Method seq2intvector

src/duplicate.cpp:111–120

};

void Duplicate::seq2intvector(const char* data, int len, uint64* output, int posOffset) {
    for(int p=0; p<len; p++) {
        uint64 base = SEQ_HASH_VAL[static_cast<unsigned char>(data[p])];
        for(int i=0; i<mBufNum; i++) {
            int offset = (p+posOffset)*mBufNum + i;
            offset &= mOffsetMask;
            output[i] += mPrimeArrays[offset] * (base + (p+posOffset));
        }
    }
}

bool Duplicate::checkRead(Read* r) {
    // max mBufNum is 8 (accuracy level 6), stack-allocate to avoid heap alloc per read