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// File Description
/// \file Cigar.cpp
/// \brief Implements the Cigar class.
//
// Author: Derek Barnett

#include "pbbam/Cigar.h"
#include <sstream>
using namespace PacBio;
using namespace PacBio::BAM;
using namespace std;

Cigar::Cigar(const string& cigarString)
    : vector<CigarOperation>()
{
    size_t numberStart = 0;
    const size_t numChars = cigarString.size();
    for (size_t i = 0; i < numChars; ++i) {
        const char c = cigarString.at(i);
        if (!isdigit(c)) {
            const size_t distance = i - numberStart;
            const uint32_t length = stoul(cigarString.substr(numberStart, distance));
            push_back(CigarOperation(c, length));
            numberStart = i+1;
        }
    }
}

string Cigar::ToStdString(void) const
{
    stringstream s;
    const auto end  = this->cend();
    for (auto iter = this->cbegin(); iter != end; ++iter) {
        const CigarOperation& cigar = (*iter);
        s << cigar.Length()
          << cigar.Char();
    }
    return s.str();
}
