[INFO] fetching crate nu_plugin_bio 0.85.0... [INFO] testing nu_plugin_bio-0.85.0 against beta-2025-09-21 for beta-1.91-3 [INFO] extracting crate nu_plugin_bio 0.85.0 into /workspace/builds/worker-2-tc2/source [INFO] started tweaking crates.io crate nu_plugin_bio 0.85.0 [INFO] finished tweaking crates.io crate nu_plugin_bio 0.85.0 [INFO] tweaked toml for crates.io crate nu_plugin_bio 0.85.0 written to /workspace/builds/worker-2-tc2/source/Cargo.toml [INFO] validating manifest of crates.io crate nu_plugin_bio 0.85.0 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] crate crates.io crate nu_plugin_bio 0.85.0 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-2-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-2-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] 42c425a958db329cb865326f07a63430a976c85135e52d157fd5c7242c5ba57c [INFO] running `Command { std: "docker" "start" "-a" "42c425a958db329cb865326f07a63430a976c85135e52d157fd5c7242c5ba57c", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "42c425a958db329cb865326f07a63430a976c85135e52d157fd5c7242c5ba57c", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "42c425a958db329cb865326f07a63430a976c85135e52d157fd5c7242c5ba57c", kill_on_drop: false }` [INFO] [stdout] 42c425a958db329cb865326f07a63430a976c85135e52d157fd5c7242c5ba57c [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-2-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-2-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] abd32fdf8025a161ae7602b89f292b836c0aba45df29d0b44e00686c63d1c2b0 [INFO] running `Command { std: "docker" "start" "-a" "abd32fdf8025a161ae7602b89f292b836c0aba45df29d0b44e00686c63d1c2b0", kill_on_drop: false }` [INFO] [stderr] Compiling proc-macro2 v1.0.69 [INFO] [stderr] Compiling unicode-ident v1.0.5 [INFO] [stderr] Compiling libc v0.2.149 [INFO] [stderr] Compiling syn v1.0.104 [INFO] [stderr] Compiling crossbeam-utils v0.8.14 [INFO] [stderr] Compiling once_cell v1.18.0 [INFO] [stderr] Compiling byteorder v1.4.3 [INFO] [stderr] Compiling miniz_oxide v0.6.2 [INFO] [stderr] Compiling ahash v0.8.3 [INFO] [stderr] Compiling serde_derive v1.0.148 [INFO] [stderr] Compiling serde v1.0.148 [INFO] [stderr] Compiling bitflags v2.4.0 [INFO] [stderr] Compiling crossbeam-channel v0.5.6 [INFO] [stderr] Compiling flate2 v1.0.25 [INFO] [stderr] Compiling allocator-api2 v0.2.16 [INFO] [stderr] Compiling num-traits v0.2.15 [INFO] [stderr] Compiling memchr v2.5.0 [INFO] [stderr] Compiling quote v1.0.33 [INFO] [stderr] Compiling memoffset v0.7.1 [INFO] [stderr] Compiling ahash v0.7.6 [INFO] [stderr] Compiling hashbrown v0.14.1 [INFO] [stderr] Compiling noodles-core v0.12.0 [INFO] [stderr] Compiling bytes v1.3.0 [INFO] [stderr] Compiling getrandom v0.2.8 [INFO] [stderr] Compiling crossbeam-epoch v0.9.13 [INFO] [stderr] Compiling pkg-config v0.3.26 [INFO] [stderr] Compiling cc v1.0.77 [INFO] [stderr] Compiling indexmap v2.0.2 [INFO] [stderr] Compiling noodles-bgzf v0.25.0 [INFO] [stderr] Compiling rustix v0.38.19 [INFO] [stderr] Compiling aho-corasick v0.7.20 [INFO] [stderr] Compiling syn v2.0.38 [INFO] [stderr] Compiling lexical-util v0.8.5 [INFO] [stderr] Compiling num-integer v0.1.45 [INFO] [stderr] Compiling linux-raw-sys v0.4.10 [INFO] [stderr] Compiling noodles-csi v0.25.0 [INFO] [stderr] Compiling regex v1.7.0 [INFO] [stderr] Compiling hashbrown v0.12.3 [INFO] [stderr] Compiling generic-array v0.14.6 [INFO] [stderr] Compiling thiserror v1.0.49 [INFO] [stderr] Compiling io-lifetimes v1.0.11 [INFO] [stderr] Compiling rayon-core v1.10.1 [INFO] [stderr] Compiling is-terminal v0.4.9 [INFO] [stderr] Compiling crossbeam-deque v0.8.2 [INFO] [stderr] Compiling time v0.1.45 [INFO] [stderr] Compiling num_cpus v1.14.0 [INFO] [stderr] Compiling rustix v0.36.16 [INFO] [stderr] Compiling ryu v1.0.11 [INFO] [stderr] Compiling pure-rust-locales v0.5.6 [INFO] [stderr] Compiling iana-time-zone v0.1.53 [INFO] [stderr] Compiling log v0.4.17 [INFO] [stderr] Compiling lexical-write-integer v0.8.5 [INFO] [stderr] Compiling lexical-parse-integer v0.8.6 [INFO] [stderr] Compiling vte_generate_state_changes v0.1.1 [INFO] [stderr] Compiling thiserror-impl v1.0.49 [INFO] [stderr] Compiling erased-serde v0.3.23 [INFO] [stderr] Compiling either v1.8.0 [INFO] [stderr] Compiling itoa v1.0.4 [INFO] [stderr] Compiling procfs v0.15.1 [INFO] [stderr] Compiling utf8parse v0.2.0 [INFO] [stderr] Compiling vte v0.11.1 [INFO] [stderr] Compiling rayon v1.6.0 [INFO] [stderr] Compiling ctor v0.1.26 [INFO] [stderr] Compiling ghost v0.1.6 [INFO] [stderr] Compiling lexical-parse-float v0.8.5 [INFO] [stderr] Compiling lexical-write-float v0.8.5 [INFO] [stderr] Compiling unicode-linebreak v0.1.4 [INFO] [stderr] Compiling lzma-sys v0.1.20 [INFO] [stderr] Compiling bzip2-sys v0.1.11+1.0.8 [INFO] [stderr] Compiling dirs-sys-next v0.1.2 [INFO] [stderr] Compiling serde_json v1.0.89 [INFO] [stderr] Compiling smawk v0.3.1 [INFO] [stderr] Compiling is_ci v1.1.1 [INFO] [stderr] Compiling nu-ansi-term v0.49.0 [INFO] [stderr] Compiling arrayvec v0.7.2 [INFO] [stderr] Compiling unicode-width v0.1.10 [INFO] [stderr] Compiling num-format v0.4.3 [INFO] [stderr] Compiling lscolors v0.15.0 [INFO] [stderr] Compiling supports-color v2.1.0 [INFO] [stderr] Compiling dirs-next v2.0.0 [INFO] [stderr] Compiling lexical-core v0.8.5 [INFO] [stderr] Compiling inventory v0.3.3 [INFO] [stderr] Compiling sysinfo v0.29.10 [INFO] [stderr] Compiling strip-ansi-escapes v0.2.0 [INFO] [stderr] Compiling pwd v1.4.0 [INFO] [stderr] Compiling typetag-impl v0.2.5 [INFO] [stderr] Compiling textwrap v0.15.2 [INFO] [stderr] Compiling block-buffer v0.10.3 [INFO] [stderr] Compiling crypto-common v0.1.6 [INFO] [stderr] Compiling miette-derive v5.10.0 [INFO] [stderr] Compiling supports-unicode v2.0.0 [INFO] [stderr] Compiling supports-hyperlinks v2.1.0 [INFO] [stderr] Compiling terminal_size v0.1.17 [INFO] [stderr] Compiling nix v0.27.1 [INFO] [stderr] Compiling percent-encoding v2.2.0 [INFO] [stderr] Compiling lexical-core v0.7.6 [INFO] [stderr] Compiling sys-locale v0.3.1 [INFO] [stderr] Compiling utf8-width v0.1.6 [INFO] [stderr] Compiling nu-utils v0.85.0 [INFO] [stderr] Compiling fancy-regex v0.11.0 [INFO] [stderr] Compiling digest v0.10.6 [INFO] [stderr] Compiling nu-path v0.85.0 [INFO] [stderr] Compiling noodles-sam v0.44.0 [INFO] [stderr] Compiling noodles-tabix v0.30.0 [INFO] [stderr] Compiling lru v0.11.1 [INFO] [stderr] Compiling nom v5.1.2 [INFO] [stderr] Compiling paste v1.0.9 [INFO] [stderr] Compiling anyhow v1.0.66 [INFO] [stderr] Compiling miette v5.10.0 [INFO] [stderr] Compiling rmp v0.8.11 [INFO] [stderr] Compiling noodles-vcf v0.41.0 [INFO] [stderr] Compiling xz2 v0.1.7 [INFO] [stderr] Compiling md-5 v0.10.5 [INFO] [stderr] Compiling bzip2 v0.4.4 [INFO] [stderr] Compiling bytemuck_derive v1.3.0 [INFO] [stderr] Compiling noodles-fasta v0.30.0 [INFO] [stderr] Compiling nu-glob v0.85.0 [INFO] [stderr] Compiling bytemuck v1.12.3 [INFO] [stderr] Compiling noodles-gff v0.21.0 [INFO] [stderr] Compiling memmap v0.7.0 [INFO] [stderr] Compiling noodles-bam v0.47.0 [INFO] [stderr] Compiling noodles-bed v0.10.0 [INFO] [stderr] Compiling bstr v0.2.17 [INFO] [stderr] Compiling noodles-fastq v0.9.0 [INFO] [stderr] Compiling regex-automata v0.1.10 [INFO] [stderr] Compiling noodles-cram v0.44.0 [INFO] [stderr] Compiling bstr v1.0.1 [INFO] [stderr] Compiling noodles-bcf v0.38.0 [INFO] [stderr] Compiling chrono v0.4.23 [INFO] [stderr] Compiling byte-unit v4.0.17 [INFO] [stderr] Compiling rmp-serde v1.1.1 [INFO] [stderr] Compiling typetag v0.2.5 [INFO] [stderr] Compiling bincode v1.3.3 [INFO] [stderr] Compiling gfa v0.10.1 [INFO] [stderr] Compiling chrono-humanize v0.2.2 [INFO] [stderr] Compiling noodles v0.53.0 [INFO] [stderr] Compiling nu-system v0.85.0 [INFO] [stderr] Compiling nu-protocol v0.85.0 [INFO] [stderr] Compiling nu-engine v0.85.0 [INFO] [stderr] Compiling nu-plugin v0.85.0 [INFO] [stderr] Compiling nu_plugin_bio v0.85.0 (/opt/rustwide/workdir) [INFO] [stderr] Finished `dev` profile [unoptimized + debuginfo] target(s) in 2m 33s [INFO] [stderr] warning: the following packages contain code that will be rejected by a future version of Rust: nom v5.1.2 [INFO] [stderr] note: to see what the problems were, use the option `--future-incompat-report`, or run `cargo report future-incompatibilities --id 1` [INFO] running `Command { std: "docker" "inspect" "abd32fdf8025a161ae7602b89f292b836c0aba45df29d0b44e00686c63d1c2b0", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "abd32fdf8025a161ae7602b89f292b836c0aba45df29d0b44e00686c63d1c2b0", kill_on_drop: false }` [INFO] [stdout] abd32fdf8025a161ae7602b89f292b836c0aba45df29d0b44e00686c63d1c2b0 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-2-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-2-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] facd1115aa1b8536adf8434d7ece47078389369dc4c7cd8a4b76043a14c609e5 [INFO] running `Command { std: "docker" "start" "-a" "facd1115aa1b8536adf8434d7ece47078389369dc4c7cd8a4b76043a14c609e5", kill_on_drop: false }` [INFO] [stderr] Compiling nu_plugin_bio v0.85.0 (/opt/rustwide/workdir) [INFO] [stderr] Finished `test` profile [unoptimized + debuginfo] target(s) in 1.60s [INFO] [stderr] warning: the following packages contain code that will be rejected by a future version of Rust: nom v5.1.2 [INFO] [stderr] note: to see what the problems were, use the option `--future-incompat-report`, or run `cargo report future-incompatibilities --id 1` [INFO] running `Command { std: "docker" "inspect" "facd1115aa1b8536adf8434d7ece47078389369dc4c7cd8a4b76043a14c609e5", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "facd1115aa1b8536adf8434d7ece47078389369dc4c7cd8a4b76043a14c609e5", kill_on_drop: false }` [INFO] [stdout] facd1115aa1b8536adf8434d7ece47078389369dc4c7cd8a4b76043a14c609e5 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-2-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-2-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] 2a7f9cd2fcf5ee59b836ba19037f0ca2f96484940f9f967a33e02ddccba8d266 [INFO] running `Command { std: "docker" "start" "-a" "2a7f9cd2fcf5ee59b836ba19037f0ca2f96484940f9f967a33e02ddccba8d266", kill_on_drop: false }` [INFO] [stderr] Finished `test` profile [unoptimized + debuginfo] target(s) in 0.29s [INFO] [stderr] warning: the following packages contain code that will be rejected by a future version of Rust: nom v5.1.2 [INFO] [stderr] note: to see what the problems were, use the option `--future-incompat-report`, or run `cargo report future-incompatibilities --id 1` [INFO] [stderr] Running unittests src/lib.rs (/opt/rustwide/target/debug/deps/nu_plugin_bio-c727cedf5ebed66a) [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] [stderr] Running unittests src/main.rs (/opt/rustwide/target/debug/deps/nu_plugin_bio-5ba96fd558a1a6ab) [INFO] [stderr] Doc-tests nu_plugin_bio [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] [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" "2a7f9cd2fcf5ee59b836ba19037f0ca2f96484940f9f967a33e02ddccba8d266", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "2a7f9cd2fcf5ee59b836ba19037f0ca2f96484940f9f967a33e02ddccba8d266", kill_on_drop: false }` [INFO] [stdout] 2a7f9cd2fcf5ee59b836ba19037f0ca2f96484940f9f967a33e02ddccba8d266