alnvec_multi_ds.hpp

ncbi源码

/*
 * ===========================================================================
 * PRODUCTION $Log: alnvec_multi_ds.hpp,v $
 * PRODUCTION Revision 1000.3  2004/04/12 18:16:01  gouriano
 * PRODUCTION PRODUCTION: UPGRADED [CATCHUP_003] Dev-tree R1.7
 * PRODUCTION
 * ===========================================================================
 */

#ifndef GUI_WIDGETS_ALN_MULTIPLE___ALNVEC_MULTI_DS__HPP
#define GUI_WIDGETS_ALN_MULTIPLE___ALNVEC_MULTI_DS__HPP

/*  $Id: alnvec_multi_ds.hpp,v 1000.3 2004/04/12 18:16:01 gouriano Exp $
 * ===========================================================================
 *
 *                            PUBLIC DOMAIN NOTICE
 *               National Center for Biotechnology Information
 *
 *  This software/database is a "United States Government Work" under the
 *  terms of the United States Copyright Act.  It was written as part of
 *  the author's official duties as a United States Government employee and
 *  thus cannot be copyrighted.  This software/database is freely available
 *  to the public for use. The National Library of Medicine and the U.S.
 *  Government have not placed any restriction on its use or reproduction.
 *
 *  Although all reasonable efforts have been taken to ensure the accuracy
 *  and reliability of the software and data, the NLM and the U.S.
 *  Government do not and cannot warrant the performance or results that
 *  may be obtained by using this software or data. The NLM and the U.S.
 *  Government disclaim all warranties, express or implied, including
 *  warranties of performance, merchantability or fitness for any particular
 *  purpose.
 *
 *  Please cite the author in any work or product based on this material.
 *
 * ===========================================================================
 *
 * Authors:  Andrey Yazhuk
 *
 * File Description:
 *
 */

#include <gui/widgets/aln_multiple/alnmulti_ds.hpp>
#include <gui/widgets/aln_multiple/alnvec_row_handle.hpp>

BEGIN_NCBI_SCOPE

/// CAlnVecMultiDataSource - implementation of IAlnMultiDataSource for CAlnVec-based
/// alignments.
class NCBI_GUIWIDGETS_ALNMULTIPLE_EXPORT CAlnVecMultiDataSource
    : public CAlignDataSource,
      public IAlnMultiDataSource
{
public:
    typedef IAlnMultiDataSource::TNumrow TNumrow;

    CAlnVecMultiDataSource();
    ~CAlnVecMultiDataSource();

    virtual int     GetConsensusRow() const;

    virtual TNumrow  GetNumRows (void) const;    
    virtual TSeqPos  GetAlnStart (void) const; 
    virtual TSeqPos  GetAlnStop (void) const;
     
    virtual bool  IsSetAnchor (void) const;
    virtual TNumrow  GetAnchor (void) const; 
    virtual void  SetAnchor (TNumrow anchor); 
    virtual void  UnsetAnchor (void);

    virtual bool    CanGetId(TNumrow row) const;
    virtual const CSeq_id&  GetSeqId(TNumrow row) const;    
    virtual const objects::CBioseq_Handle& GetBioseqHandle (TNumrow row) const;

    virtual TSignedSeqPos GetSeqPosFromAlnPos(TNumrow for_row, TSeqPos aln_pos,
                                ESearchDirection dir=TSearchDirection::eNone,
                                bool try_reverse_dir=true) const;
    virtual TSignedSeqPos GetAlnPosFromSeqPos(TNumrow row, TSeqPos seq_pos, 
                                ESearchDirection dir=TSearchDirection::eNone,
                                bool try_reverse_dir=true) const;

    virtual const IAlignRowHandle*  GetRowHandle(TNumrow row) const;


    void  SetGapChar (TResidue gap_char);    
protected:
    typedef vector<CAlnVecRowHandle*>    THandleVector;
    THandleVector    m_Handles;

    virtual void x_ClearHandles();
    virtual void x_CreateHandles();

private:
    // prohibit copying!
    CAlnVecMultiDataSource(const CAlnVecMultiDataSource& ds);
    CAlnVecMultiDataSource& operator=(const CAlnVecMultiDataSource& ds);
};


END_NCBI_SCOPE


/*
 * ===========================================================================
 * $Log: alnvec_multi_ds.hpp,v $
 * Revision 1000.3  2004/04/12 18:16:01  gouriano
 * PRODUCTION: UPGRADED [CATCHUP_003] Dev-tree R1.7
 *
 * Revision 1.7  2004/02/11 15:28:55  yazhuk
 * Removed constructors with arguments
 *
 * Revision 1.6  2003/12/10 19:03:20  yazhuk
 * Added const specifier to CanGetId() and GetSeqId().
 *
 * Revision 1.5  2003/12/10 17:03:48  yazhuk
 * Changed row identification from mandatory CBioseqHandle to optional CSeq_id.
 *
 * Revision 1.4  2003/12/08 15:09:49  yazhuk
 * Moved constructors bodies to .cpp
 *
 * Revision 1.3  2003/11/26 16:52:53  johnson
 * switch IAlnMultiDataSource to use CAlnMap::ESearchDirection instead of it's
 * own ESearchDirection
 *
 * Revision 1.2  2003/11/17 21:13:47  yazhuk
 * Made SetGapChar() a non-virtual function
 *
 * Revision 1.1  2003/10/29 23:29:38  yazhuk
 * Initial revision
 *
 * ===========================================================================
 */

#endif  // GUI_WIDGETS_ALN_MULTIPLE___ALNVEC_MULTI_DS__HPP