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gnStringSpec.h

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// File:            gnStringSpec.h
// Purpose:         implements gnContigSpec for strings
// Description:     
// Changes:        
// Version:         libGenome 0.1.0 
// Author:          Aaron Darling 
// Last Edited:     April 15, 2001, 10:34:50pm 
// Modified by:     
// Copyright:       (c) Aaron Darling 
// Licenses:        Proprietary 
#ifndef _gnStringSpec_h_
#define _gnStringSpec_h_

#include "gn/gnDefs.h"

#include <string>
#include "gn/gnContigSpec.h"
#include "gn/gnBaseSource.h"

class GNDLLEXPORT gnStringSpec : public gnContigSpec
{
public:
        gnStringSpec();
        gnStringSpec( const string& m_string, const gnSeqI start=0, const gnSeqI endI=GNSEQI_END, const boolean revComp = false);
        gnStringSpec( const gnStringSpec& s );
        ~gnStringSpec();
// Clone
        gnStringSpec* Clone() const;
        virtual void Clear();
// Value Access methods

        virtual gnSeqI GetSourceLength() const;

        
// Source Spec Specific functions
        virtual gnBaseSource *GetSource() const;

        virtual gnStringSpec* CloneRange( const gnSeqI startI, const gnSeqI len ) const;

protected:
        virtual boolean Read(const gnSeqI start, gnSeqC* buf, uint32& bufLen ) const;
        string m_seqString;
        
}; // class gnStringSpec

inline
gnStringSpec* gnStringSpec::Clone() const
{
        return new gnStringSpec( *this );
}
inline
gnSeqI gnStringSpec::GetSourceLength() const{
        return m_seqString.length();
}
inline
gnBaseSource* gnStringSpec::GetSource() const
{
        return NULL;
}

inline
boolean gnStringSpec::Read(const gnSeqI start, gnSeqC* buf, uint32& bufLen) const{
        memcpy(buf, m_seqString.data() + start, bufLen);
        return true;
}

#endif
        // _gnStringSpec_h_

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