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use std::collections::HashMap;
use std::fs::File;
use std::io::{prelude::*, BufReader};
#[cfg(test)]
pub fn counter(start: i32, end: i32){
for index in start..end{
println!("C: {}", index);
}
}
#[derive(Debug)]
pub struct Node{
pub id: String,
pub len: usize,
}
#[derive(Debug)]
pub struct Edge{
pub from: u32,
pub from_dir: bool,
pub to: u32,
pub to_dir: bool,
}
#[derive(Debug)]
pub struct Path{
pub name: String,
pub dir: Vec<bool>,
pub nodes: Vec<String>,
}
pub struct Gfa{
pub nodes: HashMap<String, Node>,
pub paths: Vec<Path>,
pub edges: Vec<Edge>,
}
pub fn readGFA(a: &str) -> Gfa {
let file_name= "/home/svorbrugg_local/Rust/data/AAA_AAB.cat.gfa";
let file = File::open(file_name).expect("ERROR: CAN NOT READ FILE\n");
let reader = BufReader::new(file);
let mut ns: HashMap<String, Node> = HashMap::new();
let mut ps: Vec<Path> = Vec::new();
let mut es: Vec<Edge> = Vec::new();
for line in reader.lines() {
let l = line.unwrap();
let lsplit: Vec<&str> = l.split("\t").collect();
if l.starts_with("S") {
ns.insert(String::from(lsplit[1]), Node { id: String::from(lsplit[2]), len: lsplit[2].len() });
}
else if l.starts_with("P"){
let name: String = String::from(lsplit[1]);
let dirs: Vec<bool> = lsplit[2].split(",").map(|d| if lsplit[2] == "+" { !false } else { !true }).collect();
let nodd: Vec<String> = lsplit[2].split(",").map(|d| d[..d.len()-1].parse().unwrap()).collect();
ps.push(Path {name: name, dir: dirs, nodes: nodd});
}
else if l.starts_with("L") {
es.push(Edge{from: lsplit[1].parse().unwrap() , to: lsplit[1].parse().unwrap() , from_dir: if lsplit[2] == "+" { !false } else { !true }, to_dir: if lsplit[2] == "+" { !false } else { !true }})
}
}
let gs = Gfa{nodes: ns, edges: es, paths: ps};
gs
}