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use std::io::{self, Write};
use flate2::write::GzEncoder;
use super::Record;
/// A CRAM index writer.
pub struct Writer<W>
where
W: Write,
{
inner: GzEncoder<W>,
}
impl<W> Writer<W>
where
W: Write,
{
/// Creates a CRAM index writer.
///
/// # Examples
///
/// ```
/// use noodles_cram::crai;
/// let writer = crai::Writer::new(Vec::new());
/// ```
pub fn new(inner: W) -> Self {
Self {
inner: GzEncoder::new(inner, Default::default()),
}
}
/// Returns a reference to the underlying writer.
///
/// # Examples
///
/// ```
/// use noodles_cram::crai;
/// let writer = crai::Writer::new(Vec::new());
/// assert!(writer.get_ref().is_empty());
/// ```
pub fn get_ref(&self) -> &W {
self.inner.get_ref()
}
/// Attempts to finish the output stream and returns the underlying writer.
///
/// This is typically only manually called if the underlying stream is needed before the writer
/// is dropped.
///
/// # Examples
///
/// ```
/// # use std::io;
/// use noodles_cram::crai;
/// let writer = crai::Writer::new(Vec::new());
/// let empty_gz = [31, 139, 8, 0, 0, 0, 0, 0, 0, 255, 3, 0, 0, 0, 0, 0, 0, 0, 0, 0];
/// assert_eq!(writer.finish()?, empty_gz);
/// # Ok::<(), io::Error>(())
/// ```
pub fn finish(self) -> io::Result<W> {
self.inner.finish()
}
/// Writes a CRAM index.
///
/// # Examples
///
/// ```
/// use noodles_core::Position;
/// use noodles_cram::crai;
///
/// let mut writer = crai::Writer::new(Vec::new());
///
/// let index = vec![crai::Record::new(
/// Some(0),
/// Position::new(10946),
/// 6765,
/// 17711,
/// 233,
/// 317811,
/// )];
///
/// writer.write_index(&index)?;
/// # Ok::<(), Box<dyn std::error::Error>>(())
/// ```
pub fn write_index(&mut self, index: &[Record]) -> io::Result<()> {
write_index(&mut self.inner, index)
}
}
fn write_index<W>(writer: &mut W, index: &[Record]) -> io::Result<()>
where
W: Write,
{
for record in index {
write_record(writer, record)?;
}
Ok(())
}
fn write_record<W>(writer: &mut W, record: &Record) -> io::Result<()>
where
W: Write,
{
writeln!(writer, "{record}")
}
#[cfg(test)]
mod tests {
use super::*;
#[test]
fn test_write_record() -> Result<(), Box<dyn std::error::Error>> {
use noodles_core::Position;
let index = vec![Record::new(
Some(0),
Position::new(10946),
6765,
17711,
233,
317811,
)];
let mut buf = Vec::new();
write_index(&mut buf, &index)?;
let expected = b"0\t10946\t6765\t17711\t233\t317811\n";
assert_eq!(buf, expected);
Ok(())
}
}