Struct Record 

pub struct Record { /* private fields */ }

A header record within a chain file.

Implementations

impl Record

pub fn score(&self) -> usize

Gets the score.

Examples

use chainfile::alignment::section::header;

let header = "chain 0 seq0 2 + 0 2 seq0 2 - 0 2 1".parse::<header::Record>()?;

assert_eq!(header.score(), 0);

pub fn reference_sequence(&self) -> &Sequence

Gets the reference sequence.

Examples

use chainfile::alignment::section::header;
use omics::coordinate::Strand;

let header = "chain 0 seq0 2 + 0 2 seq0 2 - 0 2 1".parse::<header::Record>()?;

assert_eq!(header.reference_sequence().chromosome_name(), "seq0");
assert_eq!(header.reference_sequence().chromosome_size(), 2);
assert_eq!(header.reference_sequence().strand(), Strand::Positive);
assert_eq!(header.reference_sequence().alignment_start(), 0);
assert_eq!(header.reference_sequence().alignment_end(), 2);

pub fn query_sequence(&self) -> &Sequence

Gets the query sequence.

Examples

use chainfile::alignment::section::header;
use omics::coordinate::Strand;

let header = "chain 0 seq0 2 + 0 2 seq0 2 - 0 2 1".parse::<header::Record>()?;

assert_eq!(header.query_sequence().chromosome_name(), "seq0");
assert_eq!(header.query_sequence().chromosome_size(), 2);
assert_eq!(header.query_sequence().strand(), Strand::Negative);
assert_eq!(header.query_sequence().alignment_start(), 0);
assert_eq!(header.query_sequence().alignment_end(), 2);

pub fn id(&self) -> usize

Gets the id.

Examples

use chainfile::alignment::section::header;
use omics::coordinate::Strand;

let header = "chain 0 seq0 2 + 0 2 seq0 2 - 0 2 1".parse::<header::Record>()?;

assert_eq!(header.id(), 1);

Trait Implementations

impl Clone for Record

fn clone(&self) -> Record

Returns a duplicate of the value.

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

Performs copy-assignment from source.

impl Debug for Record

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

Formats the value using the given formatter.

impl Display for Record

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

Formats the value using the given formatter.

impl FromStr for Record

type Err = Error

The associated error which can be returned from parsing.

fn from_str(s: &str) -> Result<Self, Error>

Parses a string s to return a value of this type.

impl PartialEq for Record

fn eq(&self, other: &Record) -> bool

Tests for self and other values to be equal, and is used by ==.

fn ne(&self, other: &Rhs) -> bool

Tests for !=. The default implementation is almost always sufficient, and should not be overridden without very good reason.

impl Eq for Record

impl StructuralPartialEq for Record