[INFO] fetching crate gchemol-geometry 0.1.1... [INFO] checking gchemol-geometry-0.1.1 against master#2e6fc425411280c658d852813de01c5157255088 for pr-128013 [INFO] extracting crate gchemol-geometry 0.1.1 into /workspace/builds/worker-3-tc1/source [INFO] validating manifest of crates.io crate gchemol-geometry 0.1.1 on toolchain 2e6fc425411280c658d852813de01c5157255088 [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+2e6fc425411280c658d852813de01c5157255088" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] started tweaking crates.io crate gchemol-geometry 0.1.1 [INFO] finished tweaking crates.io crate gchemol-geometry 0.1.1 [INFO] tweaked toml for crates.io crate gchemol-geometry 0.1.1 written to /workspace/builds/worker-3-tc1/source/Cargo.toml [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+2e6fc425411280c658d852813de01c5157255088" "generate-lockfile" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Updating crates.io index [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Locking 112 packages to latest compatible versions [INFO] [stderr] Adding env_logger v0.10.2 (latest: v0.11.5) [INFO] [stderr] Adding hermit-abi v0.3.9 (latest: v0.4.0) [INFO] [stderr] Adding itertools v0.10.5 (latest: v0.13.0) [INFO] [stderr] Adding linux-raw-sys v0.4.14 (latest: v0.6.4) [INFO] [stderr] Adding nalgebra v0.31.4 (latest: v0.33.0) [INFO] [stderr] Adding nalgebra-macros v0.1.0 (latest: v0.2.2) [INFO] [stderr] Adding ordered-float v3.9.2 (latest: v4.2.1) [INFO] [stderr] Adding simba v0.7.3 (latest: v0.9.0) [INFO] [stderr] Adding syn v1.0.109 (latest: v2.0.72) [INFO] [stderr] Adding toml v0.7.8 (latest: v0.8.16) [INFO] [stderr] Adding toml_edit v0.19.15 (latest: v0.22.17) [INFO] [stderr] Adding wasi v0.11.0+wasi-snapshot-preview1 (latest: v0.13.1+wasi-0.2.0) [INFO] [stderr] Adding winnow v0.5.40 (latest: v0.6.16) [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+2e6fc425411280c658d852813de01c5157255088" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Downloading crates ... [INFO] [stderr] Downloaded nalgebra v0.31.4 [INFO] [stderr] Downloaded gchemol-gut v0.4.4 [INFO] [stderr] Downloaded vecfx v0.1.6 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-tc1/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:dff56e7819e73ed36160586b3445e93eb0be776c16704aeeded9c3fb668b2384" "/opt/rustwide/cargo-home/bin/cargo" "+2e6fc425411280c658d852813de01c5157255088" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] 8fbcde277f5d1514d0a1afb4e2e519a54d4d2edbc77b124b42f0862fe924bf81 [INFO] running `Command { std: "docker" "start" "-a" "8fbcde277f5d1514d0a1afb4e2e519a54d4d2edbc77b124b42f0862fe924bf81", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "8fbcde277f5d1514d0a1afb4e2e519a54d4d2edbc77b124b42f0862fe924bf81", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "8fbcde277f5d1514d0a1afb4e2e519a54d4d2edbc77b124b42f0862fe924bf81", kill_on_drop: false }` [INFO] [stdout] 8fbcde277f5d1514d0a1afb4e2e519a54d4d2edbc77b124b42f0862fe924bf81 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-tc1/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=forbid" "-e" "RUSTDOCFLAGS=--cap-lints=forbid" "-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:dff56e7819e73ed36160586b3445e93eb0be776c16704aeeded9c3fb668b2384" "/opt/rustwide/cargo-home/bin/cargo" "+2e6fc425411280c658d852813de01c5157255088" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] a9fb49d2bea5c39881edb0f3608ac559ef8171e28fc480a66921897346302455 [INFO] running `Command { std: "docker" "start" "-a" "a9fb49d2bea5c39881edb0f3608ac559ef8171e28fc480a66921897346302455", kill_on_drop: false }` [INFO] [stderr] Compiling libc v0.2.155 [INFO] [stderr] Compiling libm v0.2.8 [INFO] [stderr] Checking memchr v2.7.4 [INFO] [stderr] Checking utf8parse v0.2.2 [INFO] [stderr] Checking bytemuck v1.16.1 [INFO] [stderr] Compiling syn v1.0.109 [INFO] [stderr] Compiling num-traits v0.2.19 [INFO] [stderr] Compiling matrixmultiply v0.3.8 [INFO] [stderr] Checking anstyle-query v1.1.1 [INFO] [stderr] Checking is_terminal_polyfill v1.70.1 [INFO] [stderr] Checking colorchoice v1.0.2 [INFO] [stderr] Compiling typenum v1.17.0 [INFO] [stderr] Compiling rustix v0.38.34 [INFO] [stderr] Checking anstyle v1.0.8 [INFO] [stderr] Compiling serde_derive v1.0.204 [INFO] [stderr] Checking bitflags v2.6.0 [INFO] [stderr] Checking powerfmt v0.2.0 [INFO] [stderr] Checking anstyle-parse v0.2.5 [INFO] [stderr] Checking linux-raw-sys v0.4.14 [INFO] [stderr] Compiling anyhow v1.0.86 [INFO] [stderr] Compiling heck v0.5.0 [INFO] [stderr] Checking safe_arch v0.7.2 [INFO] [stderr] Checking winnow v0.5.40 [INFO] [stderr] Checking clap_lex v0.7.2 [INFO] [stderr] Checking strsim v0.11.1 [INFO] [stderr] Checking anstream v0.6.15 [INFO] [stderr] Checking deranged v0.3.11 [INFO] [stderr] Checking log v0.4.22 [INFO] [stderr] Compiling clap_derive v4.5.11 [INFO] [stderr] Checking time-core v0.1.2 [INFO] [stderr] Checking num-conv v0.1.0 [INFO] [stderr] Checking aho-corasick v1.1.3 [INFO] [stderr] Checking fastrand v2.1.0 [INFO] [stderr] Checking clap_builder v4.5.11 [INFO] [stderr] Checking shell-escape v0.1.5 [INFO] [stderr] Checking wide v0.7.26 [INFO] [stderr] Checking time v0.3.36 [INFO] [stderr] Checking regex-automata v0.4.7 [INFO] [stderr] Checking num-integer v0.1.46 [INFO] [stderr] Checking approx v0.5.1 [INFO] [stderr] Checking num-rational v0.4.2 [INFO] [stderr] Checking getrandom v0.2.15 [INFO] [stderr] Checking shared_child v1.0.0 [INFO] [stderr] Checking os_pipe v1.2.0 [INFO] [stderr] Checking is-terminal v0.4.12 [INFO] [stderr] Checking clap v4.5.11 [INFO] [stderr] Checking duct v0.13.7 [INFO] [stderr] Checking serde v1.0.204 [INFO] [stderr] Checking tempfile v3.10.1 [INFO] [stderr] Compiling nalgebra-macros v0.1.0 [INFO] [stderr] Checking regex v1.10.5 [INFO] [stderr] Checking env_logger v0.10.2 [INFO] [stderr] Checking rand_core v0.6.4 [INFO] [stderr] Checking toml_datetime v0.6.7 [INFO] [stderr] Checking serde_spanned v0.6.7 [INFO] [stderr] Checking num-complex v0.4.6 [INFO] [stderr] Checking serde_json v1.0.120 [INFO] [stderr] Checking toml_edit v0.19.15 [INFO] [stderr] Checking rand_chacha v0.3.1 [INFO] [stderr] Checking simba v0.7.3 [INFO] [stderr] Checking rand v0.8.5 [INFO] [stderr] Checking ordered-float v3.9.2 [INFO] [stderr] Checking rand_distr v0.4.3 [INFO] [stderr] Checking toml v0.7.8 [INFO] [stderr] Checking gchemol-gut v0.4.4 [INFO] [stderr] Checking nalgebra v0.31.4 [INFO] [stderr] Checking vecfx v0.1.6 [INFO] [stderr] Checking gchemol-geometry v0.1.1 (/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: `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: 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 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: 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: 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] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function `prepare_test_data` is never used [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] = note: `#[warn(dead_code)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function `translate` is never used [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] [INFO] [stdout] warning: function `get_distance_matrix` is never used [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 `mirror_invert` is never used [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 `point_invert` is never used [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: 20 warnings emitted [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: 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] [INFO] [stdout] warning: function `translate` is never used [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 `get_distance_matrix` is never used [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 `mirror_invert` is never used [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 `point_invert` is never used [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 `dev` profile [unoptimized + debuginfo] target(s) in 19.82s [INFO] running `Command { std: "docker" "inspect" "a9fb49d2bea5c39881edb0f3608ac559ef8171e28fc480a66921897346302455", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "a9fb49d2bea5c39881edb0f3608ac559ef8171e28fc480a66921897346302455", kill_on_drop: false }` [INFO] [stdout] a9fb49d2bea5c39881edb0f3608ac559ef8171e28fc480a66921897346302455 [INFO] checking gchemol-geometry-0.1.1 against try#d856f2da3433420b7077c0dc7ee9441455bc1302 for pr-128013 [INFO] extracting crate gchemol-geometry 0.1.1 into /workspace/builds/worker-3-tc2/source [INFO] validating manifest of crates.io crate gchemol-geometry 0.1.1 on toolchain d856f2da3433420b7077c0dc7ee9441455bc1302 [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+d856f2da3433420b7077c0dc7ee9441455bc1302" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] started tweaking crates.io crate gchemol-geometry 0.1.1 [INFO] finished tweaking crates.io crate gchemol-geometry 0.1.1 [INFO] tweaked toml for crates.io crate gchemol-geometry 0.1.1 written to /workspace/builds/worker-3-tc2/source/Cargo.toml [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+d856f2da3433420b7077c0dc7ee9441455bc1302" "generate-lockfile" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Updating crates.io index [INFO] [stderr] Locking 112 packages to latest compatible versions [INFO] [stderr] Adding env_logger v0.10.2 (latest: v0.11.5) [INFO] [stderr] Adding hermit-abi v0.3.9 (latest: v0.4.0) [INFO] [stderr] Adding itertools v0.10.5 (latest: v0.13.0) [INFO] [stderr] Adding linux-raw-sys v0.4.14 (latest: v0.6.4) [INFO] [stderr] Adding nalgebra v0.31.4 (latest: v0.33.0) [INFO] [stderr] Adding nalgebra-macros v0.1.0 (latest: v0.2.2) [INFO] [stderr] Adding ordered-float v3.9.2 (latest: v4.2.1) [INFO] [stderr] Adding simba v0.7.3 (latest: v0.9.0) [INFO] [stderr] Adding syn v1.0.109 (latest: v2.0.72) [INFO] [stderr] Adding toml v0.7.8 (latest: v0.8.16) [INFO] [stderr] Adding toml_edit v0.19.15 (latest: v0.22.17) [INFO] [stderr] Adding wasi v0.11.0+wasi-snapshot-preview1 (latest: v0.13.1+wasi-0.2.0) [INFO] [stderr] Adding winnow v0.5.40 (latest: v0.6.16) [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+d856f2da3433420b7077c0dc7ee9441455bc1302" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-tc2/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:dff56e7819e73ed36160586b3445e93eb0be776c16704aeeded9c3fb668b2384" "/opt/rustwide/cargo-home/bin/cargo" "+d856f2da3433420b7077c0dc7ee9441455bc1302" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] 6ea6a31e020db2dbf7abd6f8e41becaab96d27911c27913dea5ed833c86698a4 [INFO] running `Command { std: "docker" "start" "-a" "6ea6a31e020db2dbf7abd6f8e41becaab96d27911c27913dea5ed833c86698a4", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "6ea6a31e020db2dbf7abd6f8e41becaab96d27911c27913dea5ed833c86698a4", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "6ea6a31e020db2dbf7abd6f8e41becaab96d27911c27913dea5ed833c86698a4", kill_on_drop: false }` [INFO] [stdout] 6ea6a31e020db2dbf7abd6f8e41becaab96d27911c27913dea5ed833c86698a4 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-tc2/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=forbid" "-e" "RUSTDOCFLAGS=--cap-lints=forbid" "-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:dff56e7819e73ed36160586b3445e93eb0be776c16704aeeded9c3fb668b2384" "/opt/rustwide/cargo-home/bin/cargo" "+d856f2da3433420b7077c0dc7ee9441455bc1302" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 414c984190af9e89927e455668df477be56a5a95096273ffc2d08d83322a0e24 [INFO] running `Command { std: "docker" "start" "-a" "414c984190af9e89927e455668df477be56a5a95096273ffc2d08d83322a0e24", kill_on_drop: false }` [INFO] [stderr] Compiling libc v0.2.155 [INFO] [stderr] Compiling libm v0.2.8 [INFO] [stderr] Checking bytemuck v1.16.1 [INFO] [stderr] Checking utf8parse v0.2.2 [INFO] [stderr] Checking memchr v2.7.4 [INFO] [stderr] Compiling syn v1.0.109 [INFO] [stderr] Checking is_terminal_polyfill v1.70.1 [INFO] [stderr] Checking colorchoice v1.0.2 [INFO] [stderr] Compiling num-traits v0.2.19 [INFO] [stderr] Compiling matrixmultiply v0.3.8 [INFO] [stderr] Compiling rustix v0.38.34 [INFO] [stderr] Checking anstyle v1.0.8 [INFO] [stderr] Compiling typenum v1.17.0 [INFO] [stderr] Checking anstyle-query v1.1.1 [INFO] [stderr] Compiling serde_derive v1.0.204 [INFO] [stderr] Checking linux-raw-sys v0.4.14 [INFO] [stderr] Checking winnow v0.5.40 [INFO] [stderr] Checking powerfmt v0.2.0 [INFO] [stderr] Checking anstyle-parse v0.2.5 [INFO] [stderr] Compiling anyhow v1.0.86 [INFO] [stderr] Checking safe_arch v0.7.2 [INFO] [stderr] Checking clap_lex v0.7.2 [INFO] [stderr] Compiling heck v0.5.0 [INFO] [stderr] Checking bitflags v2.6.0 [INFO] [stderr] Checking anstream v0.6.15 [INFO] [stderr] Checking strsim v0.11.1 [INFO] [stderr] Checking deranged v0.3.11 [INFO] [stderr] Checking num-conv v0.1.0 [INFO] [stderr] Checking log v0.4.22 [INFO] [stderr] Compiling clap_derive v4.5.11 [INFO] [stderr] Checking clap_builder v4.5.11 [INFO] [stderr] Checking time-core v0.1.2 [INFO] [stderr] Checking aho-corasick v1.1.3 [INFO] [stderr] Checking fastrand v2.1.0 [INFO] [stderr] Checking wide v0.7.26 [INFO] [stderr] Checking shell-escape v0.1.5 [INFO] [stderr] Checking time v0.3.36 [INFO] [stderr] Checking num-integer v0.1.46 [INFO] [stderr] Checking approx v0.5.1 [INFO] [stdout] error[E0034]: multiple applicable items in scope [INFO] [stdout] --> /opt/rustwide/cargo-home/registry/src/index.crates.io-6f17d22bba15001f/num-integer-0.1.46/src/lib.rs:511:41 [INFO] [stdout] | [INFO] [stdout] 511 | return (1 << shift).abs(); [INFO] [stdout] | ^^^ multiple `abs` found [INFO] [stdout] ... [INFO] [stdout] 841 | impl_integer_for_isize!(i8, test_integer_i8); [INFO] [stdout] | -------------------------------------------- in this macro invocation [INFO] [stdout] | [INFO] [stdout] = note: candidate #1 is defined in an impl for the type `i128` [INFO] [stdout] = note: candidate #2 is defined in an impl for the type `i16` [INFO] [stdout] = note: candidate #3 is defined in an impl for the type `i32` [INFO] [stdout] = note: candidate #4 is defined in an impl for the type `i64` [INFO] [stdout] = note: and 2 others [INFO] [stdout] = note: this error originates in the macro `impl_integer_for_isize` (in Nightly builds, run with -Z macro-backtrace for more info) [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0034]: multiple applicable items in scope [INFO] [stdout] --> /opt/rustwide/cargo-home/registry/src/index.crates.io-6f17d22bba15001f/num-integer-0.1.46/src/lib.rs:511:41 [INFO] [stdout] | [INFO] [stdout] 511 | return (1 << shift).abs(); [INFO] [stdout] | ^^^ multiple `abs` found [INFO] [stdout] ... [INFO] [stdout] 842 | impl_integer_for_isize!(i16, test_integer_i16); [INFO] [stdout] | ---------------------------------------------- in this macro invocation [INFO] [stdout] | [INFO] [stdout] = note: candidate #1 is defined in an impl for the type `i128` [INFO] [stdout] = note: candidate #2 is defined in an impl for the type `i16` [INFO] [stdout] = note: candidate #3 is defined in an impl for the type `i32` [INFO] [stdout] = note: candidate #4 is defined in an impl for the type `i64` [INFO] [stdout] = note: and 2 others [INFO] [stdout] = note: this error originates in the macro `impl_integer_for_isize` (in Nightly builds, run with -Z macro-backtrace for more info) [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0034]: multiple applicable items in scope [INFO] [stdout] --> /opt/rustwide/cargo-home/registry/src/index.crates.io-6f17d22bba15001f/num-integer-0.1.46/src/lib.rs:511:41 [INFO] [stdout] | [INFO] [stdout] 511 | return (1 << shift).abs(); [INFO] [stdout] | ^^^ multiple `abs` found [INFO] [stdout] ... [INFO] [stdout] 843 | impl_integer_for_isize!(i32, test_integer_i32); [INFO] [stdout] | ---------------------------------------------- in this macro invocation [INFO] [stdout] | [INFO] [stdout] = note: candidate #1 is defined in an impl for the type `i128` [INFO] [stdout] = note: candidate #2 is defined in an impl for the type `i16` [INFO] [stdout] = note: candidate #3 is defined in an impl for the type `i32` [INFO] [stdout] = note: candidate #4 is defined in an impl for the type `i64` [INFO] [stdout] = note: and 2 others [INFO] [stdout] = note: this error originates in the macro `impl_integer_for_isize` (in Nightly builds, run with -Z macro-backtrace for more info) [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0034]: multiple applicable items in scope [INFO] [stdout] --> /opt/rustwide/cargo-home/registry/src/index.crates.io-6f17d22bba15001f/num-integer-0.1.46/src/lib.rs:511:41 [INFO] [stdout] | [INFO] [stdout] 511 | return (1 << shift).abs(); [INFO] [stdout] | ^^^ multiple `abs` found [INFO] [stdout] ... [INFO] [stdout] 844 | impl_integer_for_isize!(i64, test_integer_i64); [INFO] [stdout] | ---------------------------------------------- in this macro invocation [INFO] [stdout] | [INFO] [stdout] = note: candidate #1 is defined in an impl for the type `i128` [INFO] [stdout] = note: candidate #2 is defined in an impl for the type `i16` [INFO] [stdout] = note: candidate #3 is defined in an impl for the type `i32` [INFO] [stdout] = note: candidate #4 is defined in an impl for the type `i64` [INFO] [stdout] = note: and 2 others [INFO] [stdout] = note: this error originates in the macro `impl_integer_for_isize` (in Nightly builds, run with -Z macro-backtrace for more info) [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0034]: multiple applicable items in scope [INFO] [stdout] --> /opt/rustwide/cargo-home/registry/src/index.crates.io-6f17d22bba15001f/num-integer-0.1.46/src/lib.rs:511:41 [INFO] [stdout] | [INFO] [stdout] 511 | return (1 << shift).abs(); [INFO] [stdout] | ^^^ multiple `abs` found [INFO] [stdout] ... [INFO] [stdout] 845 | impl_integer_for_isize!(i128, test_integer_i128); [INFO] [stdout] | ------------------------------------------------ in this macro invocation [INFO] [stdout] | [INFO] [stdout] = note: candidate #1 is defined in an impl for the type `i128` [INFO] [stdout] = note: candidate #2 is defined in an impl for the type `i16` [INFO] [stdout] = note: candidate #3 is defined in an impl for the type `i32` [INFO] [stdout] = note: candidate #4 is defined in an impl for the type `i64` [INFO] [stdout] = note: and 2 others [INFO] [stdout] = note: this error originates in the macro `impl_integer_for_isize` (in Nightly builds, run with -Z macro-backtrace for more info) [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0034]: multiple applicable items in scope [INFO] [stdout] --> /opt/rustwide/cargo-home/registry/src/index.crates.io-6f17d22bba15001f/num-integer-0.1.46/src/lib.rs:511:41 [INFO] [stdout] | [INFO] [stdout] 511 | return (1 << shift).abs(); [INFO] [stdout] | ^^^ multiple `abs` found [INFO] [stdout] ... [INFO] [stdout] 846 | impl_integer_for_isize!(isize, test_integer_isize); [INFO] [stdout] | -------------------------------------------------- in this macro invocation [INFO] [stdout] | [INFO] [stdout] = note: candidate #1 is defined in an impl for the type `i128` [INFO] [stdout] = note: candidate #2 is defined in an impl for the type `i16` [INFO] [stdout] = note: candidate #3 is defined in an impl for the type `i32` [INFO] [stdout] = note: candidate #4 is defined in an impl for the type `i64` [INFO] [stdout] = note: and 2 others [INFO] [stdout] = note: this error originates in the macro `impl_integer_for_isize` (in Nightly builds, run with -Z macro-backtrace for more info) [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: aborting due to 6 previous errors [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] For more information about this error, try `rustc --explain E0034`. [INFO] [stdout] [INFO] [stderr] error: could not compile `num-integer` (lib) due to 7 previous errors [INFO] [stderr] warning: build failed, waiting for other jobs to finish... [INFO] running `Command { std: "docker" "inspect" "414c984190af9e89927e455668df477be56a5a95096273ffc2d08d83322a0e24", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "414c984190af9e89927e455668df477be56a5a95096273ffc2d08d83322a0e24", kill_on_drop: false }` [INFO] [stdout] 414c984190af9e89927e455668df477be56a5a95096273ffc2d08d83322a0e24