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use std::io::{self, Write};
use crate::Record;
/// A FASTQ writer.
pub struct Writer<W> {
inner: W,
}
impl<W> Writer<W>
where
W: Write,
{
/// Creates a FASTQ writer.
///
/// # Examples
///
/// ```
/// use noodles_fastq as fastq;
/// let writer = fastq::io::Writer::new(Vec::new());
/// ```
pub fn new(inner: W) -> Self {
Self { inner }
}
/// Returns a reference to the underlying writer.
///
/// # Examples
///
/// ```
/// use noodles_fastq as fastq;
/// let writer = fastq::io::Writer::new(Vec::new());
/// assert!(writer.get_ref().is_empty());
/// ```
pub fn get_ref(&self) -> &W {
&self.inner
}
/// Writes a FASTQ record.
///
/// # Examples
///
/// ```
/// # use std::io;
/// use noodles_fastq::{self as fastq, record::Definition};
///
/// let mut writer = fastq::io::Writer::new(Vec::new());
///
/// let record = fastq::Record::new(Definition::new("r0", ""), "ATCG", "NDLS");
/// writer.write_record(&record)?;
///
/// assert_eq!(writer.get_ref(), b"@r0\nATCG\n+\nNDLS\n");
/// # Ok::<(), io::Error>(())
/// ```
pub fn write_record(&mut self, record: &Record) -> io::Result<()> {
write_record(&mut self.inner, record)
}
}
fn write_record<W>(writer: &mut W, record: &Record) -> io::Result<()>
where
W: Write,
{
const NAME_PREFIX: &[u8] = b"@";
const DEFINITION_SEPARATOR: &[u8] = b" ";
const LINE_FEED: &[u8] = b"\n";
writer.write_all(NAME_PREFIX)?;
writer.write_all(record.name())?;
if !record.description().is_empty() {
writer.write_all(DEFINITION_SEPARATOR)?;
writer.write_all(record.description())?;
}
writer.write_all(LINE_FEED)?;
writer.write_all(record.sequence())?;
writer.write_all(LINE_FEED)?;
writer.write_all(b"+")?;
writer.write_all(LINE_FEED)?;
writer.write_all(record.quality_scores())?;
writer.write_all(LINE_FEED)?;
Ok(())
}
#[cfg(test)]
mod tests {
use super::*;
#[test]
fn test_write_record() -> io::Result<()> {
use crate::record::Definition;
let mut record = Record::new(Definition::new("r0", ""), "ACGT", "NDLS");
let mut buf = Vec::new();
write_record(&mut buf, &record)?;
let expected = b"@r0\nACGT\n+\nNDLS\n";
assert_eq!(buf, expected);
record.description_mut().extend_from_slice(b"LN:4");
buf.clear();
write_record(&mut buf, &record)?;
let expected = b"@r0 LN:4\nACGT\n+\nNDLS\n";
assert_eq!(buf, expected);
Ok(())
}
}