bird_tool_utils 0.5.1

Microbial genomics utility functions
Documentation 
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38

use std::io::Read;

pub fn finish_command_safely(
    mut process: std::process::Child,
    process_name: &str,
) -> std::process::Child {
    let es = process.wait().expect(&format!(
        "Failed to glean exitstatus from failing {} process",
        process_name
    ));
    debug!("Process {} finished", process_name);
    if !es.success() {
        error!("Error when running {} process. Exitstatus was : {:?}", process_name, es);
        let mut err = String::new();
        process
            .stderr
            .expect(&format!(
                "Failed to grab stderr from failed {} process",
                process_name
            ))
            .read_to_string(&mut err)
            .expect("Failed to read stderr into string");
        error!("The STDERR was: {:?}", err);
        let mut out = String::new();
        process
            .stdout
            .expect(&format!(
                "Failed to grab stdout from failed {} process",
                process_name
            ))
            .read_to_string(&mut out)
            .expect("Failed to read stdout into string");
        error!("The STDOUT was: {:?}", out);
        error!("Cannot continue after {} failed.", process_name);
        std::process::exit(1);
    }
    return process;
}