[INFO] cloning repository https://github.com/ViralSeq/viRust-splicing [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/ViralSeq/viRust-splicing" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FViralSeq%2FviRust-splicing", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FViralSeq%2FviRust-splicing'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] a9a7aefb2212740786e968560a7f145de88c01e5 [INFO] documenting ViralSeq/viRust-splicing against 1.99.0-beta.8 for beta-rustdoc-1.100-2 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FViralSeq%2FviRust-splicing" "/workspace/builds/worker-4-tc1/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-4-tc1/source'... [INFO] [stderr] done. [INFO] removed /workspace/builds/worker-4-tc1/source/rust-toolchain [INFO] started tweaking git repo https://github.com/ViralSeq/viRust-splicing [INFO] finished tweaking git repo https://github.com/ViralSeq/viRust-splicing [INFO] tweaked toml for git repo https://github.com/ViralSeq/viRust-splicing written to /workspace/builds/worker-4-tc1/source/Cargo.toml [INFO] validating manifest of git repo https://github.com/ViralSeq/viRust-splicing on toolchain 1.99.0-beta.8 [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+1.99.0-beta.8" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] crate git repo https://github.com/ViralSeq/viRust-splicing 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" "+1.99.0-beta.8" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Updating crates.io index [INFO] [stderr] Downloading crates ... [INFO] [stderr] Downloaded plotters-bitmap v0.3.7 [INFO] [stderr] Downloaded rand_chacha v0.10.0 [INFO] [stderr] Downloaded rand_distr v0.6.0 [INFO] [stderr] Downloaded float-ord v0.3.2 [INFO] [stderr] Downloaded custom_derive v0.1.7 [INFO] [stderr] Downloaded pathfinder_geometry v0.5.1 [INFO] [stderr] Downloaded getset v0.1.7 [INFO] [stderr] Downloaded itertools-num v0.1.3 [INFO] [stderr] Downloaded semver v0.1.20 [INFO] [stderr] Downloaded enum-map-derive v0.17.0 [INFO] [stderr] Downloaded editdistancek v1.0.2 [INFO] [stderr] Downloaded derefable v0.1.0 [INFO] [stderr] Downloaded yeslogic-fontconfig-sys v6.0.1 [INFO] [stderr] Downloaded dwrote v0.11.5 [INFO] [stderr] Downloaded pest_derive v2.8.7 [INFO] [stderr] Downloaded newtype_derive v0.1.6 [INFO] [stderr] Downloaded enum-map v2.7.3 [INFO] [stderr] Downloaded bio-types v1.0.4 [INFO] [stderr] Downloaded core-text v20.1.0 [INFO] [stderr] Downloaded pest_generator v2.8.7 [INFO] [stderr] Downloaded rustc_version v0.1.7 [INFO] [stderr] Downloaded pathfinder_simd v0.5.6 [INFO] [stderr] Downloaded rust-ini v0.21.3 [INFO] [stderr] Downloaded hashlink v0.11.1 [INFO] [stderr] Downloaded pest_meta v2.8.7 [INFO] [stderr] Downloaded clap_derive v4.6.3 [INFO] [stderr] Downloaded triple_accel v0.4.0 [INFO] [stderr] Downloaded config v0.15.25 [INFO] [stderr] Downloaded toml v1.1.3+spec-1.1.0 [INFO] [stderr] Downloaded clap v4.6.3 [INFO] [stderr] Downloaded font-kit v0.14.3 [INFO] [stderr] Downloaded yaml-rust2 v0.11.0 [INFO] [stderr] Downloaded cc v1.3.0 [INFO] [stderr] Downloaded pest v2.8.7 [INFO] [stderr] Downloaded ron v0.12.2 [INFO] [stderr] Downloaded statrs v0.18.0 [INFO] [stderr] Downloaded bio v4.0.1 [INFO] [stderr] Downloaded portable-atomic v1.14.0 [INFO] [stderr] Downloaded syn v3.0.2 [INFO] [stderr] Downloaded nalgebra v0.33.3 [INFO] [stderr] Downloaded gif v0.12.0 [INFO] [stderr] Downloaded freetype-sys v0.20.1 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-4-tc1/source:/opt/rustwide/workdir:ro,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-4-tc1/target:/opt/rustwide/target:rw,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" "-m" "1610612736" "--network" "none" "ghcr.io/rust-lang/crates-build-env/linux@sha256:77db811e55d90add9212f6832c23229e3de5f1c1f9905e8cb07319ea15df73ac" "sleep" "infinity", kill_on_drop: false }` [INFO] [stdout] 82b40a2a5ca8d7ea77dc0ef399e83176312f57ca00aacf9b4b0c66e8c06d0154 [INFO] running `Command { std: "docker" "start" "82b40a2a5ca8d7ea77dc0ef399e83176312f57ca00aacf9b4b0c66e8c06d0154", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "82b40a2a5ca8d7ea77dc0ef399e83176312f57ca00aacf9b4b0c66e8c06d0154", kill_on_drop: false }` [INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-w" "/opt/rustwide/workdir" "--user" "0:0" "82b40a2a5ca8d7ea77dc0ef399e83176312f57ca00aacf9b4b0c66e8c06d0154" "/opt/rustwide/cargo-home/bin/cargo" "+1.99.0-beta.8" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "82b40a2a5ca8d7ea77dc0ef399e83176312f57ca00aacf9b4b0c66e8c06d0154", kill_on_drop: false }` [INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-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" "-w" "/opt/rustwide/workdir" "--user" "0:0" "82b40a2a5ca8d7ea77dc0ef399e83176312f57ca00aacf9b4b0c66e8c06d0154" "/opt/rustwide/cargo-home/bin/cargo" "+1.99.0-beta.8" "doc" "--frozen" "--no-deps" "--document-private-items" "--message-format=json", kill_on_drop: false }` [INFO] [stderr] Compiling proc-macro2 v1.0.107 [INFO] [stderr] Compiling quote v1.0.47 [INFO] [stderr] Compiling autocfg v1.5.1 [INFO] [stderr] Compiling libm v0.2.16 [INFO] [stderr] Compiling serde_core v1.0.229 [INFO] [stderr] Checking memchr v2.8.3 [INFO] [stderr] Compiling zerocopy v0.8.55 [INFO] [stderr] Compiling libc v0.2.186 [INFO] [stderr] Compiling serde v1.0.229 [INFO] [stderr] Checking bytemuck v1.25.2 [INFO] [stderr] Compiling semver v1.0.28 [INFO] [stderr] Checking simd-adler32 v0.3.10 [INFO] [stderr] Compiling shlex v2.0.1 [INFO] [stderr] Compiling crossbeam-utils v0.8.22 [INFO] [stderr] Compiling ucd-trie v0.1.7 [INFO] [stderr] Compiling proc-macro2 v0.4.30 [INFO] [stderr] Compiling once_cell v1.21.4 [INFO] [stderr] Checking miniz_oxide v0.8.9 [INFO] [stderr] Compiling rustc_version v0.4.1 [INFO] [stderr] Compiling yeslogic-fontconfig-sys v6.0.1 [INFO] [stderr] Compiling num-traits v0.2.19 [INFO] [stderr] Compiling matrixmultiply v0.3.11 [INFO] [stderr] Compiling cc v1.3.0 [INFO] [stderr] Compiling crossbeam-epoch v0.9.20 [INFO] [stderr] Checking safe_arch v0.7.4 [INFO] [stderr] Compiling unicode-xid v0.1.0 [INFO] [stderr] Compiling rustversion v1.0.23 [INFO] [stderr] Compiling semver v0.1.20 [INFO] [stderr] Checking aho-corasick v1.1.4 [INFO] [stderr] Compiling pathfinder_simd v0.5.6 [INFO] [stderr] Checking flate2 v1.1.9 [INFO] [stderr] Compiling rustc_version v0.1.7 [INFO] [stderr] Checking fdeflate v0.3.7 [INFO] [stderr] Checking wide v0.7.33 [INFO] [stderr] Checking libloading v0.8.9 [INFO] [stderr] Compiling getrandom v0.4.3 [INFO] [stderr] Compiling pest v2.8.7 [INFO] [stderr] Compiling zmij v1.0.23 [INFO] [stderr] Checking color_quant v1.1.0 [INFO] [stderr] Compiling erased-serde v0.4.10 [INFO] [stderr] Compiling syn v0.15.44 [INFO] [stderr] Checking regex-syntax v0.8.11 [INFO] [stderr] Compiling feature-probe v0.1.1 [INFO] [stderr] Checking utf8parse v0.2.2 [INFO] [stderr] Compiling crossbeam-deque v0.8.7 [INFO] [stderr] Checking foldhash v0.2.0 [INFO] [stderr] Compiling thiserror v1.0.69 [INFO] [stderr] Checking anstyle-parse v1.0.0 [INFO] [stderr] Checking png v0.17.16 [INFO] [stderr] Compiling syn v2.0.119 [INFO] [stderr] Compiling syn v3.0.2 [INFO] [stderr] Compiling bv v0.11.1 [INFO] [stderr] Checking hashbrown v0.16.1 [INFO] [stderr] Compiling quote v0.6.13 [INFO] [stderr] Checking dirs-sys v0.5.0 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Checking dlib v0.5.3 [INFO] [stderr] Compiling rayon-core v1.13.0 [INFO] [stderr] Checking weezl v0.1.12 [INFO] [stderr] Checking foldhash v0.1.5 [INFO] [stderr] Checking is_terminal_polyfill v1.70.2 [INFO] [stderr] Compiling getrandom v0.2.17 [INFO] [stderr] Checking winnow v1.0.4 [INFO] [stderr] Checking anstyle-query v1.1.5 [INFO] [stderr] Checking plotters-backend v0.3.7 [INFO] [stderr] Checking colorchoice v1.0.5 [INFO] [stderr] Checking hashbrown v0.14.5 [INFO] [stderr] Compiling font-kit v0.14.3 [INFO] [stderr] Compiling thiserror v2.0.19 [INFO] [stderr] Checking jpeg-decoder v0.3.2 [INFO] [stderr] Compiling const-random-macro v0.1.16 [INFO] [stderr] Checking typenum v1.20.1 [INFO] [stderr] Compiling serde_json v1.0.151 [INFO] [stderr] Checking num-complex v0.4.6 [INFO] [stderr] Checking num-integer v0.1.46 [INFO] [stderr] Checking approx v0.5.1 [INFO] [stderr] Checking const-random v0.1.18 [INFO] [stderr] Compiling pest_meta v2.8.7 [INFO] [stderr] Checking anstyle v1.0.14 [INFO] [stderr] Checking dlv-list v0.5.2 [INFO] [stderr] Checking regex-automata v0.4.16 [INFO] [stderr] Checking num-rational v0.4.2 [INFO] [stderr] Checking log v0.4.33 [INFO] [stderr] Checking either v1.16.0 [INFO] [stderr] Checking anstream v1.0.0 [INFO] [stderr] Compiling freetype-sys v0.20.1 [INFO] [stderr] Checking pathfinder_geometry v0.5.1 [INFO] [stderr] Checking indexmap v2.14.0 [INFO] [stderr] Checking ordered-multimap v0.7.3 [INFO] [stderr] Checking simba v0.9.1 [INFO] [stderr] Checking chacha20 v0.10.1 [INFO] [stderr] Checking hashlink v0.11.1 [INFO] [stderr] Checking gif v0.12.0 [INFO] [stderr] Checking image v0.24.9 [INFO] [stderr] Checking hashbrown v0.15.5 [INFO] [stderr] Checking dirs v6.0.0 [INFO] [stderr] Checking toml_parser v1.1.2+spec-1.1.0 [INFO] [stderr] Checking csv-core v0.1.13 [INFO] [stderr] Compiling anyhow v1.0.104 [INFO] [stderr] Checking unicode-segmentation v1.13.3 [INFO] [stderr] Checking arraydeque v0.5.1 [INFO] [stderr] Checking unicode-ident v1.0.24 [INFO] [stderr] Checking clap_lex v1.1.0 [INFO] [stderr] Checking fixedbitset v0.5.7 [INFO] [stderr] Checking bit-vec v0.9.1 [INFO] [stderr] Checking float-ord v0.3.2 [INFO] [stderr] Checking yaml-rust2 v0.11.0 [INFO] [stderr] Checking chrono v0.4.45 [INFO] [stderr] Checking petgraph v0.8.3 [INFO] [stderr] Checking bit-set v0.10.0 [INFO] [stderr] Checking clap_builder v4.6.2 [INFO] [stderr] Checking convert_case v0.6.0 [INFO] [stderr] Checking rand v0.10.2 [INFO] [stderr] Checking rust-ini v0.21.3 [INFO] [stderr] Checking bitflags v2.13.1 [INFO] [stderr] Checking toml_datetime v1.1.1+spec-1.1.0 [INFO] [stderr] Checking serde_spanned v1.1.1 [INFO] [stderr] Checking csv v1.4.0 [INFO] [stderr] Checking toml v1.1.3+spec-1.1.0 [INFO] [stderr] Checking ndarray v0.16.1 [INFO] [stderr] Checking regex v1.13.1 [INFO] [stderr] Checking itertools v0.15.0 [INFO] [stderr] Checking itertools-num v0.1.3 [INFO] [stderr] Checking ordered-float v5.3.0 [INFO] [stderr] Checking plotters-svg v0.3.7 [INFO] [stderr] Checking fxhash v0.2.1 [INFO] [stderr] Checking pathdiff v0.2.3 [INFO] [stderr] Checking plotters-bitmap v0.3.7 [INFO] [stderr] Checking editdistancek v1.0.2 [INFO] [stderr] Checking custom_derive v0.1.7 [INFO] [stderr] Checking triple_accel v0.4.0 [INFO] [stderr] Checking serde-untagged v0.1.9 [INFO] [stderr] Checking strum v0.26.3 [INFO] [stderr] Checking ttf-parser v0.20.0 [INFO] [stderr] Checking bytecount v0.6.9 [INFO] [stderr] Checking rand_distr v0.6.0 [INFO] [stderr] Checking rayon v1.12.0 [INFO] [stderr] Checking colored v3.1.1 [INFO] [stderr] Compiling pest_generator v2.8.7 [INFO] [stderr] Compiling derefable v0.1.0 [INFO] [stderr] Checking ppv-lite86 v0.2.21 [INFO] [stderr] Compiling serde_derive v1.0.229 [INFO] [stderr] Compiling thiserror-impl v2.0.19 [INFO] [stderr] Compiling async-trait v0.1.91 [INFO] [stderr] Checking rand_chacha v0.3.1 [INFO] [stderr] Checking rand_chacha v0.10.0 [INFO] [stderr] Compiling thiserror-impl v1.0.69 [INFO] [stderr] Compiling enum-map-derive v0.17.0 [INFO] [stderr] Compiling derive-new v0.6.0 [INFO] [stderr] Compiling strum_macros v0.26.4 [INFO] [stderr] Compiling getset v0.1.7 [INFO] [stderr] Compiling pest_derive v2.8.7 [INFO] [stderr] Compiling clap_derive v4.6.3 [INFO] [stderr] Checking rand v0.8.7 [INFO] [stderr] Checking enum-map v2.7.3 [INFO] [stderr] Checking plotters v0.3.7 [INFO] [stderr] Checking rand_distr v0.4.3 [INFO] [stderr] Checking clap v4.6.3 [INFO] [stderr] Checking bio-types v1.0.4 [INFO] [stderr] Checking nalgebra v0.33.3 [INFO] [stderr] Checking json5 v0.4.1 [INFO] [stderr] Checking ron v0.12.2 [INFO] [stderr] Checking multimap v0.10.1 [INFO] [stderr] Checking vec_map v0.8.2 [INFO] [stderr] Checking config v0.15.25 [INFO] [stderr] Checking statrs v0.18.0 [INFO] [stderr] Checking bio v4.0.1 [INFO] [stderr] Documenting virust-splicing v0.3.1 (/opt/rustwide/workdir) [INFO] [stderr] Checking virust-splicing v0.3.1 (/opt/rustwide/workdir) [INFO] [stderr] Finished `dev` profile [unoptimized + debuginfo] target(s) in 34.36s [INFO] [stderr] Generated /opt/rustwide/target/doc/virust_splicing/index.html and 2 other files [INFO] running `Command { std: "docker" "inspect" "82b40a2a5ca8d7ea77dc0ef399e83176312f57ca00aacf9b4b0c66e8c06d0154", kill_on_drop: false }` [INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-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" "RUSTC_BOOTSTRAP=1" "-e" "DOCS_RS=1" "-w" "/opt/rustwide/workdir" "--user" "0:0" "82b40a2a5ca8d7ea77dc0ef399e83176312f57ca00aacf9b4b0c66e8c06d0154" "/opt/rustwide/cargo-home/bin/cargo" "+1.99.0-beta.8" "rustdoc" "--lib" "-Zrustdoc-map" "--config" "build.rustdocflags=[\"--cfg\", \"docsrs\", \"-Z\", \"unstable-options\", \"--document-private-items\"]" "--frozen" "--message-format=json", kill_on_drop: false }` [INFO] [stderr] Compiling proc-macro2 v1.0.107 [INFO] [stderr] Compiling thiserror v1.0.69 [INFO] [stderr] Compiling thiserror v2.0.19 [INFO] [stderr] Compiling anyhow v1.0.104 [INFO] [stderr] Compiling quote v1.0.47 [INFO] [stderr] Compiling syn v2.0.119 [INFO] [stderr] Compiling syn v3.0.2 [INFO] [stderr] Compiling pest_generator v2.8.7 [INFO] [stderr] Compiling serde_derive v1.0.229 [INFO] [stderr] Compiling thiserror-impl v2.0.19 [INFO] [stderr] Compiling async-trait v0.1.91 [INFO] [stderr] Compiling thiserror-impl v1.0.69 [INFO] [stderr] Compiling enum-map-derive v0.17.0 [INFO] [stderr] Compiling strum_macros v0.26.4 [INFO] [stderr] Compiling pest_derive v2.8.7 [INFO] [stderr] Compiling derive-new v0.6.0 [INFO] [stderr] Compiling clap_derive v4.6.3 [INFO] [stderr] Compiling getset v0.1.7 [INFO] [stderr] Checking enum-map v2.7.3 [INFO] [stderr] Checking bio-types v1.0.4 [INFO] [stderr] Checking clap v4.6.3 [INFO] [stderr] Checking serde v1.0.229 [INFO] [stderr] Checking multimap v0.10.1 [INFO] [stderr] Checking ron v0.12.2 [INFO] [stderr] Checking bv v0.11.1 [INFO] [stderr] Checking vec_map v0.8.2 [INFO] [stderr] Checking json5 v0.4.1 [INFO] [stderr] Checking bio v4.0.1 [INFO] [stderr] Checking config v0.15.25 [INFO] [stderr] Documenting virust-splicing v0.3.1 (/opt/rustwide/workdir) [INFO] [stderr] Finished `dev` profile [unoptimized + debuginfo] target(s) in 15.49s [INFO] [stderr] Generated /opt/rustwide/target/doc/virust_splicing/index.html [INFO] running `Command { std: "docker" "inspect" "82b40a2a5ca8d7ea77dc0ef399e83176312f57ca00aacf9b4b0c66e8c06d0154", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "82b40a2a5ca8d7ea77dc0ef399e83176312f57ca00aacf9b4b0c66e8c06d0154", kill_on_drop: false }` [INFO] [stdout] 82b40a2a5ca8d7ea77dc0ef399e83176312f57ca00aacf9b4b0c66e8c06d0154