vg::GAFSorterParameters Struct Reference

#include <gaf_sorter.hpp>

Public Attributes
GAFSorterRecord::key_type	key_type = GAFSorterRecord::key_node_interval
	Key type used for sorting. More...
size_t	threads = THREADS
	Number of parallel sort/merge jobs. More...
size_t	records_per_file = RECORDS_PER_FILE
	Number of records per file in the initial sort. More...
size_t	files_per_merge = FILES_PER_MERGE
	Number of files to merge at once. More...
size_t	buffer_size = BUFFER_SIZE
	Buffer size for reading and writing records. More...
bool	stable = false
	Use stable sorting. More...
std::string	gbwt_file
	GBWT output file, if any. More...
bool	bidirectional_gbwt = false
	Make the GBWT bidirectional. More...
bool	progress = false
	Print progress information to stderr. More...

Static Public Attributes
constexpr static size_t	THREADS = 1
	Default for threads. More...
constexpr static size_t	RECORDS_PER_FILE = 1000000
	Default for records_per_file. More...
constexpr static size_t	FILES_PER_MERGE = 32
	Default for files_per_merge. More...
constexpr static size_t	BUFFER_SIZE = 1000
	Default for buffer_size. More...

Detailed Description

Parameters for the GAF sorter.

Member Data Documentation

bidirectional_gbwt

bool vg::GAFSorterParameters::bidirectional_gbwt = false

Make the GBWT bidirectional.

BUFFER_SIZE

constexpr size_t vg::GAFSorterParameters::BUFFER_SIZE = 1000

staticconstexpr

Default for buffer_size.

buffer_size

size_t vg::GAFSorterParameters::buffer_size = BUFFER_SIZE

Buffer size for reading and writing records.

FILES_PER_MERGE

constexpr size_t vg::GAFSorterParameters::FILES_PER_MERGE = 32

staticconstexpr

Default for files_per_merge.

files_per_merge

size_t vg::GAFSorterParameters::files_per_merge = FILES_PER_MERGE

Number of files to merge at once.

gbwt_file

std::string vg::GAFSorterParameters::gbwt_file

GBWT output file, if any.

key_type

GAFSorterRecord::key_type vg::GAFSorterParameters::key_type = GAFSorterRecord::key_node_interval

Key type used for sorting.

progress

bool vg::GAFSorterParameters::progress = false

Print progress information to stderr.

RECORDS_PER_FILE

constexpr size_t vg::GAFSorterParameters::RECORDS_PER_FILE = 1000000

staticconstexpr

Default for records_per_file.

records_per_file

size_t vg::GAFSorterParameters::records_per_file = RECORDS_PER_FILE

Number of records per file in the initial sort.

stable

bool vg::GAFSorterParameters::stable = false

Use stable sorting.

THREADS

constexpr size_t vg::GAFSorterParameters::THREADS = 1

staticconstexpr

Default for threads.

threads

size_t vg::GAFSorterParameters::threads = THREADS

Number of parallel sort/merge jobs.

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The documentation for this struct was generated from the following files:

• src/gaf_sorter.hpp
• src/gaf_sorter.cpp