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src/cpsp/SideChain/options/side_chain_optdeg_option.h

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/*
 *  Main authors:
 *     Mohamad Rabbath <rabbath@informatik.uni-freiburg.de>
 *
 *  Contributing authors:
 *     Martin Mann <mmann@informatik.uni-freiburg.de>
 *     Sebastian Will <will@informatik.uni-freiburg.de>
 *
 *  This file is part of the CPSP-tools package:
 *     http://www.bioinf.uni-freiburg.de/sw/cpsp/
 *
 *  See the file "LICENSE" for information on usage and
 *  redistribution of this file, and for a
 *     DISCLAIMER OF ALL WARRANTIES.
 *
 */

#ifndef SIDE_CHAIN_OPTDEG_OPTION_HH
#define SIDE_CHAIN_OPTDEG_OPTION_HH
#include <iostream>
#include "chain_option.h"
namespace cpsp{
   //side chain threading
   namespace scth{
    class SideChainDegOptions {
    public:
        SideChainDegOptions();
        SideChainOptions sideChainOptions;
        
        int Seed;

        int Length;

        int Threshold;

        void setThreshold(int);

        std::string startSeq;

        float TEMPERATURE; 

        double Cutoff;

            int maxSteps;
            
        int timeLimit; 
        
        unsigned int tgtDeg; 

        bool Stat;

        bool verboseOut;

        std::string RandomizerPath;
    };
   }
}
#endif