shi_loader.hpp

ncbi源码

/*
 * ===========================================================================
 * PRODUCTION $Log: shi_loader.hpp,v $
 * PRODUCTION Revision 1000.0  2004/04/12 18:27:00  gouriano
 * PRODUCTION PRODUCTION: IMPORTED [CATCHUP_003] Dev-tree R1.4
 * PRODUCTION
 * ===========================================================================
 */

#ifndef GUI_WIDGETS_GRAPH_3D___SHI_LOADER__HPP
#define GUI_WIDGETS_GRAPH_3D___SHI_LOADER__HPP

/*  $Id: shi_loader.hpp,v 1000.0 2004/04/12 18:27:00 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:  Vladimir Tereshkov
 *
 * File Description:  
 *   Shi file format loader header. Code ported from shi/shipr.c CGI.
 */


#include <corelib/ncbistd.hpp>
#include <corelib/ncbi_bswap.hpp>
#include <gui/widgets/taxplot3d/taxplot3d_ds.hpp>
#include <gui/widgets/taxplot3d/shi_loader_events.hpp>

#include <memory>

BEGIN_NCBI_SCOPE

// one record in Taxplot file format
struct SShiRecord {
  public:
    int m_Nqugi, m_Dagi, m_Taxid, m_Score, m_Orgclass, m_Symmet, m_Chromosome, m_Pdb;  
    SShiRecord(){};
    ~SShiRecord(){};
};

// complete shi file
class CShiFile {
  private:	
    string                  m_FileName;
    CT_POS_TYPE             m_FileSize;
    CT_OFF_TYPE             m_FileCursor;
    CNcbiIfstream           m_FileStream;
    SShiRecord              m_Record;
    auto_ptr<unsigned char> m_Buff;

	  int length,jbuf,value,no_more,last_gi,nshi;

    int getNextInt(void);
  public:  
    CShiFile(){}
   ~CShiFile(){}	

    // get access
    string                  & getFileName(void)    { return m_FileName;    }
    CT_POS_TYPE             & getFileSize(void)    { return m_FileSize;    }
    CT_OFF_TYPE             & getFileCursor(void)  { return m_FileCursor;  }
    CNcbiIfstream           & getFileStream(void)  { return m_FileStream;  }
    
    // checks
    int        isEof(void)    const;             
    int        isLastGi(void) const;

    // actions
    void  openFile(const string name);    
    int   getNextRecord(SShiRecord & rec);
};

inline int CShiFile::isEof(void) const
{
    return (m_FileCursor*4) >= m_FileSize - CT_POS_TYPE(0);
}

inline int CShiFile::isLastGi(void)   const {return last_gi;                       }

inline int CShiFile::getNextInt(void)
{
    unsigned char * ptr =  m_Buff.get() + m_FileCursor*4;    
    Int4 ret = (Int4(ptr[3]) << 24) | 
               (Int4(ptr[2]) << 16) | 
               (Int4(ptr[1]) << 8)  | 
               (Int4(ptr[0]));
  
    m_FileCursor += 1;
    return ret;
}

// loader wrapper
class ShiLoader {
private:	
    // simplified cache    
    typedef map    <int, int> TSMAP; // tax&score vect for 1 gi
    typedef vector <TSMAP>    GIVECTOR; // all cachable gi's
    GIVECTOR                  m_Cache;

    // datasource
    CTaxplot3dDataSource * m_DS;   

    // callbacks
    IShiLoaderEvents * m_Handle;
    
public:
    ShiLoader() 
    {
        m_DS = new CTaxplot3dDataSource();
        m_Cache.clear();
        m_Handle = NULL;
    }
    ~ShiLoader()  
    {
        if (m_DS) delete m_DS;
        m_Cache.clear();      
    }
	      
    int   loadFileNew(const char * file);
    CTaxplot3dDataSource * getData(int gi1, int gi2, int gi3);      
    void setConnectionPoint(IShiLoaderEvents * handle) {m_Handle = handle;};      
};

END_NCBI_SCOPE


/*
 * ===========================================================================
 * $Log: shi_loader.hpp,v $
 * Revision 1000.0  2004/04/12 18:27:00  gouriano
 * PRODUCTION: IMPORTED [CATCHUP_003] Dev-tree R1.4
 *
 * Revision 1.4  2004/02/20 20:03:27  ucko
 * Fix to compile with stricter implementations of CT_POS_TYPE
 *
 * Revision 1.3  2004/01/15 13:09:09  ucko
 * Use CT_POS_TYPE macro rather than pos_type typedef, which GCC 2.95 lacks.
 *
 * Revision 1.2  2004/01/15 01:15:20  ucko
 * +<memory> for auto_ptr<>
 *
 * Revision 1.1  2004/01/05 16:22:03  tereshko
 * Initial revision
 *
 * ===========================================================================
 */

#endif