feature.cpp

来自「ncbi源码」· C++ 代码 · 共 212 行

/*
 * ===========================================================================
 * PRODUCTION $Log: feature.cpp,v $
 * PRODUCTION Revision 1000.0  2004/06/01 21:20:26  gouriano
 * PRODUCTION PRODUCTION: IMPORTED [GCC34_MSVC7] Dev-tree R1.2
 * PRODUCTION
 * ===========================================================================
 */

/*  $Id: feature.cpp,v 1000.0 2004/06/01 21:20:26 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:  Mike DiCuccio
 *
 * File Description:
 *    CLayoutFeat -- utility class to arrange CSeq_feat objects in hierarchical
 *                (tree) order.
 */

#include <ncbi_pch.hpp>
#include <gui/objutils/feature.hpp>
#include <gui/objutils/utils.hpp>

#include <algorithm>
#include <objects/seqfeat/Seq_feat.hpp>
#include <objects/seqfeat/SeqFeatData.hpp>
#include <objects/seqloc/Seq_loc.hpp>
#include <objects/seqloc/Seq_interval.hpp>

#include <objmgr/util/sequence.hpp>
#include <objmgr/util/feature.hpp>

#include <serial/iterator.hpp>


BEGIN_NCBI_SCOPE
USING_SCOPE(objects);


//
// simple functor for sorting CRange<> objects
//
template <class T>
struct SRangeSorter
{
    bool operator() (const CRange<T>& r0, const CRange<T>& r1) const
    {
        if (r0.GetFrom() < r1.GetFrom()) {
            return true;
        }
        if (r0.GetFrom() > r1.GetFrom()) {
            return false;
        }
        if (r0.GetTo() < r1.GetTo()) {
            return true;
        }
        return false;
    }
};



//
// CLayoutFeat::CLayoutFeat()
//
CLayoutFeat::CLayoutFeat(const CMappedFeat& f)
    : m_Feature(f),
      m_Parent(NULL)
{
    m_HideLabel = false; // always show labels by default
    // ...and we precompute the label for this feature
    //feature::GetLabel(m_Feature.GetOriginalFeature(), &m_TextId, feature::eBoth);
}

// Access the sub-intervals in this feature
void CLayoutFeat::x_CalcIntervals(void) const
{
    m_Intervals.clear();
    CSeq_loc_CI iter(GetLocation());
    for ( ;  iter;  ++iter) {
        m_Intervals.push_back(iter.GetRange());
    }
}



END_NCBI_SCOPE



/*
 * ===========================================================================
 * $Log: feature.cpp,v $
 * Revision 1000.0  2004/06/01 21:20:26  gouriano
 * PRODUCTION: IMPORTED [GCC34_MSVC7] Dev-tree R1.2
 *
 * Revision 1.2  2004/05/21 22:27:43  gorelenk
 * Added PCH ncbi_pch.hpp
 *
 * Revision 1.1  2004/04/30 11:48:15  dicuccio
 * Initial commit - split out from src/gui/utils
 *
 * Revision 1.17  2004/02/24 14:35:04  lebedev
 * Option to hide feature label added
 *
 * Revision 1.16  2003/08/22 15:48:12  dicuccio
 * Added 'USING_SCOPE(objects)'
 *
 * Revision 1.15  2003/08/18 14:47:08  dicuccio
 * Changed nales: CFeature -> CLayoutFeat; CAlignment -> CLayoutAlign; CGraph ->
 * CLayoutGraph; CProtProduct -> CLayoutProtProd.
 *
 * Revision 1.14  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 1.13  2003/07/11 11:43:11  dicuccio
 * Fixed thinko in retrieving intervals - use the *real* location...
 *
 * Revision 1.12  2003/06/10 13:34:42  dicuccio
 * Reworked CFeature to inherit from CLayoutObject.  Removed lots of dead code
 *
 * Revision 1.11  2003/06/02 16:06:25  dicuccio
 * Rearranged src/objects/ subtree.  This includes the following shifts:
 *     - src/objects/asn2asn --> arc/app/asn2asn
 *     - src/objects/testmedline --> src/objects/ncbimime/test
 *     - src/objects/objmgr --> src/objmgr
 *     - src/objects/util --> src/objmgr/util
 *     - src/objects/alnmgr --> src/objtools/alnmgr
 *     - src/objects/flat --> src/objtools/flat
 *     - src/objects/validator --> src/objtools/validator
 *     - src/objects/cddalignview --> src/objtools/cddalignview
 * In addition, libseq now includes six of the objects/seq... libs, and libmmdb
 * replaces the three libmmdb? libs.
 *
 * Revision 1.10  2003/05/07 17:28:40  dicuccio
 * Removed operator<< for CFeature.  Added missing link to xobjutil
 *
 * Revision 1.9  2003/05/07 13:07:29  dicuccio
 * Code clean-up.  Removed dead functions.
 *
 * Revision 1.8  2003/05/07 12:33:38  dicuccio
 * Code clean-up.  Deprecated old feature matching code in favor of library
 * function
 *
 * Revision 1.7  2003/03/11 15:25:12  kuznets
 * iterate -> ITERATE
 *
 * Revision 1.6  2003/02/10 18:10:59  dicuccio
 * Fixed compilation errors relating to change in CFeat_CI API
 *
 * Revision 1.5  2003/01/15 21:15:03  dicuccio
 * Dropped private sort mechanism in favor of standard Seq-feat sort
 *
 * Revision 1.4  2003/01/13 13:10:11  dicuccio
 * Namespace clean-up.  Retired namespace gui -> converted all to namespace
 * ncbi.  Moved all FLUID-generated code into namespace ncbi.
 *
 * Revision 1.3  2002/12/11 19:08:53  dicuccio
 * Added member variables to handle selection a bit more intelligently.
 *
 * Revision 1.2  2002/12/06 14:08:18  dicuccio
 * Moved feature sorting predicates into feature.[h,c]pp
 *
 * Revision 1.1  2002/11/29 15:30:38  dicuccio
 * Initial revision - split out from gui/core/view/graphic
 *
 * Revision 1.5  2002/11/25 20:57:08  dicuccio
 * Minor formatting changes.  Changed resolver to resolve based on the top-level
 * seq-entry.
 *
 * Revision 1.4  2002/11/09 20:57:08  dicuccio
 * Performance improvements:  Implemented smarter widget update (use update
 * flags to specify update conditions); use a more intuitive (and flexible)
 * mechanism to obtain features from the object manager.
 *
 * Revision 1.3  2002/11/08 02:14:42  dicuccio
 * Minor code clean-ups (reformat text, eliminate dead variables, favor NCBI
 * macros)
 *
 * Revision 1.2  2002/11/07 18:48:39  dicuccio
 * Formatting changes: added early escapes for functions containing long if/else
 * clauses.
 *
 * Revision 1.1  2002/11/07 16:27:25  dicuccio
 * Initial revision
 *
 * ===========================================================================
 */