[INFO] fetching crate gchemol-geometry 0.0.38...
[INFO] checking gchemol-geometry-0.0.38 against master#e2223c94bf433fc38234d1303e88cbaf14755863 for pr-69548
[INFO] extracting crate gchemol-geometry 0.0.38 into /workspace/builds/worker-14/source
[INFO] validating manifest of crates.io crate gchemol-geometry 0.0.38 on toolchain e2223c94bf433fc38234d1303e88cbaf14755863
[INFO] running `"/workspace/cargo-home/bin/cargo" "+e2223c94bf433fc38234d1303e88cbaf14755863" "read-manifest" "--manifest-path" "Cargo.toml"`
[INFO] started tweaking crates.io crate gchemol-geometry 0.0.38
[INFO] finished tweaking crates.io crate gchemol-geometry 0.0.38
[INFO] tweaked toml for crates.io crate gchemol-geometry 0.0.38 written to /workspace/builds/worker-14/source/Cargo.toml
[INFO] running `"/workspace/cargo-home/bin/cargo" "+e2223c94bf433fc38234d1303e88cbaf14755863" "generate-lockfile" "--manifest-path" "Cargo.toml" "-Zno-index-update"`
[INFO] running `"/workspace/cargo-home/bin/cargo" "+e2223c94bf433fc38234d1303e88cbaf14755863" "fetch" "--locked" "--manifest-path" "Cargo.toml"`
[INFO] running `"docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-14/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-14/source:/opt/rustwide/workdir:ro,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" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "MAP_USER_ID=0" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-w" "/opt/rustwide/workdir" "-m" "1610612736" "--network" "none" "rustops/crates-build-env" "/opt/rustwide/cargo-home/bin/cargo" "+e2223c94bf433fc38234d1303e88cbaf14755863" "check" "--frozen" "--all" "--all-targets"`
[INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap.
[INFO] [stdout] e202eb5692f0298c27be968d1462cb5325fbf25140da10a0997fcfe7f1c226bb
[INFO] running `"docker" "start" "-a" "e202eb5692f0298c27be968d1462cb5325fbf25140da10a0997fcfe7f1c226bb"`
[INFO] [stderr]     Checking unic-common v0.9.0
[INFO] [stderr]     Checking unic-char-range v0.9.0
[INFO] [stderr]    Compiling proc-macro-error-attr v0.4.11
[INFO] [stderr]    Compiling proc-macro-error v0.4.11
[INFO] [stderr]     Checking crossbeam-utils v0.7.2
[INFO] [stderr]     Checking getrandom v0.1.14
[INFO] [stderr]     Checking bstr v0.2.11
[INFO] [stderr]     Checking approx v0.3.2
[INFO] [stderr]    Compiling serde_derive v1.0.104
[INFO] [stderr]    Compiling syn-mid v0.5.0
[INFO] [stderr]    Compiling pest_generator v2.1.2
[INFO] [stderr]     Checking env_logger v0.7.1
[INFO] [stderr]    Compiling parse-zoneinfo v0.2.1
[INFO] [stderr]     Checking chrono v0.4.10
[INFO] [stderr]     Checking nom v5.1.1
[INFO] [stderr]     Checking unic-ucd-version v0.9.0
[INFO] [stderr]     Checking unic-char-property v0.9.0
[INFO] [stderr]     Checking unic-ucd-segment v0.9.0
[INFO] [stderr]     Checking rand_core v0.5.1
[INFO] [stderr]     Checking crossbeam-epoch v0.8.2
[INFO] [stderr]     Checking crossbeam-queue v0.2.1
[INFO] [stderr]     Checking crossbeam-channel v0.4.2
[INFO] [stderr]     Checking pretty_env_logger v0.4.0
[INFO] [stderr]     Checking rand_chacha v0.2.1
[INFO] [stderr]     Checking rand v0.7.3
[INFO] [stderr]     Checking globset v0.4.4
[INFO] [stderr]     Checking unic-segment v0.9.0
[INFO] [stderr]     Checking crossbeam-deque v0.7.3
[INFO] [stderr]    Compiling chrono-tz v0.5.1
[INFO] [stderr]     Checking rayon-core v1.7.0
[INFO] [stderr]     Checking ignore v0.4.11
[INFO] [stderr]    Compiling pest_derive v2.1.0
[INFO] [stderr]     Checking rayon v1.3.0
[INFO] [stderr]     Checking rand_distr v0.2.2
[INFO] [stderr]     Checking tempfile v3.1.0
[INFO] [stderr]     Checking globwalk v0.7.1
[INFO] [stderr]    Compiling structopt-derive v0.4.4
[INFO] [stderr]     Checking structopt v0.3.11
[INFO] [stderr]     Checking serde v1.0.104
[INFO] [stderr]     Checking num-complex v0.2.4
[INFO] [stderr]     Checking toml v0.5.6
[INFO] [stderr]     Checking serde_json v1.0.48
[INFO] [stderr]     Checking petgraph v0.5.0
[INFO] [stderr]     Checking bimap v0.4.0
[INFO] [stderr]     Checking envy v0.4.1
[INFO] [stderr]     Checking alga v0.9.3
[INFO] [stderr]     Checking tera v1.0.2
[INFO] [stderr]     Checking handlebars v3.0.1
[INFO] [stderr]     Checking gchemol-gut v0.1.2
[INFO] [stderr]     Checking gchemol-graph v0.1.1
[INFO] [stderr]     Checking gchemol-parser v0.2.0
[INFO] [stderr]     Checking nalgebra v0.19.0
[INFO] [stderr]     Checking vecfx v0.0.8
[INFO] [stderr]     Checking vecfx v0.1.1
[INFO] [stderr]     Checking gchemol-lattice v0.0.6
[INFO] [stderr]     Checking octree v0.0.6
[INFO] [stderr]     Checking gchemol-geometry v0.0.38
[INFO] [stderr]     Checking gchemol-geometry v0.0.38 (/opt/rustwide/workdir)
[INFO] [stderr] warning: unused import: `crate::base::euclidean_distance`
[INFO] [stderr]  --> src/random.rs:8:5
[INFO] [stderr]   |
[INFO] [stderr] 8 | use crate::base::euclidean_distance;
[INFO] [stderr]   |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr]   |
[INFO] [stderr]   = note: `#[warn(unused_imports)]` on by default
[INFO] [stderr] 
[INFO] [stderr]     Checking gchemol-neighbors v0.0.7
[INFO] [stderr] warning: function is never used: `prepare_test_data`
[INFO] [stderr]    --> src/alignment/qcprot.rs:460:15
[INFO] [stderr]     |
[INFO] [stderr] 460 | pub(crate) fn prepare_test_data() -> (Vec<[f64; 3]>, Vec<[f64; 3]>, Vec<f64>) {
[INFO] [stderr]     |               ^^^^^^^^^^^^^^^^^
[INFO] [stderr]     |
[INFO] [stderr]     = note: `#[warn(dead_code)]` on by default
[INFO] [stderr] 
[INFO] [stderr] warning: function is never used: `euclidean_distance`
[INFO] [stderr]   --> src/base.rs:13:8
[INFO] [stderr]    |
[INFO] [stderr] 13 | pub fn euclidean_distance(p1: [f64; 3], p2: [f64; 3]) -> f64 {
[INFO] [stderr]    |        ^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: function is never used: `weighted_center_of_geometry`
[INFO] [stderr]   --> src/base.rs:24:8
[INFO] [stderr]    |
[INFO] [stderr] 24 | pub fn weighted_center_of_geometry(positions: &[[f64; 3]], weights: &[f64]) -> Result<Vector3f> {
[INFO] [stderr]    |        ^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: type alias is never used: `Point3D`
[INFO] [stderr]   --> src/random.rs:17:1
[INFO] [stderr]    |
[INFO] [stderr] 17 | type Point3D = [f64; 3];
[INFO] [stderr]    | ^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: type alias is never used: `Points`
[INFO] [stderr]   --> src/random.rs:18:1
[INFO] [stderr]    |
[INFO] [stderr] 18 | type Points = Vec<Point3D>;
[INFO] [stderr]    | ^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: function is never used: `rand_point_within_sphere`
[INFO] [stderr]   --> src/random.rs:24:8
[INFO] [stderr]    |
[INFO] [stderr] 24 | pub fn rand_point_within_sphere(radius: f64) -> Point3D {
[INFO] [stderr]    |        ^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: function is never used: `rand_point_on_sphere`
[INFO] [stderr]   --> src/random.rs:49:8
[INFO] [stderr]    |
[INFO] [stderr] 49 | pub fn rand_point_on_sphere(radius: f64) -> Point3D {
[INFO] [stderr]    |        ^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: function is never used: `rand_points_within_sphere`
[INFO] [stderr]   --> src/random.rs:76:8
[INFO] [stderr]    |
[INFO] [stderr] 76 | pub fn rand_points_within_sphere(radius: f64, npts: usize) -> Points {
[INFO] [stderr]    |        ^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: function is never used: `rand_rotate`
[INFO] [stderr]    --> src/random.rs:102:8
[INFO] [stderr]     |
[INFO] [stderr] 102 | pub fn rand_rotate(points: &Points) -> Points {
[INFO] [stderr]     |        ^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: type alias is never used: `Point3`
[INFO] [stderr]   --> src/transform.rs:11:1
[INFO] [stderr]    |
[INFO] [stderr] 11 | type Point3 = [f64; 3];
[INFO] [stderr]    | ^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: type alias is never used: `Points`
[INFO] [stderr]   --> src/transform.rs:12:1
[INFO] [stderr]    |
[INFO] [stderr] 12 | type Points = Vec<Point3>;
[INFO] [stderr]    | ^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: function is never used: `translate`
[INFO] [stderr]   --> src/transform.rs:15:8
[INFO] [stderr]    |
[INFO] [stderr] 15 | pub fn translate(points: &mut Points, loc: Point3) {
[INFO] [stderr]    |        ^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: function is never used: `close_contact`
[INFO] [stderr]   --> src/transform.rs:24:8
[INFO] [stderr]    |
[INFO] [stderr] 24 | pub fn close_contact(points: &Points) -> bool {
[INFO] [stderr]    |        ^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: function is never used: `get_distance_matrix`
[INFO] [stderr]   --> src/transform.rs:46:8
[INFO] [stderr]    |
[INFO] [stderr] 46 | pub fn get_distance_matrix(points: &[Point3]) -> Vec<Vec<f64>> {
[INFO] [stderr]    |        ^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: function is never used: `rotate_about_x_axis`
[INFO] [stderr]   --> src/transform.rs:64:8
[INFO] [stderr]    |
[INFO] [stderr] 64 | pub fn rotate_about_x_axis(points: &Points, angle: f64, center: Point3) -> Points {
[INFO] [stderr]    |        ^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr]     Checking gchemol-core v0.0.40
[INFO] [stderr]     Checking gchemol-readwrite v0.0.40
[INFO] [stderr]     Checking gchemol v0.0.40
[INFO] [stderr] warning: unused variable: `trans`
[INFO] [stderr]    --> src/alignment/qcprot.rs:491:16
[INFO] [stderr]     |
[INFO] [stderr] 491 |     let (rmsd, trans, rot) = calc_rmsd_rotational_matrix(&mut frag_a, &mut frag_b, Some(&weights));
[INFO] [stderr]     |                ^^^^^ help: consider prefixing with an underscore: `_trans`
[INFO] [stderr]     |
[INFO] [stderr]     = note: `#[warn(unused_variables)]` on by default
[INFO] [stderr] 
[INFO] [stderr] warning: function is never used: `rand_point_within_sphere`
[INFO] [stderr]   --> src/random.rs:24:8
[INFO] [stderr]    |
[INFO] [stderr] 24 | pub fn rand_point_within_sphere(radius: f64) -> Point3D {
[INFO] [stderr]    |        ^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr]    |
[INFO] [stderr]    = note: `#[warn(dead_code)]` on by default
[INFO] [stderr] 
[INFO] [stderr] warning: function is never used: `rand_points_within_sphere`
[INFO] [stderr]   --> src/random.rs:76:8
[INFO] [stderr]    |
[INFO] [stderr] 76 | pub fn rand_points_within_sphere(radius: f64, npts: usize) -> Points {
[INFO] [stderr]    |        ^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: function is never used: `translate`
[INFO] [stderr]   --> src/transform.rs:15:8
[INFO] [stderr]    |
[INFO] [stderr] 15 | pub fn translate(points: &mut Points, loc: Point3) {
[INFO] [stderr]    |        ^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: function is never used: `close_contact`
[INFO] [stderr]   --> src/transform.rs:24:8
[INFO] [stderr]    |
[INFO] [stderr] 24 | pub fn close_contact(points: &Points) -> bool {
[INFO] [stderr]    |        ^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: function is never used: `get_distance_matrix`
[INFO] [stderr]   --> src/transform.rs:46:8
[INFO] [stderr]    |
[INFO] [stderr] 46 | pub fn get_distance_matrix(points: &[Point3]) -> Vec<Vec<f64>> {
[INFO] [stderr]    |        ^^^^^^^^^^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr]     Finished dev [unoptimized + debuginfo] target(s) in 1m 46s
[INFO] running `"docker" "inspect" "e202eb5692f0298c27be968d1462cb5325fbf25140da10a0997fcfe7f1c226bb"`
[INFO] running `"docker" "rm" "-f" "e202eb5692f0298c27be968d1462cb5325fbf25140da10a0997fcfe7f1c226bb"`
[INFO] [stdout] e202eb5692f0298c27be968d1462cb5325fbf25140da10a0997fcfe7f1c226bb