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//! BGZF virtual position.
use std::{error, fmt};
pub(crate) const MAX_COMPRESSED_POSITION: u64 = (1 << 48) - 1;
pub(crate) const MAX_UNCOMPRESSED_POSITION: u16 = u16::MAX;
const COMPRESSED_POSITION_SHIFT: u64 = 16;
const UNCOMPRESSED_POSITION_MASK: u64 = 0xffff;
/// A BGZF virtual position.
///
/// A virtual position is a 64-bit unsigned integer representing both the position in the
/// compressed stream and position in the uncompressed block data. The compressed position is
/// typically at the start of a block.
///
/// The compressed position is the first six most significant bytes; and the uncompressed position,
/// the last two least significant bytes. For example, for the virtual position
/// 10253313912875616487:
///
/// ```text
/// compressed position
/// | |
/// 10253313912875616487 = 8e 4b 16 ad eb 85 88 e7
/// | |
/// uncompressed position
/// ```
///
/// The compressed position is at 156453154188165 (`8e 4b 16 ad eb 85`); and the uncompressed
/// position, 35047 (`88 e7`).
///
/// This is also called a virtual file offset; or, simply, a virtual offset.
#[derive(Clone, Copy, Debug, Default, PartialEq, Eq, PartialOrd, Ord)]
pub struct VirtualPosition(u64);
impl VirtualPosition {
/// The minimum value of a virtual position.
pub const MIN: Self = Self(u64::MIN);
/// The maximum value of a virtual position.
pub const MAX: Self = Self(u64::MAX);
/// Creates a virtual position if the compressed position is valid.
///
/// # Examples
///
/// ```
/// use noodles_bgzf::VirtualPosition;
/// assert_eq!(VirtualPosition::new(0, 0), Some(VirtualPosition::MIN));
/// assert!(VirtualPosition::new(1 << 48, 0).is_none());
/// ```
pub const fn new(compressed_pos: u64, uncompressed_pos: u16) -> Option<Self> {
if compressed_pos <= MAX_COMPRESSED_POSITION {
// SAFETY: 0 <= `uncompressed_pos` <= `u64`
let virtual_pos = compressed_pos << COMPRESSED_POSITION_SHIFT | uncompressed_pos as u64;
Some(Self(virtual_pos))
} else {
None
}
}
/// The position in the compressed BGZF stream.
///
/// This is typically at the start of a block.
///
/// The maximum value of a compressed position is 281474976710655 (2^48 - 1).
///
/// # Examples
///
/// ```
/// use noodles_bgzf as bgzf;
/// let virtual_position = bgzf::VirtualPosition::from(3741638);
/// assert_eq!(virtual_position.compressed(), 57);
/// ```
pub const fn compressed(self) -> u64 {
self.0 >> COMPRESSED_POSITION_SHIFT
}
/// The position in the uncompressed block data.
///
/// The maximum value of an uncompressed position is 65535 (2^16 - 1).
///
/// # Examples
///
/// ```
/// use noodles_bgzf as bgzf;
/// let virtual_position = bgzf::VirtualPosition::from(3741638);
/// assert_eq!(virtual_position.uncompressed(), 6086);
/// ```
pub const fn uncompressed(self) -> u16 {
(self.0 & UNCOMPRESSED_POSITION_MASK) as u16
}
}
impl From<u64> for VirtualPosition {
fn from(pos: u64) -> Self {
Self(pos)
}
}
/// An error returned when converting a (u64, u16) to a virtual position fails.
#[derive(Clone, Debug, Eq, PartialEq)]
pub enum TryFromU64U16TupleError {
/// The compressed position is larger than 2^48 - 1.
CompressedPositionOverflow,
}
impl error::Error for TryFromU64U16TupleError {}
impl fmt::Display for TryFromU64U16TupleError {
fn fmt(&self, f: &mut fmt::Formatter<'_>) -> fmt::Result {
match self {
Self::CompressedPositionOverflow => {
f.write_str("the compressed position is larger than 2^48 - 1")
}
}
}
}
impl TryFrom<(u64, u16)> for VirtualPosition {
type Error = TryFromU64U16TupleError;
/// Converts a `(compressed position, uncompressed position)` tuple to a virtual position.
///
/// # Examples
///
/// ```
/// use noodles_bgzf as bgzf;
/// let virtual_position = bgzf::VirtualPosition::try_from((57, 6086));
/// assert_eq!(virtual_position, Ok(bgzf::VirtualPosition::from(3741638)));
/// ```
fn try_from(pos: (u64, u16)) -> Result<Self, Self::Error> {
let (compressed_pos, uncompressed_pos) = pos;
if compressed_pos > MAX_COMPRESSED_POSITION {
return Err(TryFromU64U16TupleError::CompressedPositionOverflow);
}
Ok(Self(
compressed_pos << COMPRESSED_POSITION_SHIFT | u64::from(uncompressed_pos),
))
}
}
impl From<VirtualPosition> for u64 {
fn from(pos: VirtualPosition) -> Self {
pos.0
}
}
impl From<VirtualPosition> for (u64, u16) {
fn from(pos: VirtualPosition) -> Self {
(pos.compressed(), pos.uncompressed())
}
}
#[cfg(test)]
mod tests {
use super::*;
#[test]
fn test_from_u64_for_virtual_position() {
let pos = VirtualPosition::from(88384945211);
assert_eq!(pos.compressed(), 1348647);
assert_eq!(pos.uncompressed(), 15419);
let pos = VirtualPosition::from(188049630896);
assert_eq!(pos.compressed(), 2869409);
assert_eq!(pos.uncompressed(), 42672);
let pos = VirtualPosition::from(26155658182977);
assert_eq!(pos.compressed(), 399103671);
assert_eq!(pos.uncompressed(), 321);
}
#[test]
fn test_try_from_u64_u16_tuple_for_virtual_position() {
assert_eq!(
VirtualPosition::try_from((1348647, 15419)),
Ok(VirtualPosition::from(88384945211))
);
assert_eq!(
VirtualPosition::try_from((2869409, 42672)),
Ok(VirtualPosition::from(188049630896))
);
assert_eq!(
VirtualPosition::try_from((399103671, 321)),
Ok(VirtualPosition::from(26155658182977))
);
assert_eq!(
VirtualPosition::try_from((281474976710656, 0)),
Err(TryFromU64U16TupleError::CompressedPositionOverflow)
);
}
#[test]
fn test_from_virtual_position_for_u64() {
assert_eq!(u64::from(VirtualPosition::from(88384945211)), 88384945211);
assert_eq!(u64::from(VirtualPosition::from(188049630896)), 188049630896);
assert_eq!(
u64::from(VirtualPosition::from(26155658182977)),
26155658182977
);
}
#[test]
fn test_from_virtual_position_for_u64_u16_tuple() {
assert_eq!(
<(u64, u16)>::from(VirtualPosition::from(88384945211)),
(1348647, 15419)
);
assert_eq!(
<(u64, u16)>::from(VirtualPosition::from(188049630896)),
(2869409, 42672)
);
assert_eq!(
<(u64, u16)>::from(VirtualPosition::from(26155658182977)),
(399103671, 321)
);
}
}