[INFO] cloning repository https://github.com/pairwise-alignment/pa-bench [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/pairwise-alignment/pa-bench" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fpairwise-alignment%2Fpa-bench", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fpairwise-alignment%2Fpa-bench'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] 5440ed1b8ecb271786d7b028a015cb4600e89a9a [INFO] checking pairwise-alignment/pa-bench against master#6d05c430d2f0573bf98320bb1d2457a72ea1e67f for pr-116607 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fpairwise-alignment%2Fpa-bench" "/workspace/builds/worker-1-tc1/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-1-tc1/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/pairwise-alignment/pa-bench on toolchain 6d05c430d2f0573bf98320bb1d2457a72ea1e67f [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+6d05c430d2f0573bf98320bb1d2457a72ea1e67f" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] started tweaking git repo https://github.com/pairwise-alignment/pa-bench [INFO] finished tweaking git repo https://github.com/pairwise-alignment/pa-bench [INFO] tweaked toml for git repo https://github.com/pairwise-alignment/pa-bench written to /workspace/builds/worker-1-tc1/source/Cargo.toml [INFO] crate git repo https://github.com/pairwise-alignment/pa-bench 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" "+6d05c430d2f0573bf98320bb1d2457a72ea1e67f" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] warning: /workspace/builds/worker-1-tc1/source/Cargo.toml: unused manifest key: profile.release.panick [INFO] [stderr] Updating git repository `https://github.com/RagnarGrootKoerkamp/astar-pairwise-aligner` [INFO] [stderr] Updating git repository `https://github.com/pairwise-alignment/edlib-rs` [INFO] [stderr] Updating git submodule `https://github.com/Martinsos/edlib` [INFO] [stderr] Updating git repository `https://github.com/pairwise-alignment/ksw2-sys` [INFO] [stderr] Updating git submodule `https://github.com/pairwise-alignment/ksw2.git` [INFO] [stderr] Updating git repository `https://github.com/pairwise-alignment/pa-types` [INFO] [stderr] Updating git repository `https://github.com/Daniel-Liu-c0deb0t/parasailors-new` [INFO] [stderr] Updating git repository `https://github.com/pairwise-alignment/rust-wfa2` [INFO] [stderr] Updating git submodule `https://github.com/ragnargrootkoerkamp/WFA2-lib.git` [INFO] [stderr] Updating git repository `https://github.com/Daniel-Liu-c0deb0t/triple_accel` [INFO] [stderr] Updating git repository `https://github.com/Daniel-Liu-c0deb0t/block-aligner` [INFO] [stderr] Updating git repository `https://github.com/pairwise-alignment/pa-generate` [INFO] [stderr] Updating crates.io index [INFO] [stderr] Updating git repository `https://github.com/andrewprivate/parasail-sys` [INFO] [stderr] Downloading crates ... [INFO] [stderr] Downloaded zip-extract v0.1.2 [INFO] [stderr] Downloaded wait4 v0.1.3 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-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@sha256:023092b8bfa974c7f3e45c5ce651cc8dd3afd5e76915d5995b8dacd3032bf956" "/opt/rustwide/cargo-home/bin/cargo" "+6d05c430d2f0573bf98320bb1d2457a72ea1e67f" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] fec9fd80ed1145a1a25b9d46ca162fd2336f71f22e19399dd411b3ac2a5c6149 [INFO] running `Command { std: "docker" "start" "-a" "fec9fd80ed1145a1a25b9d46ca162fd2336f71f22e19399dd411b3ac2a5c6149", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "fec9fd80ed1145a1a25b9d46ca162fd2336f71f22e19399dd411b3ac2a5c6149", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "fec9fd80ed1145a1a25b9d46ca162fd2336f71f22e19399dd411b3ac2a5c6149", kill_on_drop: false }` [INFO] [stdout] fec9fd80ed1145a1a25b9d46ca162fd2336f71f22e19399dd411b3ac2a5c6149 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-1-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@sha256:023092b8bfa974c7f3e45c5ce651cc8dd3afd5e76915d5995b8dacd3032bf956" "/opt/rustwide/cargo-home/bin/cargo" "+6d05c430d2f0573bf98320bb1d2457a72ea1e67f" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 6f3c8720d744ed9a3c26192f6d7f8c52010c9ea02fd65a664f295da1c47b5b6b [INFO] running `Command { std: "docker" "start" "-a" "6f3c8720d744ed9a3c26192f6d7f8c52010c9ea02fd65a664f295da1c47b5b6b", kill_on_drop: false }` [INFO] [stderr] warning: /opt/rustwide/workdir/Cargo.toml: unused manifest key: profile.release.panick [INFO] [stderr] Compiling libc v0.2.147 [INFO] [stderr] Compiling proc-macro2 v1.0.66 [INFO] [stderr] Compiling unicode-ident v1.0.11 [INFO] [stderr] Compiling libm v0.2.7 [INFO] [stderr] Compiling num-traits v0.2.16 [INFO] [stderr] Compiling syn v1.0.109 [INFO] [stderr] Compiling typenum v1.16.0 [INFO] [stderr] Compiling serde v1.0.180 [INFO] [stderr] Compiling serde_derive v1.0.180 [INFO] [stderr] Compiling glob v0.3.1 [INFO] [stderr] Checking once_cell v1.18.0 [INFO] [stderr] Compiling io-lifetimes v1.0.11 [INFO] [stderr] Compiling rustix v0.38.4 [INFO] [stderr] Compiling memchr v2.5.0 [INFO] [stderr] Compiling heck v0.4.1 [INFO] [stderr] Compiling regex-syntax v0.7.4 [INFO] [stderr] Checking linux-raw-sys v0.4.5 [INFO] [stderr] Checking bitflags v2.3.3 [INFO] [stderr] Compiling rustix v0.37.23 [INFO] [stderr] Compiling nom v7.1.3 [INFO] [stderr] Compiling either v1.9.0 [INFO] [stderr] Checking linux-raw-sys v0.3.8 [INFO] [stderr] Compiling clang-sys v1.6.1 [INFO] [stderr] Checking ppv-lite86 v0.2.17 [INFO] [stderr] Checking utf8parse v0.2.1 [INFO] [stderr] Compiling num-bigint v0.4.3 [INFO] [stderr] Checking anstyle-parse v0.2.1 [INFO] [stderr] Compiling log v0.4.19 [INFO] [stderr] Checking anstyle-query v1.0.0 [INFO] [stderr] Checking colorchoice v1.0.0 [INFO] [stderr] Compiling quote v1.0.32 [INFO] [stderr] Checking anstyle v1.0.1 [INFO] [stderr] Compiling num-rational v0.4.1 [INFO] [stderr] Compiling matrixmultiply v0.3.7 [INFO] [stderr] Checking bytemuck v1.13.1 [INFO] [stderr] Checking clap_lex v0.5.0 [INFO] [stderr] Compiling jobserver v0.1.26 [INFO] [stderr] Compiling syn v2.0.28 [INFO] [stderr] Compiling which v4.4.0 [INFO] [stderr] Compiling prettyplease v0.2.12 [INFO] [stderr] Compiling paste v1.0.14 [INFO] [stderr] Compiling rustversion v1.0.14 [INFO] [stderr] Compiling cc v1.0.79 [INFO] [stderr] Checking is-terminal v0.4.9 [INFO] [stderr] Checking anstream v0.3.2 [INFO] [stderr] Checking safe_arch v0.7.1 [INFO] [stderr] Checking aho-corasick v1.0.2 [INFO] [stderr] Checking itertools v0.10.5 [INFO] [stderr] Compiling generic-array v0.14.7 [INFO] [stderr] Compiling thiserror v1.0.44 [INFO] [stderr] Checking rawpointer v0.2.1 [INFO] [stderr] Compiling semver v0.1.20 [INFO] [stderr] Checking num-integer v0.1.45 [INFO] [stderr] Checking num-complex v0.4.3 [INFO] [stderr] Checking getrandom v0.2.10 [INFO] [stderr] Checking rand_core v0.6.4 [INFO] [stderr] Compiling rustc_version v0.1.7 [INFO] [stderr] Checking wide v0.7.11 [INFO] [stderr] Checking rand_chacha v0.3.1 [INFO] [stderr] Checking approx v0.5.1 [INFO] [stderr] Checking rand v0.8.5 [INFO] [stderr] Compiling regex-automata v0.3.4 [INFO] [stderr] Compiling cexpr v0.6.0 [INFO] [stderr] Compiling indexmap v1.9.3 [INFO] [stderr] Compiling bindgen v0.66.1 [INFO] [stderr] Checking parse-size v1.0.0 [INFO] [stderr] Checking ryu v1.0.15 [INFO] [stderr] Checking itoa v1.0.9 [INFO] [stderr] Compiling feature-probe v0.1.1 [INFO] [stderr] Checking rand_distr v0.4.3 [INFO] [stderr] Compiling proc-macro-error-attr v1.0.4 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Compiling bv v0.11.1 [INFO] [stderr] Checking terminal_size v0.2.6 [INFO] [stderr] Checking clap_builder v4.3.19 [INFO] [stderr] Checking hashbrown v0.12.3 [INFO] [stderr] Compiling pkg-config v0.3.27 [INFO] [stderr] Compiling anyhow v1.0.72 [INFO] [stderr] Checking simba v0.6.0 [INFO] [stderr] Compiling cmake v0.1.50 [INFO] [stderr] Checking csv-core v0.1.10 [INFO] [stderr] Checking fixedbitset v0.4.2 [INFO] [stderr] Checking smallvec v1.11.0 [INFO] [stderr] Checking bit-vec v0.6.3 [INFO] [stderr] Checking triple_accel v0.4.0 [INFO] [stderr] Checking vec_map v0.8.2 [INFO] [stderr] Checking csv v1.2.2 [INFO] [stderr] Checking bit-set v0.5.3 [INFO] [stderr] Checking multimap v0.8.3 [INFO] [stderr] Checking fxhash v0.2.1 [INFO] [stderr] Checking ndarray v0.15.6 [INFO] [stderr] Checking ordered-float v3.7.0 [INFO] [stderr] Checking itertools-num v0.1.3 [INFO] [stderr] Checking custom_derive v0.1.7 [INFO] [stderr] Checking bytecount v0.6.3 [INFO] [stderr] Compiling regex v1.9.1 [INFO] [stderr] Checking crypto-common v0.1.6 [INFO] [stderr] Compiling ring v0.16.20 [INFO] [stderr] Checking str_indices v0.4.1 [INFO] [stderr] Checking petgraph v0.6.3 [INFO] [stderr] Compiling bindgen v0.63.0 [INFO] [stderr] Checking itertools v0.11.0 [INFO] [stderr] Checking ropey v1.6.0 [INFO] [stderr] Checking instant v0.1.12 [INFO] [stderr] Checking subtle v2.5.0 [INFO] [stderr] Checking rustc-hash v1.1.0 [INFO] [stderr] Compiling zstd-sys v2.0.8+zstd.1.5.5 [INFO] [stderr] Checking block-buffer v0.10.4 [INFO] [stderr] Compiling crossbeam-utils v0.8.16 [INFO] [stderr] Checking spin v0.5.2 [INFO] [stderr] Checking untrusted v0.7.1 [INFO] [stderr] Checking digest v0.10.7 [INFO] [stderr] Compiling memoffset v0.9.0 [INFO] [stderr] Compiling proc-macro-error v1.0.4 [INFO] [stderr] Checking cpufeatures v0.2.9 [INFO] [stderr] Compiling bzip2-sys v0.1.11+1.0.8 [INFO] [stderr] Compiling num-bigint v0.2.6 [INFO] [stderr] Compiling crossbeam-epoch v0.9.15 [INFO] [stderr] Compiling num-iter v0.1.43 [INFO] [stderr] Compiling zstd-safe v5.0.2+zstd.1.5.2 [INFO] [stderr] Checking tinyvec_macros v0.1.1 [INFO] [stderr] Checking tinyvec v1.6.0 [INFO] [stderr] Checking miniz_oxide v0.7.1 [INFO] [stderr] Checking inout v0.1.3 [INFO] [stderr] Compiling num-complex v0.2.4 [INFO] [stderr] Compiling num-rational v0.2.4 [INFO] [stderr] Compiling serde_json v1.0.104 [INFO] [stderr] Checking scopeguard v1.2.0 [INFO] [stderr] Checking equivalent v1.0.1 [INFO] [stderr] Checking block-aligner v0.4.0 (https://github.com/Daniel-Liu-c0deb0t/block-aligner#d9c55f55) [INFO] [stderr] Checking base64ct v1.6.0 [INFO] [stderr] Checking hashbrown v0.14.0 [INFO] [stderr] Checking triple_accel v0.4.0 (https://github.com/Daniel-Liu-c0deb0t/triple_accel#0f2119a6) [INFO] [stderr] Checking flate2 v1.0.26 [INFO] [stderr] Checking password-hash v0.4.2 [INFO] [stderr] Checking cipher v0.4.4 [INFO] [stderr] Checking unicode-normalization v0.1.22 [INFO] [stderr] Checking sha2 v0.10.7 [INFO] [stderr] Checking hmac v0.12.1 [INFO] [stderr] Checking indexmap v2.0.0 [INFO] [stderr] Checking num_cpus v1.16.0 [INFO] [stderr] Compiling rayon-core v1.11.0 [INFO] [stderr] Checking unicode-bidi v0.3.13 [INFO] [stderr] Checking unsafe-libyaml v0.2.9 [INFO] [stderr] Checking deranged v0.3.6 [INFO] [stderr] Checking percent-encoding v2.3.0 [INFO] [stderr] Checking time-core v0.1.1 [INFO] [stderr] Compiling derive_more v0.99.17 [INFO] [stderr] Compiling strum_macros v0.24.3 [INFO] [stderr] Compiling nalgebra-macros v0.1.0 [INFO] [stderr] Compiling derive-new v0.5.9 [INFO] [stderr] Compiling enum-map-derive v0.6.0 [INFO] [stderr] Compiling getset v0.1.2 [INFO] [stderr] Compiling clap_derive v4.3.12 [INFO] [stderr] Compiling thiserror-impl v1.0.44 [INFO] [stderr] Compiling rustls v0.21.5 [INFO] [stderr] Checking rustls-webpki v0.100.1 [INFO] [stderr] Checking sct v0.7.0 [INFO] [stderr] Checking rustls-webpki v0.101.2 [INFO] [stderr] Checking serde_yaml v0.9.25 [INFO] [stderr] Checking idna v0.4.0 [INFO] [stderr] Checking form_urlencoded v1.2.0 [INFO] [stderr] Checking enum-map v1.1.1 [INFO] [stderr] Checking time v0.3.24 [INFO] [stderr] Checking pbkdf2 v0.11.0 [INFO] [stderr] Checking crossbeam-deque v0.8.3 [INFO] [stderr] Checking aes v0.8.3 [INFO] [stderr] Checking crossbeam-channel v0.5.8 [INFO] [stderr] Checking sha1 v0.10.5 [INFO] [stderr] Checking constant_time_eq v0.1.5 [INFO] [stderr] Checking url v2.4.0 [INFO] [stderr] Checking webpki-roots v0.23.1 [INFO] [stderr] Checking filetime v0.2.21 [INFO] [stderr] Checking xattr v0.2.3 [INFO] [stderr] Checking base64 v0.21.2 [INFO] [stderr] Checking iana-time-zone v0.1.57 [INFO] [stderr] Checking num v0.2.1 [INFO] [stderr] Checking same-file v1.0.6 [INFO] [stderr] Checking parse_duration v2.1.1 [INFO] [stderr] Checking tar v0.4.39 [INFO] [stderr] Checking chrono v0.4.26 [INFO] [stderr] Checking walkdir v2.3.3 [INFO] [stderr] Checking num v0.4.1 [INFO] [stderr] Checking streaming-stats v0.2.3 [INFO] [stderr] Compiling rustix v0.36.15 [INFO] [stderr] Checking nix v0.26.2 [INFO] [stderr] Checking linux-raw-sys v0.1.4 [INFO] [stderr] Checking core_affinity v0.7.6 [INFO] [stderr] Checking wait4 v0.1.3 [INFO] [stderr] Checking rayon v1.7.0 [INFO] [stderr] Checking bzip2 v0.4.4 [INFO] [stderr] Checking nalgebra v0.29.0 [INFO] [stderr] Checking bio-types v1.0.0 [INFO] [stderr] Checking strum v0.24.1 [INFO] [stderr] Checking ctrlc v3.4.0 [INFO] [stderr] Checking clap v4.3.19 [INFO] [stderr] Checking pa-types v0.1.0 (https://github.com/pairwise-alignment/pa-types#afa2c52a) [INFO] [stderr] Checking ureq v2.7.1 [INFO] [stderr] Checking pa-generate v0.1.0 (https://github.com/pairwise-alignment/pa-generate#f9dc03b1) [INFO] [stderr] Checking pa-affine-types v0.1.0 (https://github.com/RagnarGrootKoerkamp/astar-pairwise-aligner#175f4541) [INFO] [stderr] Checking pa-test v0.1.0 (https://github.com/RagnarGrootKoerkamp/astar-pairwise-aligner#175f4541) [INFO] [stderr] Compiling edlib_rs v0.2.0 (https://github.com/pairwise-alignment/edlib-rs#418a0cfd) [INFO] [stderr] Compiling wfa2-sys v0.1.0 (https://github.com/pairwise-alignment/rust-wfa2#4cbfeb3d) [INFO] [stderr] Compiling ksw2-sys v0.1.0 (https://github.com/pairwise-alignment/ksw2-sys#1daf00f7) [INFO] [stderr] Checking zstd v0.11.2+zstd.1.5.2 [INFO] [stderr] Checking zip v0.6.6 [INFO] [stderr] Checking zip-extract v0.1.2 [INFO] [stderr] Checking rust-wfa2 v0.1.0 (https://github.com/pairwise-alignment/rust-wfa2#4cbfeb3d) [INFO] [stderr] Checking statrs v0.16.0 [INFO] [stderr] Checking bio v1.3.0 [INFO] [stderr] Checking pa-heuristic v0.1.0 (https://github.com/RagnarGrootKoerkamp/astar-pairwise-aligner#175f4541) [INFO] [stderr] Checking pa-bitpacking v0.1.0 (https://github.com/RagnarGrootKoerkamp/astar-pairwise-aligner#175f4541) [INFO] [stderr] Checking pa-vis-types v0.1.0 (https://github.com/RagnarGrootKoerkamp/astar-pairwise-aligner#175f4541) [INFO] [stderr] Checking pa-base-algos v0.1.0 (https://github.com/RagnarGrootKoerkamp/astar-pairwise-aligner#175f4541) [INFO] [stderr] Checking astarpa v0.1.0 (https://github.com/RagnarGrootKoerkamp/astar-pairwise-aligner#175f4541) [INFO] [stderr] Checking pa-wrapper v0.1.0 (/opt/rustwide/workdir/pa-wrapper) [INFO] [stderr] Checking pa-bench-types v0.1.0 (/opt/rustwide/workdir/pa-bench-types) [INFO] [stderr] Checking pa-bin v0.1.0 (/opt/rustwide/workdir/pa-bin) [INFO] [stderr] Checking pa-bench v0.1.0 (/opt/rustwide/workdir/pa-bench) [INFO] [stderr] Finished dev [unoptimized + debuginfo] target(s) in 23.45s [INFO] running `Command { std: "docker" "inspect" "6f3c8720d744ed9a3c26192f6d7f8c52010c9ea02fd65a664f295da1c47b5b6b", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "6f3c8720d744ed9a3c26192f6d7f8c52010c9ea02fd65a664f295da1c47b5b6b", kill_on_drop: false }` [INFO] [stdout] 6f3c8720d744ed9a3c26192f6d7f8c52010c9ea02fd65a664f295da1c47b5b6b