private:

//loaded from disk

uint8_t bitPower;

uint64_t binSize;

//constructFMIndex() - IMPORTANT: THIS IS TRANSPOSED COMPARED TO PYTHON IMPL

//aka row = symbol; column = index

uint64_t** fmIndex;

vector<uint64_t> refFM;

uint64_t offsetSum;

//these functions build all auxiliary structures required for the FM-index lookups

void constructFMIndex();

public:

//constructor and destructor

RLE_BWT(string inFN, uint8_t bitPower=8);

~RLE_BWT();

//query sub-routines

bwtRange constrainRange(uint8_t sym, bwtRange inRange);