/usr/include/pbseq/alignment/simulator/QualitySample.hpp is in libblasr-dev 0~20161219-1.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 | #ifndef _SIMULATOR_QUALITY_SAMPLE_HPP_
#define _SIMULATOR_QUALITY_SAMPLE_HPP_
#include <iostream>
#include "../../pbdata/Types.h"
#include "../../pbdata/qvs/QualityValue.hpp"
#include "../../pbdata/SMRTSequence.hpp"
#define NQV 4
#define NFV 3
#define NT 2
class QualitySample {
public:
QualityValue qv[NQV];
HalfWord frameValues[NFV];
Nucleotide tags[NT];
void CopyFromSequence(SMRTSequence &seq, int pos);
void Write(std::ofstream &out);
void Read(std::ifstream &in);
void CreateFromRead(SMRTSequence &seq, DNALength pos);
};
#endif
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