Struct MapperOptions 

pub struct MapperOptions {
    pub error_rate: f32,
    pub strata_rate: f32,
    pub strata_count: Option<u32>,
    pub sensitivity: Sensitivity,
    pub threads: usize,
    pub secondary_mode: SecondaryMode,
    pub align_secondary: bool,
    pub verify_matches: bool,
    pub verbose: u32,
    pub library_length: u32,
    pub library_dev: u32,
}

Configuration options for the YARA mapper.

Use MapperOptions::default() for sensible defaults matching YARA’s command-line defaults, then override individual fields as needed.

Fields

error_rate: f32

Maximum error rate as a fraction of read length (default 0.05 = 5%).

strata_rate: f32

Strata rate — fraction of additional errors beyond the best alignment to report (default 0.00).

strata_count: Option<u32>

Fixed strata count (alternative to strata_rate). Set to None to use strata_rate instead.

sensitivity: Sensitivity

Sensitivity level (default High).

threads: usize

Number of threads for OpenMP parallelism (default: available cores).

secondary_mode: SecondaryMode

How to report secondary alignments (default Tag).

align_secondary: bool

Whether to align secondary matches (compute CIGAR). Only meaningful when secondary_mode is Tag or Record.

verify_matches: bool

Whether to verify mate-pair matches (paired-end rescue). Default true.

verbose: u32

Verbosity level (0 = silent, 1 = stats, 2 = detailed).

library_length: u32

Expected library (insert) length. 0 = auto-estimate from the data.

library_dev: u32

Expected library standard deviation. 0 = auto-estimate.

Trait Implementations

impl Clone for MapperOptions

fn clone(&self) -> MapperOptions

Returns a duplicate of the value.

fn clone_from(&mut self, source: &Self)

Performs copy-assignment from source.

impl Debug for MapperOptions

fn fmt(&self, f: &mut Formatter<'_>) -> Result

Formats the value using the given formatter.

impl Default for MapperOptions

fn default() -> Self

Returns the “default value” for a type.