pooled_data.h

#ifndef _POOLED_DATA_H_
#define _POOLED_DATA_H_

#include <iostream>
#include <cfloat>
#include <iomanip>
#include <vector>
#include <math.h>

#include "typedef.h"
#include "base.h"
#include "data.h"
#include "allele.h"


class Pooled_data : public Indexed_data { 
private:
    static const Registration registered;
    static Data * create(const std::vector <std::string> & Columns){
        return new Pooled_data(Columns);
    }
public:
    char delim;     
    Base major, minor, ref; 
    count_t coverage;
    float_t error;

    std::vector <std::string> names_;
    std::vector <float_t> p;    
    std::vector <float_t> cov;  
    std::vector <float_t> polyll;   
    std::vector <float_t> fixedll;  
    
    Pooled_data();  
    Pooled_data(const std::vector <std::string> &);
    
    Allele to_allele(const size_t &);

    void set_sample_names(const std::vector <std::string> &);
    Pooled_data & operator=(const Pooled_data &);   

    std::string header(void) const;
    size_t size(void) const;

    const std::string get_file_name() const {return Pooled_data::file_name;};
        const std::string get_table_name() const {return Pooled_data::table_name;};

    void write (std::ostream&) const;   
    void read (std::istream&);
    static const std::string file_name; 
    static const std::string table_name;    
    static const bool binary;
    const bool get_binary() const;
};

#endif