[INFO] fetching crate cytos 1.2.1... [INFO] testing cytos-1.2.1 against beta-2025-09-21 for beta-1.91-3 [INFO] extracting crate cytos 1.2.1 into /workspace/builds/worker-0-tc2/source [INFO] started tweaking crates.io crate cytos 1.2.1 [INFO] finished tweaking crates.io crate cytos 1.2.1 [INFO] tweaked toml for crates.io crate cytos 1.2.1 written to /workspace/builds/worker-0-tc2/source/Cargo.toml [INFO] validating manifest of crates.io crate cytos 1.2.1 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] crate crates.io crate cytos 1.2.1 already has a lockfile, it will not be regenerated [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] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-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] c895a96ea10fa9e34163f39e225a76d9c77faa396eb6a454ef5b42c0e902a2a1 [INFO] running `Command { std: "docker" "start" "-a" "c895a96ea10fa9e34163f39e225a76d9c77faa396eb6a454ef5b42c0e902a2a1", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "c895a96ea10fa9e34163f39e225a76d9c77faa396eb6a454ef5b42c0e902a2a1", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "c895a96ea10fa9e34163f39e225a76d9c77faa396eb6a454ef5b42c0e902a2a1", kill_on_drop: false }` [INFO] [stdout] c895a96ea10fa9e34163f39e225a76d9c77faa396eb6a454ef5b42c0e902a2a1 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-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] 168dba1daf877124ff89355de9b8fb7193ade2d92372f642a325f83f5b54fc2e [INFO] running `Command { std: "docker" "start" "-a" "168dba1daf877124ff89355de9b8fb7193ade2d92372f642a325f83f5b54fc2e", kill_on_drop: false }` [INFO] [stderr] Compiling libc v0.2.150 [INFO] [stderr] Compiling memchr v2.6.4 [INFO] [stderr] Compiling num-traits v0.2.17 [INFO] [stderr] Compiling num-integer v0.1.45 [INFO] [stderr] Compiling serde v1.0.192 [INFO] [stderr] Compiling matrixmultiply v0.3.8 [INFO] [stderr] Compiling syn v1.0.109 [INFO] [stderr] Compiling bytemuck v1.14.0 [INFO] [stderr] Compiling num-rational v0.4.1 [INFO] [stderr] Compiling semver v0.1.20 [INFO] [stderr] Compiling rustversion v1.0.14 [INFO] [stderr] Compiling safe_arch v0.7.1 [INFO] [stderr] Compiling regex-syntax v0.8.2 [INFO] [stderr] Compiling rustc_version v0.1.7 [INFO] [stderr] Compiling aho-corasick v1.1.2 [INFO] [stderr] Compiling wide v0.7.13 [INFO] [stderr] Compiling getrandom v0.2.11 [INFO] [stderr] Compiling rand_core v0.6.4 [INFO] [stderr] Compiling rand_chacha v0.3.1 [INFO] [stderr] Compiling num-complex v0.4.4 [INFO] [stderr] Compiling rand v0.8.5 [INFO] [stderr] Compiling approx v0.5.1 [INFO] [stderr] Compiling thiserror v1.0.50 [INFO] [stderr] Compiling rustix v0.38.24 [INFO] [stderr] Compiling anstyle-parse v0.2.2 [INFO] [stderr] Compiling proc-macro-error-attr v1.0.4 [INFO] [stderr] Compiling regex-automata v0.4.3 [INFO] [stderr] Compiling rand_distr v0.4.3 [INFO] [stderr] Compiling simba v0.6.0 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Compiling thiserror-impl v1.0.50 [INFO] [stderr] Compiling hashbrown v0.14.2 [INFO] [stderr] Compiling anstyle-query v1.0.0 [INFO] [stderr] Compiling bitflags v2.4.1 [INFO] [stderr] Compiling anyhow v1.0.75 [INFO] [stderr] Compiling linux-raw-sys v0.4.11 [INFO] [stderr] Compiling indexmap v2.1.0 [INFO] [stderr] Compiling anstream v0.6.4 [INFO] [stderr] Compiling strum_macros v0.25.3 [INFO] [stderr] Compiling proc-macro-error v1.0.4 [INFO] [stderr] Compiling nalgebra-macros v0.1.0 [INFO] [stderr] Compiling enum-map-derive v0.6.0 [INFO] [stderr] Compiling derive-new v0.5.9 [INFO] [stderr] Compiling csv-core v0.1.11 [INFO] [stderr] Compiling bit-vec v0.6.3 [INFO] [stderr] Compiling fixedbitset v0.4.2 [INFO] [stderr] Compiling either v1.9.0 [INFO] [stderr] Compiling ryu v1.0.15 [INFO] [stderr] Compiling itoa v1.0.9 [INFO] [stderr] Compiling bit-set v0.5.3 [INFO] [stderr] Compiling itertools v0.11.0 [INFO] [stderr] Compiling petgraph v0.6.4 [INFO] [stderr] Compiling csv v1.3.0 [INFO] [stderr] Compiling clap_builder v4.4.8 [INFO] [stderr] Compiling regex v1.10.2 [INFO] [stderr] Compiling is-terminal v0.4.9 [INFO] [stderr] Compiling enum-map v1.1.1 [INFO] [stderr] Compiling fxhash v0.2.1 [INFO] [stderr] Compiling bv v0.11.1 [INFO] [stderr] Compiling getset v0.1.2 [INFO] [stderr] Compiling bio-types v1.0.1 [INFO] [stderr] Compiling multimap v0.8.3 [INFO] [stderr] Compiling vec_map v0.8.2 [INFO] [stderr] Compiling ndarray v0.15.6 [INFO] [stderr] Compiling itertools-num v0.1.3 [INFO] [stderr] Compiling ordered-float v3.9.2 [INFO] [stderr] Compiling clap_derive v4.4.7 [INFO] [stderr] Compiling bytecount v0.6.7 [INFO] [stderr] Compiling strum v0.25.0 [INFO] [stderr] Compiling custom_derive v0.1.7 [INFO] [stderr] Compiling iana-time-zone v0.1.58 [INFO] [stderr] Compiling editdistancek v1.0.2 [INFO] [stderr] Compiling log v0.4.20 [INFO] [stderr] Compiling termcolor v1.4.0 [INFO] [stderr] Compiling triple_accel v0.4.0 [INFO] [stderr] Compiling chrono v0.4.31 [INFO] [stderr] Compiling env_logger v0.10.1 [INFO] [stderr] Compiling clap v4.4.8 [INFO] [stderr] Compiling nalgebra v0.29.0 [INFO] [stderr] Compiling statrs v0.16.0 [INFO] [stderr] Compiling bio v1.4.0 [INFO] [stderr] Compiling cytos v1.2.1 (/opt/rustwide/workdir) [INFO] [stdout] warning: hiding a lifetime that's elided elsewhere is confusing [INFO] [stdout] --> src/cli/msa/concat.rs:25:28 [INFO] [stdout] | [INFO] [stdout] 25 | fn read_fasta_files(input: &Vec) -> CytosResult> { [INFO] [stdout] | ^^^^^^^^^^^^^ ^^^^^^^^ ^^^^^^^^^ the same lifetime is hidden here [INFO] [stdout] | | | [INFO] [stdout] | | the same lifetime is elided here [INFO] [stdout] | the lifetime is elided here [INFO] [stdout] | [INFO] [stdout] = help: the same lifetime is referred to in inconsistent ways, making the signature confusing [INFO] [stdout] = note: `#[warn(mismatched_lifetime_syntaxes)]` on by default [INFO] [stdout] help: use `'_` for type paths [INFO] [stdout] | [INFO] [stdout] 25 | fn read_fasta_files(input: &Vec) -> CytosResult>> { [INFO] [stdout] | ++++ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: hiding a lifetime that's named elsewhere is confusing [INFO] [stdout] --> src/model/fasta/fasta_file.rs:17:57 [INFO] [stdout] | [INFO] [stdout] 17 | pub fn load(path: &'a path::PathBuf) -> CytosResult { [INFO] [stdout] | -- the lifetime is named here ^^^^^^^^^ the same lifetime is hidden here [INFO] [stdout] | [INFO] [stdout] = help: the same lifetime is referred to in inconsistent ways, making the signature confusing [INFO] [stdout] help: consistently use `'a` [INFO] [stdout] | [INFO] [stdout] 17 | pub fn load(path: &'a path::PathBuf) -> CytosResult> { [INFO] [stdout] | ++++ [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished `dev` profile [unoptimized + debuginfo] target(s) in 1m 24s [INFO] running `Command { std: "docker" "inspect" "168dba1daf877124ff89355de9b8fb7193ade2d92372f642a325f83f5b54fc2e", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "168dba1daf877124ff89355de9b8fb7193ade2d92372f642a325f83f5b54fc2e", kill_on_drop: false }` [INFO] [stdout] 168dba1daf877124ff89355de9b8fb7193ade2d92372f642a325f83f5b54fc2e [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-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] fc160f6f8051d8add84811ac60917e053a62c3fb1d8d173a626b97e62d7173dd [INFO] running `Command { std: "docker" "start" "-a" "fc160f6f8051d8add84811ac60917e053a62c3fb1d8d173a626b97e62d7173dd", kill_on_drop: false }` [INFO] [stderr] Compiling cytos v1.2.1 (/opt/rustwide/workdir) [INFO] [stdout] warning: hiding a lifetime that's elided elsewhere is confusing [INFO] [stdout] --> src/cli/msa/concat.rs:25:28 [INFO] [stdout] | [INFO] [stdout] 25 | fn read_fasta_files(input: &Vec) -> CytosResult> { [INFO] [stdout] | ^^^^^^^^^^^^^ ^^^^^^^^ ^^^^^^^^^ the same lifetime is hidden here [INFO] [stdout] | | | [INFO] [stdout] | | the same lifetime is elided here [INFO] [stdout] | the lifetime is elided here [INFO] [stdout] | [INFO] [stdout] = help: the same lifetime is referred to in inconsistent ways, making the signature confusing [INFO] [stdout] = note: `#[warn(mismatched_lifetime_syntaxes)]` on by default [INFO] [stdout] help: use `'_` for type paths [INFO] [stdout] | [INFO] [stdout] 25 | fn read_fasta_files(input: &Vec) -> CytosResult>> { [INFO] [stdout] | ++++ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: hiding a lifetime that's named elsewhere is confusing [INFO] [stdout] --> src/model/fasta/fasta_file.rs:17:57 [INFO] [stdout] | [INFO] [stdout] 17 | pub fn load(path: &'a path::PathBuf) -> CytosResult { [INFO] [stdout] | -- the lifetime is named here ^^^^^^^^^ the same lifetime is hidden here [INFO] [stdout] | [INFO] [stdout] = help: the same lifetime is referred to in inconsistent ways, making the signature confusing [INFO] [stdout] help: consistently use `'a` [INFO] [stdout] | [INFO] [stdout] 17 | pub fn load(path: &'a path::PathBuf) -> CytosResult> { [INFO] [stdout] | ++++ [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished `test` profile [unoptimized + debuginfo] target(s) in 0.84s [INFO] running `Command { std: "docker" "inspect" "fc160f6f8051d8add84811ac60917e053a62c3fb1d8d173a626b97e62d7173dd", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "fc160f6f8051d8add84811ac60917e053a62c3fb1d8d173a626b97e62d7173dd", kill_on_drop: false }` [INFO] [stdout] fc160f6f8051d8add84811ac60917e053a62c3fb1d8d173a626b97e62d7173dd [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-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] 3fbfe202d245b8eb6c2a398eeb827674c1c66aad642c44ccd85c887348baa44a [INFO] running `Command { std: "docker" "start" "-a" "3fbfe202d245b8eb6c2a398eeb827674c1c66aad642c44ccd85c887348baa44a", kill_on_drop: false }` [INFO] [stderr] warning: hiding a lifetime that's elided elsewhere is confusing [INFO] [stderr] --> src/cli/msa/concat.rs:25:28 [INFO] [stderr] | [INFO] [stderr] 25 | fn read_fasta_files(input: &Vec) -> CytosResult> { [INFO] [stderr] | ^^^^^^^^^^^^^ ^^^^^^^^ ^^^^^^^^^ the same lifetime is hidden here [INFO] [stderr] | | | [INFO] [stderr] | | the same lifetime is elided here [INFO] [stderr] | the lifetime is elided here [INFO] [stderr] | [INFO] [stderr] = help: the same lifetime is referred to in inconsistent ways, making the signature confusing [INFO] [stderr] = note: `#[warn(mismatched_lifetime_syntaxes)]` on by default [INFO] [stderr] help: use `'_` for type paths [INFO] [stderr] | [INFO] [stderr] 25 | fn read_fasta_files(input: &Vec) -> CytosResult>> { [INFO] [stderr] | ++++ [INFO] [stderr] [INFO] [stderr] warning: hiding a lifetime that's named elsewhere is confusing [INFO] [stderr] --> src/model/fasta/fasta_file.rs:17:57 [INFO] [stderr] | [INFO] [stderr] 17 | pub fn load(path: &'a path::PathBuf) -> CytosResult { [INFO] [stderr] | -- the lifetime is named here ^^^^^^^^^ the same lifetime is hidden here [INFO] [stderr] | [INFO] [stderr] = help: the same lifetime is referred to in inconsistent ways, making the signature confusing [INFO] [stderr] help: consistently use `'a` [INFO] [stderr] | [INFO] [stderr] 17 | pub fn load(path: &'a path::PathBuf) -> CytosResult> { [INFO] [stderr] | ++++ [INFO] [stderr] [INFO] [stderr] warning: `cytos` (bin "cytos" test) generated 2 warnings (run `cargo fix --bin "cytos" --tests` to apply 2 suggestions) [INFO] [stderr] Finished `test` profile [unoptimized + debuginfo] target(s) in 0.14s [INFO] [stderr] Running unittests src/main.rs (/opt/rustwide/target/debug/deps/cytos-f743f11d67843a19) [INFO] [stdout] [INFO] [stdout] running 0 tests [INFO] [stdout] [INFO] [stdout] test result: ok. 0 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.00s [INFO] [stdout] [INFO] running `Command { std: "docker" "inspect" "3fbfe202d245b8eb6c2a398eeb827674c1c66aad642c44ccd85c887348baa44a", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "3fbfe202d245b8eb6c2a398eeb827674c1c66aad642c44ccd85c887348baa44a", kill_on_drop: false }` [INFO] [stdout] 3fbfe202d245b8eb6c2a398eeb827674c1c66aad642c44ccd85c887348baa44a