[INFO] fetching crate mermer-rs 0.1.0... [INFO] testing mermer-rs-0.1.0 against beta-2025-09-21 for beta-1.91-3 [INFO] extracting crate mermer-rs 0.1.0 into /workspace/builds/worker-1-tc2/source [INFO] started tweaking crates.io crate mermer-rs 0.1.0 [INFO] finished tweaking crates.io crate mermer-rs 0.1.0 [INFO] tweaked toml for crates.io crate mermer-rs 0.1.0 written to /workspace/builds/worker-1-tc2/source/Cargo.toml [INFO] validating manifest of crates.io crate mermer-rs 0.1.0 on toolchain beta-2025-09-21 [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+beta-2025-09-21" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+beta-2025-09-21" "generate-lockfile" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+beta-2025-09-21" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-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:e90291280db7d1fac5b66fc6dad9f9662629e7365a55743daf9bdf73ebc4ea79" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2025-09-21" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] adc12b350b4b89c07937ad8c01aec0b18bfbe1af71d7e81b6eff193f557b6276 [INFO] running `Command { std: "docker" "start" "-a" "adc12b350b4b89c07937ad8c01aec0b18bfbe1af71d7e81b6eff193f557b6276", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "adc12b350b4b89c07937ad8c01aec0b18bfbe1af71d7e81b6eff193f557b6276", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "adc12b350b4b89c07937ad8c01aec0b18bfbe1af71d7e81b6eff193f557b6276", kill_on_drop: false }` [INFO] [stdout] adc12b350b4b89c07937ad8c01aec0b18bfbe1af71d7e81b6eff193f557b6276 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-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=warn" "-e" "RUSTDOCFLAGS=--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:e90291280db7d1fac5b66fc6dad9f9662629e7365a55743daf9bdf73ebc4ea79" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2025-09-21" "build" "--frozen" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 21eb4b537e11240468ff30e68ad5171342b95362c24b86a206fc51f186169040 [INFO] running `Command { std: "docker" "start" "-a" "21eb4b537e11240468ff30e68ad5171342b95362c24b86a206fc51f186169040", kill_on_drop: false }` [INFO] [stderr] Compiling mermer-rs v0.1.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: unnecessary parentheses around assigned value [INFO] [stdout] --> src/lib.rs:45:27 [INFO] [stdout] | [INFO] [stdout] 45 | const TABLE_SIZE: usize = (1 << (2 * SCAN_WIDTH)); [INFO] [stdout] | ^ ^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_parens)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] help: remove these parentheses [INFO] [stdout] | [INFO] [stdout] 45 - const TABLE_SIZE: usize = (1 << (2 * SCAN_WIDTH)); [INFO] [stdout] 45 + const TABLE_SIZE: usize = 1 << (2 * SCAN_WIDTH); [INFO] [stdout] | [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: fields `name`, `position`, and `size` are never read [INFO] [stdout] --> src/lib.rs:50:5 [INFO] [stdout] | [INFO] [stdout] 49 | pub struct Chromosome { [INFO] [stdout] | ---------- fields in this struct [INFO] [stdout] 50 | name: String, [INFO] [stdout] | ^^^^ [INFO] [stdout] 51 | position: u64, [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] 52 | size: u64, [INFO] [stdout] | ^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `Chromosome` has a derived impl for the trait `Debug`, but this is intentionally ignored during dead code analysis [INFO] [stdout] = note: `#[warn(dead_code)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function `make_reverse_complement` is never used [INFO] [stdout] --> src/lib.rs:240:4 [INFO] [stdout] | [INFO] [stdout] 240 | fn make_reverse_complement(motif: &str) -> String { [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished `dev` profile [unoptimized + debuginfo] target(s) in 0.34s [INFO] running `Command { std: "docker" "inspect" "21eb4b537e11240468ff30e68ad5171342b95362c24b86a206fc51f186169040", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "21eb4b537e11240468ff30e68ad5171342b95362c24b86a206fc51f186169040", kill_on_drop: false }` [INFO] [stdout] 21eb4b537e11240468ff30e68ad5171342b95362c24b86a206fc51f186169040 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-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=warn" "-e" "RUSTDOCFLAGS=--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:e90291280db7d1fac5b66fc6dad9f9662629e7365a55743daf9bdf73ebc4ea79" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2025-09-21" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 783643b93d1864cb6c8f2d1b0724c2fe6909fe121022484260de692c0899ab36 [INFO] running `Command { std: "docker" "start" "-a" "783643b93d1864cb6c8f2d1b0724c2fe6909fe121022484260de692c0899ab36", kill_on_drop: false }` [INFO] [stderr] Compiling mermer-rs v0.1.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: unnecessary parentheses around assigned value [INFO] [stdout] --> src/lib.rs:45:27 [INFO] [stdout] | [INFO] [stdout] 45 | const TABLE_SIZE: usize = (1 << (2 * SCAN_WIDTH)); [INFO] [stdout] | ^ ^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_parens)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] help: remove these parentheses [INFO] [stdout] | [INFO] [stdout] 45 - const TABLE_SIZE: usize = (1 << (2 * SCAN_WIDTH)); [INFO] [stdout] 45 + const TABLE_SIZE: usize = 1 << (2 * SCAN_WIDTH); [INFO] [stdout] | [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: fields `name`, `position`, and `size` are never read [INFO] [stdout] --> src/lib.rs:50:5 [INFO] [stdout] | [INFO] [stdout] 49 | pub struct Chromosome { [INFO] [stdout] | ---------- fields in this struct [INFO] [stdout] 50 | name: String, [INFO] [stdout] | ^^^^ [INFO] [stdout] 51 | position: u64, [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] 52 | size: u64, [INFO] [stdout] | ^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `Chromosome` has a derived impl for the trait `Debug`, but this is intentionally ignored during dead code analysis [INFO] [stdout] = note: `#[warn(dead_code)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function `make_reverse_complement` is never used [INFO] [stdout] --> src/lib.rs:240:4 [INFO] [stdout] | [INFO] [stdout] 240 | fn make_reverse_complement(motif: &str) -> String { [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unnecessary parentheses around assigned value [INFO] [stdout] --> src/lib.rs:45:27 [INFO] [stdout] | [INFO] [stdout] 45 | const TABLE_SIZE: usize = (1 << (2 * SCAN_WIDTH)); [INFO] [stdout] | ^ ^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_parens)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] help: remove these parentheses [INFO] [stdout] | [INFO] [stdout] 45 - const TABLE_SIZE: usize = (1 << (2 * SCAN_WIDTH)); [INFO] [stdout] 45 + const TABLE_SIZE: usize = 1 << (2 * SCAN_WIDTH); [INFO] [stdout] | [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: fields `name`, `position`, and `size` are never read [INFO] [stdout] --> src/lib.rs:50:5 [INFO] [stdout] | [INFO] [stdout] 49 | pub struct Chromosome { [INFO] [stdout] | ---------- fields in this struct [INFO] [stdout] 50 | name: String, [INFO] [stdout] | ^^^^ [INFO] [stdout] 51 | position: u64, [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] 52 | size: u64, [INFO] [stdout] | ^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `Chromosome` has a derived impl for the trait `Debug`, but this is intentionally ignored during dead code analysis [INFO] [stdout] = note: `#[warn(dead_code)]` (part of `#[warn(unused)]`) on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function `make_reverse_complement` is never used [INFO] [stdout] --> src/lib.rs:240:4 [INFO] [stdout] | [INFO] [stdout] 240 | fn make_reverse_complement(motif: &str) -> String { [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished `test` profile [unoptimized + debuginfo] target(s) in 0.51s [INFO] running `Command { std: "docker" "inspect" "783643b93d1864cb6c8f2d1b0724c2fe6909fe121022484260de692c0899ab36", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "783643b93d1864cb6c8f2d1b0724c2fe6909fe121022484260de692c0899ab36", kill_on_drop: false }` [INFO] [stdout] 783643b93d1864cb6c8f2d1b0724c2fe6909fe121022484260de692c0899ab36 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-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=warn" "-e" "RUSTDOCFLAGS=--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:e90291280db7d1fac5b66fc6dad9f9662629e7365a55743daf9bdf73ebc4ea79" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2025-09-21" "test" "--frozen", kill_on_drop: false }` [INFO] [stdout] 37ad7d90ff0eb141cda27c60a67ee6a56046be8d1ee9833790216419383799f8 [INFO] running `Command { std: "docker" "start" "-a" "37ad7d90ff0eb141cda27c60a67ee6a56046be8d1ee9833790216419383799f8", kill_on_drop: false }` [INFO] [stderr] warning: unnecessary parentheses around assigned value [INFO] [stderr] --> src/lib.rs:45:27 [INFO] [stderr] | [INFO] [stderr] 45 | const TABLE_SIZE: usize = (1 << (2 * SCAN_WIDTH)); [INFO] [stderr] | ^ ^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_parens)]` (part of `#[warn(unused)]`) on by default [INFO] [stderr] help: remove these parentheses [INFO] [stderr] | [INFO] [stderr] 45 - const TABLE_SIZE: usize = (1 << (2 * SCAN_WIDTH)); [INFO] [stderr] 45 + const TABLE_SIZE: usize = 1 << (2 * SCAN_WIDTH); [INFO] [stderr] | [INFO] [stderr] [INFO] [stderr] warning: fields `name`, `position`, and `size` are never read [INFO] [stderr] --> src/lib.rs:50:5 [INFO] [stderr] | [INFO] [stderr] 49 | pub struct Chromosome { [INFO] [stderr] | ---------- fields in this struct [INFO] [stderr] 50 | name: String, [INFO] [stderr] | ^^^^ [INFO] [stderr] 51 | position: u64, [INFO] [stderr] | ^^^^^^^^ [INFO] [stderr] 52 | size: u64, [INFO] [stderr] | ^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `Chromosome` has a derived impl for the trait `Debug`, but this is intentionally ignored during dead code analysis [INFO] [stderr] = note: `#[warn(dead_code)]` (part of `#[warn(unused)]`) on by default [INFO] [stderr] [INFO] [stderr] warning: function `make_reverse_complement` is never used [INFO] [stderr] --> src/lib.rs:240:4 [INFO] [stderr] | [INFO] [stderr] 240 | fn make_reverse_complement(motif: &str) -> String { [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: `mermer-rs` (lib) generated 3 warnings (run `cargo fix --lib -p mermer-rs` to apply 1 suggestion) [INFO] [stderr] warning: `mermer-rs` (lib test) generated 3 warnings (3 duplicates) [INFO] [stderr] Finished `test` profile [unoptimized + debuginfo] target(s) in 0.02s [INFO] [stderr] Running unittests src/lib.rs (/opt/rustwide/target/debug/deps/mermer_rs-95f8dc883630819f) [INFO] [stdout] [INFO] [stderr] Doc-tests mermer_rs [INFO] [stdout] running 1 test [INFO] [stdout] test tests::test_substitute_char ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 1 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.00s [INFO] [stdout] [INFO] [stderr] warning: unnecessary parentheses around assigned value [INFO] [stderr] --> src/lib.rs:45:27 [INFO] [stderr] | [INFO] [stderr] 45 | const TABLE_SIZE: usize = (1 << (2 * SCAN_WIDTH)); [INFO] [stderr] | ^ ^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_parens)]` (part of `#[warn(unused)]`) on by default [INFO] [stderr] help: remove these parentheses [INFO] [stderr] | [INFO] [stderr] 45 - const TABLE_SIZE: usize = (1 << (2 * SCAN_WIDTH)); [INFO] [stderr] 45 + const TABLE_SIZE: usize = 1 << (2 * SCAN_WIDTH); [INFO] [stderr] | [INFO] [stderr] [INFO] [stderr] warning: 1 warning emitted [INFO] [stderr] [INFO] [stdout] [INFO] [stdout] running 2 tests [INFO] [stdout] test src/lib.rs - read_fasta (line 159) ... FAILED [INFO] [stdout] test src/lib.rs - substitute_char (line 276) ... FAILED [INFO] [stdout] [INFO] [stdout] failures: [INFO] [stdout] [INFO] [stdout] ---- src/lib.rs - read_fasta (line 159) stdout ---- [INFO] [stdout] error[E0433]: failed to resolve: use of undeclared type `File` [INFO] [stdout] --> src/lib.rs:160:9 [INFO] [stdout] | [INFO] [stdout] 3 | let f = File::open("dm6.fa").unwrap(); [INFO] [stdout] | ^^^^ use of undeclared type `File` [INFO] [stdout] | [INFO] [stdout] help: consider importing this struct [INFO] [stdout] | [INFO] [stdout] 2 + use std::fs::File; [INFO] [stdout] | [INFO] [stdout] [INFO] [stdout] error[E0425]: cannot find function `read_fasta` in this scope [INFO] [stdout] --> src/lib.rs:161:27 [INFO] [stdout] | [INFO] [stdout] 4 | let (_, _, chromosomes) = read_fasta(&f).unwrap(); [INFO] [stdout] | ^^^^^^^^^^ not found in this scope [INFO] [stdout] | [INFO] [stdout] help: consider importing this function [INFO] [stdout] | [INFO] [stdout] 2 + use mermer_rs::read_fasta; [INFO] [stdout] | [INFO] [stdout] [INFO] [stdout] error: aborting due to 2 previous errors [INFO] [stdout] [INFO] [stdout] Some errors have detailed explanations: E0425, E0433. [INFO] [stdout] For more information about an error, try `rustc --explain E0425`. [INFO] [stdout] Couldn't compile the test. [INFO] [stdout] ---- src/lib.rs - substitute_char (line 276) stdout ---- [INFO] [stdout] error[E0425]: cannot find function `substitute_char` in this scope [INFO] [stdout] --> src/lib.rs:277:20 [INFO] [stdout] | [INFO] [stdout] 3 | assert_eq!("CAAA", substitute_char("AAAA", 0, 'C')); [INFO] [stdout] | ^^^^^^^^^^^^^^^ not found in this scope [INFO] [stdout] [INFO] [stdout] error[E0425]: cannot find function `substitute_char` in this scope [INFO] [stdout] --> src/lib.rs:278:20 [INFO] [stdout] | [INFO] [stdout] 4 | assert_eq!("AACA", substitute_char("AAAA", 2, 'C')); [INFO] [stdout] | ^^^^^^^^^^^^^^^ not found in this scope [INFO] [stdout] [INFO] [stdout] error: aborting due to 2 previous errors [INFO] [stdout] [INFO] [stdout] For more information about this error, try `rustc --explain E0425`. [INFO] [stdout] Couldn't compile the test. [INFO] [stdout] [INFO] [stdout] failures: [INFO] [stdout] src/lib.rs - read_fasta (line 159) [INFO] [stdout] src/lib.rs - substitute_char (line 276) [INFO] [stdout] [INFO] [stdout] test result: FAILED. 0 passed; 2 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.14s [INFO] [stdout] [INFO] [stderr] error: doctest failed, to rerun pass `--doc` [INFO] running `Command { std: "docker" "inspect" "37ad7d90ff0eb141cda27c60a67ee6a56046be8d1ee9833790216419383799f8", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "37ad7d90ff0eb141cda27c60a67ee6a56046be8d1ee9833790216419383799f8", kill_on_drop: false }` [INFO] [stdout] 37ad7d90ff0eb141cda27c60a67ee6a56046be8d1ee9833790216419383799f8