#pragma once

#include "io/reads/single_read.hpp"

namespace debruijn_graph {

typedef std::string bin_id;
typedef std::string contig_id;
typedef std::vector<bin_id> Bins;
typedef std::set<bin_id> BinSet;
typedef std::pair<contig_id, Bins> ContigAnnotation;

inline contig_id GetId(const io::SingleRead& contig) {
//     std::string name = contig.name();
//     size_t pos = name.find("_ID_");
//     VERIFY(pos != std::string::npos);
//     size_t start = pos + 4;
//     VERIFY(start < name.size());
//     return name.substr(start, name.size() - start);
    return contig.name();
}

inline contig_id GetBaseId(const contig_id& id) {
    size_t pos = id.find('_');
    VERIFY(pos != string::npos && id.substr(0, pos) == "NODE");
    size_t pos2 = id.find('_', pos + 1);
    return id.substr(pos + 1, pos2 - pos - 1);
}

}