/usr/include/pbseq/alignment/files/FragmentCCSIterator.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 | #ifndef _BLASR_FRAGMENT_CCS_ITERATOR_HPP_
#define _BLASR_FRAGMENT_CCS_ITERATOR_HPP_
#include <vector>
#include "../../pbdata/reads/RegionTable.hpp" // pbdata
#include "../utils/RegionUtils.hpp"
#include "CCSIterator.hpp"
class FragmentCCSIterator : public CCSIterator {
public:
RegionTable *regionTablePtr;
std::vector<ReadInterval> subreadIntervals;
std::vector<int> readIntervalDirection;
virtual
void Initialize(CCSSequence *_seqPtr, RegionTable *_regionTablePtr);
virtual
int GetNext(int & direction, int & startBase, int & numBases);
};
#endif
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