Struct gb_io::writer::SeqWriter

pub struct SeqWriter<W: Write> { /* private fields */ }

Implementations

impl<W: Write> SeqWriter<W>

pub fn new(stream: W) -> Self

Create a new SeqWriter to write GenBank files to the given stream.

pub fn truncate_locus(&mut self, truncate: bool) -> &mut Self

Set the behaviour regarding locus name truncation.

If true (the default when creating a SeqWriter, for backwards compatibility), the locus fields (name and molecule_type) will be truncated if they are too long so that the LOCUS line is no longer than 79 characters.

By setting truncate to false, the full strings are written to the LOCUS line, resulting in fields that may not in usual positions if the name or molecule types are too long. Most parsers (including gb-io and Biopython) should however be able to process these.

pub fn escape_locus(&mut self, escape: bool) -> &mut Self

Set the behaviour regarding locus name escaping.

If true (the default when creating a SeqWriter, for backwards compatibility), any whitespace in the locus will be escaped with and underscore (_).

Set to false to write the locus as-is, which could result in an invalid LOCUS line that some parsers may not be able to process.

pub fn write(&mut self, record: &Seq) -> Result<()>

Write the sequence to the stream.

Trait Implementations

impl<W: Debug + Write> Debug for SeqWriter<W>

fn fmt(&self, f: &mut Formatter<'_>) -> Result

Formats the value using the given formatter.