clstr

A small crate to parse and write .clstr files. Parses the standard CD-HIT .clstr format as produced by cd-hit, cd-hit-est, cd-hit-2d, cd-hit-est-2d, and related tools. Supports both amino-acid (aa) and nucleotide (nt) clusters, and tolerates identity fields like at 99.9%, at 99.9%/100%, and at -/100%.

API

A really simple example which just reads in a file and prints it.

use std::fs::File;
use std::io::{BufReader, BufWriter};
use std::path::Path;

fn main() -> Result<(), std::error::Error> {
    // Define the input and output file paths
    let input_path = Path::new("input.clstr");
    let output_path = Path::new("output.clstr");

    // make the parser
    let parser = clstr::from_path(input_path)?;

    // and the writer
    let clstr_writer = clstr::to_path(output_path)?;

    for cluster_res in parser {
      let cluster = cluster_res?;
      clstr_writer.write_cluster(&cluster)?;
    }

    clstr_writer.flush()?;

    Ok(())
}

Binaries

TODO, describe binaries.