/usr/include/blasr/qvs/QualityValueProfile.hpp is in libblasr-dev 0~20151014+gitbe5d1bf-2.
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 | #ifndef _BLASR_QUALITY_VALUE_PROFILE_HPP_
#define _BLASR_QUALITY_VALUE_PROFILE_HPP_
#include <fstream>
#include "tuples/DNATuple.hpp"
#include "tuples/TupleMetrics.hpp"
#include "matrix/FlatMatrix.hpp"
#include "qvs/QualityValue.hpp"
class QualityValueProfile {
int wordSize;
int numQualityValues;
FlatMatrix2D<int> profile;
int nWords;
TupleMetrics tm;
public:
static const int CDF_GRANULARITY = 10000;
QualityValueProfile(int _wordSize, int _numQualityValues);
void Update(Nucleotide *seq, QualityValue qv);
void Print(std::ofstream &out);
void ProfileToCDF();
};
#endif
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