[INFO] cloning repository https://github.com/davidlougheed/strkit_rust_ext
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/davidlougheed/strkit_rust_ext" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fdavidlougheed%2Fstrkit_rust_ext", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fdavidlougheed%2Fstrkit_rust_ext'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] 49d0885b0f822afa1685fb3e85c6b761fbd7039c
[INFO] checking davidlougheed/strkit_rust_ext against master#426a60abc213b28a7c7198e475476b6e650d871f for pr-129199
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fdavidlougheed%2Fstrkit_rust_ext" "/workspace/builds/worker-0-tc1/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-0-tc1/source'...
[INFO] [stderr] done.
[INFO] validating manifest of git repo https://github.com/davidlougheed/strkit_rust_ext on toolchain 426a60abc213b28a7c7198e475476b6e650d871f
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+426a60abc213b28a7c7198e475476b6e650d871f" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] started tweaking git repo https://github.com/davidlougheed/strkit_rust_ext
[INFO] finished tweaking git repo https://github.com/davidlougheed/strkit_rust_ext
[INFO] tweaked toml for git repo https://github.com/davidlougheed/strkit_rust_ext written to /workspace/builds/worker-0-tc1/source/Cargo.toml
[INFO] crate git repo https://github.com/davidlougheed/strkit_rust_ext 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" "+426a60abc213b28a7c7198e475476b6e650d871f" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Updating git repository `https://github.com/lorewar2/rust-bio.git`
[INFO] [stderr]     Updating crates.io index
[INFO] [stderr]  Downloading crates ...
[INFO] [stderr]   Downloaded fs-utils v1.1.4
[INFO] [stderr]   Downloaded wide v0.7.21
[INFO] [stderr]   Downloaded parasail-rs v0.7.3
[INFO] [stderr]   Downloaded rust-htslib v0.47.0
[INFO] [stderr]   Downloaded libparasail-sys v0.1.6
[INFO] [stderr]   Downloaded hts-sys v2.1.4
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-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@sha256:923055f121b5182466d55868a8b05e67af8ba4a3a3f6bad814e953ca3cd3ac2a" "/opt/rustwide/cargo-home/bin/cargo" "+426a60abc213b28a7c7198e475476b6e650d871f" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] 908170f6737984281f42a989d5946bf15937ff1b5719ced55420c44531fc645f
[INFO] running `Command { std: "docker" "start" "-a" "908170f6737984281f42a989d5946bf15937ff1b5719ced55420c44531fc645f", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "908170f6737984281f42a989d5946bf15937ff1b5719ced55420c44531fc645f", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "908170f6737984281f42a989d5946bf15937ff1b5719ced55420c44531fc645f", kill_on_drop: false }`
[INFO] [stdout] 908170f6737984281f42a989d5946bf15937ff1b5719ced55420c44531fc645f
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-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@sha256:923055f121b5182466d55868a8b05e67af8ba4a3a3f6bad814e953ca3cd3ac2a" "/opt/rustwide/cargo-home/bin/cargo" "+426a60abc213b28a7c7198e475476b6e650d871f" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] c39e1da1a3778f42b54cdc390402fed2c4e0a8dff64feab530a636adfcbcab21
[INFO] running `Command { std: "docker" "start" "-a" "c39e1da1a3778f42b54cdc390402fed2c4e0a8dff64feab530a636adfcbcab21", kill_on_drop: false }`
[INFO] [stderr]    Compiling libc v0.2.155
[INFO] [stderr]    Compiling proc-macro2 v1.0.84
[INFO] [stderr]    Compiling once_cell v1.19.0
[INFO] [stderr]    Compiling autocfg v1.3.0
[INFO] [stderr]    Compiling pkg-config v0.3.30
[INFO] [stderr]    Compiling libm v0.2.8
[INFO] [stderr]    Compiling target-lexicon v0.12.14
[INFO] [stderr]    Compiling glob v0.3.1
[INFO] [stderr]    Compiling prettyplease v0.2.20
[INFO] [stderr]    Compiling rustix v0.38.34
[INFO] [stderr]    Compiling num-traits v0.2.19
[INFO] [stderr]    Compiling clang-sys v1.7.0
[INFO] [stderr]    Compiling linux-raw-sys v0.4.14
[INFO] [stderr]    Compiling memchr v2.7.2
[INFO] [stderr]    Compiling quote v1.0.36
[INFO] [stderr]    Compiling pyo3-build-config v0.21.2
[INFO] [stderr]    Compiling syn v2.0.66
[INFO] [stderr]    Compiling jobserver v0.1.31
[INFO] [stderr]    Compiling regex-syntax v0.8.3
[INFO] [stderr]    Compiling minimal-lexical v0.2.1
[INFO] [stderr]    Compiling bitflags v2.5.0
[INFO] [stderr]    Compiling cc v1.0.98
[INFO] [stderr]    Compiling either v1.12.0
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[INFO] [stderr]    Compiling cfg-if v1.0.0
[INFO] [stderr]    Compiling nom v7.1.3
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[INFO] [stderr]    Compiling bindgen v0.69.4
[INFO] [stderr]    Compiling home v0.5.9
[INFO] [stderr]    Compiling itertools v0.12.1
[INFO] [stderr]    Compiling regex-automata v0.4.6
[INFO] [stderr]    Compiling lazycell v1.3.0
[INFO] [stderr]    Compiling log v0.4.21
[INFO] [stderr]    Compiling lazy_static v1.4.0
[INFO] [stderr]    Compiling cexpr v0.6.0
[INFO] [stderr]    Compiling which v4.4.2
[INFO] [stderr]    Compiling rustc-hash v1.1.0
[INFO] [stderr]    Compiling syn v1.0.109
[INFO] [stderr]    Compiling shlex v1.3.0
[INFO] [stderr]    Compiling openssl-src v300.3.0+3.3.0
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[INFO] [stderr]    Compiling openssl-sys v0.9.102
[INFO] [stderr]     Checking getrandom v0.2.15
[INFO] [stderr]    Compiling matrixmultiply v0.3.8
[INFO] [stderr]    Compiling libz-sys v1.1.18
[INFO] [stderr]    Compiling serde v1.0.203
[INFO] [stderr]     Checking rand_core v0.6.4
[INFO] [stderr]    Compiling regex v1.10.4
[INFO] [stderr]     Checking num-integer v0.1.46
[INFO] [stderr]     Checking num-complex v0.4.6
[INFO] [stderr]     Checking bytemuck v1.16.0
[INFO] [stderr]    Compiling paste v1.0.15
[INFO] [stderr]    Compiling rustversion v1.0.17
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[INFO] [stderr]    Compiling semver v0.1.20
[INFO] [stderr]     Checking rawpointer v0.2.1
[INFO] [stderr]    Compiling rustc_version v0.1.7
[INFO] [stderr]     Checking rand_chacha v0.3.1
[INFO] [stderr]     Checking safe_arch v0.7.1
[INFO] [stderr]     Checking aho-corasick v1.1.3
[INFO] [stderr]    Compiling curl-sys v0.4.72+curl-8.6.0
[INFO] [stderr]    Compiling serde_derive v1.0.203
[INFO] [stderr]    Compiling thiserror-impl v1.0.61
[INFO] [stderr]    Compiling bzip2-sys v0.1.11+1.0.8
[INFO] [stderr]    Compiling lzma-sys v0.1.20
[INFO] [stderr]    Compiling pyo3-ffi v0.21.2
[INFO] [stderr]    Compiling lock_api v0.4.12
[INFO] [stderr]    Compiling parking_lot_core v0.9.10
[INFO] [stderr]    Compiling quick-error v1.2.3
[INFO] [stderr]     Checking tinyvec_macros v0.1.1
[INFO] [stderr]    Compiling typenum v1.17.0
[INFO] [stderr]     Checking tinyvec v1.6.0
[INFO] [stderr]    Compiling fs-utils v1.1.4
[INFO] [stderr]     Checking wide v0.7.21
[INFO] [stderr]     Checking rand v0.8.5
[INFO] [stderr]    Compiling newtype_derive v0.1.6
[INFO] [stderr]     Checking approx v0.5.1
[INFO] [stderr]    Compiling memoffset v0.9.1
[INFO] [stderr]    Compiling feature-probe v0.1.1
[INFO] [stderr]    Compiling portable-atomic v1.6.0
[INFO] [stderr]     Checking smallvec v1.13.2
[INFO] [stderr]    Compiling bv v0.11.1
[INFO] [stderr]    Compiling strum_macros v0.25.3
[INFO] [stderr]     Checking simba v0.6.0
[INFO] [stderr]     Checking rand_distr v0.4.3
[INFO] [stderr]     Checking unicode-normalization v0.1.23
[INFO] [stderr]    Compiling hts-sys v2.1.4
[INFO] [stderr]    Compiling libparasail-sys v0.1.6
[INFO] [stderr]    Compiling nalgebra-macros v0.1.0
[INFO] [stderr]    Compiling derive-new v0.5.9
[INFO] [stderr]     Checking num-rational v0.4.2
[INFO] [stderr]    Compiling pyo3-macros-backend v0.21.2
[INFO] [stderr]    Compiling pyo3 v0.21.2
[INFO] [stderr]     Checking hashbrown v0.14.5
[INFO] [stderr]     Checking percent-encoding v2.3.1
[INFO] [stderr]     Checking byteorder v1.5.0
[INFO] [stderr]     Checking equivalent v1.0.1
[INFO] [stderr]     Checking unicode-bidi v0.3.15
[INFO] [stderr]    Compiling anyhow v1.0.86
[INFO] [stderr]     Checking form_urlencoded v1.2.1
[INFO] [stderr]     Checking bio-types v1.0.1
[INFO] [stderr]     Checking indexmap v2.2.6
[INFO] [stderr]     Checking idna v0.5.0
[INFO] [stderr]     Checking parking_lot v0.12.3
[INFO] [stderr]    Compiling enum-map-derive v0.17.0
[INFO] [stderr]     Checking ndarray v0.15.6
[INFO] [stderr]     Checking csv-core v0.1.11
[INFO] [stderr]     Checking bit-vec v0.6.3
[INFO] [stderr]     Checking unindent v0.2.3
[INFO] [stderr]     Checking itoa v1.0.11
[INFO] [stderr]     Checking ryu v1.0.18
[INFO] [stderr]    Compiling indoc v2.0.5
[INFO] [stderr]     Checking fixedbitset v0.4.2
[INFO] [stderr]     Checking custom_derive v0.1.7
[INFO] [stderr]     Checking petgraph v0.6.5
[INFO] [stderr]     Checking csv v1.3.0
[INFO] [stderr]     Checking nalgebra v0.29.0
[INFO] [stderr]     Checking itertools v0.11.0
[INFO] [stderr]    Compiling pyo3-macros v0.21.2
[INFO] [stderr]     Checking bit-set v0.5.3
[INFO] [stderr]     Checking enum-map v2.7.3
[INFO] [stderr]     Checking url v2.5.0
[INFO] [stderr]     Checking fxhash v0.2.1
[INFO] [stderr]     Checking vec_map v0.8.2
[INFO] [stderr]     Checking multimap v0.9.1
[INFO] [stderr]     Checking itertools-num v0.1.3
[INFO] [stderr]     Checking ordered-float v3.9.2
[INFO] [stderr]     Checking strum v0.25.0
[INFO] [stderr]     Checking bytecount v0.6.8
[INFO] [stderr]     Checking linear-map v1.2.0
[INFO] [stderr]     Checking editdistancek v1.0.2
[INFO] [stderr]     Checking ieee754 v0.2.6
[INFO] [stderr]     Checking triple_accel v0.4.0
[INFO] [stderr]     Checking strsim v0.11.1
[INFO] [stderr]     Checking numpy v0.21.0
[INFO] [stderr]     Checking statrs v0.16.0
[INFO] [stderr]     Checking bio v1.6.0 (https://github.com/lorewar2/rust-bio.git?rev=b1d1200f2c9f58e0540d921fed15fb10a5810b3e#b1d1200f)
[INFO] [stderr]     Checking rust-htslib v0.47.0
[ERROR] error running command: no output for 300 seconds
[INFO] running `Command { std: "docker" "inspect" "c39e1da1a3778f42b54cdc390402fed2c4e0a8dff64feab530a636adfcbcab21", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "c39e1da1a3778f42b54cdc390402fed2c4e0a8dff64feab530a636adfcbcab21", kill_on_drop: false }`
[INFO] [stdout] c39e1da1a3778f42b54cdc390402fed2c4e0a8dff64feab530a636adfcbcab21