choice of DM density profile was not implemented. You chose: " << gmod << endl;
exit(NODMPROFILE);
}
el->QueryStringAttribute("Reaction", &gmod);
if (gmod == "Annihilation") DMr = Annihilation;
else if (gmod == "Decay") DMr = Decay;
else {
cerr << "Your choice of DM reaction was not implemented. You chose: " << gmod << endl;
exit(NODMREACTION);
}
el->QueryStringAttribute("Model", &gmod);
if (gmod == "Delta") {DMs = Delta; cout << "delta injection! " <<endl;}
else if (gmod == "DarkSUSY") DMs = DarkSUSY;
else if (gmod == "EWCorrections") {
#ifdef HAVE_ROOT
DMs = EWCorrections;
#else
cerr << "You must compile with ROOT support to use EW Corrections." << endl;
exit(NO_ROOT_EWCORRECTIONS);
#endif
}
else if (gmod == "SelfTable") {
DMs = SelfTable;
if (prop_DMap){cout<<"Using user defined table for DM ap"<<endl;
//el->QueryStringAttribute("AntiprotonDatafile", &MySelfTableDMap);cout<<MySelfTableDMap.c_str()<<endl;}
MySelfTableDMap = QueryStringAttribute("AntiprotonDatafile", el);cout<<MySelfTableDMap.c_str()<<endl;}
if (prop_DMdeuteron)
//el->QueryStringAttribute("AntideuteronDatafile", &MySelfTableDMdbar);
MySelfTableDMdbar = QueryStringAttribute("AntideuteronDatafile", el);
if (prop_DMel){cout<<"Using user defined table for DM leptons"<<endl;
//el->QueryStringAttribute("LeptonDatafile", &MySelfTableDMel);cout<<MySelfTableDMel.c_str()<<endl;}
MySelfTableDMel = QueryStringAttribute("LeptonDatafile", el);cout<<MySelfTableDMel.c_str()<<endl;}
}
else {
cerr << "Your choice of DM model was not implemented. You chose: " << gmod << endl;
exit(NODMMODEL);
}
}
else {
propDM = false;
prop_DMap = false;
prop_DMdeuteron = false;
prop_DMel = false;
}
prop_ap = (prop_secap || prop_DMap);
prop_deuteron = (prop_secdeuteron || prop_DMdeuteron);
//prop_el = (prop_secel || prop_DMel || prop_TPP);
// Simon: DMCMC ************************************
el = doc->FirstChildElement("DMCMC");
write_flag=0;
fit_mod=0;
if (el){
el1 = el->FirstChildElement("run_id");
if (el1) {
el1->QueryStringAttribute("type", &gmod);
run_id = gmod;
}
write_flag = QueryIntAttribute("write_flag", el);
fit_mod = QueryIntAttribute("fit_mod", el);
}
// end DMCMC ****************************************
}
else {
cerr << "Problems with the input file " << inputfilename << endl;
exit(PROBINPUT);
}
delete doc;
cout << "Input file read successfully!" << endl;
return 0;
}
void Input::Print() {
cout << endl;
cout << "*******************************************************" << endl;
cout << "*******************************************************" << endl;
cout << "Settings are " << endl;
cout << "Delta E / E = " << Ekfact << endl;
cout << "Ekmax = " << Ekmax << endl;
cout << "Ekmin = " << Ekmin << endl;
cout << "Dimension of R grid = " << numr << endl;
cout << "Dimension of X grid = " << numx << endl;
cout << "Dimension of Y grid = " << numy << endl;
cout << "Dimension of Z grid = " << numz << endl;
cout << "Rmin = " << Rmin << endl;
cout << "Rmax = " << Rmax << endl;
cout << "Zmax = " << zmax << endl;
cout << "Grid type = " << gridtype << endl;
// Limits for the nuclear chain
cout << "Maximal propagated charge = " << Zmax << endl;
cout << "Minimal propagated charge = " << Zmin << endl;
cout << "Whether to propagate antiprotons " << prop_ap << endl;
cout << "Whether to propagate antideuterons " << prop_deuteron << endl;
cout << "Whether to propagate electrons and positrons " << prop_lep << endl;
cout << "Whether to include K-capture " << Kcapture << endl;
// I/O
cout << "Fullstore " << fullstore << endl;
cout << "Partial store " << partialstore << endl;
cout << "Run name " << filename << endl;
// Algorithm
cout << "Nrept = " << Nrept << endl;
cout << "Dt factor = " << dtfactor << endl;
cout << "Dt min = " << dtmin << endl;
cout << "Dt max = " << dtmax << endl;
cout << "ADI? " << ADI << endl;
cout << "OpSplit? " << OpSplit << endl;
cout << "Tol = " << tol << endl;
cout << "Alpha = " << alpha << endl;
// Galaxy
cout << "GasType = " << gas_model << endl;
cout << "SNRType = " << SNR_model << endl;
cout << "xco_modes = " << xco_mode << endl;
cout << "Ringmin = " << ringmin << endl;
cout << "Ringmax = " << ringmax << endl;