[INFO] fetching crate gchemol-geometry 0.1.0... [INFO] testing gchemol-geometry-0.1.0 against beta-2022-04-10 for beta-1.61-1 [INFO] extracting crate gchemol-geometry 0.1.0 into /workspace/builds/worker-3/source [INFO] validating manifest of crates.io crate gchemol-geometry 0.1.0 on toolchain beta-2022-04-10 [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+beta-2022-04-10" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] started tweaking crates.io crate gchemol-geometry 0.1.0 [INFO] finished tweaking crates.io crate gchemol-geometry 0.1.0 [INFO] tweaked toml for crates.io crate gchemol-geometry 0.1.0 written to /workspace/builds/worker-3/source/Cargo.toml [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+beta-2022-04-10" "generate-lockfile" "--manifest-path" "Cargo.toml" "-Zno-index-update", kill_on_drop: false }` [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+beta-2022-04-10" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-3/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3/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" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-w" "/opt/rustwide/workdir" "-m" "1610612736" "--user" "0:0" "--network" "none" "ghcr.io/rust-lang/crates-build-env/linux@sha256:eaef2f80f755933c374d2ae5edccceec0c1312ceb8a4e0b6404e8ab76561e1e5" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2022-04-10" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] [stdout] eb286f73e16109b4fd950fe978432edb2e3cadfad28aaae490f9917975fe973d [INFO] running `Command { std: "docker" "start" "-a" "eb286f73e16109b4fd950fe978432edb2e3cadfad28aaae490f9917975fe973d", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "eb286f73e16109b4fd950fe978432edb2e3cadfad28aaae490f9917975fe973d", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "eb286f73e16109b4fd950fe978432edb2e3cadfad28aaae490f9917975fe973d", kill_on_drop: false }` [INFO] [stdout] eb286f73e16109b4fd950fe978432edb2e3cadfad28aaae490f9917975fe973d [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-3/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3/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" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=warn" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-w" "/opt/rustwide/workdir" "-m" "1610612736" "--user" "0:0" "--network" "none" "ghcr.io/rust-lang/crates-build-env/linux@sha256:eaef2f80f755933c374d2ae5edccceec0c1312ceb8a4e0b6404e8ab76561e1e5" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2022-04-10" "build" "--frozen" "--message-format=json", kill_on_drop: false }` [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] [stdout] 44a88dedeac6d288f6bdea745058942a73dd323f8d84454a787478797d297ab7 [INFO] running `Command { std: "docker" "start" "-a" "44a88dedeac6d288f6bdea745058942a73dd323f8d84454a787478797d297ab7", kill_on_drop: false }` [INFO] [stderr] Compiling shell-escape v0.1.5 [INFO] [stderr] Compiling num-traits v0.2.14 [INFO] [stderr] Compiling num-integer v0.1.44 [INFO] [stderr] Compiling num-rational v0.4.0 [INFO] [stderr] Compiling safe_arch v0.6.0 [INFO] [stderr] Compiling matrixmultiply v0.3.2 [INFO] [stderr] Compiling shared_child v0.3.5 [INFO] [stderr] Compiling os_pipe v0.9.2 [INFO] [stderr] Compiling nalgebra-macros v0.1.0 [INFO] [stderr] Compiling env_logger v0.9.0 [INFO] [stderr] Compiling clap_derive v3.1.7 [INFO] [stderr] Compiling serde_json v1.0.79 [INFO] [stderr] Compiling duct v0.13.5 [INFO] [stderr] Compiling wide v0.7.4 [INFO] [stderr] Compiling approx v0.5.1 [INFO] [stderr] Compiling num-complex v0.4.0 [INFO] [stderr] Compiling ordered-float v2.10.0 [INFO] [stderr] Compiling rand_distr v0.4.3 [INFO] [stderr] Compiling clap v3.1.8 [INFO] [stderr] Compiling simba v0.7.1 [INFO] [stderr] Compiling gchemol-gut v0.2.0 [INFO] [stderr] Compiling nalgebra v0.30.1 [INFO] [stderr] Compiling vecfx v0.1.5 [INFO] [stderr] Compiling gchemol-geometry v0.1.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: unused import: `vecfx::*` [INFO] [stdout] --> src/alignment/quaternion.rs:3:5 [INFO] [stdout] | [INFO] [stdout] 3 | use vecfx::*; [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `crate::base::euclidean_distance` [INFO] [stdout] --> src/random.rs:10:5 [INFO] [stdout] | [INFO] [stdout] 10 | use crate::base::euclidean_distance; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated struct `alignment::Alignment`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:97:10 [INFO] [stdout] | [INFO] [stdout] 97 | impl<'a> Alignment<'a> { [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(deprecated)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated struct `alignment::Alignment`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:100:9 [INFO] [stdout] | [INFO] [stdout] 100 | Alignment { [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:101:13 [INFO] [stdout] | [INFO] [stdout] 101 | positions, [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::algorithm`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:102:13 [INFO] [stdout] | [INFO] [stdout] 102 | algorithm: SuperpositionAlgo::default(), [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:114:20 [INFO] [stdout] | [INFO] [stdout] 114 | let npts = self.positions.len(); [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:127:28 [INFO] [stdout] | [INFO] [stdout] 127 | let dx = wi * (self.positions[i][0] - reference[i][0]); [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:128:28 [INFO] [stdout] | [INFO] [stdout] 128 | let dy = wi * (self.positions[i][1] - reference[i][1]); [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:129:28 [INFO] [stdout] | [INFO] [stdout] 129 | let dz = wi * (self.positions[i][2] - reference[i][2]); [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::algorithm`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:147:40 [INFO] [stdout] | [INFO] [stdout] 147 | let (rmsd, trans, rot) = match self.algorithm { [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:148:94 [INFO] [stdout] | [INFO] [stdout] 148 | SuperpositionAlgo::QCP => self::qcprot::calc_rmsd_rotational_matrix(&reference, &self.positions, weights), [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:149:105 [INFO] [stdout] | [INFO] [stdout] 149 | SuperpositionAlgo::Quaternion => self::quaternion::calc_rmsd_rotational_matrix(&reference, &self.positions, weights), [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/alignment/quaternion.rs:30:9 [INFO] [stdout] | [INFO] [stdout] 30 | for mut v in vectors_ref.iter_mut() { [INFO] [stdout] | ----^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_mut)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/alignment/quaternion.rs:33:9 [INFO] [stdout] | [INFO] [stdout] 33 | for mut v in vectors_can.iter_mut() { [INFO] [stdout] | ----^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `translate` [INFO] [stdout] --> src/transform.rs:14:8 [INFO] [stdout] | [INFO] [stdout] 14 | pub fn translate(points: &mut Points, loc: Coord3) { [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(dead_code)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `get_distance_matrix` [INFO] [stdout] --> src/transform.rs:23:8 [INFO] [stdout] | [INFO] [stdout] 23 | pub fn get_distance_matrix(points: &[Coord3]) -> Vec> { [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `mirror_invert` [INFO] [stdout] --> src/transform.rs:57:8 [INFO] [stdout] | [INFO] [stdout] 57 | pub fn mirror_invert(positions: &[[f64; 3]]) -> Vector3fVec { [INFO] [stdout] | ^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `point_invert` [INFO] [stdout] --> src/transform.rs:64:8 [INFO] [stdout] | [INFO] [stdout] 64 | pub fn point_invert(positions: &[[f64; 3]]) -> Vector3fVec { [INFO] [stdout] | ^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `prepare_test_data` [INFO] [stdout] --> src/alignment/qcprot.rs:456:15 [INFO] [stdout] | [INFO] [stdout] 456 | pub(crate) fn prepare_test_data() -> (Vec<[f64; 3]>, Vec<[f64; 3]>, Vec) { [INFO] [stdout] | ^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 20 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished dev [unoptimized + debuginfo] target(s) in 1m 16s [INFO] running `Command { std: "docker" "inspect" "44a88dedeac6d288f6bdea745058942a73dd323f8d84454a787478797d297ab7", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "44a88dedeac6d288f6bdea745058942a73dd323f8d84454a787478797d297ab7", kill_on_drop: false }` [INFO] [stdout] 44a88dedeac6d288f6bdea745058942a73dd323f8d84454a787478797d297ab7 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-3/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3/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" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=warn" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-w" "/opt/rustwide/workdir" "-m" "1610612736" "--user" "0:0" "--network" "none" "ghcr.io/rust-lang/crates-build-env/linux@sha256:eaef2f80f755933c374d2ae5edccceec0c1312ceb8a4e0b6404e8ab76561e1e5" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2022-04-10" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 0e7c91a0f21bd559e0876d6d91be332253fa86aa7cfa6290550766725fc67200 [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] running `Command { std: "docker" "start" "-a" "0e7c91a0f21bd559e0876d6d91be332253fa86aa7cfa6290550766725fc67200", kill_on_drop: false }` [INFO] [stderr] Compiling gchemol-geometry v0.1.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: unused import: `vecfx::*` [INFO] [stdout] --> src/alignment/quaternion.rs:3:5 [INFO] [stdout] | [INFO] [stdout] 3 | use vecfx::*; [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `crate::base::euclidean_distance` [INFO] [stdout] --> src/random.rs:10:5 [INFO] [stdout] | [INFO] [stdout] 10 | use crate::base::euclidean_distance; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated struct `alignment::Alignment`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:97:10 [INFO] [stdout] | [INFO] [stdout] 97 | impl<'a> Alignment<'a> { [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(deprecated)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated struct `alignment::Alignment`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:100:9 [INFO] [stdout] | [INFO] [stdout] 100 | Alignment { [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:101:13 [INFO] [stdout] | [INFO] [stdout] 101 | positions, [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::algorithm`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:102:13 [INFO] [stdout] | [INFO] [stdout] 102 | algorithm: SuperpositionAlgo::default(), [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:114:20 [INFO] [stdout] | [INFO] [stdout] 114 | let npts = self.positions.len(); [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:127:28 [INFO] [stdout] | [INFO] [stdout] 127 | let dx = wi * (self.positions[i][0] - reference[i][0]); [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:128:28 [INFO] [stdout] | [INFO] [stdout] 128 | let dy = wi * (self.positions[i][1] - reference[i][1]); [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:129:28 [INFO] [stdout] | [INFO] [stdout] 129 | let dz = wi * (self.positions[i][2] - reference[i][2]); [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::algorithm`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:147:40 [INFO] [stdout] | [INFO] [stdout] 147 | let (rmsd, trans, rot) = match self.algorithm { [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:148:94 [INFO] [stdout] | [INFO] [stdout] 148 | SuperpositionAlgo::QCP => self::qcprot::calc_rmsd_rotational_matrix(&reference, &self.positions, weights), [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:149:105 [INFO] [stdout] | [INFO] [stdout] 149 | SuperpositionAlgo::Quaternion => self::quaternion::calc_rmsd_rotational_matrix(&reference, &self.positions, weights), [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/alignment/quaternion.rs:30:9 [INFO] [stdout] | [INFO] [stdout] 30 | for mut v in vectors_ref.iter_mut() { [INFO] [stdout] | ----^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_mut)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/alignment/quaternion.rs:33:9 [INFO] [stdout] | [INFO] [stdout] 33 | for mut v in vectors_can.iter_mut() { [INFO] [stdout] | ----^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `translate` [INFO] [stdout] --> src/transform.rs:14:8 [INFO] [stdout] | [INFO] [stdout] 14 | pub fn translate(points: &mut Points, loc: Coord3) { [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(dead_code)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `get_distance_matrix` [INFO] [stdout] --> src/transform.rs:23:8 [INFO] [stdout] | [INFO] [stdout] 23 | pub fn get_distance_matrix(points: &[Coord3]) -> Vec> { [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `mirror_invert` [INFO] [stdout] --> src/transform.rs:57:8 [INFO] [stdout] | [INFO] [stdout] 57 | pub fn mirror_invert(positions: &[[f64; 3]]) -> Vector3fVec { [INFO] [stdout] | ^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `point_invert` [INFO] [stdout] --> src/transform.rs:64:8 [INFO] [stdout] | [INFO] [stdout] 64 | pub fn point_invert(positions: &[[f64; 3]]) -> Vector3fVec { [INFO] [stdout] | ^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `prepare_test_data` [INFO] [stdout] --> src/alignment/qcprot.rs:456:15 [INFO] [stdout] | [INFO] [stdout] 456 | pub(crate) fn prepare_test_data() -> (Vec<[f64; 3]>, Vec<[f64; 3]>, Vec) { [INFO] [stdout] | ^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 20 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `vecfx::*` [INFO] [stdout] --> src/alignment/quaternion.rs:3:5 [INFO] [stdout] | [INFO] [stdout] 3 | use vecfx::*; [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::f64::consts::PI` [INFO] [stdout] --> src/traits.rs:133:9 [INFO] [stdout] | [INFO] [stdout] 133 | use std::f64::consts::PI; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated struct `alignment::Alignment`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:97:10 [INFO] [stdout] | [INFO] [stdout] 97 | impl<'a> Alignment<'a> { [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(deprecated)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated struct `alignment::Alignment`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:100:9 [INFO] [stdout] | [INFO] [stdout] 100 | Alignment { [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:101:13 [INFO] [stdout] | [INFO] [stdout] 101 | positions, [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::algorithm`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:102:13 [INFO] [stdout] | [INFO] [stdout] 102 | algorithm: SuperpositionAlgo::default(), [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:114:20 [INFO] [stdout] | [INFO] [stdout] 114 | let npts = self.positions.len(); [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:127:28 [INFO] [stdout] | [INFO] [stdout] 127 | let dx = wi * (self.positions[i][0] - reference[i][0]); [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:128:28 [INFO] [stdout] | [INFO] [stdout] 128 | let dy = wi * (self.positions[i][1] - reference[i][1]); [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:129:28 [INFO] [stdout] | [INFO] [stdout] 129 | let dz = wi * (self.positions[i][2] - reference[i][2]); [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::algorithm`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:147:40 [INFO] [stdout] | [INFO] [stdout] 147 | let (rmsd, trans, rot) = match self.algorithm { [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:148:94 [INFO] [stdout] | [INFO] [stdout] 148 | SuperpositionAlgo::QCP => self::qcprot::calc_rmsd_rotational_matrix(&reference, &self.positions, weights), [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stdout] --> src/alignment.rs:149:105 [INFO] [stdout] | [INFO] [stdout] 149 | SuperpositionAlgo::Quaternion => self::quaternion::calc_rmsd_rotational_matrix(&reference, &self.positions, weights), [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `t` [INFO] [stdout] --> src/alignment.rs:302:9 [INFO] [stdout] | [INFO] [stdout] 302 | let t = Vector3f::from([0.423160235, 0.2715202, 0.0]); [INFO] [stdout] | ^ help: if this is intentional, prefix it with an underscore: `_t` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `trans` [INFO] [stdout] --> src/alignment/qcprot.rs:487:16 [INFO] [stdout] | [INFO] [stdout] 487 | let (rmsd, trans, rot) = calc_rmsd_rotational_matrix(&mut frag_a, &mut frag_b, Some(&weights)); [INFO] [stdout] | ^^^^^ help: if this is intentional, prefix it with an underscore: `_trans` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/alignment/quaternion.rs:30:9 [INFO] [stdout] | [INFO] [stdout] 30 | for mut v in vectors_ref.iter_mut() { [INFO] [stdout] | ----^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_mut)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/alignment/quaternion.rs:33:9 [INFO] [stdout] | [INFO] [stdout] 33 | for mut v in vectors_can.iter_mut() { [INFO] [stdout] | ----^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `translate` [INFO] [stdout] --> src/transform.rs:14:8 [INFO] [stdout] | [INFO] [stdout] 14 | pub fn translate(points: &mut Points, loc: Coord3) { [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(dead_code)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `get_distance_matrix` [INFO] [stdout] --> src/transform.rs:23:8 [INFO] [stdout] | [INFO] [stdout] 23 | pub fn get_distance_matrix(points: &[Coord3]) -> Vec> { [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `mirror_invert` [INFO] [stdout] --> src/transform.rs:57:8 [INFO] [stdout] | [INFO] [stdout] 57 | pub fn mirror_invert(positions: &[[f64; 3]]) -> Vector3fVec { [INFO] [stdout] | ^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `point_invert` [INFO] [stdout] --> src/transform.rs:64:8 [INFO] [stdout] | [INFO] [stdout] 64 | pub fn point_invert(positions: &[[f64; 3]]) -> Vector3fVec { [INFO] [stdout] | ^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 21 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished test [unoptimized + debuginfo] target(s) in 6.38s [INFO] [stderr] Executable unittests src/lib.rs (/opt/rustwide/target/debug/deps/gchemol_geometry-630a6d26d56d259e) [INFO] running `Command { std: "docker" "inspect" "0e7c91a0f21bd559e0876d6d91be332253fa86aa7cfa6290550766725fc67200", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "0e7c91a0f21bd559e0876d6d91be332253fa86aa7cfa6290550766725fc67200", kill_on_drop: false }` [INFO] [stdout] 0e7c91a0f21bd559e0876d6d91be332253fa86aa7cfa6290550766725fc67200 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-3/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3/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" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=warn" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-w" "/opt/rustwide/workdir" "-m" "1610612736" "--user" "0:0" "--network" "none" "ghcr.io/rust-lang/crates-build-env/linux@sha256:eaef2f80f755933c374d2ae5edccceec0c1312ceb8a4e0b6404e8ab76561e1e5" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2022-04-10" "test" "--frozen", kill_on_drop: false }` [INFO] [stdout] 1094f8d5ee9093c5e29956fe95b452f1ee2b3c915b3720335e021e6b25f73182 [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] running `Command { std: "docker" "start" "-a" "1094f8d5ee9093c5e29956fe95b452f1ee2b3c915b3720335e021e6b25f73182", kill_on_drop: false }` [INFO] [stderr] warning: unused import: `vecfx::*` [INFO] [stderr] --> src/alignment/quaternion.rs:3:5 [INFO] [stderr] | [INFO] [stderr] 3 | use vecfx::*; [INFO] [stderr] | ^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_imports)]` on by default [INFO] [stderr] [INFO] [stderr] warning: unused import: `crate::base::euclidean_distance` [INFO] [stderr] --> src/random.rs:10:5 [INFO] [stderr] | [INFO] [stderr] 10 | use crate::base::euclidean_distance; [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: use of deprecated struct `alignment::Alignment`: use Superpose instead [INFO] [stderr] --> src/alignment.rs:97:10 [INFO] [stderr] | [INFO] [stderr] 97 | impl<'a> Alignment<'a> { [INFO] [stderr] | ^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(deprecated)]` on by default [INFO] [stderr] [INFO] [stderr] warning: use of deprecated struct `alignment::Alignment`: use Superpose instead [INFO] [stderr] --> src/alignment.rs:100:9 [INFO] [stderr] | [INFO] [stderr] 100 | Alignment { [INFO] [stderr] | ^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stderr] --> src/alignment.rs:101:13 [INFO] [stderr] | [INFO] [stderr] 101 | positions, [INFO] [stderr] | ^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: use of deprecated field `alignment::Alignment::algorithm`: use Superpose instead [INFO] [stderr] --> src/alignment.rs:102:13 [INFO] [stderr] | [INFO] [stderr] 102 | algorithm: SuperpositionAlgo::default(), [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stderr] --> src/alignment.rs:114:20 [INFO] [stderr] | [INFO] [stderr] 114 | let npts = self.positions.len(); [INFO] [stderr] | ^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stderr] --> src/alignment.rs:127:28 [INFO] [stderr] | [INFO] [stderr] 127 | let dx = wi * (self.positions[i][0] - reference[i][0]); [INFO] [stderr] | ^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stderr] --> src/alignment.rs:128:28 [INFO] [stderr] | [INFO] [stderr] 128 | let dy = wi * (self.positions[i][1] - reference[i][1]); [INFO] [stderr] | ^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stderr] --> src/alignment.rs:129:28 [INFO] [stderr] | [INFO] [stderr] 129 | let dz = wi * (self.positions[i][2] - reference[i][2]); [INFO] [stderr] | ^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: use of deprecated field `alignment::Alignment::algorithm`: use Superpose instead [INFO] [stderr] --> src/alignment.rs:147:40 [INFO] [stderr] | [INFO] [stderr] 147 | let (rmsd, trans, rot) = match self.algorithm { [INFO] [stderr] | ^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stderr] --> src/alignment.rs:148:94 [INFO] [stderr] | [INFO] [stderr] 148 | SuperpositionAlgo::QCP => self::qcprot::calc_rmsd_rotational_matrix(&reference, &self.positions, weights), [INFO] [stderr] | ^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: use of deprecated field `alignment::Alignment::positions`: use Superpose instead [INFO] [stderr] --> src/alignment.rs:149:105 [INFO] [stderr] | [INFO] [stderr] 149 | SuperpositionAlgo::Quaternion => self::quaternion::calc_rmsd_rotational_matrix(&reference, &self.positions, weights), [INFO] [stderr] | ^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: variable does not need to be mutable [INFO] [stderr] --> src/alignment/quaternion.rs:30:9 [INFO] [stderr] | [INFO] [stderr] 30 | for mut v in vectors_ref.iter_mut() { [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: variable does not need to be mutable [INFO] [stderr] --> src/alignment/quaternion.rs:33:9 [INFO] [stderr] | [INFO] [stderr] 33 | for mut v in vectors_can.iter_mut() { [INFO] [stderr] | ----^ [INFO] [stderr] | | [INFO] [stderr] | help: remove this `mut` [INFO] [stderr] [INFO] [stderr] warning: function is never used: `translate` [INFO] [stderr] --> src/transform.rs:14:8 [INFO] [stderr] | [INFO] [stderr] 14 | pub fn translate(points: &mut Points, loc: Coord3) { [INFO] [stderr] | ^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(dead_code)]` on by default [INFO] [stderr] [INFO] [stderr] warning: function is never used: `get_distance_matrix` [INFO] [stderr] --> src/transform.rs:23:8 [INFO] [stderr] | [INFO] [stderr] 23 | pub fn get_distance_matrix(points: &[Coord3]) -> Vec> { [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: function is never used: `mirror_invert` [INFO] [stderr] --> src/transform.rs:57:8 [INFO] [stderr] | [INFO] [stderr] 57 | pub fn mirror_invert(positions: &[[f64; 3]]) -> Vector3fVec { [INFO] [stderr] | ^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: function is never used: `point_invert` [INFO] [stderr] --> src/transform.rs:64:8 [INFO] [stderr] | [INFO] [stderr] 64 | pub fn point_invert(positions: &[[f64; 3]]) -> Vector3fVec { [INFO] [stderr] | ^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: function is never used: `prepare_test_data` [INFO] [stderr] --> src/alignment/qcprot.rs:456:15 [INFO] [stderr] | [INFO] [stderr] 456 | pub(crate) fn prepare_test_data() -> (Vec<[f64; 3]>, Vec<[f64; 3]>, Vec) { [INFO] [stderr] | ^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: unused import: `std::f64::consts::PI` [INFO] [stderr] --> src/traits.rs:133:9 [INFO] [stderr] | [INFO] [stderr] 133 | use std::f64::consts::PI; [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: unused variable: `t` [INFO] [stderr] --> src/alignment.rs:302:9 [INFO] [stderr] | [INFO] [stderr] 302 | let t = Vector3f::from([0.423160235, 0.2715202, 0.0]); [INFO] [stderr] | ^ help: if this is intentional, prefix it with an underscore: `_t` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_variables)]` on by default [INFO] [stderr] [INFO] [stderr] warning: unused variable: `trans` [INFO] [stderr] --> src/alignment/qcprot.rs:487:16 [INFO] [stderr] | [INFO] [stderr] 487 | let (rmsd, trans, rot) = calc_rmsd_rotational_matrix(&mut frag_a, &mut frag_b, Some(&weights)); [INFO] [stderr] | ^^^^^ help: if this is intentional, prefix it with an underscore: `_trans` [INFO] [stderr] [INFO] [stderr] warning: `gchemol-geometry` (lib) generated 20 warnings [INFO] [stderr] warning: `gchemol-geometry` (lib test) generated 21 warnings (18 duplicates) [INFO] [stderr] Finished test [unoptimized + debuginfo] target(s) in 0.14s [INFO] [stderr] Running unittests src/lib.rs (/opt/rustwide/target/debug/deps/gchemol_geometry-630a6d26d56d259e) [INFO] [stdout] [INFO] [stdout] running 6 tests [INFO] [stdout] test alignment::test_alignment_hcn ... ok [INFO] [stdout] test alignment::test_alignment ... ok [INFO] [stdout] test alignment::qcprot::test_qcprot ... ok [INFO] [stdout] test base::test_weighted_center_of_geometry ... ok [INFO] [stdout] test random::test_rand_rotate ... ok [INFO] [stdout] test traits::test_point3_math ... ok [INFO] [stderr] Doc-tests gchemol-geometry [INFO] [stdout] [INFO] [stdout] test result: ok. 6 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.01s [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] running 1 test [INFO] [stdout] test src/lib.rs - (line 4) ... ignored [INFO] [stdout] [INFO] [stdout] test result: ok. 0 passed; 0 failed; 1 ignored; 0 measured; 0 filtered out; finished in 0.00s [INFO] [stdout] [INFO] running `Command { std: "docker" "inspect" "1094f8d5ee9093c5e29956fe95b452f1ee2b3c915b3720335e021e6b25f73182", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "1094f8d5ee9093c5e29956fe95b452f1ee2b3c915b3720335e021e6b25f73182", kill_on_drop: false }` [INFO] [stdout] 1094f8d5ee9093c5e29956fe95b452f1ee2b3c915b3720335e021e6b25f73182