recons_misc.h

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/***************************************************************************
 *
 * Authors:     Carlos Oscar S. Sorzano (coss@cnb.csic.es)
 *
 * Unidad de  Bioinformatica of Centro Nacional de Biotecnologia , CSIC
 *
 * This program 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 2 of the License, or
 * (at your option) any later version.
 *
 * This program 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 this program; if not, write to the Free Software
 * Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA
 * 02111-1307  USA
 *
 *  All comments concerning this program package may be sent to the
 *  e-mail address 'xmipp@cnb.csic.es'
 ***************************************************************************/

#ifndef _RECONS_MISC_HH
#define _RECONS_MISC_HH

#include "data/grids.h"
#include "core/multidim_array.h"
#include "core/multidim_array.h"

class MetaDataVec;
class SymList;
class BasicARTParameters;
class Projection;
struct ReconsInfo;

void buildReconsInfo(MetaDataVec &selfile,
                     const FileName &fn_ctf, const SymList &SL, ReconsInfo * &IMG_Inf,
                     bool do_not_use_symproj);

void sortPerpendicular(int numIMG, ReconsInfo *IMG_Inf,
                       MultidimArray<int> &ordered_list, int N = 2);

void noSort(int numIMG, MultidimArray<int> &ordered_list);

void sortRandomly(int numIMG, MultidimArray<int> &ordered_list);

void updateResidualVector(BasicARTParameters &prm, GridVolume &vol_basis,
                          double &kappa, double &pow_residual_vol, double &pow_residual_imgs);

/* ------------------------------------------------------------------------- */
class VariabilityClass
{
public:
    typedef enum {VAR_none, VAR_measuring, VAR_analyzing} t_VAR_status;
    t_VAR_status VAR_state;
    int Zoutput_volume_size;
    int Youtput_volume_size;
    int Xoutput_volume_size;
    BasicARTParameters *prm;

    std::vector < MultidimArray<double> > VA;

    int N;

    VariabilityClass(BasicARTParameters *_prm,
                     int _Zoutput_volume_size, int _Youtput_volume_size,
                     int _Xoutput_volume_size);

    void newIteration();

    void newUpdateVolume(GridVolume *ptr_vol_out, Projection &read_proj);

    void finishAnalysis();
};

/* ------------------------------------------------------------------------- */
class POCSClass
{
public:
    typedef enum {POCS_measuring, POCS_use, POCS_lowering, POCS_N_measure,
                  POCS_N_use} t_POCS_status;
    t_POCS_status POCS_state;
    double POCS_avg;
    double POCS_stddev;
    double POCS_min;
    double POCS_max;
    double POCS_mean_error;
    double POCS_max_error;
    double POCS_global_mean_error;
    int POCS_freq;
    int POCS_i;
    int POCS_vec_i;
    int POCS_used;
    int POCS_N;
    int Zoutput_volume_size;
    int Youtput_volume_size;
    int Xoutput_volume_size;
    bool apply_POCS;
    MultidimArray<double> POCS_errors;
    BasicARTParameters *prm;

    POCSClass(BasicARTParameters *_prm,
              int _Zoutput_volume_size, int _Youtput_volume_size,
              int _Xoutput_volume_size);

    void newIteration();

    void newProjection();

    void apply(GridVolume &vol_basis, int it, int images);
};


#endif