/usr/include/blasr/anchoring/AnchorParameters.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 24 25 26 27 28 29 30 31 32 33 34 35 | #ifndef _BLASR_ANCHOR_PARAMETERS_HPP_
#define _BLASR_ANCHOR_PARAMETERS_HPP_
#include <fstream>
#include <iostream>
#include "qvs/QualityValue.hpp"
#include "DNASequence.hpp"
class AnchorParameters {
public:
QualityValue branchQualityThreshold;
DNALength minMatchLength;
int maxMatchScore;
int expand;
int contextAlignLength;
bool useLookupTable;
int numBranches;
int maxAnchorsPerPosition;
int advanceExactMatches;
DNALength maxLCPLength;
bool stopMappingOnceUnique;
int verbosity;
bool removeEncompassedMatches;
std::ostream *lcpBoundsOutPtr;
int branchExpand;
AnchorParameters();
AnchorParameters &Assign(const AnchorParameters &rhs);
AnchorParameters &operator=(const AnchorParameters &rhs);
};
#endif // _BLASR_ANCHOR_PARAMETERS_HPP_
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