symmetries.h

Go to the documentation of this file.

/***************************************************************************
 *
 * 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'
 ***************************************************************************/
/* ------------------------------------------------------------------------- */
/* SYMMETRIES                                                                */
/* ------------------------------------------------------------------------- */
#ifndef _SYMMETRIES_HH
#define _SYMMETRIES_HH

#include <core/matrix1d.h>
#include <core/matrix2d.h>
#include <core/xmipp_funcs.h>
#include <core/args.h>
#include <core/symmetries.h>
#include <data/grids.h>

void symmetrizeCrystalVectors(Matrix1D<double> &aint,
                                Matrix1D<double> &bint,
                                Matrix1D<double> &shift,
                                int space_group,
                                int sym_no,
                                const Matrix1D<double> &eprm_aint,
                                const Matrix1D<double> &eprm_bint);

void symmetrizeCrystalVolume(GridVolume &vol,
                               const Matrix1D<double> &eprm_aint,
                               const Matrix1D<double> &eprm_bint,
                               int eprm_space_group, const MultidimArray<int> &mask,
                               int grid_type);

void symmetry_P2_122(Image<double> &vol, const SimpleGrid &grid,
                     const Matrix1D<double> &eprm_aint,
                     const Matrix1D<double> &eprm_bint,
                     const MultidimArray<int> &mask, int volume_no,
                     int grid_type);

void symmetry_P22_12(Image<double> &vol, const SimpleGrid &grid,
                     const Matrix1D<double> &eprm_aint,
                     const Matrix1D<double> &eprm_bint,
                     const MultidimArray<int> &mask, int volume_no,
                     int grid_type);

void symmetry_P4(Image<double> &vol, const SimpleGrid &grid,
                 const Matrix1D<double> &eprm_aint,
                 const Matrix1D<double> &eprm_bint,
                 const MultidimArray<int> &mask, int volume_no,
                 int grid_type);

void symmetry_P42_12(Image<double> &vol, const SimpleGrid &grid,
                     const Matrix1D<double> &eprm_aint,
                     const Matrix1D<double> &eprm_bint,
                     const MultidimArray<int> &mask, int volume_no,
                     int grid_type);

void symmetry_P6(Image<double> &vol, const SimpleGrid &grid,
                 const Matrix1D<double> &eprm_aint,
                 const Matrix1D<double> &eprm_bint,
                 const MultidimArray<int> &mask, int volume_no,
                 int grid_type);

void symmetry_Helical(MultidimArray<double> &Vout, const MultidimArray<double> &Vin, double zHelical, double rotHelical,
        double rot0=0, MultidimArray<int> *mask=nullptr, bool dihedral=false, double heightFraction=1.0, int Cn=1);

void symmetry_HelicalLowRes(MultidimArray<double> &Vout, const MultidimArray<double> &Vin, double zHelical, double rotHelical,
        double rot0=0, MultidimArray<int> *mask=nullptr);

void symmetry_Dihedral(MultidimArray<double> &Vout, const MultidimArray<double> &Vin, double rotStep=1,
        double zmin=-3, double zmax=3, double zStep=0.5, MultidimArray<int> *mask=nullptr);
#endif