gaf_sorter.cpp File Reference

#include "gaf_sorter.hpp"
#include <chrono>
#include <cmath>
#include <deque>
#include <fstream>
#include <queue>
#include <thread>
#include <charconv>
#include "utility.hpp"
#include "zstdutil.hpp"
#include <htslib/hfile.h>
#include <htslib/hts.h>
#include <gbwt/dynamic_gbwt.h>

Namespaces
namespace	vg

Functions
std::unique_ptr< gbwt::GBWTBuilder >	vg::create_gbwt_builder (const GAFSorterFile &output)
void	vg::finish_gbwt_construction (gbwt::GBWTBuilder *builder, GAFSorterFile &output)
bool	vg::sort_gaf (const std::string &input_file, const std::string &output_file, const GAFSorterParameters &params)
void	vg::sort_gaf_lines (std::unique_ptr< std::vector< std::string > > lines, GAFSorterRecord::key_type key_typekey_type, bool stable, GAFSorterFile &output)
void	vg::merge_gaf_records (std::unique_ptr< std::vector< GAFSorterFile > > inputs, GAFSorterFile &output, size_t buffer_size)