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/*++
Module Name:
ReadReader.cpp
Abstract:
Concrete file reading classes
Environment:
User mode service.
--*/
#include "stdafx.h"
#include "BigAlloc.h"
#include "Compat.h"
#include "Read.h"
#include "AlignmentResult.h"
#include "FileFormat.h"
class SimpleReadReader : public ReadReader
{
public:
SimpleReadReader(const FileFormat* i_format, DataReader* i_data, const ReaderContext& i_context)
: ReadReader(i_context), format(i_format), data(i_data), headerSize(0)
{}
virtual ~SimpleReadReader()
{
delete data;
}
virtual void reinit(_int64 startingOffset, _int64 amountOfFileToProcess);
virtual bool getNextRead(Read *readToUpdate);
virtual bool getNextRead(Read *read, AlignmentResult *alignmentResult, unsigned *genomeLocation, bool *isRC, unsigned *mapQ,
unsigned *flag, const char **cigar)
{
// return getNextRead(read,alignmentResult,genomeLocation,isRC,mapQ,flag,false,cigar);
}
virtual void holdBatch(DataBatch batch)
{ data->holdBatch(batch); }
virtual bool releaseBatch(DataBatch batch)
{ return data->releaseBatch(batch); }
private:
const FileFormat* format;
DataReader* data;
_int64 headerSize;
};
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