Struct AlignOpts 

pub struct AlignOpts {
    pub threads: usize,
    pub coverage_pct: u32,
    pub evalue: Option<f64>,
    pub extra_args: Vec<String>,
    pub quiet: bool,
}

Options tuning an alignment run. Sensible gapseq defaults: coverage 75%, use all detected cores, no extra user args.

Fields

threads: usize

Worker threads to pass to the underlying binary.

coverage_pct: u32

Minimum query coverage, 0–100 (not enforced by PrecomputedTsvAligner).

evalue: Option<f64>

Optional e-value cutoff. None = leave to the tool’s default.

extra_args: Vec<String>

Additional free-form CLI flags appended verbatim. Unsafe if fed untrusted input — matches gapseq’s -R flag in src/gapseq_find.sh.

quiet: bool

Suppress the tool’s stderr when true. Useful in batch pipelines.

Trait Implementations

impl Clone for AlignOpts

fn clone(&self) -> AlignOpts

Returns a duplicate of the value.

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

Performs copy-assignment from source.

impl Debug for AlignOpts

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

Formats the value using the given formatter.

impl Default for AlignOpts

fn default() -> Self

Returns the “default value” for a type.