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use std::collections::HashSet;
use std::fmt::{Debug, Display};
use std::hash::Hash;
use std::iter::Sum;
use crate::base::GeneralTaxonomy;
use crate::taxonomy::Taxonomy;
use crate::Result;
pub fn prune_away<'t, D: 't, T: 't>(
tax: &'t impl Taxonomy<'t, T, D>,
tax_ids: &[T],
) -> Result<GeneralTaxonomy>
where
D: Clone + Debug + PartialOrd + PartialEq + Sum + Into<f32>,
T: Clone + Copy + Debug + Display + Eq + Hash + PartialEq,
{
let mut new_ids = Vec::new();
let mut parent_ids = Vec::new();
let mut dists = Vec::new();
let mut names = Vec::new();
let mut ranks = Vec::new();
let tax_set: HashSet<T> = tax_ids.iter().cloned().collect();
let mut dropping: u8 = 0;
let mut cur_lineage = Vec::new();
for (node, pre) in tax.traverse(tax.root())? {
if tax_set.contains(&node) {
if pre {
dropping += 1;
} else {
dropping -= 1;
}
}
if dropping == 0 {
if pre {
new_ids.push(node.to_string());
parent_ids.push(cur_lineage.last().map(|x| x - 1).unwrap_or(0));
dists.push(tax.parent(node)?.map(|x| x.1.into()).unwrap_or(0.));
names.push(tax.name(node)?.to_string());
ranks.push(tax.rank(node)?);
cur_lineage.push(new_ids.len());
} else {
cur_lineage.pop();
}
}
}
GeneralTaxonomy::from_arrays(new_ids, parent_ids, Some(names), Some(ranks), Some(dists))
}
pub fn prune_to<'t, D: 't, T: 't>(
tax: &'t impl Taxonomy<'t, T, D>,
tax_ids: &[T],
include_children: bool,
) -> Result<GeneralTaxonomy>
where
D: Clone + Debug + PartialOrd + PartialEq + Sum + Into<f32>,
T: Clone + Copy + Debug + Display + Eq + Hash + PartialEq,
{
let mut good_ids: HashSet<T> = tax_ids.iter().cloned().collect();
for (node, pre) in tax.traverse(tax.root())? {
if let Some((parent_node, _)) = tax.parent(node)? {
if pre && include_children && good_ids.contains(&parent_node) {
good_ids.insert(node);
} else if !pre && good_ids.contains(&node) {
good_ids.insert(parent_node);
}
}
}
let mut new_ids = Vec::new();
let mut parent_ids = Vec::new();
let mut dists = Vec::new();
let mut names = Vec::new();
let mut ranks = Vec::new();
let mut cur_lineage = Vec::new();
for (node, pre) in tax.traverse(tax.root())? {
if pre {
if good_ids.contains(&node) {
new_ids.push(node.to_string());
parent_ids.push(cur_lineage.last().map(|x| x - 1).unwrap_or(0));
dists.push(tax.parent(node)?.map(|x| x.1.into()).unwrap_or(0.));
names.push(tax.name(node)?.to_string());
ranks.push(tax.rank(node)?);
}
cur_lineage.push(new_ids.len());
} else {
cur_lineage.pop();
}
}
GeneralTaxonomy::from_arrays(new_ids, parent_ids, Some(names), Some(ranks), Some(dists))
}
#[test]
fn test_prune_away() {
use crate::taxonomy::test::MockTax;
let tax = MockTax;
assert_eq!(Taxonomy::len(&tax), 14);
let pruned = prune_away(&tax, &[135622]).unwrap();
assert_eq!(Taxonomy::<&str, f32>::len(&pruned), 10);
assert_eq!(pruned.parent("131567").unwrap().unwrap().0, "1");
}
#[test]
fn test_prune_to() {
use crate::taxonomy::test::MockTax;
let tax = MockTax;
assert_eq!(Taxonomy::len(&tax), 14);
let pruned = prune_to(&tax, &[62322], true).unwrap();
assert_eq!(Taxonomy::<&str, f32>::len(&pruned), 9);
assert_eq!(pruned.parent("131567").unwrap().unwrap().0, "1");
}