// NrParser.hpp


#if !defined(NR_PARSER_HPP)
#define NR_PARSER_HPP


#include <string>
#include <vector>
#include "FastaWriter.hpp"
#include "Parser.hpp"
#include "Reader.hpp"


namespace NGBW {


struct NrDefline {

	void clear() throw()
	{
		identity.clear();
		database.clear();
		description.clear();
	}

	std::string identity;
	std::string database;
	std::string description;
};

typedef std::vector<NrDefline> DeflineList;

struct NrFastaRecord {

	void clear() throw()
	{
		sequence.clear();
		deflines.clear();
	}

	std::string sequence;
	DeflineList deflines;
};


class NrParser : public Parser {
public:

	NrParser(Reader &input) throw() : Parser(input) { }
	~NrParser() throw() { }


	bool Parse(NrFastaRecord &record);


private:

	void ParseHeader(NrFastaRecord &record);
	void ParseDefline(size_t offset, size_t end, NrDefline &defline);
};


} // namespace NGBW


#endif // NR_PARSER_HPP