Struct YaraRecord 

pub struct YaraRecord {

    pub read_pair_index: u32,
    pub is_read1: bool,
    pub contig_id: u32,
    pub pos: u32,
    pub is_reverse: bool,
    pub is_secondary: bool,
    pub is_unmapped: bool,
    pub mapq: u8,
    pub nm: u8,
    pub x0: u16,
    pub x1: u16,
    pub mate_contig_id: u32,
    pub mate_pos: u32,
    pub tlen: i32,
    pub flag: u16,
    pub cigar: Vec<CigarOp>,
    pub seq: Option<Vec<u8>>,
    pub qual: Option<Vec<u8>>,
    pub xa: Option<String>,
}

A single alignment record returned by the YARA mapper.

This is a fully-owned Rust type — all heap data (CIGAR, sequence, quality, XA tag) has been copied from the C++ side and the C++ memory freed.

Fields

read_pair_index: u32

Index of the read pair in the input batch (0-based).

is_read1: bool

Whether this record is for the first read in the pair.

contig_id: u32

Reference contig index.

pos: u32

0-based leftmost position on the reference.

is_reverse: bool

Whether the read is mapped to the reverse strand.

is_secondary: bool

Whether this is a secondary alignment.

is_unmapped: bool

Whether the read is unmapped.

mapq: u8

Mapping quality.

nm: u8

Edit distance (NM tag).

x0: u16

Number of co-optimal alignments (X0 tag).

x1: u16

Number of sub-optimal alignments (X1 tag).

mate_contig_id: u32

Mate’s reference contig index.

mate_pos: u32

Mate’s 0-based position.

tlen: i32

Template length (TLEN).

flag: u16

Full SAM flag field.

cigar: Vec<CigarOp>

CIGAR operations (empty for secondaries without align_secondary).

seq: Option<Vec<u8>>

Read sequence (None for secondary records).

qual: Option<Vec<u8>>

Base qualities (None for secondary records).

xa: Option<String>

XA tag string (only when secondary_mode=Tag, otherwise None).

Implementations

impl YaraRecord

pub fn cigar_string(&self) -> String

CIGAR string in SAM format (e.g., “50M2I48M”).

Trait Implementations

impl Clone for YaraRecord

fn clone(&self) -> YaraRecord

Returns a duplicate of the value.

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

Performs copy-assignment from source.

impl Debug for YaraRecord

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

Formats the value using the given formatter.