globals.h
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#ifndef GLOBALS_H
#define GLOBALS_H
#include <vector>
#include <string>
#include <iostream>
#include "PerformanceData.h"
#include <complex>
using namespace std;
typedef float rtsFloat;
struct SpecPair {
double nu;
double A;
};
struct Material {
vector<double> nu;
vector<complex<double> > eta;
bool validN;
bool validK;
string name;
};
enum SpecType {AbsorbanceSpecType, IntensitySpecType};
enum OpticsType {TransmissionOpticsType, ReflectionOpticsType};
extern PerformanceData PD;
extern vector<vector<SpecPair> > RefSpectrum;
extern int currentSpec;
extern vector<SpecPair> SimSpectrum;
//IO Functions
vector<SpecPair> LoadSpectrum(string filename);
vector<SpecPair> SetReferenceSpectrum(char* text);
void SaveState();
void LoadState();
void SetDefaults();
void SaveSimulation(string fileName);
//void SaveK(string fileName);
void SaveMaterial(string fileName);
//void LoadMaterial(string fileNameK, string fileNameN, string materialName);
void LoadMaterial(string fileName, string materialName);
//Display Functions
void FitDisplay();
//Update Functions
void UpdateDisplay();
void SimulateSpectrum();
void cudaKramersKronig(double* cpuN, double* cpuK, int nVals, double nuStart, double nuEnd, double nOffset);
void cudaComputeSpectrum(double* cpuI, double* cpuB, double* alpha,
int Nl, int nLambda, double oThetaI, double oThetaO, double cThetaI, double cThetaO, int nSamples);
//Window Parameters
extern double nuMin; //wavenumbers
extern double nuMax;
extern double aMin; //absorbance
extern double aMax;
extern double dNu;
extern double nMag; //largest magnitude for n
extern double kMax; //highest extinction coefficient
extern bool dispRefSpec;
extern bool dispSimSpec;
extern bool dispSimK;
extern bool dispMatK;
extern bool dispSimN;
extern bool dispMatN;
extern SpecType dispSimType;
extern bool dispNormalize;
extern double dispNormFactor;
extern double dispScaleK;
extern double dispScaleN;
//material parameters
extern double radius;
extern double baseIR;
extern double cA;
extern vector<SpecPair> EtaK;
extern vector<SpecPair> EtaN;
extern bool applyMaterial;
extern vector<Material> MaterialList;
extern int currentMaterial;
void ChangeAbsorbance();
void SetMaterial();
//source parameters
extern vector<SpecPair> SourceSpectrum;
extern vector<SpecPair> SourceResampled;
void ResampleSource(); //resample a source profile to match the sample points of the current material
extern bool useSourceSpectrum;
//optical parameters
extern double cNAi;
extern double cNAo;
extern double oNAi;
extern double oNAo;
extern OpticsType opticsMode;
extern bool pointDetector;
extern int objectiveSamples;
//fitting parameters
extern double minMSE;
extern int maxFitIter;
void EstimateMaterial();
extern double scaleI0;
extern double refSlope;
//distortion maps
double ComputeDistortion();
void DistortionMap(float* distortionMap, double minIn, double maxIn, double minOut, double maxOut, int nSteps, std::string filename);
#endif