BlockAlignerParameters.hpp

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/*******************************************************************************
 *
 * Copyright (c) 2010-2015   Edans Sandes
 *
 * This file is part of MASA-Core.
 * 
 * MASA-Core 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 3 of the License, or
 * (at your option) any later version.
 * 
 * MASA-Core 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 MASA-Core.  If not, see <http://www.gnu.org/licenses/>.
 *
 ******************************************************************************/

#ifndef BLOCKALIGNERPARAMETERS_HPP_
#define BLOCKALIGNERPARAMETERS_HPP_


#include "AbstractAlignerParameters.hpp"

#define MAX_GRID_SIZE 1024
#define MAX_BLOCK_SIZE 1024*20
#define MIN_GRID_SIZE 1
#define MIN_BLOCK_SIZE 128

/**
 * This class contains the parameters for the AbstractBlockAligner.
 */
class BlockAlignerParameters : public AbstractAlignerParameters {

private:
        /** Number of column of blocks */
        int gridWidth;

        /** Number of rows of blocks */
        int gridHeight;

        /** Height of one block */
        int blockHeight;

        /** Width of one block. 0 indicates variable */
        int blockWidth;

public:
        BlockAlignerParameters();
        virtual ~BlockAlignerParameters();

        /**
         * @see AbstractAlignerParameters::processArgument() method.
         */
        virtual int processArgument(int argc, char** argv);

        /**
         * Prints the usage text in the command line.
         */
        virtual void printUsage() const;

        int getBlockHeight() const;
        int getBlockWidth() const;
        int getGridWidth() const;
        int getGridHeight() const;
};


#endif /* BLOCKALIGNERPARAMETERS_HPP_ */