[INFO] cloning repository https://github.com/alevar/sam2gtf
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/alevar/sam2gtf" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Falevar%2Fsam2gtf", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Falevar%2Fsam2gtf'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] 2ddec7e23ae2f6ae3a9e6fd9ced47aa5dc81c4e7
[INFO] checking alevar/sam2gtf against master#08cd08fbef8c6663b052d8d9e4930d5696cbb8a7 for 150662-leaf-spurious
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Falevar%2Fsam2gtf" "/workspace/builds/worker-3-tc1/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-3-tc1/source'...
[INFO] [stderr] done.
[INFO] started tweaking git repo https://github.com/alevar/sam2gtf
[INFO] finished tweaking git repo https://github.com/alevar/sam2gtf
[INFO] tweaked toml for git repo https://github.com/alevar/sam2gtf written to /workspace/builds/worker-3-tc1/source/Cargo.toml
[INFO] validating manifest of git repo https://github.com/alevar/sam2gtf on toolchain 08cd08fbef8c6663b052d8d9e4930d5696cbb8a7
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+08cd08fbef8c6663b052d8d9e4930d5696cbb8a7" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] crate git repo https://github.com/alevar/sam2gtf 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" "+08cd08fbef8c6663b052d8d9e4930d5696cbb8a7" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Updating crates.io index
[INFO] [stderr]     Blocking waiting for file lock on package cache
[INFO] [stderr]  Downloading crates ...
[INFO] [stderr]   Downloaded percent-encoding v2.3.1
[INFO] [stderr]   Downloaded url v2.5.2
[INFO] [stderr]   Downloaded lazy_static v1.5.0
[INFO] [stderr]   Downloaded thiserror-impl v1.0.63
[INFO] [stderr]   Downloaded unicode-normalization v0.1.24
[INFO] [stderr]   Downloaded anstyle-query v1.1.1
[INFO] [stderr]   Downloaded ieee754 v0.2.6
[INFO] [stderr]   Downloaded newtype_derive v0.1.6
[INFO] [stderr]   Downloaded is_terminal_polyfill v1.70.1
[INFO] [stderr]   Downloaded clap_lex v0.7.2
[INFO] [stderr]   Downloaded anstyle-wincon v3.0.4
[INFO] [stderr]   Downloaded derive-new v0.6.0
[INFO] [stderr]   Downloaded anstream v0.6.15
[INFO] [stderr]   Downloaded anstyle-parse v0.2.5
[INFO] [stderr]   Downloaded quote v1.0.37
[INFO] [stderr]   Downloaded tinyvec v1.8.0
[INFO] [stderr]   Downloaded proc-macro2 v1.0.86
[INFO] [stderr]   Downloaded clap v4.5.18
[INFO] [stderr]   Downloaded openssl-sys v0.9.103
[INFO] [stderr]   Downloaded rust-htslib v0.44.1
[INFO] [stderr]   Downloaded memchr v2.7.4
[INFO] [stderr]   Downloaded cc v1.1.21
[INFO] [stderr]   Downloaded clap_builder v4.5.18
[INFO] [stderr]   Downloaded aho-corasick v1.1.3
[INFO] [stderr]   Downloaded unicode-ident v1.0.13
[INFO] [stderr]   Downloaded idna v0.5.0
[INFO] [stderr]   Downloaded vcpkg v0.2.15
[INFO] [stderr]   Downloaded syn v1.0.109
[INFO] [stderr]   Downloaded regex v1.10.6
[INFO] [stderr]   Downloaded syn v2.0.77
[INFO] [stderr]   Downloaded unicode-bidi v0.3.15
[INFO] [stderr]   Downloaded thiserror v1.0.63
[INFO] [stderr]   Downloaded rustversion v1.0.17
[INFO] [stderr]   Downloaded strum_macros v0.26.4
[INFO] [stderr]   Downloaded regex-syntax v0.8.4
[INFO] [stderr]   Downloaded bio-types v1.0.4
[INFO] [stderr]   Downloaded windows_x86_64_gnullvm v0.52.6
[INFO] [stderr]   Downloaded windows_aarch64_gnullvm v0.52.6
[INFO] [stderr]   Downloaded windows_i686_gnullvm v0.52.6
[INFO] [stderr]   Downloaded byteorder v1.5.0
[INFO] [stderr]   Downloaded glob v0.3.1
[INFO] [stderr]   Downloaded cmake v0.1.51
[INFO] [stderr]   Downloaded jobserver v0.1.32
[INFO] [stderr]   Downloaded linear-map v1.2.0
[INFO] [stderr]   Downloaded pkg-config v0.3.30
[INFO] [stderr]   Downloaded semver v0.1.20
[INFO] [stderr]   Downloaded rustc_version v0.1.7
[INFO] [stderr]   Downloaded bzip2-sys v0.1.11+1.0.8
[INFO] [stderr]   Downloaded regex-automata v0.4.7
[INFO] [stderr]   Downloaded colorchoice v1.0.2
[INFO] [stderr]   Downloaded anstyle v1.0.8
[INFO] [stderr]   Downloaded custom_derive v0.1.7
[INFO] [stderr]   Downloaded derive-new v0.5.9
[INFO] [stderr]   Downloaded windows-targets v0.52.6
[INFO] [stderr]   Downloaded libc v0.2.158
[INFO] [stderr]   Downloaded quick-error v1.2.3
[INFO] [stderr]   Downloaded windows_aarch64_msvc v0.52.6
[INFO] [stderr]   Downloaded fs-utils v1.1.4
[INFO] [stderr]   Downloaded windows_x86_64_gnu v0.52.6
[INFO] [stderr]   Downloaded windows_x86_64_msvc v0.52.6
[INFO] [stderr]   Downloaded windows_i686_msvc v0.52.6
[INFO] [stderr]   Downloaded libz-sys v1.1.20
[INFO] [stderr]   Downloaded windows_i686_gnu v0.52.6
[INFO] [stderr]   Downloaded form_urlencoded v1.2.1
[INFO] [stderr]   Downloaded curl-sys v0.4.76+curl-8.10.1
[INFO] [stderr]   Downloaded windows-sys v0.52.0
[INFO] [stderr]   Downloaded hts-sys v2.1.4
[INFO] [stderr]   Downloaded openssl-src v300.3.2+3.3.2
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-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:d429b63d4308055ea97f60fb1d3dfca48854a00942f1bd2ad806beaf015945ec" "/opt/rustwide/cargo-home/bin/cargo" "+08cd08fbef8c6663b052d8d9e4930d5696cbb8a7" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] 4bc04f9f5f6bfe338c463c0bd7030953e0e711a87584fe1761b7d54cd96e8e10
[INFO] running `Command { std: "docker" "start" "-a" "4bc04f9f5f6bfe338c463c0bd7030953e0e711a87584fe1761b7d54cd96e8e10", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "4bc04f9f5f6bfe338c463c0bd7030953e0e711a87584fe1761b7d54cd96e8e10", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "4bc04f9f5f6bfe338c463c0bd7030953e0e711a87584fe1761b7d54cd96e8e10", kill_on_drop: false }`
[INFO] [stdout] 4bc04f9f5f6bfe338c463c0bd7030953e0e711a87584fe1761b7d54cd96e8e10
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3-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:d429b63d4308055ea97f60fb1d3dfca48854a00942f1bd2ad806beaf015945ec" "/opt/rustwide/cargo-home/bin/cargo" "+08cd08fbef8c6663b052d8d9e4930d5696cbb8a7" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] 71a84fb1e341e7064b14f1c342014c7a22a1fa5ee8588b41f0eee1ef0e3306f8
[INFO] running `Command { std: "docker" "start" "-a" "71a84fb1e341e7064b14f1c342014c7a22a1fa5ee8588b41f0eee1ef0e3306f8", kill_on_drop: false }`
[INFO] [stderr]    Compiling libc v0.2.158
[INFO] [stderr]    Compiling shlex v1.3.0
[INFO] [stderr]    Compiling pkg-config v0.3.30
[INFO] [stderr]    Compiling proc-macro2 v1.0.86
[INFO] [stderr]    Compiling vcpkg v0.2.15
[INFO] [stderr]    Compiling unicode-ident v1.0.13
[INFO] [stderr]    Compiling quick-error v1.2.3
[INFO] [stderr]     Checking memchr v2.7.4
[INFO] [stderr]    Compiling semver v0.1.20
[INFO] [stderr]     Checking tinyvec_macros v0.1.1
[INFO] [stderr]    Compiling rustversion v1.0.17
[INFO] [stderr]    Compiling glob v0.3.1
[INFO] [stderr]    Compiling syn v1.0.109
[INFO] [stderr]     Checking regex-syntax v0.8.4
[INFO] [stderr]     Checking utf8parse v0.2.2
[INFO] [stderr]    Compiling thiserror v1.0.63
[INFO] [stderr]     Checking tinyvec v1.8.0
[INFO] [stderr]    Compiling fs-utils v1.1.4
[INFO] [stderr]    Compiling heck v0.5.0
[INFO] [stderr]     Checking anstyle-parse v0.2.5
[INFO] [stderr]    Compiling rustc_version v0.1.7
[INFO] [stderr]     Checking percent-encoding v2.3.1
[INFO] [stderr]     Checking anstyle-query v1.1.1
[INFO] [stderr]     Checking unicode-bidi v0.3.15
[INFO] [stderr]     Checking is_terminal_polyfill v1.70.1
[INFO] [stderr]     Checking colorchoice v1.0.2
[INFO] [stderr]     Checking anstyle v1.0.8
[INFO] [stderr]     Checking lazy_static v1.5.0
[INFO] [stderr]     Checking strsim v0.11.1
[INFO] [stderr]     Checking form_urlencoded v1.2.1
[INFO] [stderr]    Compiling newtype_derive v0.1.6
[INFO] [stderr]     Checking clap_lex v0.7.2
[INFO] [stderr]     Checking linear-map v1.2.0
[INFO] [stderr]     Checking byteorder v1.5.0
[INFO] [stderr]     Checking aho-corasick v1.1.3
[INFO] [stderr]     Checking ieee754 v0.2.6
[INFO] [stderr]     Checking anstream v0.6.15
[INFO] [stderr]     Checking custom_derive v0.1.7
[INFO] [stderr]     Checking clap_builder v4.5.18
[INFO] [stderr]    Compiling quote v1.0.37
[INFO] [stderr]     Checking unicode-normalization v0.1.24
[INFO] [stderr]    Compiling jobserver v0.1.32
[INFO] [stderr]    Compiling syn v2.0.77
[INFO] [stderr]    Compiling cc v1.1.21
[INFO] [stderr]     Checking idna v0.5.0
[INFO] [stderr]     Checking regex-automata v0.4.7
[INFO] [stderr]     Checking url v2.5.2
[INFO] [stderr]    Compiling openssl-src v300.3.2+3.3.2
[INFO] [stderr]    Compiling cmake v0.1.51
[INFO] [stderr]    Compiling openssl-sys v0.9.103
[INFO] [stderr]    Compiling bzip2-sys v0.1.11+1.0.8
[INFO] [stderr]    Compiling lzma-sys v0.1.20
[INFO] [stderr]    Compiling curl-sys v0.4.76+curl-8.10.1
[INFO] [stderr]    Compiling hts-sys v2.1.4
[INFO] [stderr]    Compiling libz-sys v1.1.20
[INFO] [stderr]     Checking clap v4.5.18
[INFO] [stderr]    Compiling derive-new v0.5.9
[INFO] [stderr]     Checking regex v1.10.6
[INFO] [stderr]    Compiling thiserror-impl v1.0.63
[INFO] [stderr]    Compiling derive-new v0.6.0
[INFO] [stderr]    Compiling strum_macros v0.26.4
[INFO] [stderr]     Checking bio-types v1.0.4
[INFO] [stderr]     Checking rust-htslib v0.44.1
[INFO] [stderr]     Checking sam2gtf v0.1.0 (/opt/rustwide/workdir)
[INFO] [stderr]     Finished `dev` profile [unoptimized + debuginfo] target(s) in 2m 39s
[INFO] running `Command { std: "docker" "inspect" "71a84fb1e341e7064b14f1c342014c7a22a1fa5ee8588b41f0eee1ef0e3306f8", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "71a84fb1e341e7064b14f1c342014c7a22a1fa5ee8588b41f0eee1ef0e3306f8", kill_on_drop: false }`
[INFO] [stdout] 71a84fb1e341e7064b14f1c342014c7a22a1fa5ee8588b41f0eee1ef0e3306f8