gfa_to_handle.cpp File Reference

#include "gfa_to_handle.hpp"
#include "../path.hpp"
#include "../utility.hpp"
#include <gbwtgraph/utils.h>

Namespaces
namespace	vg
namespace	vg::algorithms

Functions
void	vg::algorithms::gfa_to_handle_graph (const string &filename, MutableHandleGraph *graph, GFAIDMapInfo *translation)
void	vg::algorithms::gfa_to_handle_graph (const string &filename, MutableHandleGraph *graph, const string &translation_filename)
	Overload which serializes its translation to a file internally.
void	vg::algorithms::gfa_to_handle_graph (istream &in, MutableHandleGraph *graph, GFAIDMapInfo *translation=nullptr)
	Load a GFA from a stream (assumed not to be seekable or reopenable) into a HandleGraph.
void	vg::algorithms::gfa_to_path_handle_graph (const string &filename, MutablePathMutableHandleGraph *graph, GFAIDMapInfo *translation=nullptr, int64_t max_rgfa_rank=numeric_limits< int64_t >::max(), unordered_set< PathSense > *ignore_sense=nullptr)
	Same as gfa_to_handle_graph but also adds path elements from the text GFA to the graph.
void	vg::algorithms::gfa_to_path_handle_graph (const string &filename, MutablePathMutableHandleGraph *graph, int64_t max_rgfa_rank, const string &translation_filename, unordered_set< PathSense > *ignore_sense=nullptr)
	Overload which serializes its translation to a file internally.
void	vg::algorithms::gfa_to_path_handle_graph (istream &in, MutablePathMutableHandleGraph *graph, GFAIDMapInfo *translation=nullptr, int64_t max_rgfa_rank=numeric_limits< int64_t >::max(), unordered_set< PathSense > *ignore_sense=nullptr)
	Load a GFA from a stream (assumed not to be seekable or reopenable) into a PathHandleGraph.
void	vg::algorithms::attach_parser (GFAParser &parser, MutableHandleGraph *graph)
void	vg::algorithms::attach_parser (GFAParser &parser, MutablePathMutableHandleGraph *graph, int64_t max_rgfa_rank, unordered_set< PathSense > *ignore_sense)
void	vg::algorithms::attach_parser (GFAParser &parser, GFAIDMapInfo *translation)