/usr/include/pbihdf/HDFZMWReader.hpp is in libpbihdf-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 36 37 38 39 40 41 42 43 44 45 | #ifndef _BLASR_HDF_ZMW_READER_HPP_
#define _BLASR_HDF_ZMW_READER_HPP_
#include <cstdint>
#include "H5Cpp.h"
#include "reads/ZMWGroupEntry.hpp"
#include "HDFArray.hpp"
#include "HDF2DArray.hpp"
#include "HDFGroup.hpp"
class HDFZMWReader {
public:
HDFGroup *parentGroupPtr;
HDFGroup zmwGroup;
HDFArray<unsigned int> holeNumberArray;
HDFArray<unsigned char> holeStatusArray;
HDF2DArray<int16_t> xyArray;
HDFArray<int> numEventArray;
bool readHoleNumber, readHoleStatus;
bool readHoleXY;
bool readNumEvent;
UInt curZMW;
UInt nZMWEntries;
bool closeFileOnExit;
H5::H5File hdfPlsFile;
HDFZMWReader();
int Initialize(HDFGroup *parentGroupP);
int Initialize();
int Advance(int nSteps);
bool GetNext(ZMWGroupEntry &groupEntry);
void Close();
// Return true if get hole number at ZMW/HoleNumber[index].
bool GetHoleNumberAt(UInt index, UInt & holeNumber);
~HDFZMWReader();
};
#endif
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