// -*- c++ -*-
/*****************************************************************************/
// Copyright (c) Illumina 2008
// Author: Richard Shaw
//
// This software is covered by the "Illumina Genome Analyzer Software
// License Agreement" and the "Illumina Source Code License Agreement",
// and certain third party copyright/licenses, and any user of this
// source file is bound by the terms therein (see accompanying files
// Illumina_Genome_Analyzer_Software_License_Agreement.pdf and
// Illumina_Source_Code_License_Agreement.pdf and third party
// copyright/license notices).
/*****************************************************************************/

#ifndef QUALITY_VALUE_STATS_H
#define QUALITY_VALUE_STATS_H

/*****************************************************************************/

#include <list>
#include <map>
#include <stdexcept>

#include "common/File_Buffer.h"
#include "statistics/Read_Align_Info.h"
#include "statistics/Quality_Value_Stats_Set.h"

/*****************************************************************************/

class Quality_Value_Stats
{
 public:
    Quality_Value_Stats();
    ~Quality_Value_Stats();
    void add_read_align_info(const Read_Align_Info& read_align_info);
    bool write_report(File_Buffer& file_buffer) const;

 private:
    Quality_Value_Stats_Set my_all_quality_value_stats_set;
    Quality_Value_Stats_Set my_passed_filter_quality_value_stats_set;

    unsigned int my_lane_num;

    typedef std::map<unsigned int, unsigned int> Tile_Num_Freq_Map;
    typedef Tile_Num_Freq_Map::const_iterator Tile_Num_Freq_Map_CIter;
    Tile_Num_Freq_Map my_tile_num_freq_map;
};

/*****************************************************************************/

#endif // ! QUALITY_VALUE_STATS_H

/*****************************************************************************/