alignment_smear_layout.hpp

来自「ncbi源码」· HPP 代码 · 共 206 行

/*
 * ===========================================================================
 * PRODUCTION $Log: alignment_smear_layout.hpp,v $
 * PRODUCTION Revision 1000.0  2004/06/01 19:54:31  gouriano
 * PRODUCTION PRODUCTION: IMPORTED [GCC34_MSVC7] Dev-tree R1.4
 * PRODUCTION
 * ===========================================================================
 */

#ifndef GUI_OBJUTILS___ALIGNMENT_SMEAR_LAYOUT__HPP
#define GUI_OBJUTILS___ALIGNMENT_SMEAR_LAYOUT__HPP

/*  $Id: alignment_smear_layout.hpp,v 1000.0 2004/06/01 19:54:31 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:  Robert Smith
 *
 * File Description:
 *    CLayoutAlignSmear -- utility class for having alignment smears in graphical layouts.
 */


#include <corelib/ncbiobj.hpp>
#include <gui/objutils/layout.hpp>
#include <gui/objutils/alignment_smear.hpp>
#include <objects/seqloc/Seq_interval.hpp>


/** @addtogroup GUI_OBJUTILS
 *
 * @{
 */


BEGIN_NCBI_SCOPE



class NCBI_GUIOBJUTILS_EXPORT CLayoutAlignSmear : public CLayoutObject
{
public:

    // ctors
    CLayoutAlignSmear(const objects::CBioseq_Handle& handle, 
                      TSeqPos start, TSeqPos stop, TSeqPos window,
                      CAlignmentSmear::EAlignSmearStrand strand_type,
                      const objects::CSeq_annot& seq_annot);

    //
    // pure virtual requirements
    //

    // access the position of this object.
    const objects::CSeq_loc& GetLocation(void) const;

    // access our core component - we wrap an object of some sort
    const CObject* GetObject(TSeqPos pos) const;
    
    bool HasObject(const CObject* obj) const;

    // Comparators
    bool LessByPos (const CLayoutObject& obj) const;
    bool LessBySize(const CLayoutObject& obj) const;

    // retrieve the type of this object
    EType GetType() const;

    // Is this layout object selectable in the viewers?
    bool IsSelectable() const;
    
    // Get our native data.
    const CAlignmentSmear& GetAlignSmear() const;

protected:
    CRef<CAlignmentSmear> m_AlignSmear;
    
    // Location is not real. 
    // smear will occuy an entire row in layout
    CRef<objects::CSeq_loc> m_Location;
};



inline
bool CLayoutAlignSmear::IsSelectable() const
{
    return false;
}


inline
const objects::CSeq_loc& CLayoutAlignSmear::GetLocation(void) const
{
    return *m_Location;
}

inline
const CObject* CLayoutAlignSmear::GetObject(TSeqPos pos) const
{
    TSeqRange r = GetLocation().GetTotalRange();
    if (pos >= r.GetFrom()  &&  pos <= r.GetTo()) {
        return m_AlignSmear.GetPointer();
    }
    return NULL;
}


inline
bool CLayoutAlignSmear::HasObject(const CObject* obj) const
{
    return m_AlignSmear.GetPointer() == obj;
}



inline
bool CLayoutAlignSmear::LessByPos(const CLayoutObject& obj) const
{
    return false;
}


inline
bool CLayoutAlignSmear::LessBySize(const CLayoutObject& obj) const
{
    return false;
}


inline
const CAlignmentSmear& CLayoutAlignSmear::GetAlignSmear() const
{
    return *m_AlignSmear;    
}


inline
CLayoutAlignSmear::EType CLayoutAlignSmear::GetType() const
{
    return eAlignSmear;
}



END_NCBI_SCOPE

/* @} */



/*
 * ===========================================================================
 * $Log: alignment_smear_layout.hpp,v $
 * Revision 1000.0  2004/06/01 19:54:31  gouriano
 * PRODUCTION: IMPORTED [GCC34_MSVC7] Dev-tree R1.4
 *
 * Revision 1.4  2004/05/14 14:24:47  dicuccio
 * Added new pure virtual requirement on CLayoutObject(): GetType(), returns enum
 * defined in CLayoutObject
 *
 * Revision 1.3  2004/05/03 13:34:53  dicuccio
 * FIxed include guards, doxygen groups
 *
 * Revision 1.2  2004/05/03 12:41:35  dicuccio
 * Fixed #includes and export specifiers
 *
 * Revision 1.1  2004/04/30 11:52:52  dicuccio
 * Split out from gui/utils
 *
 * Revision 1.3  2004/04/16 14:23:44  dicuccio
 * Formatting changes.  Added doxygen module tags
 *
 * Revision 1.2  2004/04/15 12:57:43  lebedev
 * Changed GetObject to return NULL or const pointer based on given position
 *
 * Revision 1.1  2004/03/22 16:35:34  rsmith
 * initial checkin
 *
 *
 * ===========================================================================
 */

#endif  // GUI_OBJUTILS___ALIGNMENT_SMEAR_LAYOUT__HPP