symmetrize.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 _PROG_SYMMETRIZE_HH
#  define _PROG_SYMMETRIZE_HH

#include <core/xmipp_funcs.h>
#include <core/xmipp_image.h>
#include <data/mask.h>
#include <core/symmetries.h>
#include <core/xmipp_program.h>

/* Test parameters --------------------------------------------------------- */
class ProgSymmetrize : public XmippMetadataProgram
{
public:
    FileName fn_sym, fn_sym2;
    FileName fn_Maskin;
    FileName fn_Maskout;
    bool doMask;
    double rotHelical;
    double rotPhaseHelical;
    double zHelical;
    double heightFraction;
    double Ts;
    bool            do_not_generate_subgroup;
    bool            wrap;
    bool            sum;
    int splineOrder;
    int Cn;
public:
    void readParams();

    void defineParams();

    void show();

    void preProcess();

    void processImage(const FileName &fnImg, const FileName &fnImgOut, const MDRow &rowIn, MDRow &rowOut);
public:
    // Symmetry description for volumes
    SymList SL;
    // Symmetry description for images
    int symorder;
    // Helical symmetry
    bool helical;
    // Dihedral symmetry
    bool dihedral;
    // Helical dihedral
    bool helicalDihedral;
};

void symmetrizeVolume(const SymList &SL, const MultidimArray<double> &V_in,
                      MultidimArray<double> &V_out, int spline=xmipp_transformation::BSPLINE3,
                      bool wrap=xmipp_transformation::WRAP, bool do_outside_avg=false, bool sum=false, bool helical=false, bool dihedral=false,
                      bool helicalDihedral=false,
                      double rotHelical=0.0, double rotPhaseHelical=0.0, double zHelical=0.0, double heightFraction=0.95,
                      const MultidimArray<double> * mask=nullptr, int Cn=1);

void symmetrizeImage(int symorder, const MultidimArray<double> &I_in,
                      MultidimArray<double> &I_out, int spline=xmipp_transformation::BSPLINE3,
                      bool wrap=xmipp_transformation::WRAP, bool do_outside_avg=false, bool sum=false);
#endif