GiraffeMainOptions Struct Reference

Options struct for options for the Giraffe driver (i.e. this file). More...

Public Attributes
size_t	watchdog_timeout = default_watchdog_timeout
bool	log_reads = default_log_reads
size_t	batch_size = default_batch_size
bool	prune_low_cplx = default_prune_low_cplx

Static Public Attributes
static constexpr size_t	default_watchdog_timeout = 10
	How long should we wait while mapping a read before complaining, in seconds.
static constexpr bool	default_log_reads = false
	Should we log all the reads we map?
static constexpr size_t	default_batch_size = vg::io::DEFAULT_PARALLEL_BATCHSIZE
	How many reads to send to a thread at a time.
static constexpr bool	default_prune_low_cplx = false
	Should we prune low-complexity anchors when surjecting?

Detailed Description

Options struct for options for the Giraffe driver (i.e. this file).

Member Data Documentation

batch_size

size_t GiraffeMainOptions::batch_size = default_batch_size

default_batch_size

size_t GiraffeMainOptions::default_batch_size = vg::io::DEFAULT_PARALLEL_BATCHSIZE

staticconstexpr

How many reads to send to a thread at a time.

default_log_reads

bool GiraffeMainOptions::default_log_reads = false

staticconstexpr

Should we log all the reads we map?

default_prune_low_cplx

bool GiraffeMainOptions::default_prune_low_cplx = false

staticconstexpr

Should we prune low-complexity anchors when surjecting?

default_watchdog_timeout

size_t GiraffeMainOptions::default_watchdog_timeout = 10

staticconstexpr

How long should we wait while mapping a read before complaining, in seconds.

log_reads

bool GiraffeMainOptions::log_reads = default_log_reads

prune_low_cplx

bool GiraffeMainOptions::prune_low_cplx = default_prune_low_cplx

watchdog_timeout

size_t GiraffeMainOptions::watchdog_timeout = default_watchdog_timeout

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

• src/subcommand/giraffe_main.cpp