processing.h

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/****************************************************************************************
 * SCYLLARUS : C++ HYPERSPECTRAL PROCESSING LIBRARY
 * processing.h - Hyperspectral Image processing methods.
 *
 * This computer code is subject to copyright: 
 * (c) National ICT Australia Limited (NICTA) 2013-2014 All Rights Reserved.
 * 
 * Jeremy Oorloff, National ICT Australia (NICTA)
 *
 ***************************************************************************************/

#ifndef PROCESSING_H_
#define PROCESSING_H_

#include <armadillo>
#include <opencv2/opencv.hpp>
#include <opencv2/core/core.hpp>
#include <opencv2/highgui/highgui.hpp>
#include <opencv2/ml/ml.hpp>
#include <string>

#include "logger.h"
#include "utility.h"
#include "image_utilities.h"
#include "op_node.h"

namespace scyl
{

    arma::fmat mix_spectra_vec(const arma::fvec & abundances,
                               const arma::fvec & end_members,
                                     bool   normalise=true);

    arma::fvec wavelength_subset(const arma::fvec & set,
                                 const arma::fvec & bounds);

    // Analysis Algorithms
    void pca(const arma::fcube & I,
                   arma::fcube & principal_components,
                    arma::fvec & eigenvalues,
                           int   num_components=10,
                         float   threshold=0.001);

    // Classification Algorithms

    void unmix_by_spectra(const arma::fcube & I,
                           const arma::fvec & wavelengths,
                           const arma::fmat & spectra,
                           const arma::fvec & spectra_waves,
                                arma::fcube & abundances,
                                arma::ucube & indices,
                                        int   num_materials=5);

    void sam(const arma::fcube & I,
              const arma::fvec & wavelengths,
              const arma::fmat & spectra,
              const arma::fvec & spectra_waves,
                   arma::fcube & angles,
                   arma::ucube & indices,
                           int   num_materials=5);

    void svm(const arma::fcube & I,
              const arma::fvec & wavelengths,
              const arma::fmat & spectra,
              const arma::fvec & spectra_waves,
              const arma::uvec & spectra_labels,
                    arma::umat & indices);

    arma::fcube spectral_derivative(const arma::fcube & I,
                                     const arma::fvec & wavelengths);

    arma::fmat band_maths(std::vector<const arma::fcube *> images, std::string expression);


}

#endif /* PROCESSING_H_ */