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/*
This file is a part of KMC software distributed under GNU GPL 3 licence.
The homepage of the KMC project is http://sun.aei.polsl.pl/kmc
Authors: Marek Kokot
Version: 3.2.4
Date : 2024-02-09
*/
#ifndef _PARAMETERS_PARSER_H
#define _PARAMETERS_PARSER_H
#include "defs.h"
#include "parser.h"
#include <memory>
class CParametersParser
{
std::unique_ptr<CParser> complex_parser;
int argc;
char** argv;
int pos;
CConfig& config;
uint32 replace_zero(uint32 val, const char* param_name, uint32 value_to_set_if_zero);
void parse_int_or_float(bool& force_float, bool& force_int, float& float_value, uint32& int_val, const char* param_name);
void parse_global_params();
void read_input_fastq_desc();
void read_output_fastq_desc();
void read_input_desc();
void read_check_params();
void read_filter_params();
bool read_output_desc_for_simple();
bool read_output_for_transform();
uint32 get_max_counter_max();
uint64 get_max_cutoff_max();
uint32 get_min_cutoff_min();
public:
CParametersParser(int argc, char** argv);
void Usage();
template<unsigned SIZE>
CExpressionNode<SIZE>* GetExpressionRoot();
void Parse();
bool validate_input_dbs();
void SetThreads();
};
template<unsigned SIZE>
CExpressionNode<SIZE>* CParametersParser::GetExpressionRoot()
{
return complex_parser->GetExpressionRoot<SIZE>();
}
#endif
// ***** EOF
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