// Display a reconciled tree form recPhyloXML format

use light_phylogeny::{ArenaTree,Options,Config,read_recphyloxml_multi,recphyloxml_processing,draw_sptree_gntrees};

fn main() {

    let transfers = vec![];
    let mut options: Options = Options::new();
    let  config: Config = Config::new();
    // Version portrait
    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/FAM000715_reconciliated_2genes.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, "read_recphyloxml_original.svg".to_string());
    println!("Please open output file 'read_recphyloxml_original.svg with your browser");

    let mut sp_tree_clone = sp_tree.copie();
    let mut gene_tree_clones:std::vec::Vec<ArenaTree<String>> = Vec::new();
    for mut tree in gene_trees {
        gene_tree_clones.push(tree.copie());
    }

    draw_sptree_gntrees(&mut sp_tree_clone, &mut gene_tree_clones,
         "read_recphyloxml_copy.svg".to_string(), &options, &config, &transfers);
    println!("Please open output file 'read_recphyloxml_copy.svg with your browser");

}