prot_product.cpp

来自「ncbi源码」· C++ 代码 · 共 127 行

/*
 * ===========================================================================
 * PRODUCTION $Log: prot_product.cpp,v $
 * PRODUCTION Revision 1000.0  2004/06/01 21:21:06  gouriano
 * PRODUCTION PRODUCTION: IMPORTED [GCC34_MSVC7] Dev-tree R1.2
 * PRODUCTION
 * ===========================================================================
 */

/*  $Id: prot_product.cpp,v 1000.0 2004/06/01 21:21:06 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:  Vlad Lebedev
 *
 * File Description:
 *   CLayoutProtProd -- utility class to layout protein products
 */

#include <ncbi_pch.hpp>
#include <gui/objutils/prot_product.hpp>
#include <objmgr/scope.hpp>
#include <objects/seq/Bioseq.hpp>



BEGIN_NCBI_SCOPE
USING_SCOPE(objects);


CLayoutProtProd::CLayoutProtProd(CScope& scope, const CMappedFeat& feat)
    : CLayoutFeat(feat)
{
    if (feat.IsSetProduct()) {
        m_Handle = scope.GetBioseqHandle(feat.GetProduct());
    }

}


const CObject* CLayoutProtProd::GetObject(TSeqPos pos) const
{
    TSeqRange r = GetLocation().GetTotalRange();
    if (pos >= r.GetFrom()  &&  pos <= r.GetTo()) {
        if (m_Handle) {
            CConstRef<CBioseq> bioseq = m_Handle.GetCompleteBioseq();
    	    return m_Handle.GetCompleteBioseq().GetPointer();
    	}
	    throw runtime_error("invalid bioseq handle");
    }
    return NULL;
}

bool CLayoutProtProd::HasObject(const CObject* obj) const
{
    if (m_Handle) {
        const CBioseq* bioseq = m_Handle.GetCompleteBioseq();
        return bioseq == obj;
    }
    throw runtime_error("invalid bioseq handle");
}


END_NCBI_SCOPE



/*
 * ===========================================================================
 * $Log: prot_product.cpp,v $
 * Revision 1000.0  2004/06/01 21:21:06  gouriano
 * PRODUCTION: IMPORTED [GCC34_MSVC7] Dev-tree R1.2
 *
 * Revision 1.2  2004/05/21 22:27:44  gorelenk
 * Added PCH ncbi_pch.hpp
 *
 * Revision 1.1  2004/04/30 11:48:16  dicuccio
 * Initial commit - split out from src/gui/utils
 *
 * Revision 1.7  2004/04/16 14:48:31  dicuccio
 * Cleaned up handling of GetBioseqCore()
 *
 * Revision 1.6  2004/04/15 13:00:11  lebedev
 * Changed GetObject to return NULL or const pointer based on given position
 *
 * Revision 1.5  2003/08/22 15:48:39  dicuccio
 * Added 'USING_SCOPE(objects)'
 *
 * Revision 1.4  2003/08/18 14:47:20  dicuccio
 * Changed nales: CFeature -> CLayoutFeat; CAlignment -> CLayoutAlign; CGraph ->
 * CLayoutGraph; CProtProduct -> CLayoutProtProd.
 *
 * Revision 1.3  2003/07/24 13:13:25  dicuccio
 * Changed CLayoutProtProd to return the protein bioseq as its object, not the CDS
 * from which it came
 *
 * Revision 1.2  2003/07/21 19:35:21  dicuccio
 * Changed storage mechanism - CLayoutObject::GetObject() is now pure virtual.
 * Changed CFeature to wrap a CMappedFeat instead of a CSeq_feat / CSeq_loc pair
 *
 * Revision 1.1  2003/07/18 13:36:41  lebedev
 * Initial revision
 *
 * ===========================================================================
 */