#include <omp.h>
#include <unistd.h>
#include <getopt.h>
#include <string>
#include <vector>
#include <regex>
#include "subcommand.hpp"
#include "../crash.hpp"
#include "../vg.hpp"
#include <vg/io/stream.hpp>
#include <vg/io/stream_multiplexer.hpp>
#include <vg/io/vpkg.hpp>
#include "../convert.hpp"
#include "../utility.hpp"
#include "../chunker.hpp"
#include "../stream_index.hpp"
#include "../region.hpp"
#include "../haplotype_extracter.hpp"
#include "../path.hpp"
#include "../algorithms/sorted_id_ranges.hpp"
#include "../algorithms/find_gbwt.hpp"
#include <bdsg/overlays/overlay_helper.hpp>
#include "../io/save_handle_graph.hpp"
#include "../gbwtgraph_helper.hpp"
#include <gbwtgraph/algorithms.h>

Functions
void	chunk_gbz (const string &graph_filename, const std::string &contig_name, const std::string &out_prefix, Logger &logger)

void	help_chunk (char **argv)

int	main_chunk (int argc, char **argv)

Variables
const string	DEFAULT_CHUNK_PREFIX = "./chunk"

Function Documentation

◆ chunk_gbz()

void chunk_gbz	(	const string &	graph_filename,
		const std::string &	contig_name,
		const std::string &	out_prefix,
		Logger &	logger
	)

◆ help_chunk()

void help_chunk ( char ** argv )

◆ main_chunk()

int main_chunk	(	int	argc,
		char **	argv
	)

Variable Documentation

◆ DEFAULT_CHUNK_PREFIX

const string DEFAULT_CHUNK_PREFIX = "./chunk"