1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91
use std::ops::Index;
use bytes::Bytes;
use noodles_core::position::SequenceIndex;
/// A FASTA record sequence.
#[derive(Clone, Debug, Default, Eq, PartialEq)]
pub struct Sequence(Bytes);
impl Sequence {
/// Returns the length of the sequence.
///
/// # Examples
///
/// ```
/// use noodles_fasta::record::Sequence;
/// let sequence = Sequence::default();
/// assert_eq!(sequence.len(), 0);
/// ```
pub fn len(&self) -> usize {
self.0.len()
}
/// Returns whether the sequence is empty.
///
/// # Examples
///
/// ```
/// use noodles_fasta::record::Sequence;
/// let sequence = Sequence::default();
/// assert!(sequence.is_empty());
/// ```
pub fn is_empty(&self) -> bool {
self.0.is_empty()
}
/// Returns a reference to a base at or slice of bases between the given index.
///
/// # Examples
///
/// ```
/// use noodles_core::Position;
/// use noodles_fasta::record::Sequence;
///
/// let sequence = Sequence::from(b"ACGT".to_vec());
///
/// let start = Position::try_from(2)?;
/// assert_eq!(sequence.get(start), Some(&b'C'));
///
/// assert_eq!(sequence.get(start..), Some(&b"CGT"[..]));
///
/// let end = Position::try_from(3)?;
/// assert_eq!(sequence.get(start..=end), Some(&b"CG"[..]));
/// # Ok::<_, noodles_core::position::TryFromIntError>(())
/// ```
pub fn get<I>(&self, index: I) -> Option<&I::Output>
where
I: SequenceIndex<u8>,
{
index.get(self.as_ref())
}
}
impl AsRef<[u8]> for Sequence {
fn as_ref(&self) -> &[u8] {
&self.0
}
}
impl From<Vec<u8>> for Sequence {
fn from(data: Vec<u8>) -> Self {
Self(Bytes::from(data))
}
}
impl From<Bytes> for Sequence {
fn from(data: Bytes) -> Self {
Self(data)
}
}
impl<I> Index<I> for Sequence
where
I: SequenceIndex<u8>,
{
type Output = I::Output;
fn index(&self, index: I) -> &Self::Output {
index.index(self.as_ref())
}
}