tse_info_object.hpp
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- /*
- * ===========================================================================
- * PRODUCTION $Log: tse_info_object.hpp,v $
- * PRODUCTION Revision 1000.0 2004/04/12 17:33:09 gouriano
- * PRODUCTION PRODUCTION: IMPORTED [CATCHUP_003] Dev-tree R1.2
- * PRODUCTION
- * ===========================================================================
- */
- #ifndef OBJECTS_OBJMGR_IMPL___TSE_INFO_OBJECT__HPP
- #define OBJECTS_OBJMGR_IMPL___TSE_INFO_OBJECT__HPP
- /* $Id: tse_info_object.hpp,v 1000.0 2004/04/12 17:33:09 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.
- *
- * ===========================================================================
- *
- * Author: Aleksey Grichenko, Eugene Vasilchenko
- *
- * File Description:
- * Bioseq info for data source
- *
- */
- #include <corelib/ncbiobj.hpp>
- BEGIN_NCBI_SCOPE
- BEGIN_SCOPE(objects)
- class CDataSource;
- class CTSE_Info;
- class CSeq_entry;
- class CSeq_entry_Info;
- class CSeq_annot;
- class CSeq_annot_Info;
- class CSeq_descr;
- ////////////////////////////////////////////////////////////////////
- //
- // CTSE_Info_Object::
- //
- // Structure to keep bioseq's parent seq-entry along with the list
- // of seq-id synonyms for the bioseq.
- //
- class NCBI_XOBJMGR_EXPORT CTSE_Info_Object : public CObject
- {
- public:
- // 'ctors
- CTSE_Info_Object(void);
- virtual ~CTSE_Info_Object(void);
- // info tree
- bool HasDataSource(void) const;
- CDataSource& GetDataSource(void) const;
- bool HasTSE_Info(void) const;
- const CTSE_Info& GetTSE_Info(void) const;
- CTSE_Info& GetTSE_Info(void);
- bool HasParent_Info(void) const;
- const CTSE_Info_Object& GetBaseParent_Info(void) const;
- CTSE_Info_Object& GetBaseParent_Info(void);
- // info tree initialization
- void x_DSAttach(CDataSource& ds);
- void x_DSDetach(CDataSource& ds);
- virtual void x_DSAttachContents(CDataSource& ds);
- virtual void x_DSDetachContents(CDataSource& ds);
- void x_TSEAttach(CTSE_Info& tse);
- void x_TSEDetach(CTSE_Info& tse);
- virtual void x_TSEAttachContents(CTSE_Info& tse);
- virtual void x_TSEDetachContents(CTSE_Info& tse);
- // index support
- bool x_DirtyAnnotIndex(void) const;
- void x_SetDirtyAnnotIndex(void);
- void x_SetParentDirtyAnnotIndex(void);
- void x_ResetDirtyAnnotIndex(void);
- virtual void x_SetDirtyAnnotIndexNoParent(void);
- virtual void x_ResetDirtyAnnotIndexNoParent(void);
- void x_UpdateAnnotIndex(CTSE_Info& tse);
- virtual void x_UpdateAnnotIndexContents(CTSE_Info& tse);
- bool x_NeedUpdateObject(void) const;
- void x_SetNeedUpdateObject(void);
- void x_ResetNeedUpdateObject(void);
- void x_UpdateObject(void) const;
- virtual void x_DoUpdateObject(void);
- protected:
- void x_BaseParentAttach(CTSE_Info_Object& parent);
- void x_BaseParentDetach(CTSE_Info_Object& parent);
- void x_AttachObject(CTSE_Info_Object& object);
- void x_DetachObject(CTSE_Info_Object& object);
- private:
- CTSE_Info_Object(const CTSE_Info_Object&);
- CTSE_Info_Object& operator=(const CTSE_Info_Object&);
- // Owner TSE info
- CTSE_Info* m_TSE_Info;
- CTSE_Info_Object* m_Parent_Info;
- bool m_DirtyAnnotIndex;
- bool m_NeedUpdateObject;
- };
- /////////////////////////////////////////////////////////////////////
- //
- // Inline methods
- //
- /////////////////////////////////////////////////////////////////////
- inline
- bool CTSE_Info_Object::HasTSE_Info(void) const
- {
- return m_TSE_Info != 0;
- }
- inline
- bool CTSE_Info_Object::HasParent_Info(void) const
- {
- return m_Parent_Info != 0;
- }
- inline
- bool CTSE_Info_Object::x_DirtyAnnotIndex(void) const
- {
- return m_DirtyAnnotIndex;
- }
- inline
- bool CTSE_Info_Object::x_NeedUpdateObject(void) const
- {
- return m_NeedUpdateObject;
- }
- END_SCOPE(objects)
- END_NCBI_SCOPE
- /*
- * ---------------------------------------------------------------------------
- * $Log: tse_info_object.hpp,v $
- * Revision 1000.0 2004/04/12 17:33:09 gouriano
- * PRODUCTION: IMPORTED [CATCHUP_003] Dev-tree R1.2
- *
- * Revision 1.2 2004/03/24 18:30:29 vasilche
- * Fixed edit API.
- * Every *_Info object has its own shallow copy of original object.
- *
- * Revision 1.1 2004/03/16 15:47:27 vasilche
- * Added CBioseq_set_Handle and set of EditHandles
- *
- * Revision 1.15 2003/11/28 15:13:25 grichenk
- * Added CSeq_entry_Handle
- *
- * Revision 1.14 2003/09/30 16:22:00 vasilche
- * Updated internal object manager classes to be able to load ID2 data.
- * SNP blobs are loaded as ID2 split blobs - readers convert them automatically.
- * Scope caches results of requests for data to data loaders.
- * Optimized CSeq_id_Handle for gis.
- * Optimized bioseq lookup in scope.
- * Reduced object allocations in annotation iterators.
- * CScope is allowed to be destroyed before other objects using this scope are
- * deleted (feature iterators, bioseq handles etc).
- * Optimized lookup for matching Seq-ids in CSeq_id_Mapper.
- * Added 'adaptive' option to objmgr_demo application.
- *
- * Revision 1.13 2003/06/02 16:01:37 dicuccio
- * Rearranged include/objects/ subtree. This includes the following shifts:
- * - include/objects/alnmgr --> include/objtools/alnmgr
- * - include/objects/cddalignview --> include/objtools/cddalignview
- * - include/objects/flat --> include/objtools/flat
- * - include/objects/objmgr/ --> include/objmgr/
- * - include/objects/util/ --> include/objmgr/util/
- * - include/objects/validator --> include/objtools/validator
- *
- * Revision 1.12 2003/04/29 19:51:12 vasilche
- * Fixed interaction of Data Loader garbage collector and TSE locking mechanism.
- * Made some typedefs more consistent.
- *
- * Revision 1.11 2003/04/25 14:23:46 vasilche
- * Added explicit constructors, destructor and assignment operator to make it compilable on MSVC DLL.
- *
- * Revision 1.10 2003/04/24 16:12:37 vasilche
- * Object manager internal structures are splitted more straightforward.
- * Removed excessive header dependencies.
- *
- * Revision 1.9 2003/04/14 21:31:05 grichenk
- * Removed operators ==(), !=() and <()
- *
- * Revision 1.8 2003/03/12 20:09:31 grichenk
- * Redistributed members between CBioseq_Handle, CBioseq_Info and CTSE_Info
- *
- * Revision 1.7 2003/02/05 17:57:41 dicuccio
- * Moved into include/objects/objmgr/impl to permit data loaders to be defined
- * outside of xobjmgr.
- *
- * Revision 1.6 2002/12/26 21:03:33 dicuccio
- * Added Win32 export specifier. Moved file from src/objects/objmgr to
- * include/objects/objmgr.
- *
- * Revision 1.5 2002/07/08 20:51:01 grichenk
- * Moved log to the end of file
- * Replaced static mutex (in CScope, CDataSource) with the mutex
- * pool. Redesigned CDataSource data locking.
- *
- * Revision 1.4 2002/05/29 21:21:13 gouriano
- * added debug dump
- *
- * Revision 1.3 2002/05/06 03:28:46 vakatov
- * OM/OM1 renaming
- *
- * Revision 1.2 2002/02/21 19:27:05 grichenk
- * Rearranged includes. Added scope history. Added searching for the
- * best seq-id match in data sources and scopes. Updated tests.
- *
- * Revision 1.1 2002/02/07 21:25:05 grichenk
- * Initial revision
- *
- *
- * ===========================================================================
- */
- #endif//OBJECTS_OBJMGR_IMPL___TSE_INFO_OBJECT__HPP
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