demo_data_source.cpp

来自「ncbi源码」· C++ 代码 · 共 157 行

/*
 * ===========================================================================
 * PRODUCTION $Log: demo_data_source.cpp,v $
 * PRODUCTION Revision 1000.2  2004/06/01 21:08:09  gouriano
 * PRODUCTION PRODUCTION: UPGRADED [GCC34_MSVC7] Dev-tree R1.12
 * PRODUCTION
 * ===========================================================================
 */

/*  $Id: demo_data_source.cpp,v 1000.2 2004/06/01 21:08:09 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
 *
 */

#include <ncbi_pch.hpp>
#include <gui/gui.hpp>
#include "demo_data_source.hpp"
 
#include <corelib/ncbiutil.hpp>
#include <gui/objutils/utils.hpp>

#include <objtools/alnmgr/alnmix.hpp>
#include <objects/seqalign/Dense_seg.hpp>

// Object Manager includes
#include <objmgr/object_manager.hpp>
#include <objmgr/scope.hpp>
#include <objmgr/seq_vector.hpp>
#include <objmgr/seq_descr_ci.hpp>
#include <objmgr/feat_ci.hpp>
#include <objmgr/align_ci.hpp>
#include <objtools/data_loaders/genbank/gbloader.hpp>
#include <objtools/data_loaders/genbank/readers/id1/reader_id1.hpp>
#include <objmgr/util/sequence.hpp>
#include <objects/seqloc/Seq_id.hpp>
#include <objects/seqloc/Textseq_id.hpp>
#include <objects/seqset/Seq_entry.hpp>

#include <serial/iterator.hpp>


using namespace ncbi;
using namespace objects;





CTextAlnViewTestDS::CTextAlnViewTestDS()
{
    _TRACE( "Connecting to database..." );
    m_ObjMgr = new CObjectManager;
    m_ObjMgr->RegisterDataLoader(*new CGBDataLoader(),
                                 CObjectManager::eDefault);
    m_Scope = new CScope(*m_ObjMgr);
    m_Scope->AddDefaults();
    CSeq_id seq_id;
    //seq_id.SetGi(6467445);
    //seq_id.SetGi(19880863);
    seq_id.SetGi(19568015);
    //seq_id.SetGi(19172277);
    CBioseq_Handle handle = m_Scope->GetBioseqHandle(seq_id);

    CAlign_CI iter(handle, 0, 0, SAnnotSelector());
    Init(iter, *m_Scope);
}


CTextAlnViewTestDS::~CTextAlnViewTestDS()
{
    m_AlnMgr.Reset();
    m_Scope.Reset();
    m_ObjMgr.Reset();
}


/*
 * ===========================================================================
 * $Log: demo_data_source.cpp,v $
 * Revision 1000.2  2004/06/01 21:08:09  gouriano
 * PRODUCTION: UPGRADED [GCC34_MSVC7] Dev-tree R1.12
 *
 * Revision 1.12  2004/05/21 22:27:53  gorelenk
 * Added PCH ncbi_pch.hpp
 *
 * Revision 1.11  2004/05/03 17:53:22  dicuccio
 * gui/utils --> gui/objutils where needed
 *
 * Revision 1.10  2004/02/11 15:09:45  yazhuk
 * Replaced x_Init() call with Init()
 *
 * Revision 1.9  2004/02/09 19:18:52  grichenk
 * Renamed CDesc_CI to CSeq_descr_CI. Redesigned CSeq_descr_CI
 * and CSeqdesc_CI to avoid using data directly.
 *
 * Revision 1.8  2004/01/07 17:39:05  vasilche
 * Fixed include path to genbank loader.
 *
 * Revision 1.7  2003/09/24 18:34:58  dicuccio
 * Use new generic alignment data source.  Removed USING_SCOPE(objects) from
 * headers; used objects:: where necessary
 *
 * Revision 1.6  2003/06/23 13:23:14  dicuccio
 * Deprecated seq_utils.[h,c]pp - moved functions into gui.utils/utils.hpp
 *
 * Revision 1.5  2003/06/02 16:06:28  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 1.4  2003/05/16 17:03:02  lebedev
 * Removed files from different widget
 *
 * Revision 1.3  2003/04/19 14:21:08  ucko
 * iterate -> ITERATE
 *
 * Revision 1.2  2003/03/27 20:38:57  dicuccio
 * Fixed compilation errors under Linux (gcc-3.0.4)
 *
 * Revision 1.1  2003/03/27 17:04:15  lebedev
 * Text Alignment Widget Demo: Initial revision
 *
 * ===========================================================================
 */