[INFO] cloning repository https://github.com/amsesk/protein2contig
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/amsesk/protein2contig" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Famsesk%2Fprotein2contig", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Famsesk%2Fprotein2contig'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] d2c1b32d69b4e995f0f4fa3bfc6735cd60222d8d
[INFO] checking amsesk/protein2contig against try#a7a572ce3edd6d476191fbfe92c9c1986e009b34 for pr-87190-3
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Famsesk%2Fprotein2contig" "/workspace/builds/worker-76/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-76/source'...
[INFO] [stderr] done.
[INFO] validating manifest of git repo https://github.com/amsesk/protein2contig on toolchain a7a572ce3edd6d476191fbfe92c9c1986e009b34
[INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+a7a572ce3edd6d476191fbfe92c9c1986e009b34" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] started tweaking git repo https://github.com/amsesk/protein2contig
[INFO] finished tweaking git repo https://github.com/amsesk/protein2contig
[INFO] tweaked toml for git repo https://github.com/amsesk/protein2contig written to /workspace/builds/worker-76/source/Cargo.toml
[INFO] crate git repo https://github.com/amsesk/protein2contig already has a lockfile, it will not be regenerated
[INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+a7a572ce3edd6d476191fbfe92c9c1986e009b34" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Blocking waiting for file lock on package cache
[INFO] [stderr]     Updating git repository `https://github.com/rust-bio/rust-bio`
[INFO] [stderr]     Blocking waiting for file lock on package cache
[INFO] [stderr]  Downloading crates ...
[INFO] [stderr]   Downloaded snafu-derive v0.6.8
[INFO] [stderr]   Downloaded bio-types v0.6.0
[INFO] [stderr]   Downloaded snafu v0.6.8
[INFO] [stderr]   Downloaded multimap v0.6.0
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-76/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-76/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@sha256:34b6a614d2c27851fe6cbf88fbd1137609cefab8b10d0615aaeb6fd47975d74e" "/opt/rustwide/cargo-home/bin/cargo" "+a7a572ce3edd6d476191fbfe92c9c1986e009b34" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] a6f870e5da262f63df957b35f6b3cc9f8ae6e86a90172fbc752563583d057042
[INFO] running `Command { std: "docker" "start" "-a" "a6f870e5da262f63df957b35f6b3cc9f8ae6e86a90172fbc752563583d057042", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "a6f870e5da262f63df957b35f6b3cc9f8ae6e86a90172fbc752563583d057042", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "a6f870e5da262f63df957b35f6b3cc9f8ae6e86a90172fbc752563583d057042", kill_on_drop: false }`
[INFO] [stdout] a6f870e5da262f63df957b35f6b3cc9f8ae6e86a90172fbc752563583d057042
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-76/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-76/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" "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@sha256:34b6a614d2c27851fe6cbf88fbd1137609cefab8b10d0615aaeb6fd47975d74e" "/opt/rustwide/cargo-home/bin/cargo" "+a7a572ce3edd6d476191fbfe92c9c1986e009b34" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] 25a3b8a59dc53af284a9ed866f2dbf31629e5c00f2397cff8b8194fb9c0bacbd
[INFO] running `Command { std: "docker" "start" "-a" "25a3b8a59dc53af284a9ed866f2dbf31629e5c00f2397cff8b8194fb9c0bacbd", kill_on_drop: false }`
[INFO] [stderr] Copying to /tmp/fixit
[INFO] [stderr] Running `cargo fix --edition`
[INFO] [stderr]     Blocking waiting for file lock on package cache
[INFO] [stderr]    Compiling proc-macro2 v1.0.12
[INFO] [stderr]    Compiling syn v1.0.20
[INFO] [stderr]    Compiling serde v1.0.110
[INFO] [stderr]    Compiling libc v0.2.70
[INFO] [stderr]    Compiling version_check v0.9.1
[INFO] [stderr]     Checking lazy_static v1.4.0
[INFO] [stderr]    Compiling semver v0.1.20
[INFO] [stderr]    Compiling unicode-segmentation v1.6.0
[INFO] [stderr]    Compiling doc-comment v0.3.3
[INFO] [stderr]    Compiling ryu v1.0.4
[INFO] [stderr]     Checking rawpointer v0.2.1
[INFO] [stderr]    Compiling ndarray v0.13.1
[INFO] [stderr]    Compiling bitflags v1.2.1
[INFO] [stderr]     Checking regex-syntax v0.6.17
[INFO] [stderr]    Compiling bio v0.30.1-alpha.0 (https://github.com/rust-bio/rust-bio#0fe46244)
[INFO] [stderr]     Checking bit-vec v0.6.2
[INFO] [stderr]     Checking ordermap v0.3.5
[INFO] [stderr]     Checking fixedbitset v0.1.9
[INFO] [stderr]     Checking either v1.5.3
[INFO] [stderr]     Checking custom_derive v0.1.7
[INFO] [stderr]     Checking os_str_bytes v2.3.1
[INFO] [stderr]     Checking bytecount v0.6.0
[INFO] [stderr]     Checking strum v0.18.0
[INFO] [stderr]     Checking strsim v0.10.0
[INFO] [stderr]    Compiling num-integer v0.1.42
[INFO] [stderr]    Compiling num-complex v0.2.4
[INFO] [stderr]    Compiling bv v0.11.1
[INFO] [stderr]    Compiling indexmap v1.3.2
[INFO] [stderr]     Checking num-traits v0.2.11
[INFO] [stderr]     Checking regex-automata v0.1.9
[INFO] [stderr]     Checking fxhash v0.2.1
[INFO] [stderr]     Checking itertools v0.9.0
[INFO] [stderr]     Checking thread_local v1.0.1
[INFO] [stderr]     Checking matrixmultiply v0.2.3
[INFO] [stderr]    Compiling rustc_version v0.1.7
[INFO] [stderr]     Checking bit-set v0.5.2
[INFO] [stderr]    Compiling heck v0.3.1
[INFO] [stderr]    Compiling proc-macro-error-attr v0.4.12
[INFO] [stderr]    Compiling proc-macro-error v0.4.12
[INFO] [stderr]     Checking petgraph v0.4.13
[INFO] [stderr]    Compiling newtype_derive v0.1.6
[INFO] [stderr]     Checking approx v0.3.2
[INFO] [stderr]     Checking ordered-float v1.0.2
[INFO] [stderr]     Checking itertools-num v0.1.3
[INFO] [stderr]    Compiling quote v1.0.4
[INFO] [stderr]     Checking getrandom v0.1.14
[INFO] [stderr]     Checking atty v0.2.14
[INFO] [stderr]     Checking rand_core v0.5.1
[INFO] [stderr]     Checking rand_chacha v0.2.2
[INFO] [stderr]     Checking rand v0.7.3
[INFO] [stderr]     Checking regex v1.3.7
[INFO] [stderr]     Checking statrs v0.12.0
[INFO] [stderr]    Compiling syn-mid v0.5.0
[INFO] [stderr]    Compiling serde_derive v1.0.110
[INFO] [stderr]    Compiling snafu-derive v0.6.8
[INFO] [stderr]    Compiling derive-new v0.5.8
[INFO] [stderr]    Compiling getset v0.0.9
[INFO] [stderr]    Compiling strum_macros v0.18.0
[INFO] [stderr]    Compiling clap_derive v3.0.0-beta.1
[INFO] [stderr]     Checking snafu v0.6.8
[INFO] [stderr]     Checking vec_map v0.8.2
[INFO] [stderr]     Checking bstr v0.2.13
[INFO] [stderr]     Checking bio-types v0.6.0
[INFO] [stderr]     Checking multimap v0.6.0
[INFO] [stderr]     Checking clap v3.0.0-beta.1
[INFO] [stderr]     Checking csv v1.1.3
[INFO] [stderr]     Checking protein2contig v0.1.0 (/tmp/fixit)
[INFO] [stderr]    Migrating src/lib.rs from 2018 edition to 2021
[INFO] [stderr]    Migrating src/main.rs from 2018 edition to 2021
[INFO] [stderr]     Finished dev [unoptimized + debuginfo] target(s) in 40.80s
[INFO] [stderr] Running `cargo check` to verify 2021
[INFO] [stderr]     Checking protein2contig v0.1.0 (/tmp/fixit)
[INFO] [stderr]     Finished dev [unoptimized + debuginfo] target(s) in 0.61s
[INFO] running `Command { std: "docker" "inspect" "25a3b8a59dc53af284a9ed866f2dbf31629e5c00f2397cff8b8194fb9c0bacbd", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "25a3b8a59dc53af284a9ed866f2dbf31629e5c00f2397cff8b8194fb9c0bacbd", kill_on_drop: false }`
[INFO] [stdout] 25a3b8a59dc53af284a9ed866f2dbf31629e5c00f2397cff8b8194fb9c0bacbd