// Display a reconciled tree form recPhyloXML format

use light_phylogeny::{ArenaTree,Options,Config,read_recphyloxml_multi,recphyloxml_processing};
// use std::env;

fn main() {

    // ============================================================================================
    // Version portrait
    let transfers = vec![];
    let mut options: Options = Options::new();
    //options.species_internal = true;
    //options.switches.push("HOSTB BEF. HYBR.".to_string());
    let config: Config = Config::new();
    //config.fill_species = true;
    let mut sp_tree: ArenaTree<String> = ArenaTree::default();
    let mut gene_trees:std::vec::Vec<ArenaTree<String>> = Vec::new();
    let mut global_roots: std::vec::Vec<usize> = Vec::new();
    read_recphyloxml_multi("examples/hybrid.recphylo".to_string(),
        &mut sp_tree, &mut gene_trees, &mut global_roots);
    recphyloxml_processing(&mut sp_tree, &mut gene_trees, &mut options, &config, true,
         &transfers, "hybrid.svg".to_string());
    println!("Please open output file 'hybrid.svg' with your browser");



    // ============================================================================================
    // Version portrait
    let transfers = vec![];
    let mut options: Options = Options::new();
    //options.species_internal = true;
    //options.switches.push("HOST2 BEF. HYBR.".to_string());
    let mut config: Config = Config::new();
    config.fill_species = true;
    let mut sp_tree: ArenaTree<String> = ArenaTree::default();
    let mut gene_trees:std::vec::Vec<ArenaTree<String>> = Vec::new();
    let mut global_roots: std::vec::Vec<usize> = Vec::new();
    read_recphyloxml_multi("examples/hybrid6.recphylo".to_string(),
        &mut sp_tree, &mut gene_trees, &mut global_roots);
    recphyloxml_processing(&mut sp_tree, &mut gene_trees, &mut options, &config, true,
         &transfers, "hybrid6.svg".to_string());
    println!("Please open output file 'hybrid6.svg' with your browser");

}