[INFO] updating cached repository StephanHeijl/global-supertrees
[INFO] running `"git" "fetch" "--all"`
[INFO] [stdout] Fetching origin
[INFO] [stderr] From git://github.com/StephanHeijl/global-supertrees
[INFO] [stderr]  * branch            HEAD       -> FETCH_HEAD
[INFO] running `"git" "clone" "work/cache/sources/gh/StephanHeijl/global-supertrees" "work/ex/pr-58592/sources/master#f66e4697ae286985ddefc53c3a047614568458bb/gh/StephanHeijl/global-supertrees"`
[INFO] [stderr] Cloning into 'work/ex/pr-58592/sources/master#f66e4697ae286985ddefc53c3a047614568458bb/gh/StephanHeijl/global-supertrees'...
[INFO] [stderr] done.
[INFO] running `"git" "clone" "work/cache/sources/gh/StephanHeijl/global-supertrees" "work/ex/pr-58592/sources/try#c3b22200e6f5b70eb1f99ae6944d989ae17a458a/gh/StephanHeijl/global-supertrees"`
[INFO] [stderr] Cloning into 'work/ex/pr-58592/sources/try#c3b22200e6f5b70eb1f99ae6944d989ae17a458a/gh/StephanHeijl/global-supertrees'...
[INFO] [stderr] done.
[INFO] running `"git" "rev-parse" "HEAD"`
[INFO] [stdout] 6daceb7fd6152ba353f43af41e100f638990185a
[INFO] sha for GitHub repo StephanHeijl/global-supertrees: 6daceb7fd6152ba353f43af41e100f638990185a
[INFO] validating manifest of StephanHeijl/global-supertrees on toolchain master#f66e4697ae286985ddefc53c3a047614568458bb
[INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+f66e4697ae286985ddefc53c3a047614568458bb-alt" "read-manifest" "--manifest-path" "Cargo.toml"`
[INFO] validating manifest of StephanHeijl/global-supertrees on toolchain try#c3b22200e6f5b70eb1f99ae6944d989ae17a458a
[INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+c3b22200e6f5b70eb1f99ae6944d989ae17a458a-alt" "read-manifest" "--manifest-path" "Cargo.toml"`
[INFO] started frobbing StephanHeijl/global-supertrees
[INFO] finished frobbing StephanHeijl/global-supertrees
[INFO] frobbed toml for StephanHeijl/global-supertrees written to work/ex/pr-58592/sources/master#f66e4697ae286985ddefc53c3a047614568458bb/gh/StephanHeijl/global-supertrees/Cargo.toml
[INFO] started frobbing StephanHeijl/global-supertrees
[INFO] finished frobbing StephanHeijl/global-supertrees
[INFO] frobbed toml for StephanHeijl/global-supertrees written to work/ex/pr-58592/sources/try#c3b22200e6f5b70eb1f99ae6944d989ae17a458a/gh/StephanHeijl/global-supertrees/Cargo.toml
[INFO] crate StephanHeijl/global-supertrees has a lockfile. skipping
[INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+f66e4697ae286985ddefc53c3a047614568458bb-alt" "fetch" "--locked" "--manifest-path" "Cargo.toml"`
[INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+c3b22200e6f5b70eb1f99ae6944d989ae17a458a-alt" "fetch" "--locked" "--manifest-path" "Cargo.toml"`
[INFO] checking StephanHeijl/global-supertrees against master#f66e4697ae286985ddefc53c3a047614568458bb for pr-58592
[INFO] running `"docker" "create" "-v" "/mnt/big/crater/work/local/target-dirs/pr-58592/worker-2/master#f66e4697ae286985ddefc53c3a047614568458bb:/opt/crater/target:rw,Z" "-v" "/mnt/big/crater/work/ex/pr-58592/sources/master#f66e4697ae286985ddefc53c3a047614568458bb/gh/StephanHeijl/global-supertrees:/opt/crater/workdir:ro,Z" "-v" "/mnt/big/crater/work/local/cargo-home:/opt/crater/cargo-home:ro,Z" "-v" "/mnt/big/crater/work/local/rustup-home:/opt/crater/rustup-home:ro,Z" "-e" "USER_ID=1000" "-e" "SOURCE_DIR=/opt/crater/workdir" "-e" "MAP_USER_ID=1000" "-e" "CARGO_TARGET_DIR=/opt/crater/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "-e" "CARGO_HOME=/opt/crater/cargo-home" "-e" "RUSTUP_HOME=/opt/crater/rustup-home" "-w" "/opt/crater/workdir" "-m" "1536M" "--network" "none" "rustops/crates-build-env" "/opt/crater/cargo-home/bin/cargo" "+f66e4697ae286985ddefc53c3a047614568458bb-alt" "check" "--frozen" "--all" "--all-targets"`
[INFO] [stdout] ae5b76a97367d57c045a4a3998aa2030c21266476531efd91ed89026b4ef4e99
[INFO] running `"docker" "start" "-a" "ae5b76a97367d57c045a4a3998aa2030c21266476531efd91ed89026b4ef4e99"`
[INFO] [stderr]     Checking ndarray v0.11.2
[INFO] [stderr]     Checking newick v0.1.0 (/opt/crater/workdir)
[INFO] [stderr] warning: unused import: `ndarray::prelude::*`
[INFO] [stderr]  --> src/graph_tree.rs:1:5
[INFO] [stderr]   |
[INFO] [stderr] 1 | use ndarray::prelude::*;
[INFO] [stderr]   |     ^^^^^^^^^^^^^^^^^^^
[INFO] [stderr]   |
[INFO] [stderr]   = note: #[warn(unused_imports)] on by default
[INFO] [stderr] 
[INFO] [stderr] warning: unused import: `std::collections::HashMap`
[INFO] [stderr]  --> src/graph_tree.rs:2:5
[INFO] [stderr]   |
[INFO] [stderr] 2 | use std::collections::HashMap;
[INFO] [stderr]   |     ^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: unused import: `tree_distance_matrix::*`
[INFO] [stderr]  --> src/graph_tree.rs:4:5
[INFO] [stderr]   |
[INFO] [stderr] 4 | use tree_distance_matrix::*;
[INFO] [stderr]   |     ^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: unused import: `Incoming`
[INFO] [stderr]  --> src/graph_tree.rs:7:23
[INFO] [stderr]   |
[INFO] [stderr] 7 | use petgraph::{Graph, Incoming};
[INFO] [stderr]   |                       ^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: unused import: `std::collections::HashMap`
[INFO] [stderr]  --> src/tree_merging.rs:3:5
[INFO] [stderr]   |
[INFO] [stderr] 3 | use std::collections::HashMap;
[INFO] [stderr]   |     ^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: unused import: `ndarray::prelude::*`
[INFO] [stderr]  --> src/graph_tree.rs:1:5
[INFO] [stderr]   |
[INFO] [stderr] 1 | use ndarray::prelude::*;
[INFO] [stderr]   |     ^^^^^^^^^^^^^^^^^^^
[INFO] [stderr]   |
[INFO] [stderr]   = note: #[warn(unused_imports)] on by default
[INFO] [stderr] 
[INFO] [stderr] warning: unused import: `std::collections::HashMap`
[INFO] [stderr]  --> src/graph_tree.rs:2:5
[INFO] [stderr]   |
[INFO] [stderr] 2 | use std::collections::HashMap;
[INFO] [stderr]   |     ^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: unused import: `tree_distance_matrix::*`
[INFO] [stderr]  --> src/graph_tree.rs:4:5
[INFO] [stderr]   |
[INFO] [stderr] 4 | use tree_distance_matrix::*;
[INFO] [stderr]   |     ^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: unused import: `Incoming`
[INFO] [stderr]  --> src/graph_tree.rs:7:23
[INFO] [stderr]   |
[INFO] [stderr] 7 | use petgraph::{Graph, Incoming};
[INFO] [stderr]   |                       ^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: unused import: `std::collections::HashMap`
[INFO] [stderr]  --> src/tree_merging.rs:3:5
[INFO] [stderr]   |
[INFO] [stderr] 3 | use std::collections::HashMap;
[INFO] [stderr]   |     ^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: unused variable: `graph`
[INFO] [stderr]   --> src/graph_tree.rs:62:22
[INFO] [stderr]    |
[INFO] [stderr] 62 |                 let (graph, new_skip) = Tree::parse_tree_from_string(
[INFO] [stderr]    |                      ^^^^^ help: consider prefixing with an underscore: `_graph`
[INFO] [stderr]    |
[INFO] [stderr]    = note: #[warn(unused_variables)] on by default
[INFO] [stderr] 
[INFO] [stderr] warning: unused variable: `graph`
[INFO] [stderr]   --> src/graph_tree.rs:62:22
[INFO] [stderr]    |
[INFO] [stderr] 62 |                 let (graph, new_skip) = Tree::parse_tree_from_string(
[INFO] [stderr]    |                      ^^^^^ help: consider prefixing with an underscore: `_graph`
[INFO] [stderr]    |
[INFO] [stderr]    = note: #[warn(unused_variables)] on by default
[INFO] [stderr] 
[INFO] [stderr] warning: variable does not need to be mutable
[INFO] [stderr]   --> src/tree_merging.rs:21:9
[INFO] [stderr]    |
[INFO] [stderr] 21 |     let mut new_trees: Vec<Tree> = tree_leafs
[INFO] [stderr]    |         ----^^^^^^^^^
[INFO] [stderr]    |         |
[INFO] [stderr]    |         help: remove this `mut`
[INFO] [stderr]    |
[INFO] [stderr]    = note: #[warn(unused_mut)] on by default
[INFO] [stderr] 
[INFO] [stderr] warning: method is never used: `perform_operation_on_branch`
[INFO] [stderr]    --> src/tree.rs:106:5
[INFO] [stderr]     |
[INFO] [stderr] 106 |     pub fn perform_operation_on_branch<F : FnMut(&mut Tree) >(&mut self, target_branch_idx : usize, mut current_branch_idx : usize, op : &mut F) -> Option<usize> {
[INFO] [stderr]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr]     |
[INFO] [stderr]     = note: #[warn(dead_code)] on by default
[INFO] [stderr] 
[INFO] [stderr] warning: method is never used: `add_root_levels`
[INFO] [stderr]    --> src/tree.rs:250:5
[INFO] [stderr]     |
[INFO] [stderr] 250 |     pub fn add_root_levels(&mut self, depth: usize) {
[INFO] [stderr]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: method is never used: `traverse_children`
[INFO] [stderr]   --> src/graph_tree.rs:17:5
[INFO] [stderr]    |
[INFO] [stderr] 17 |     pub fn traverse_children(&self) -> Vec<Vec<String>> {
[INFO] [stderr]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: method is never used: `calculate_q_matrix`
[INFO] [stderr]   --> src/tree_distance_matrix.rs:18:5
[INFO] [stderr]    |
[INFO] [stderr] 18 |     pub fn calculate_q_matrix(dm: &Array2<f32>) -> Array2<f32> {
[INFO] [stderr]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: method is never used: `calculate_pair_distance_matrix`
[INFO] [stderr]   --> src/tree_distance_matrix.rs:32:5
[INFO] [stderr]    |
[INFO] [stderr] 32 |     pub fn calculate_pair_distance_matrix(i: usize, j: usize, dm: &Array2<f32>) -> Array2<f32> {
[INFO] [stderr]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: method is never used: `calculate_new_leaf_distances`
[INFO] [stderr]   --> src/tree_distance_matrix.rs:63:5
[INFO] [stderr]    |
[INFO] [stderr] 63 |     pub fn calculate_new_leaf_distances(f: usize, g: usize, dm: &Array2<f32>) -> (f32, f32) {
[INFO] [stderr]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: method is never used: `find_min_matrix_ne`
[INFO] [stderr]   --> src/tree_distance_matrix.rs:79:5
[INFO] [stderr]    |
[INFO] [stderr] 79 |     pub fn find_min_matrix_ne(matrix: Array2<f32>) -> [usize; 2] {
[INFO] [stderr]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: method is never used: `neighbour_joining`
[INFO] [stderr]   --> src/tree_distance_matrix.rs:98:5
[INFO] [stderr]    |
[INFO] [stderr] 98 |     pub fn neighbour_joining(&self) -> Tree {
[INFO] [stderr]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: method is never used: `get_partial_distance_matrix`
[INFO] [stderr]    --> src/tree_distance_matrix.rs:450:5
[INFO] [stderr]     |
[INFO] [stderr] 450 |     pub fn get_partial_distance_matrix(&self, leaves: &Vec<String>) -> TreeDistanceMatrix {
[INFO] [stderr]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: method is never used: `new_from_matrix_and_leaves`
[INFO] [stderr]    --> src/tree_distance_matrix.rs:502:5
[INFO] [stderr]     |
[INFO] [stderr] 502 | /     pub fn new_from_matrix_and_leaves(
[INFO] [stderr] 503 | |         distance_matrix: Array2<f32>,
[INFO] [stderr] 504 | |         leaves: Vec<String>,
[INFO] [stderr] 505 | |     ) -> TreeDistanceMatrix {
[INFO] [stderr] ...   |
[INFO] [stderr] 518 | |         };
[INFO] [stderr] 519 | |     }
[INFO] [stderr]     | |_____^
[INFO] [stderr] 
[INFO] [stderr] warning: function is never used: `merge_trees`
[INFO] [stderr]   --> src/tree_merging.rs:10:1
[INFO] [stderr]    |
[INFO] [stderr] 10 | pub fn merge_trees(trees: Vec<Tree>) {
[INFO] [stderr]    | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: function is never used: `get_tree_size`
[INFO] [stderr]   --> src/tree_merging.rs:33:1
[INFO] [stderr]    |
[INFO] [stderr] 33 | fn get_tree_size(tree: &Tree) -> usize {
[INFO] [stderr]    | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: function is never used: `sibling_merging`
[INFO] [stderr]   --> src/tree_merging.rs:37:1
[INFO] [stderr]    |
[INFO] [stderr] 37 | fn sibling_merging(mut trees: Vec<Tree>) -> () {
[INFO] [stderr]    | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: function is never used: `merge_distance_matrices`
[INFO] [stderr]   --> src/tree_merging.rs:96:1
[INFO] [stderr]    |
[INFO] [stderr] 96 | fn merge_distance_matrices(dms: Vec<TreeDistanceMatrix>) -> TreeDistanceMatrix {
[INFO] [stderr]    | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: function is never used: `keys_vec`
[INFO] [stderr]   --> src/utils.rs:17:1
[INFO] [stderr]    |
[INFO] [stderr] 17 | / pub fn keys_vec<T: std::cmp::Eq + std::hash::Hash + std::clone::Clone, V>(
[INFO] [stderr] 18 | |     hm: &HashMap<T, V>,
[INFO] [stderr] 19 | | ) -> Vec<T> {
[INFO] [stderr] 20 | |     return hm.keys().cloned().collect();
[INFO] [stderr] 21 | | }
[INFO] [stderr]    | |_^
[INFO] [stderr] 
[INFO] [stderr] warning: function is never used: `vec_to_set`
[INFO] [stderr]   --> src/utils.rs:23:1
[INFO] [stderr]    |
[INFO] [stderr] 23 | / pub fn vec_to_set<T: std::cmp::Eq + std::hash::Hash + std::clone::Clone>(
[INFO] [stderr] 24 | |     vector: &Vec<T>,
[INFO] [stderr] 25 | | ) -> HashSet<T> {
[INFO] [stderr] 26 | |     let mut set: HashSet<T> = HashSet::new();
[INFO] [stderr] ...  |
[INFO] [stderr] 30 | |     return set;
[INFO] [stderr] 31 | | }
[INFO] [stderr]    | |_^
[INFO] [stderr] 
[INFO] [stderr] warning: variable does not need to be mutable
[INFO] [stderr]   --> src/tree_merging.rs:21:9
[INFO] [stderr]    |
[INFO] [stderr] 21 |     let mut new_trees: Vec<Tree> = tree_leafs
[INFO] [stderr]    |         ----^^^^^^^^^
[INFO] [stderr]    |         |
[INFO] [stderr]    |         help: remove this `mut`
[INFO] [stderr]    |
[INFO] [stderr]    = note: #[warn(unused_mut)] on by default
[INFO] [stderr] 
[INFO] [stderr]     Finished dev [unoptimized + debuginfo] target(s) in 7.49s
[INFO] running `"docker" "inspect" "ae5b76a97367d57c045a4a3998aa2030c21266476531efd91ed89026b4ef4e99"`
[INFO] running `"docker" "rm" "-f" "ae5b76a97367d57c045a4a3998aa2030c21266476531efd91ed89026b4ef4e99"`
[INFO] [stdout] ae5b76a97367d57c045a4a3998aa2030c21266476531efd91ed89026b4ef4e99