[INFO] fetching crate global-supertrees 0.1.0...
[INFO] testing global-supertrees-0.1.0 against 1.100.0-beta.1+cargoflags=--release for beta-release-1.100-2
[INFO] extracting crate global-supertrees 0.1.0 into /workspace/builds/worker-7-tc2/source
[INFO] started tweaking crates.io crate global-supertrees 0.1.0
[INFO] finished tweaking crates.io crate global-supertrees 0.1.0
[INFO] tweaked toml for crates.io crate global-supertrees 0.1.0 written to /workspace/builds/worker-7-tc2/source/Cargo.toml
[INFO] validating manifest of crates.io crate global-supertrees 0.1.0 on toolchain 1.100.0-beta.1
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+1.100.0-beta.1" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+1.100.0-beta.1" "generate-lockfile" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Updating crates.io index
[INFO] [stderr]      Locking 29 packages to highest compatible versions
[INFO] [stderr]       Adding bincode v1.3.3 (available: v3.0.0)
[INFO] [stderr]       Adding ndarray v0.12.1 (available: v0.17.2)
[INFO] [stderr]       Adding petgraph v0.4.13 (available: v0.8.3)
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+1.100.0-beta.1" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr] warning: Cargo.toml: `package.edition` is unspecified, defaulting to `2015` while the latest is `2024`
[INFO] [stderr] warning: `global-supertrees` (manifest) generated 1 warning
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-tc2/source:/opt/rustwide/workdir:ro,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/cargo-home:/opt/rustwide/cargo-home:ro,Z" "-v" "/var/lib/crater-agent-workspace/rustup-home:/opt/rustwide/rustup-home:ro,Z" "-m" "1610612736" "--network" "none" "ghcr.io/rust-lang/crates-build-env/linux@sha256:77db811e55d90add9212f6832c23229e3de5f1c1f9905e8cb07319ea15df73ac" "sleep" "infinity", kill_on_drop: false }`
[INFO] [stdout] 2e9ac70e66b8553882dbf2d5f9392cefc578a94bfa2e961a5fc7cb9e58222a8c
[INFO] running `Command { std: "docker" "start" "2e9ac70e66b8553882dbf2d5f9392cefc578a94bfa2e961a5fc7cb9e58222a8c", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "2e9ac70e66b8553882dbf2d5f9392cefc578a94bfa2e961a5fc7cb9e58222a8c", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-w" "/opt/rustwide/workdir" "--user" "0:0" "2e9ac70e66b8553882dbf2d5f9392cefc578a94bfa2e961a5fc7cb9e58222a8c" "/opt/rustwide/cargo-home/bin/cargo" "+1.100.0-beta.1" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "2e9ac70e66b8553882dbf2d5f9392cefc578a94bfa2e961a5fc7cb9e58222a8c", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=warn" "-e" "RUSTDOCFLAGS=--cap-lints=warn" "-w" "/opt/rustwide/workdir" "--user" "0:0" "2e9ac70e66b8553882dbf2d5f9392cefc578a94bfa2e961a5fc7cb9e58222a8c" "/opt/rustwide/cargo-home/bin/cargo" "+1.100.0-beta.1" "build" "--frozen" "--message-format=json" "--release", kill_on_drop: false }`
[INFO] [stderr] warning: Cargo.toml: `package.edition` is unspecified, defaulting to `2015` while the latest is `2024`
[INFO] [stderr] warning: `global-supertrees` (manifest) generated 1 warning
[INFO] [stderr]    Compiling quote v1.0.47
[INFO] [stderr]    Compiling crossbeam-deque v0.8.8
[INFO] [stderr]    Compiling num-complex v0.2.4
[INFO] [stderr]    Compiling crossbeam-epoch v0.9.21
[INFO] [stderr]    Compiling either v1.19.0
[INFO] [stderr]    Compiling matrixmultiply v0.1.15
[INFO] [stderr]    Compiling ndarray v0.12.1
[INFO] [stderr]    Compiling rawpointer v0.1.0
[INFO] [stderr]    Compiling ordermap v0.3.5
[INFO] [stderr]    Compiling fixedbitset v0.1.9
[INFO] [stderr]    Compiling itertools v0.7.11
[INFO] [stderr]    Compiling syn v3.0.9
[INFO] [stderr]    Compiling rayon-core v1.13.0
[INFO] [stderr]    Compiling petgraph v0.4.13
[INFO] [stderr]    Compiling rayon v1.12.0
[INFO] [stderr]    Compiling serde_derive v1.0.229
[INFO] [stderr]    Compiling serde v1.0.229
[INFO] [stderr]    Compiling bincode v1.3.3
[INFO] [stderr]    Compiling global-supertrees v0.1.0 (/opt/rustwide/workdir)
[INFO] [stdout] warning: use of deprecated constant `std::f32::NAN`: replaced by the `NAN` associated constant on `f32`
[INFO] [stdout]    --> src/graph_tree.rs:118:49
[INFO] [stdout]     |
[INFO] [stdout] 118 |         let mut previous_branch_distance = f32::NAN;
[INFO] [stdout]     |                                                 ^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(deprecated)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated constant `std::f32::NAN`: replaced by the `NAN` associated constant on `f32`
[INFO] [stdout]    --> src/graph_tree.rs:124:42
[INFO] [stdout]     |
[INFO] [stdout] 124 |             let mut node_distance = f32::NAN;
[INFO] [stdout]     |                                          ^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated constant `std::f32::NAN`: replaced by the `NAN` associated constant on `f32`
[INFO] [stdout]    --> src/graph_tree.rs:225:44
[INFO] [stdout]     |
[INFO] [stdout] 225 |                 branch_distances.push(f32::NAN);
[INFO] [stdout]     |                                            ^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated constant `std::f32::NAN`: replaced by the `NAN` associated constant on `f32`
[INFO] [stdout]    --> src/graph_tree.rs:248:52
[INFO] [stdout]     |
[INFO] [stdout] 248 |                     graph.add_edge(parent, n, f32::NAN);
[INFO] [stdout]     |                                                    ^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated constant `std::f32::NAN`: replaced by the `NAN` associated constant on `f32`
[INFO] [stdout]    --> src/graph_tree.rs:268:52
[INFO] [stdout]     |
[INFO] [stdout] 268 |                     graph.add_edge(parent, n, f32::NAN);
[INFO] [stdout]     |                                                    ^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated constant `std::f32::MAX`: replaced by the `MAX` associated constant on `f32`
[INFO] [stdout]    --> src/tree_distance_matrix.rs:113:36
[INFO] [stdout]     |
[INFO] [stdout] 113 |         let mut lowest: f32 = f32::MAX;
[INFO] [stdout]     |                                    ^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated constant `std::f32::NAN`: replaced by the `NAN` associated constant on `f32`
[INFO] [stdout]    --> src/tree_distance_matrix.rs:233:77
[INFO] [stdout]     |
[INFO] [stdout] 233 |         graph.add_edge(node_index(0), branches[&(branches.len() - 1)], f32::NAN);
[INFO] [stdout]     |                                                                             ^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated constant `std::f32::NAN`: replaced by the `NAN` associated constant on `f32`
[INFO] [stdout]    --> src/tree_merging.rs:112:43
[INFO] [stdout]     |
[INFO] [stdout] 112 |     overlapping_distance_matrix.fill(f32::NAN);
[INFO] [stdout]     |                                           ^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: trait objects without an explicit `dyn` are deprecated
[INFO] [stdout]   --> src/utils.rs:54:92
[INFO] [stdout]    |
[INFO] [stdout] 54 | pub fn cache_mapping(mapping : &BTreeMap<[u8; 10], u32>, path : &String) -> Result<(), Box<Error>> {
[INFO] [stdout]    |                                                                                            ^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = warning: this is accepted in the current edition (Rust 2015) but is a hard error in Rust 2021!
[INFO] [stdout]    = note: for more information, see <https://doc.rust-lang.org/edition-guide/rust-2021/warnings-promoted-to-error.html>
[INFO] [stdout]    = note: `#[warn(bare_trait_objects)]` (part of `#[warn(rust_2021_compatibility)]`) on by default
[INFO] [stdout] help: if this is a dyn-compatible trait, use `dyn`
[INFO] [stdout]    |
[INFO] [stdout] 54 | pub fn cache_mapping(mapping : &BTreeMap<[u8; 10], u32>, path : &String) -> Result<(), Box<dyn Error>> {
[INFO] [stdout]    |                                                                                            +++
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: trait objects without an explicit `dyn` are deprecated
[INFO] [stdout]   --> src/utils.rs:61:82
[INFO] [stdout]    |
[INFO] [stdout] 61 | pub fn load_cache_mapping(path : &String) -> Result<BTreeMap<[u8; 10], u32>, Box<Error>> {
[INFO] [stdout]    |                                                                                  ^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = warning: this is accepted in the current edition (Rust 2015) but is a hard error in Rust 2021!
[INFO] [stdout]    = note: for more information, see <https://doc.rust-lang.org/edition-guide/rust-2021/warnings-promoted-to-error.html>
[INFO] [stdout] help: if this is a dyn-compatible trait, use `dyn`
[INFO] [stdout]    |
[INFO] [stdout] 61 | pub fn load_cache_mapping(path : &String) -> Result<BTreeMap<[u8; 10], u32>, Box<dyn Error>> {
[INFO] [stdout]    |                                                                                  +++
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `rayon::prelude`
[INFO] [stdout]  --> src/tree_merging.rs:2:5
[INFO] [stdout]   |
[INFO] [stdout] 2 | use rayon::prelude::*;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `distance_matrices`
[INFO] [stdout]   --> src/tree_merging.rs:10:9
[INFO] [stdout]    |
[INFO] [stdout] 10 |     let distance_matrices: Vec<TreeDistanceMatrix> =
[INFO] [stdout]    |         ^^^^^^^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_distance_matrices`
[INFO] [stdout]    |
[INFO] [stdout]    = note: `#[warn(unused_variables)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `trees`
[INFO] [stdout]   --> src/main.rs:98:9
[INFO] [stdout]    |
[INFO] [stdout] 98 |     let trees : Vec<graph_tree::Tree> = distance_matrices.par_iter().map(| dm | dm.neighbour_joining()).collect();
[INFO] [stdout]    |         ^^^^^ help: if this is intentional, prefix it with an underscore: `_trees`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: function `merge_distance_matrices` is never used
[INFO] [stdout]    --> src/tree_merging.rs:102:4
[INFO] [stdout]     |
[INFO] [stdout] 102 | fn merge_distance_matrices(dms: Vec<TreeDistanceMatrix>) -> TreeDistanceMatrix {
[INFO] [stdout]     |    ^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(dead_code)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: hiding a lifetime that's elided elsewhere is confusing
[INFO] [stdout]    --> src/graph_tree.rs:101:28
[INFO] [stdout]     |
[INFO] [stdout] 101 |     pub fn get_parent_edge(&self, node : NodeIndex<u32>) -> Option<EdgeReference<f32, u32>> {
[INFO] [stdout]     |                            ^^^^^ the lifetime is elided here       ^^^^^^^^^^^^^^^^^^^^^^^ the same lifetime is hidden here
[INFO] [stdout]     |
[INFO] [stdout]     = help: the same lifetime is referred to in inconsistent ways, making the signature confusing
[INFO] [stdout]     = note: `#[warn(mismatched_lifetime_syntaxes)]` on by default
[INFO] [stdout] help: use `'_` for type paths
[INFO] [stdout]     |
[INFO] [stdout] 101 |     pub fn get_parent_edge(&self, node : NodeIndex<u32>) -> Option<EdgeReference<'_, f32, u32>> {
[INFO] [stdout]     |                                                                                  +++
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]     Finished `release` profile [optimized] target(s) in 26.72s
[INFO] running `Command { std: "docker" "inspect" "2e9ac70e66b8553882dbf2d5f9392cefc578a94bfa2e961a5fc7cb9e58222a8c", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=warn" "-e" "RUSTDOCFLAGS=--cap-lints=warn" "-w" "/opt/rustwide/workdir" "--user" "0:0" "2e9ac70e66b8553882dbf2d5f9392cefc578a94bfa2e961a5fc7cb9e58222a8c" "/opt/rustwide/cargo-home/bin/cargo" "+1.100.0-beta.1" "test" "--frozen" "--no-run" "--message-format=json" "--release", kill_on_drop: false }`
[INFO] [stderr] warning: Cargo.toml: `package.edition` is unspecified, defaulting to `2015` while the latest is `2024`
[INFO] [stderr] warning: `global-supertrees` (manifest) generated 1 warning
[INFO] [stderr]    Compiling global-supertrees v0.1.0 (/opt/rustwide/workdir)
[INFO] [stdout] warning: use of deprecated constant `std::f32::NAN`: replaced by the `NAN` associated constant on `f32`
[INFO] [stdout]    --> src/graph_tree.rs:118:49
[INFO] [stdout]     |
[INFO] [stdout] 118 |         let mut previous_branch_distance = f32::NAN;
[INFO] [stdout]     |                                                 ^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(deprecated)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated constant `std::f32::NAN`: replaced by the `NAN` associated constant on `f32`
[INFO] [stdout]    --> src/graph_tree.rs:124:42
[INFO] [stdout]     |
[INFO] [stdout] 124 |             let mut node_distance = f32::NAN;
[INFO] [stdout]     |                                          ^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated constant `std::f32::NAN`: replaced by the `NAN` associated constant on `f32`
[INFO] [stdout]    --> src/graph_tree.rs:225:44
[INFO] [stdout]     |
[INFO] [stdout] 225 |                 branch_distances.push(f32::NAN);
[INFO] [stdout]     |                                            ^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated constant `std::f32::NAN`: replaced by the `NAN` associated constant on `f32`
[INFO] [stdout]    --> src/graph_tree.rs:248:52
[INFO] [stdout]     |
[INFO] [stdout] 248 |                     graph.add_edge(parent, n, f32::NAN);
[INFO] [stdout]     |                                                    ^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated constant `std::f32::NAN`: replaced by the `NAN` associated constant on `f32`
[INFO] [stdout]    --> src/graph_tree.rs:268:52
[INFO] [stdout]     |
[INFO] [stdout] 268 |                     graph.add_edge(parent, n, f32::NAN);
[INFO] [stdout]     |                                                    ^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated constant `std::f32::MAX`: replaced by the `MAX` associated constant on `f32`
[INFO] [stdout]    --> src/tree_distance_matrix.rs:113:36
[INFO] [stdout]     |
[INFO] [stdout] 113 |         let mut lowest: f32 = f32::MAX;
[INFO] [stdout]     |                                    ^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated constant `std::f32::NAN`: replaced by the `NAN` associated constant on `f32`
[INFO] [stdout]    --> src/tree_distance_matrix.rs:233:77
[INFO] [stdout]     |
[INFO] [stdout] 233 |         graph.add_edge(node_index(0), branches[&(branches.len() - 1)], f32::NAN);
[INFO] [stdout]     |                                                                             ^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated constant `std::f32::NAN`: replaced by the `NAN` associated constant on `f32`
[INFO] [stdout]    --> src/tree_merging.rs:112:43
[INFO] [stdout]     |
[INFO] [stdout] 112 |     overlapping_distance_matrix.fill(f32::NAN);
[INFO] [stdout]     |                                           ^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: trait objects without an explicit `dyn` are deprecated
[INFO] [stdout]   --> src/utils.rs:54:92
[INFO] [stdout]    |
[INFO] [stdout] 54 | pub fn cache_mapping(mapping : &BTreeMap<[u8; 10], u32>, path : &String) -> Result<(), Box<Error>> {
[INFO] [stdout]    |                                                                                            ^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = warning: this is accepted in the current edition (Rust 2015) but is a hard error in Rust 2021!
[INFO] [stdout]    = note: for more information, see <https://doc.rust-lang.org/edition-guide/rust-2021/warnings-promoted-to-error.html>
[INFO] [stdout]    = note: `#[warn(bare_trait_objects)]` (part of `#[warn(rust_2021_compatibility)]`) on by default
[INFO] [stdout] help: if this is a dyn-compatible trait, use `dyn`
[INFO] [stdout]    |
[INFO] [stdout] 54 | pub fn cache_mapping(mapping : &BTreeMap<[u8; 10], u32>, path : &String) -> Result<(), Box<dyn Error>> {
[INFO] [stdout]    |                                                                                            +++
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: trait objects without an explicit `dyn` are deprecated
[INFO] [stdout]   --> src/utils.rs:61:82
[INFO] [stdout]    |
[INFO] [stdout] 61 | pub fn load_cache_mapping(path : &String) -> Result<BTreeMap<[u8; 10], u32>, Box<Error>> {
[INFO] [stdout]    |                                                                                  ^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = warning: this is accepted in the current edition (Rust 2015) but is a hard error in Rust 2021!
[INFO] [stdout]    = note: for more information, see <https://doc.rust-lang.org/edition-guide/rust-2021/warnings-promoted-to-error.html>
[INFO] [stdout] help: if this is a dyn-compatible trait, use `dyn`
[INFO] [stdout]    |
[INFO] [stdout] 61 | pub fn load_cache_mapping(path : &String) -> Result<BTreeMap<[u8; 10], u32>, Box<dyn Error>> {
[INFO] [stdout]    |                                                                                  +++
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `rayon::prelude`
[INFO] [stdout]  --> src/tree_merging.rs:2:5
[INFO] [stdout]   |
[INFO] [stdout] 2 | use rayon::prelude::*;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `distance_matrices`
[INFO] [stdout]   --> src/tree_merging.rs:10:9
[INFO] [stdout]    |
[INFO] [stdout] 10 |     let distance_matrices: Vec<TreeDistanceMatrix> =
[INFO] [stdout]    |         ^^^^^^^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_distance_matrices`
[INFO] [stdout]    |
[INFO] [stdout]    = note: `#[warn(unused_variables)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `trees`
[INFO] [stdout]   --> src/main.rs:98:9
[INFO] [stdout]    |
[INFO] [stdout] 98 |     let trees : Vec<graph_tree::Tree> = distance_matrices.par_iter().map(| dm | dm.neighbour_joining()).collect();
[INFO] [stdout]    |         ^^^^^ help: if this is intentional, prefix it with an underscore: `_trees`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: function `merge_distance_matrices` is never used
[INFO] [stdout]    --> src/tree_merging.rs:102:4
[INFO] [stdout]     |
[INFO] [stdout] 102 | fn merge_distance_matrices(dms: Vec<TreeDistanceMatrix>) -> TreeDistanceMatrix {
[INFO] [stdout]     |    ^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(dead_code)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: hiding a lifetime that's elided elsewhere is confusing
[INFO] [stdout]    --> src/graph_tree.rs:101:28
[INFO] [stdout]     |
[INFO] [stdout] 101 |     pub fn get_parent_edge(&self, node : NodeIndex<u32>) -> Option<EdgeReference<f32, u32>> {
[INFO] [stdout]     |                            ^^^^^ the lifetime is elided here       ^^^^^^^^^^^^^^^^^^^^^^^ the same lifetime is hidden here
[INFO] [stdout]     |
[INFO] [stdout]     = help: the same lifetime is referred to in inconsistent ways, making the signature confusing
[INFO] [stdout]     = note: `#[warn(mismatched_lifetime_syntaxes)]` on by default
[INFO] [stdout] help: use `'_` for type paths
[INFO] [stdout]     |
[INFO] [stdout] 101 |     pub fn get_parent_edge(&self, node : NodeIndex<u32>) -> Option<EdgeReference<'_, f32, u32>> {
[INFO] [stdout]     |                                                                                  +++
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]     Finished `release` profile [optimized] target(s) in 6.67s
[INFO] running `Command { std: "docker" "inspect" "2e9ac70e66b8553882dbf2d5f9392cefc578a94bfa2e961a5fc7cb9e58222a8c", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=warn" "-e" "RUSTDOCFLAGS=--cap-lints=warn" "-w" "/opt/rustwide/workdir" "--user" "0:0" "2e9ac70e66b8553882dbf2d5f9392cefc578a94bfa2e961a5fc7cb9e58222a8c" "/opt/rustwide/cargo-home/bin/cargo" "+1.100.0-beta.1" "test" "--frozen" "--release", kill_on_drop: false }`
[INFO] [stderr] warning: Cargo.toml: `package.edition` is unspecified, defaulting to `2015` while the latest is `2024`
[INFO] [stderr] warning: `global-supertrees` (manifest) generated 1 warning
[INFO] [stderr] warning: use of deprecated constant `std::f32::NAN`: replaced by the `NAN` associated constant on `f32`
[INFO] [stderr]    --> src/graph_tree.rs:118:49
[INFO] [stderr]     |
[INFO] [stderr] 118 |         let mut previous_branch_distance = f32::NAN;
[INFO] [stderr]     |                                                 ^^^
[INFO] [stderr]     |
[INFO] [stderr]     = note: `#[warn(deprecated)]` on by default
[INFO] [stderr] 
[INFO] [stderr] warning: use of deprecated constant `std::f32::NAN`: replaced by the `NAN` associated constant on `f32`
[INFO] [stderr]    --> src/graph_tree.rs:124:42
[INFO] [stderr]     |
[INFO] [stderr] 124 |             let mut node_distance = f32::NAN;
[INFO] [stderr]     |                                          ^^^
[INFO] [stderr] 
[INFO] [stderr] warning: use of deprecated constant `std::f32::NAN`: replaced by the `NAN` associated constant on `f32`
[INFO] [stderr]    --> src/graph_tree.rs:225:44
[INFO] [stderr]     |
[INFO] [stderr] 225 |                 branch_distances.push(f32::NAN);
[INFO] [stderr]     |                                            ^^^
[INFO] [stderr] 
[INFO] [stderr] warning: use of deprecated constant `std::f32::NAN`: replaced by the `NAN` associated constant on `f32`
[INFO] [stderr]    --> src/graph_tree.rs:248:52
[INFO] [stderr]     |
[INFO] [stderr] 248 |                     graph.add_edge(parent, n, f32::NAN);
[INFO] [stderr]     |                                                    ^^^
[INFO] [stderr] 
[INFO] [stderr] warning: use of deprecated constant `std::f32::NAN`: replaced by the `NAN` associated constant on `f32`
[INFO] [stderr]    --> src/graph_tree.rs:268:52
[INFO] [stderr]     |
[INFO] [stderr] 268 |                     graph.add_edge(parent, n, f32::NAN);
[INFO] [stderr]     |                                                    ^^^
[INFO] [stderr] 
[INFO] [stderr] warning: use of deprecated constant `std::f32::MAX`: replaced by the `MAX` associated constant on `f32`
[INFO] [stderr]    --> src/tree_distance_matrix.rs:113:36
[INFO] [stderr]     |
[INFO] [stderr] 113 |         let mut lowest: f32 = f32::MAX;
[INFO] [stderr]     |                                    ^^^
[INFO] [stderr] 
[INFO] [stderr] warning: use of deprecated constant `std::f32::NAN`: replaced by the `NAN` associated constant on `f32`
[INFO] [stderr]    --> src/tree_distance_matrix.rs:233:77
[INFO] [stderr]     |
[INFO] [stderr] 233 |         graph.add_edge(node_index(0), branches[&(branches.len() - 1)], f32::NAN);
[INFO] [stderr]     |                                                                             ^^^
[INFO] [stderr] 
[INFO] [stderr] warning: use of deprecated constant `std::f32::NAN`: replaced by the `NAN` associated constant on `f32`
[INFO] [stderr]    --> src/tree_merging.rs:112:43
[INFO] [stderr]     |
[INFO] [stderr] 112 |     overlapping_distance_matrix.fill(f32::NAN);
[INFO] [stderr]     |                                           ^^^
[INFO] [stderr] 
[INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated
[INFO] [stderr]   --> src/utils.rs:54:92
[INFO] [stderr]    |
[INFO] [stderr] 54 | pub fn cache_mapping(mapping : &BTreeMap<[u8; 10], u32>, path : &String) -> Result<(), Box<Error>> {
[INFO] [stderr]    |                                                                                            ^^^^^
[INFO] [stderr]    |
[INFO] [stderr]    = warning: this is accepted in the current edition (Rust 2015) but is a hard error in Rust 2021!
[INFO] [stderr]    = note: for more information, see <https://doc.rust-lang.org/edition-guide/rust-2021/warnings-promoted-to-error.html>
[INFO] [stderr]    = note: `#[warn(bare_trait_objects)]` (part of `#[warn(rust_2021_compatibility)]`) on by default
[INFO] [stderr] help: if this is a dyn-compatible trait, use `dyn`
[INFO] [stderr]    |
[INFO] [stderr] 54 | pub fn cache_mapping(mapping : &BTreeMap<[u8; 10], u32>, path : &String) -> Result<(), Box<dyn Error>> {
[INFO] [stderr]    |                                                                                            +++
[INFO] [stderr] 
[INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated
[INFO] [stderr]   --> src/utils.rs:61:82
[INFO] [stderr]    |
[INFO] [stderr] 61 | pub fn load_cache_mapping(path : &String) -> Result<BTreeMap<[u8; 10], u32>, Box<Error>> {
[INFO] [stderr]    |                                                                                  ^^^^^
[INFO] [stderr]    |
[INFO] [stderr]    = warning: this is accepted in the current edition (Rust 2015) but is a hard error in Rust 2021!
[INFO] [stderr]    = note: for more information, see <https://doc.rust-lang.org/edition-guide/rust-2021/warnings-promoted-to-error.html>
[INFO] [stderr] help: if this is a dyn-compatible trait, use `dyn`
[INFO] [stderr]    |
[INFO] [stderr] 61 | pub fn load_cache_mapping(path : &String) -> Result<BTreeMap<[u8; 10], u32>, Box<dyn Error>> {
[INFO] [stderr]    |                                                                                  +++
[INFO] [stderr] 
[INFO] [stderr] warning: unused import: `rayon::prelude`
[INFO] [stderr]  --> src/tree_merging.rs:2:5
[INFO] [stderr]   |
[INFO] [stderr] 2 | use rayon::prelude::*;
[INFO] [stderr]   |     ^^^^^^^^^^^^^^
[INFO] [stderr]   |
[INFO] [stderr]   = note: `#[warn(unused_imports)]` (part of `#[warn(unused)]`) on by default
[INFO] [stderr] 
[INFO] [stderr] warning: unused variable: `distance_matrices`
[INFO] [stderr]   --> src/tree_merging.rs:10:9
[INFO] [stderr]    |
[INFO] [stderr] 10 |     let distance_matrices: Vec<TreeDistanceMatrix> =
[INFO] [stderr]    |         ^^^^^^^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_distance_matrices`
[INFO] [stderr]    |
[INFO] [stderr]    = note: `#[warn(unused_variables)]` (part of `#[warn(unused)]`) on by default
[INFO] [stderr] 
[INFO] [stderr] warning: unused variable: `trees`
[INFO] [stderr]   --> src/main.rs:98:9
[INFO] [stderr]    |
[INFO] [stderr] 98 |     let trees : Vec<graph_tree::Tree> = distance_matrices.par_iter().map(| dm | dm.neighbour_joining()).collect();
[INFO] [stderr]    |         ^^^^^ help: if this is intentional, prefix it with an underscore: `_trees`
[INFO] [stderr] 
[INFO] [stderr] warning: function `merge_distance_matrices` is never used
[INFO] [stderr]    --> src/tree_merging.rs:102:4
[INFO] [stderr]     |
[INFO] [stderr] 102 | fn merge_distance_matrices(dms: Vec<TreeDistanceMatrix>) -> TreeDistanceMatrix {
[INFO] [stderr]     |    ^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr]     |
[INFO] [stderr]     = note: `#[warn(dead_code)]` (part of `#[warn(unused)]`) on by default
[INFO] [stderr] 
[INFO] [stderr] warning: hiding a lifetime that's elided elsewhere is confusing
[INFO] [stderr]    --> src/graph_tree.rs:101:28
[INFO] [stderr]     |
[INFO] [stderr] 101 |     pub fn get_parent_edge(&self, node : NodeIndex<u32>) -> Option<EdgeReference<f32, u32>> {
[INFO] [stderr]     |                            ^^^^^ the lifetime is elided here       ^^^^^^^^^^^^^^^^^^^^^^^ the same lifetime is hidden here
[INFO] [stderr]     |
[INFO] [stderr]     = help: the same lifetime is referred to in inconsistent ways, making the signature confusing
[INFO] [stderr]     = note: `#[warn(mismatched_lifetime_syntaxes)]` on by default
[INFO] [stderr] help: use `'_` for type paths
[INFO] [stderr]     |
[INFO] [stderr] 101 |     pub fn get_parent_edge(&self, node : NodeIndex<u32>) -> Option<EdgeReference<'_, f32, u32>> {
[INFO] [stderr]     |                                                                                  +++
[INFO] [stderr] 
[INFO] [stderr] warning: `global-supertrees` (bin "global-supertrees" test) generated 15 warnings (run `cargo fix --bin "global-supertrees" -p global-supertrees --tests` to apply 5 suggestions)
[INFO] [stderr]     Finished `release` profile [optimized] target(s) in 0.07s
[INFO] [stderr]      Running unittests src/main.rs (/opt/rustwide/target/release/build/global-supertrees/373852a331f1dce6/out/global_supertrees-373852a331f1dce6)
[INFO] [stdout] 
[INFO] [stdout] running 16 tests
[INFO] [stdout] test tests::tests::test_find_first_common_ancestor ... ok
[INFO] [stdout] test tests::tests::test_batch_id_tax_mapping ... FAILED
[INFO] [stdout] test test_tree_parsing::tests::test_construct_tree_from_file_1 ... ok
[INFO] [stdout] test test_tree_parsing::tests::test_construct_tree_from_file_3 ... ok
[INFO] [stdout] test test_tree_parsing::tests::test_construct_tree_from_file_2 ... ok
[INFO] [stdout] test tests::tests::test_find_first_zero ... ok
[INFO] [stdout] test tests::tests::test_get_levels_from_root ... ok
[INFO] [stdout] test tests::tests::test_load_tree_file ... ok
[INFO] [stdout] test tests::tests::test_merge_organisms ... FAILED
[INFO] [stdout] test tests::tests::test_get_partial_tree ... ok
[INFO] [stdout] test tests::tests::test_to_distance_matrix_medium_nested ... ok
[INFO] [stdout] test tests::tests::test_to_dot ... ok
[INFO] [stdout] test tests::tests::test_to_distance_matrix_simple ... ok
[INFO] [stdout] test tests::tests::test_to_distance_matrix_medium ... ok
[INFO] [stdout] test tests::tests::test_neighbour_joining ... ok
[INFO] [stdout] test tests::tests::test_tree_merging ... ok
[INFO] [stdout] 
[INFO] [stdout] failures:
[INFO] [stdout] 
[INFO] [stdout] ---- tests::tests::test_batch_id_tax_mapping stdout ----
[INFO] [stdout] 
[INFO] [stdout] thread 'tests::tests::test_batch_id_tax_mapping' (536) panicked at src/uniprot.rs:34:34:
[INFO] [stdout] file not found: Os { code: 2, kind: NotFound, message: "No such file or directory" }
[INFO] [stdout] stack backtrace:
[INFO] [stdout]    0:     0x5dcac7556f91 - <<std[617be2ca0a6fd877]::sys::backtrace::BacktraceLock>::print::DisplayBacktrace as core[a373ad73a504971]::fmt::Display>::fmt
[INFO] [stdout]    1:     0x5dcac756d9ca - core[a373ad73a504971]::fmt::write
[INFO] [stdout]    2:     0x5dcac755b2cc - <alloc[2e1b2a31b91974c5]::vec::Vec<u8> as core[a373ad73a504971]::io::write::Write>::write_fmt
[INFO] [stdout]    3:     0x5dcac7533146 - std[617be2ca0a6fd877]::panicking::default_hook::{closure#0}
[INFO] [stdout]    4:     0x5dcac754f4a9 - std[617be2ca0a6fd877]::panicking::default_hook
[INFO] [stdout]    5:     0x5dcac741d700 - test[aada8e7e76ba119b]::test_main_inner::{closure#0}
[INFO] [stdout]    6:     0x5dcac754f7d2 - std[617be2ca0a6fd877]::panicking::panic_with_hook
[INFO] [stdout]    7:     0x5dcac75331f2 - std[617be2ca0a6fd877]::panicking::panic_handler::{closure#0}
[INFO] [stdout]    8:     0x5dcac752bed9 - std[617be2ca0a6fd877]::sys::backtrace::__rust_end_short_backtrace::<std[617be2ca0a6fd877]::panicking::panic_handler::{closure#0}, !>
[INFO] [stdout]    9:     0x5dcac7533dfd - __rustc[ea4f61d10b84890b]::rust_begin_unwind
[INFO] [stdout]   10:     0x5dcac756e1ac - core[a373ad73a504971]::panicking::panic_fmt
[INFO] [stdout]   11:     0x5dcac756df82 - core[a373ad73a504971]::result::unwrap_failed
[INFO] [stdout]   12:     0x5dcac74103ef - global_supertrees[8929397ae901ef0f]::uniprot::load_mapping_file
[INFO] [stdout]   13:     0x5dcac73fba85 - <global_supertrees[8929397ae901ef0f]::tests::tests::test_batch_id_tax_mapping::{closure#0} as core[a373ad73a504971]::ops::function::FnOnce<()>>::call_once
[INFO] [stdout]   14:     0x5dcac7410b4b - test[aada8e7e76ba119b]::__rust_begin_short_backtrace::<core[a373ad73a504971]::result::Result<(), alloc[2e1b2a31b91974c5]::string::String>, fn() -> core[a373ad73a504971]::result::Result<(), alloc[2e1b2a31b91974c5]::string::String>>
[INFO] [stdout]   15:     0x5dcac741dd25 - test[aada8e7e76ba119b]::run_test::{closure#0}
[INFO] [stdout]   16:     0x5dcac7417614 - std[617be2ca0a6fd877]::sys::backtrace::__rust_begin_short_backtrace::<test[aada8e7e76ba119b]::run_test::{closure#1}, ()>
[INFO] [stdout]   17:     0x5dcac7420db2 - <std[617be2ca0a6fd877]::thread::lifecycle::spawn_unchecked<test[aada8e7e76ba119b]::run_test::{closure#1}, ()>::{closure#1} as core[a373ad73a504971]::ops::function::FnOnce<()>>::call_once::{shim:vtable#0}
[INFO] [stdout]   18:     0x5dcac75567df - <std[617be2ca0a6fd877]::sys::thread::unix::Thread>::new::thread_start
[INFO] [stdout]   19:     0x7643394cadfa - <unknown>
[INFO] [stdout]   20:     0x76433955e3d4 - clone
[INFO] [stdout]   21:                0x0 - <unknown>
[INFO] [stdout] 
[INFO] [stdout] ---- tests::tests::test_merge_organisms stdout ----
[INFO] [stdout] 
[INFO] [stdout] thread 'tests::tests::test_merge_organisms' (550) panicked at src/uniprot.rs:34:34:
[INFO] [stdout] file not found: Os { code: 2, kind: NotFound, message: "No such file or directory" }
[INFO] [stdout] stack backtrace:
[INFO] [stdout]    0:     0x5dcac7556f91 - <<std[617be2ca0a6fd877]::sys::backtrace::BacktraceLock>::print::DisplayBacktrace as core[a373ad73a504971]::fmt::Display>::fmt
[INFO] [stdout]    1:     0x5dcac756d9ca - core[a373ad73a504971]::fmt::write
[INFO] [stdout]    2:     0x5dcac755b2cc - <alloc[2e1b2a31b91974c5]::vec::Vec<u8> as core[a373ad73a504971]::io::write::Write>::write_fmt
[INFO] [stdout]    3:     0x5dcac7533146 - std[617be2ca0a6fd877]::panicking::default_hook::{closure#0}
[INFO] [stdout]    4:     0x5dcac754f4a9 - std[617be2ca0a6fd877]::panicking::default_hook
[INFO] [stdout]    5:     0x5dcac741d700 - test[aada8e7e76ba119b]::test_main_inner::{closure#0}
[INFO] [stdout]    6:     0x5dcac754f7d2 - std[617be2ca0a6fd877]::panicking::panic_with_hook
[INFO] [stdout]    7:     0x5dcac75331f2 - std[617be2ca0a6fd877]::panicking::panic_handler::{closure#0}
[INFO] [stdout]    8:     0x5dcac752bed9 - std[617be2ca0a6fd877]::sys::backtrace::__rust_end_short_backtrace::<std[617be2ca0a6fd877]::panicking::panic_handler::{closure#0}, !>
[INFO] [stdout]    9:     0x5dcac7533dfd - __rustc[ea4f61d10b84890b]::rust_begin_unwind
[INFO] [stdout]   10:     0x5dcac756e1ac - core[a373ad73a504971]::panicking::panic_fmt
[INFO] [stdout]   11:     0x5dcac756df82 - core[a373ad73a504971]::result::unwrap_failed
[INFO] [stdout]   12:     0x5dcac74103ef - global_supertrees[8929397ae901ef0f]::uniprot::load_mapping_file
[INFO] [stdout]   13:     0x5dcac73faf9d - <global_supertrees[8929397ae901ef0f]::tests::tests::test_merge_organisms::{closure#0} as core[a373ad73a504971]::ops::function::FnOnce<()>>::call_once
[INFO] [stdout]   14:     0x5dcac7410b4b - test[aada8e7e76ba119b]::__rust_begin_short_backtrace::<core[a373ad73a504971]::result::Result<(), alloc[2e1b2a31b91974c5]::string::String>, fn() -> core[a373ad73a504971]::result::Result<(), alloc[2e1b2a31b91974c5]::string::String>>
[INFO] [stdout]   15:     0x5dcac741dd25 - test[aada8e7e76ba119b]::run_test::{closure#0}
[INFO] [stdout]   16:     0x5dcac7417614 - std[617be2ca0a6fd877]::sys::backtrace::__rust_begin_short_backtrace::<test[aada8e7e76ba119b]::run_test::{closure#1}, ()>
[INFO] [stdout]   17:     0x5dcac7420db2 - <std[617be2ca0a6fd877]::thread::lifecycle::spawn_unchecked<test[aada8e7e76ba119b]::run_test::{closure#1}, ()>::{closure#1} as core[a373ad73a504971]::ops::function::FnOnce<()>>::call_once::{shim:vtable#0}
[INFO] [stdout]   18:     0x5dcac75567df - <std[617be2ca0a6fd877]::sys::thread::unix::Thread>::new::thread_start
[INFO] [stdout]   19:     0x7643394cadfa - <unknown>
[INFO] [stdout]   20:     0x76433955e3d4 - clone
[INFO] [stdout]   21:                0x0 - <unknown>
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] failures:
[INFO] [stdout]     tests::tests::test_batch_id_tax_mapping
[INFO] [stdout]     tests::tests::test_merge_organisms
[INFO] [stdout] 
[INFO] [stdout] test result: FAILED. 14 passed; 2 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.13s
[INFO] [stdout] 
[INFO] [stderr] error: test failed, to rerun pass `--bin global-supertrees`
[INFO] running `Command { std: "docker" "inspect" "2e9ac70e66b8553882dbf2d5f9392cefc578a94bfa2e961a5fc7cb9e58222a8c", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "2e9ac70e66b8553882dbf2d5f9392cefc578a94bfa2e961a5fc7cb9e58222a8c", kill_on_drop: false }`
[INFO] [stdout] 2e9ac70e66b8553882dbf2d5f9392cefc578a94bfa2e961a5fc7cb9e58222a8c
