6 releases

0.1.4 Dec 8, 2022
0.1.3 Dec 8, 2022
0.1.2 Nov 29, 2020
0.1.1 Nov 8, 2020
0.1.0 Nov 8, 2020

#130 in Biology

MIT license

38KB
929 lines

entrez-rs

A Rust wrapper for the Entrez API

release: Crates.io

master: Build Status

This library helps you access the Entrez API using idiomatic Rust. It also provides tools to parse the XML results from Entrez.

Installation

Add the following to your Cargo.toml:

   [dependencies]
   entrez-rs = "0.1.4"

Usage

use entrez_rs::eutils::{Eutils, ESearch, EFetch, DB};
use entrez_rs::parser::esearch::{ESearchResult};
use entrez_rs::parser::pubmed::{PubmedArticleSet};
use entrez_rs::errors::Error;

fn main() -> Result<(), Error>  {
        let xml = ESearch::new(
            DB::Pubmed, 
            "eclampsia")
            .run()?;

        let parsed = ESearchResult::read(&xml);

        println!("{:#?}", &parsed?
                          .id_list
                          .ids);
        
        let pm_xml = EFetch::new(
              DB::Pubmed,
              vec!["33246200", "33243171"])
              .run()?;
        
        let pm_parsed = PubmedArticleSet::read(&pm_xml);

        println!("{}", pm_parsed?.articles);

        Ok(())
}


Will add a walkthrough and tutorial of the API as soon as it reaches beta level.

Inspired by Entrez Direct, Entrezpy and BioPython.

Dependencies

~4.5–9MB
~203K SLoC