SeqSaver.h

/*  This file is part of Victor.

    Victor 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.

    Victor 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 Victor.  If not, see <http://www.gnu.org/licenses/>.
 */


#ifndef _SEQ_SAVER_H_
#define _SEQ_SAVER_H_

// Includes:
#include <SideChain.h>
#include <AminoAcid.h>
#include <Spacer.h>
#include <Saver.h>
#include <Debug.h>
#include <string>
#include <iostream>
#include <Ligand.h>

// Global constants, typedefs, etc. (to avoid):

namespace Victor { namespace Biopool { 

   
    class SeqSaver : public Saver {
    public:

        // CONSTRUCTORS/DESTRUCTOR:

        SeqSaver(ostream& _output = cout)
        : output(_output), writeChi(true) {
        }
        // this class uses the implicit copy operator.

        virtual ~SeqSaver() {
            PRINT_NAME;
        }

        // MODIFIERS:

        void setWriteChi(bool _w) {
            writeChi = _w;
        }
        virtual void saveSideChain(SideChain& sc, bool header = 1);
        virtual void saveAminoAcid(AminoAcid& aa);
        virtual void saveSpacer(Spacer& sp);
        virtual void saveLigand(Ligand& l);

    protected:

    private:
        ostream& output; // output stream
        bool writeChi; // switch: write chi angles?
    };

}} //namespace
#endif //_SEQ_SAVER_H_