source_item.hpp
上传用户:yhdzpy8989
上传日期:2007-06-13
资源大小:13604k
文件大小:5k
- /*
- * ===========================================================================
- * PRODUCTION $Log: source_item.hpp,v $
- * PRODUCTION Revision 1000.1 2004/06/01 19:40:26 gouriano
- * PRODUCTION PRODUCTION: UPGRADED [GCC34_MSVC7] Dev-tree R1.2
- * PRODUCTION
- * ===========================================================================
- */
- #ifndef OBJTOOLS_FORMAT_ITEMS___SOURCE_ITEM__HPP
- #define OBJTOOLS_FORMAT_ITEMS___SOURCE_ITEM__HPP
- /* $Id: source_item.hpp,v 1000.1 2004/06/01 19:40:26 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.
- *
- * ===========================================================================
- *
- * Author: Aaron Ucko, NCBI
- * Mati Shomrat
- *
- * File Description:
- * Source item for flat-file generator
- *
- */
- #include <corelib/ncbistd.hpp>
- #include <list>
- #include <objtools/format/items/item_base.hpp>
- BEGIN_NCBI_SCOPE
- BEGIN_SCOPE(objects)
- class CGB_block;
- class CSeqdesc;
- class CBioSource;
- class CBioseqContext;
- class IFormatter;
- ///////////////////////////////////////////////////////////////////////////
- //
- // SOURCE
- // ORGANISM
- class CSourceItem : public CFlatItem
- {
- public:
- CSourceItem(CBioseqContext& ctx);
- void Format(IFormatter& formatter, IFlatTextOStream& text_os) const;
- const string& GetTaxname (void) const;
- const string& GetCommon (void) const;
- const string& GetLineage (void) const;
- const string& GetOrganelle (void) const;
- const string& GetSourceLine (void) const;
- const list<string>& GetMod (void) const;
- bool IsUsingAnamorph (void) const;
- // TaxId ???
- private:
- void x_GatherInfo(CBioseqContext& ctx);
- // Populate the object based on the source of the data
- void x_SetSource(const CGB_block& gb, const CSeqdesc& desc);
- void x_SetSource(const CBioSource& bsrc, const CSerialObject& obj);
- // static members
- static const string scm_Unknown;
- static const string scm_Unclassified;
- static const list<string> scm_EmptyList;
- // data
- const string* m_Taxname;
- const string* m_Common;
- const string* m_Organelle;
- const string* m_Lineage; // semicolon-delimited
- const string* m_SourceLine; // for "old" format style
- const list<string>* m_Mod;
- bool m_UsingAnamorph;
- };
- /////////////////////////////////////////////////////////////////////////////
- //
- // inline methods
- inline
- const string& CSourceItem::GetTaxname(void) const
- {
- return *m_Taxname;
- }
- inline
- const string& CSourceItem::GetCommon(void) const
- {
- return *m_Common;
- }
- inline
- const string& CSourceItem::GetLineage(void) const
- {
- return *m_Lineage;
- }
- inline
- const string& CSourceItem::GetOrganelle(void) const
- {
- return *m_Organelle;
- }
- inline
- const string& CSourceItem::GetSourceLine(void) const
- {
- return *m_SourceLine;
- }
- inline
- const list<string>& CSourceItem::GetMod(void) const
- {
- return *m_Mod;
- }
- inline
- bool CSourceItem::IsUsingAnamorph(void) const
- {
- return m_UsingAnamorph;
- }
- END_SCOPE(objects)
- END_NCBI_SCOPE
- /*
- * ===========================================================================
- *
- * $Log: source_item.hpp,v $
- * Revision 1000.1 2004/06/01 19:40:26 gouriano
- * PRODUCTION: UPGRADED [GCC34_MSVC7] Dev-tree R1.2
- *
- * Revision 1.2 2004/04/22 15:40:05 shomrat
- * Changes in context
- *
- * Revision 1.1 2003/12/17 19:50:09 shomrat
- * Initial revision (adapted from flat lib)
- *
- *
- * ===========================================================================
- */
- #endif /* OBJTOOLS_FORMAT_ITEMS___SOURCE_ITEM__HPP */