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use noodles_bgzf as bgzf;
use super::bin::Chunk;
/// Index reference sequence metadata.
#[derive(Clone, Debug, Eq, PartialEq)]
pub struct Metadata {
start_position: bgzf::VirtualPosition,
end_position: bgzf::VirtualPosition,
mapped_record_count: u64,
unmapped_record_count: u64,
}
impl Metadata {
/// Creates reference sequence metadata.
///
/// # Examples
///
/// ```
/// use noodles_bgzf as bgzf;
/// use noodles_csi::binning_index::index::reference_sequence::Metadata;
///
/// let metadata = Metadata::new(
/// bgzf::VirtualPosition::from(610),
/// bgzf::VirtualPosition::from(1597),
/// 55,
/// 0,
/// );
/// ```
pub fn new(
start_position: bgzf::VirtualPosition,
end_position: bgzf::VirtualPosition,
mapped_record_count: u64,
unmapped_record_count: u64,
) -> Self {
Self {
start_position,
end_position,
mapped_record_count,
unmapped_record_count,
}
}
/// Returns the start virtual position.
///
/// # Examples
///
/// ```
/// use noodles_bgzf as bgzf;
/// use noodles_csi::binning_index::index::reference_sequence::Metadata;
///
/// let metadata = Metadata::new(
/// bgzf::VirtualPosition::from(610),
/// bgzf::VirtualPosition::from(1597),
/// 55,
/// 0,
/// );
///
/// assert_eq!(metadata.start_position(), bgzf::VirtualPosition::from(610));
/// ```
pub fn start_position(&self) -> bgzf::VirtualPosition {
self.start_position
}
/// Returns the end virtual position.
///
/// # Examples
///
/// ```
/// use noodles_bgzf as bgzf;
/// use noodles_csi::binning_index::index::reference_sequence::Metadata;
///
/// let metadata = Metadata::new(
/// bgzf::VirtualPosition::from(610),
/// bgzf::VirtualPosition::from(1597),
/// 55,
/// 0,
/// );
///
/// assert_eq!(metadata.end_position(), bgzf::VirtualPosition::from(1597));
/// ```
pub fn end_position(&self) -> bgzf::VirtualPosition {
self.end_position
}
/// Returns the number of mapped records.
///
/// # Examples
///
/// ```
/// use noodles_bgzf as bgzf;
/// use noodles_csi::binning_index::index::reference_sequence::Metadata;
///
/// let metadata = Metadata::new(
/// bgzf::VirtualPosition::from(610),
/// bgzf::VirtualPosition::from(1597),
/// 55,
/// 0,
/// );
///
/// assert_eq!(metadata.mapped_record_count(), 55);
/// ```
pub fn mapped_record_count(&self) -> u64 {
self.mapped_record_count
}
/// Returns the number of unmapped records.
///
/// # Examples
///
/// ```
/// use noodles_bgzf as bgzf;
/// use noodles_csi::binning_index::index::reference_sequence::Metadata;
///
/// let metadata = Metadata::new(
/// bgzf::VirtualPosition::from(610),
/// bgzf::VirtualPosition::from(1597),
/// 55,
/// 0,
/// );
///
/// assert_eq!(metadata.unmapped_record_count(), 0);
/// ```
pub fn unmapped_record_count(&self) -> u64 {
self.unmapped_record_count
}
pub(super) fn update(&mut self, is_mapped: bool, chunk: Chunk) {
if is_mapped {
self.mapped_record_count += 1;
} else {
self.unmapped_record_count += 1;
}
self.start_position = self.start_position.min(chunk.start());
self.end_position = self.end_position.max(chunk.end());
}
}