[INFO] fetching crate biogarden 0.1.0... [INFO] checking biogarden-0.1.0 against master#b359ccf1b0b7b2d2c1c4932344b806e68bd053a9 for pr-105483 [INFO] extracting crate biogarden 0.1.0 into /workspace/builds/worker-0/source [INFO] validating manifest of crates.io crate biogarden 0.1.0 on toolchain b359ccf1b0b7b2d2c1c4932344b806e68bd053a9 [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+b359ccf1b0b7b2d2c1c4932344b806e68bd053a9" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] started tweaking crates.io crate biogarden 0.1.0 [INFO] removed 0 missing examples [INFO] finished tweaking crates.io crate biogarden 0.1.0 [INFO] tweaked toml for crates.io crate biogarden 0.1.0 written to /workspace/builds/worker-0/source/Cargo.toml [INFO] crate crates.io crate biogarden 0.1.0 already has a lockfile, it will not be regenerated [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+b359ccf1b0b7b2d2c1c4932344b806e68bd053a9" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Downloading crates ... [INFO] [stderr] Downloaded anyhow v1.0.57 [INFO] [stderr] Downloaded hashbrown v0.12.1 [INFO] [stderr] Downloaded once_cell v1.12.0 [INFO] [stderr] Downloaded getrandom v0.2.6 [INFO] [stderr] Downloaded rand_isaac v0.3.0 [INFO] [stderr] Downloaded serde_derive v1.0.139 [INFO] [stderr] Downloaded paste v1.0.7 [INFO] [stderr] Downloaded ndarray v0.15.4 [INFO] [stderr] Downloaded rand_distr v0.4.3 [INFO] [stderr] Downloaded quote v1.0.18 [INFO] [stderr] Downloaded syn v1.0.95 [INFO] [stderr] Downloaded allwords v0.1.2 [INFO] [stderr] Downloaded nalgebra v0.27.1 [INFO] [stderr] Downloaded num-complex v0.4.1 [INFO] [stderr] Downloaded simba v0.5.1 [INFO] [stderr] Downloaded proc-macro2 v1.0.39 [INFO] [stderr] Downloaded unicode-ident v1.0.0 [INFO] [stderr] Downloaded statrs v0.15.0 [INFO] [stderr] Downloaded libm v0.2.2 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0/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:bb5b0feb4f87116a4ea905b7ff5bf5b85913db05e9f0fbc1abdd3168928d9075" "/opt/rustwide/cargo-home/bin/cargo" "+b359ccf1b0b7b2d2c1c4932344b806e68bd053a9" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] c7e1ec50f59db20e13ae38a00a01af6a5d16186c2c9958c172a3fdf3b6cea6ae [INFO] running `Command { std: "docker" "start" "-a" "c7e1ec50f59db20e13ae38a00a01af6a5d16186c2c9958c172a3fdf3b6cea6ae", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "c7e1ec50f59db20e13ae38a00a01af6a5d16186c2c9958c172a3fdf3b6cea6ae", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "c7e1ec50f59db20e13ae38a00a01af6a5d16186c2c9958c172a3fdf3b6cea6ae", kill_on_drop: false }` [INFO] [stdout] c7e1ec50f59db20e13ae38a00a01af6a5d16186c2c9958c172a3fdf3b6cea6ae [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0/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:bb5b0feb4f87116a4ea905b7ff5bf5b85913db05e9f0fbc1abdd3168928d9075" "/opt/rustwide/cargo-home/bin/cargo" "+b359ccf1b0b7b2d2c1c4932344b806e68bd053a9" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 719caf68441e64918622e418381a7f61b30a15bd8e903ade4be1839592775038 [INFO] running `Command { std: "docker" "start" "-a" "719caf68441e64918622e418381a7f61b30a15bd8e903ade4be1839592775038", kill_on_drop: false }` [INFO] [stderr] Compiling autocfg v1.1.0 [INFO] [stderr] Compiling libm v0.2.2 [INFO] [stderr] Compiling libc v0.2.126 [INFO] [stderr] Checking cfg-if v1.0.0 [INFO] [stderr] Compiling proc-macro2 v1.0.39 [INFO] [stderr] Compiling unicode-ident v1.0.0 [INFO] [stderr] Compiling syn v1.0.95 [INFO] [stderr] Checking ppv-lite86 v0.2.16 [INFO] [stderr] Compiling version_check v0.9.4 [INFO] [stderr] Checking rawpointer v0.2.1 [INFO] [stderr] Compiling typenum v1.15.0 [INFO] [stderr] Compiling num-traits v0.2.15 [INFO] [stderr] Compiling num-integer v0.1.45 [INFO] [stderr] Compiling num-bigint v0.2.6 [INFO] [stderr] Compiling num-rational v0.4.0 [INFO] [stderr] Compiling ahash v0.7.6 [INFO] [stderr] Compiling num-rational v0.2.4 [INFO] [stderr] Compiling num-complex v0.2.4 [INFO] [stderr] Compiling num-iter v0.1.43 [INFO] [stderr] Compiling quote v1.0.18 [INFO] [stderr] Checking matrixmultiply v0.3.2 [INFO] [stderr] Checking getrandom v0.2.6 [INFO] [stderr] Compiling serde_derive v1.0.139 [INFO] [stderr] Compiling paste v1.0.7 [INFO] [stderr] Checking rand_core v0.6.3 [INFO] [stderr] Checking rand_chacha v0.3.1 [INFO] [stderr] Checking rand v0.8.5 [INFO] [stderr] Compiling anyhow v1.0.57 [INFO] [stderr] Checking once_cell v1.12.0 [INFO] [stderr] Compiling serde v1.0.139 [INFO] [stderr] Checking either v1.6.1 [INFO] [stderr] Checking num-complex v0.4.1 [INFO] [stderr] Checking approx v0.5.1 [INFO] [stderr] Checking lazy_static v1.4.0 [INFO] [stderr] Checking itertools v0.8.2 [INFO] [stderr] Checking rand_distr v0.4.3 [INFO] [stderr] Checking simba v0.5.1 [INFO] [stderr] Checking ndarray v0.15.4 [INFO] [stderr] Checking hashbrown v0.12.1 [INFO] [stderr] Checking rand_isaac v0.3.0 [INFO] [stderr] Checking allwords v0.1.2 [INFO] [stderr] Checking num v0.2.1 [INFO] [stderr] Compiling nalgebra-macros v0.1.0 [INFO] [stderr] Checking nalgebra v0.27.1 [INFO] [stderr] Checking statrs v0.15.0 [INFO] [stderr] Checking biogarden v0.1.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: value assigned to `max_pos` is never read [INFO] [stdout] --> src/alignment/aligner.rs:385:17 [INFO] [stdout] | [INFO] [stdout] 385 | let mut max_pos = (0, 0); [INFO] [stdout] | ^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = help: maybe it is overwritten before being read? [INFO] [stdout] = note: `#[warn(unused_assignments)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: value assigned to `alignment_score` is never read [INFO] [stdout] --> src/alignment/aligner.rs:386:17 [INFO] [stdout] | [INFO] [stdout] 386 | let mut alignment_score = 0_i32; [INFO] [stdout] | ^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = help: maybe it is overwritten before being read? [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `node` [INFO] [stdout] --> src/ds/graph.rs:123:13 [INFO] [stdout] | [INFO] [stdout] 123 | let node = self.nodes.get(a); [INFO] [stdout] | ^^^^ help: if this is intentional, prefix it with an underscore: `_node` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `num_words` [INFO] [stdout] --> src/ds/builders/suffix_tree.rs:252:13 [INFO] [stdout] | [INFO] [stdout] 252 | let num_words = wordmap.last().unwrap().0; [INFO] [stdout] | ^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_num_words` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: value assigned to `kmer1_id` is never read [INFO] [stdout] --> src/ds/builders/debruijn.rs:23:17 [INFO] [stdout] | [INFO] [stdout] 23 | let mut kmer1_id = 0_u64; [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = help: maybe it is overwritten before being read? [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: value assigned to `kmer2_id` is never read [INFO] [stdout] --> src/ds/builders/debruijn.rs:24:17 [INFO] [stdout] | [INFO] [stdout] 24 | let mut kmer2_id = 0_u64; [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = help: maybe it is overwritten before being read? [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: value assigned to `max_pos` is never read [INFO] [stdout] --> src/alignment/aligner.rs:385:17 [INFO] [stdout] | [INFO] [stdout] 385 | let mut max_pos = (0, 0); [INFO] [stdout] | ^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = help: maybe it is overwritten before being read? [INFO] [stdout] = note: `#[warn(unused_assignments)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: value assigned to `alignment_score` is never read [INFO] [stdout] --> src/alignment/aligner.rs:386:17 [INFO] [stdout] | [INFO] [stdout] 386 | let mut alignment_score = 0_i32; [INFO] [stdout] | ^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = help: maybe it is overwritten before being read? [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `node` [INFO] [stdout] --> src/ds/graph.rs:123:13 [INFO] [stdout] | [INFO] [stdout] 123 | let node = self.nodes.get(a); [INFO] [stdout] | ^^^^ help: if this is intentional, prefix it with an underscore: `_node` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `num_words` [INFO] [stdout] --> src/ds/builders/suffix_tree.rs:252:13 [INFO] [stdout] | [INFO] [stdout] 252 | let num_words = wordmap.last().unwrap().0; [INFO] [stdout] | ^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_num_words` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: value assigned to `kmer1_id` is never read [INFO] [stdout] --> src/ds/builders/debruijn.rs:23:17 [INFO] [stdout] | [INFO] [stdout] 23 | let mut kmer1_id = 0_u64; [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = help: maybe it is overwritten before being read? [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: value assigned to `kmer2_id` is never read [INFO] [stdout] --> src/ds/builders/debruijn.rs:24:17 [INFO] [stdout] | [INFO] [stdout] 24 | let mut kmer2_id = 0_u64; [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = help: maybe it is overwritten before being read? [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: field `id` is never read [INFO] [stdout] --> src/ds/graph.rs:22:5 [INFO] [stdout] | [INFO] [stdout] 21 | pub struct Node { [INFO] [stdout] | ---- field in this struct [INFO] [stdout] 22 | id: u64, [INFO] [stdout] | ^^ [INFO] [stdout] | [INFO] [stdout] = note: `Node` has derived impls for the traits `Debug` and `Clone`, but these are intentionally ignored during dead code analysis [INFO] [stdout] = note: `#[warn(dead_code)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 7 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: field `id` is never read [INFO] [stdout] --> src/ds/graph.rs:22:5 [INFO] [stdout] | [INFO] [stdout] 21 | pub struct Node { [INFO] [stdout] | ---- field in this struct [INFO] [stdout] 22 | id: u64, [INFO] [stdout] | ^^ [INFO] [stdout] | [INFO] [stdout] = note: `Node` has derived impls for the traits `Debug` and `Clone`, but these are intentionally ignored during dead code analysis [INFO] [stdout] = note: `#[warn(dead_code)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 7 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `biogarden::ds::tile::Tile` [INFO] [stdout] --> examples/simple.rs:2:5 [INFO] [stdout] | [INFO] [stdout] 2 | use biogarden::ds::tile::Tile; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 1 warning emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> examples/from_file.rs:14:9 [INFO] [stdout] | [INFO] [stdout] 14 | let mut path = Path::new(&"tests/data/input/semiglobal_alignment.fasta"); [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: unused `Result` that must be used [INFO] [stdout] --> examples/from_file.rs:16:5 [INFO] [stdout] | [INFO] [stdout] 16 | reader.read_all(&mut tile); [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: this `Result` may be an `Err` variant, which should be handled [INFO] [stdout] = note: `#[warn(unused_must_use)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 2 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished dev [unoptimized + debuginfo] target(s) in 40.22s [INFO] running `Command { std: "docker" "inspect" "719caf68441e64918622e418381a7f61b30a15bd8e903ade4be1839592775038", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "719caf68441e64918622e418381a7f61b30a15bd8e903ade4be1839592775038", kill_on_drop: false }` [INFO] [stdout] 719caf68441e64918622e418381a7f61b30a15bd8e903ade4be1839592775038