gnFileSource.h Source File

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# gnFileSource.h

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    00001
    00002 // File:            gnFileSource.h
    00003 // Purpose:         Implements gnBaseSource for .File files
    00004 // Description:
    00005 // Changes:
    00006 // Version:         libGenome 0.1.0
    00007 // Author:          Aaron Darling
    00008 // Last Edited:     April 15, 2001, 10:34:50pm
    00009 // Modified by:
    00010 // Copyright:       (c) Aaron Darling
    00011 // Licenses:        Proprietary
    00013 #ifndef _gnFileSource_h_
    00014 #define _gnFileSource_h_
    00015
    00016 #include "gn/gnDefs.h"
    00017
    00018 #include <string>
    00019 #include <fstream>
    00020 #include "gn/gnBaseSource.h"
    00021 #include "gn/gnFileContig.h"
    00022 #include "gn/gnException.h"
    00023
    00028 class GNDLLEXPORT gnFileSource : public gnBaseSource
    00029 {
    00030 public:
    00031         gnFileSource(){}
    00032         gnFileSource(const gnFileSource& gnfs);
    00033         virtual ~gnFileSource(){}
    00034         virtual gnFileSource* Clone() const = 0;
    00035         // Open, Close
    00036         virtual void Open( string openString );
    00037         virtual void Open();
    00038         virtual void Close();
    00039         virtual string GetOpenString() const ;
    00040           // Filter
    00041         virtual const gnFilter* GetFilter() const ;
    00042         virtual void SetFilter( gnFilter* filter );
    00043
    00044         virtual boolean Read( const uint64 pos, char* buf, uint32& bufLen );
    00049         virtual gnFileContig* GetFileContig( const uint32 contigI ) const = 0;
    00050 protected:
    00051         string m_openString;
    00052         ifstream m_ifstream;
    00053         const gnFilter* m_pFilter;
    00054         gnNewlineType m_newlineType;
    00055         uint32 m_newlineSize;
    00056 private:
    00057         virtual boolean ParseStream( istream& fin ) = 0;
    00058 };// class gnFileSource
    00059
    00060 inline
    00061 string gnFileSource::GetOpenString( ) const
    00062 {
    00063         return m_openString;
    00064 }
    00065 // Filter
    00066 inline
    00067 const gnFilter* gnFileSource::GetFilter() const
    00068 {
    00069         return m_pFilter;
    00070 }
    00071
    00072 inline
    00073 void gnFileSource::SetFilter( gnFilter* filter )
    00074 {
    00075         if(filter == NULL){
    00076                 Throw_gnEx(NullPointer());
    00077         }
    00078         m_pFilter = filter;
    00079 }
    00080
    00081 #endif
    00082         // _gnFileSource_h_