volume_enhance_contrast.h

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/***************************************************************************
*
* Authors:    Carlos Oscar            coss@cnb.csic.es (2010)
*             Fernando Fuentes
*
* 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 VOLUME_ENHANCE_CONTRAST_H
#define VOLUME_ENHANCE_CONTRAST_H

#include <string>
#include <data/morphology.h>
#include <data/filters.h>
#include <core/transformations.h>
#include <core/xmipp_program.h>


#include <queue>
#include <vector>
#include <iostream>



class ProgVolumeEnhanceContrast: public XmippProgram
{
public:
    // Input/Output volumes
    FileName fnIn, fnOut;

    // Confidence level for background identification
    double alpha;

    // Lower intensity (%)
    double lowerIntensity;

    // Remove the background
    bool removeBg;

    // Save mask
    FileName fnMask;

protected:
    void defineParams();

    void readParams();

    void run();

public:
    void show();

    void enhance(MultidimArray< double >& vol);
};

#endif