[INFO] cloning repository https://github.com/Clinical-Genomics/scout_loader
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/Clinical-Genomics/scout_loader" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FClinical-Genomics%2Fscout_loader", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FClinical-Genomics%2Fscout_loader'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] fe1803f38031d83e374dd1b272319828815080c1
[INFO] checking Clinical-Genomics/scout_loader against master#df1ae0f7dd168513de2d89beb2cb7a95d4fdc118 for pr-159343
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FClinical-Genomics%2Fscout_loader" "/workspace/builds/worker-0-tc1/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-0-tc1/source'...
[INFO] [stderr] done.
[INFO] started tweaking git repo https://github.com/Clinical-Genomics/scout_loader
[INFO] finished tweaking git repo https://github.com/Clinical-Genomics/scout_loader
[INFO] tweaked toml for git repo https://github.com/Clinical-Genomics/scout_loader written to /workspace/builds/worker-0-tc1/source/Cargo.toml
[INFO] validating manifest of git repo https://github.com/Clinical-Genomics/scout_loader on toolchain df1ae0f7dd168513de2d89beb2cb7a95d4fdc118
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+df1ae0f7dd168513de2d89beb2cb7a95d4fdc118" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] crate git repo https://github.com/Clinical-Genomics/scout_loader 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" "+df1ae0f7dd168513de2d89beb2cb7a95d4fdc118" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Updating crates.io index
[INFO] [stderr]  Downloading crates ...
[INFO] [stderr]   Downloaded newtype_derive v0.1.6
[INFO] [stderr]   Downloaded semver v0.1.20
[INFO] [stderr]   Downloaded rustc_version v0.1.7
[INFO] [stderr]   Downloaded linear-map v1.2.0
[INFO] [stderr]   Downloaded fs-utils v1.1.4
[INFO] [stderr]   Downloaded derive-new v0.6.0
[INFO] [stderr]   Downloaded bio-types v1.0.4
[INFO] [stderr]   Downloaded rust-htslib v1.0.1
[INFO] [stderr]   Downloaded bson v2.15.0
[INFO] [stderr]   Downloaded libz-sys v1.1.29
[INFO] [stderr]   Downloaded mongodb v2.8.2
[INFO] [stderr]   Downloaded curl-sys v0.4.90+curl-8.21.0
[INFO] [stderr]   Downloaded hts-sys v2.2.0
[INFO] [stderr]   Downloaded openssl-src v300.6.1+3.6.3
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-tc1/source:/opt/rustwide/workdir:ro,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-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@sha256:3d5ced03c013a94a2f102a4510f48a6e9184255caf5fd8244f58017bde7f5210" "sleep" "infinity", kill_on_drop: false }`
[INFO] [stdout] bb2b3a7d9ec58f85a5a81783a2bbe069c86d26197e5d3bf0dece18468d778c37
[INFO] running `Command { std: "docker" "start" "bb2b3a7d9ec58f85a5a81783a2bbe069c86d26197e5d3bf0dece18468d778c37", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "bb2b3a7d9ec58f85a5a81783a2bbe069c86d26197e5d3bf0dece18468d778c37", 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" "bb2b3a7d9ec58f85a5a81783a2bbe069c86d26197e5d3bf0dece18468d778c37" "/opt/rustwide/cargo-home/bin/cargo" "+df1ae0f7dd168513de2d89beb2cb7a95d4fdc118" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "bb2b3a7d9ec58f85a5a81783a2bbe069c86d26197e5d3bf0dece18468d778c37", 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=forbid" "-e" "RUSTDOCFLAGS=--cap-lints=forbid" "-w" "/opt/rustwide/workdir" "--user" "0:0" "bb2b3a7d9ec58f85a5a81783a2bbe069c86d26197e5d3bf0dece18468d778c37" "/opt/rustwide/cargo-home/bin/cargo" "+df1ae0f7dd168513de2d89beb2cb7a95d4fdc118" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }`
[INFO] [stderr]    Compiling syn v1.0.109
[INFO] [stderr]     Checking memchr v2.8.3
[INFO] [stderr]    Compiling zerocopy v0.8.54
[INFO] [stderr]     Checking smallvec v1.15.2
[INFO] [stderr]     Checking typenum v1.20.1
[INFO] [stderr]    Compiling clang-sys v1.8.1
[INFO] [stderr]    Compiling syn v2.0.118
[INFO] [stderr]    Compiling jobserver v0.1.35
[INFO] [stderr]    Compiling regex-syntax v0.8.11
[INFO] [stderr]     Checking mio v1.2.2
[INFO] [stderr]     Checking tinyvec v1.12.0
[INFO] [stderr]     Checking getrandom v0.3.4
[INFO] [stderr]     Checking socket2 v0.6.5
[INFO] [stderr]    Compiling either v1.16.0
[INFO] [stderr]    Compiling bindgen v0.69.5
[INFO] [stderr]    Compiling semver-parser v0.7.0
[INFO] [stderr]     Checking form_urlencoded v1.2.2
[INFO] [stderr]    Compiling cc v1.2.66
[INFO] [stderr]    Compiling itertools v0.12.1
[INFO] [stderr]     Checking log v0.4.33
[INFO] [stderr]    Compiling semver v0.9.0
[INFO] [stderr]    Compiling semver v0.1.20
[INFO] [stderr]     Checking unicode-normalization v0.1.25
[INFO] [stderr]    Compiling bitflags v2.13.0
[INFO] [stderr]    Compiling radium v0.7.0
[INFO] [stderr]    Compiling rustversion v1.0.23
[INFO] [stderr]    Compiling quick-error v1.2.3
[INFO] [stderr]    Compiling getrandom v0.4.3
[INFO] [stderr]    Compiling lazy_static v1.5.0
[INFO] [stderr]    Compiling zmij v1.0.23
[INFO] [stderr]    Compiling nom v7.1.3
[INFO] [stderr]     Checking slab v0.4.12
[INFO] [stderr]    Compiling lazycell v1.3.0
[INFO] [stderr]     Checking generic-array v0.14.7
[INFO] [stderr]    Compiling rustc_version v0.2.3
[INFO] [stderr]    Compiling fs-utils v1.1.4
[INFO] [stderr]     Checking aho-corasick v1.1.4
[INFO] [stderr]    Compiling rustc_version v0.1.7
[INFO] [stderr]    Compiling num-traits v0.2.19
[INFO] [stderr]     Checking rand_core v0.9.5
[INFO] [stderr]    Compiling rustls v0.21.12
[INFO] [stderr]    Compiling regex-automata v0.4.15
[INFO] [stderr]     Checking block-buffer v0.10.4
[INFO] [stderr]     Checking crypto-common v0.1.7
[INFO] [stderr]    Compiling serde_json v1.0.150
[INFO] [stderr]     Checking idna v0.2.3
[INFO] [stderr]    Compiling newtype_derive v0.1.6
[INFO] [stderr]     Checking digest v0.10.7
[INFO] [stderr]    Compiling time-macros v0.2.31
[INFO] [stderr]     Checking anstyle-parse v1.0.0
[INFO] [stderr]     Checking wyz v0.5.1
[INFO] [stderr]    Compiling rustc_version_runtime v0.2.1
[INFO] [stderr]     Checking parking_lot_core v0.9.12
[INFO] [stderr]    Compiling openssl-src v300.6.1+3.6.3
[INFO] [stderr]    Compiling cmake v0.1.58
[INFO] [stderr]     Checking futures-channel v0.3.32
[INFO] [stderr]     Checking deranged v0.5.8
[INFO] [stderr]     Checking data-encoding v2.11.0
[INFO] [stderr]     Checking funty v2.0.0
[INFO] [stderr]     Checking time-core v0.1.9
[INFO] [stderr]     Checking colorchoice v1.0.5
[INFO] [stderr]     Checking anstyle v1.0.14
[INFO] [stderr]     Checking parking_lot v0.12.5
[INFO] [stderr]     Checking anstream v1.0.0
[INFO] [stderr]     Checking uuid v1.24.0
[INFO] [stderr]     Checking simd-adler32 v0.3.10
[INFO] [stderr]     Checking resolv-conf v0.7.6
[INFO] [stderr]     Checking bitvec v1.1.1
[INFO] [stderr]     Checking clap_lex v1.1.0
[INFO] [stderr]     Checking unicode-properties v0.1.4
[INFO] [stderr]     Checking clap_builder v4.6.0
[INFO] [stderr]     Checking miniz_oxide v0.8.9
[INFO] [stderr]    Compiling ring v0.17.14
[INFO] [stderr]    Compiling openssl-sys v0.9.117
[INFO] [stderr]    Compiling libz-sys v1.1.29
[INFO] [stderr]    Compiling regex v1.13.0
[INFO] [stderr]    Compiling cexpr v0.6.0
[INFO] [stderr]    Compiling lzma-sys v0.1.20
[INFO] [stderr]    Compiling bzip2-sys v0.1.13+1.0.8
[INFO] [stderr]    Compiling curl-sys v0.4.90+curl-8.21.0
[INFO] [stderr]     Checking time v0.3.53
[INFO] [stderr]     Checking chrono v0.4.45
[INFO] [stderr]     Checking stringprep v0.1.5
[INFO] [stderr]     Checking sha-1 v0.10.1
[INFO] [stderr]     Checking sha2 v0.10.9
[INFO] [stderr]     Checking hmac v0.12.1
[INFO] [stderr]     Checking md-5 v0.10.6
[INFO] [stderr]     Checking pbkdf2 v0.11.0
[INFO] [stderr]     Checking socket2 v0.4.10
[INFO] [stderr]     Checking ieee754 v0.2.6
[INFO] [stderr]     Checking webpki-roots v0.25.4
[INFO] [stderr]     Checking strsim v0.10.0
[INFO] [stderr]     Checking custom_derive v0.1.7
[INFO] [stderr]     Checking linear-map v1.2.0
[INFO] [stderr]     Checking flate2 v1.1.9
[INFO] [stderr]     Checking md5 v0.7.0
[INFO] [stderr]    Compiling synstructure v0.13.2
[INFO] [stderr]     Checking ppv-lite86 v0.2.21
[INFO] [stderr]     Checking ahash v0.8.12
[INFO] [stderr]    Compiling zerofrom-derive v0.1.7
[INFO] [stderr]    Compiling yoke-derive v0.8.2
[INFO] [stderr]    Compiling zerovec-derive v0.11.3
[INFO] [stderr]    Compiling displaydoc v0.2.6
[INFO] [stderr]    Compiling tokio-macros v2.7.0
[INFO] [stderr]    Compiling thiserror-impl v1.0.69
[INFO] [stderr]    Compiling darling_core v0.13.4
[INFO] [stderr]    Compiling futures-macro v0.3.32
[INFO] [stderr]     Checking rand_chacha v0.3.1
[INFO] [stderr]    Compiling serde_derive v1.0.228
[INFO] [stderr]     Checking rand v0.8.7
[INFO] [stderr]     Checking rand_chacha v0.9.0
[INFO] [stderr]    Compiling async-trait v0.1.89
[INFO] [stderr]    Compiling thiserror-impl v2.0.18
[INFO] [stderr]     Checking tokio v1.52.3
[INFO] [stderr]     Checking rand v0.9.5
[INFO] [stderr]     Checking futures-util v0.3.32
[INFO] [stderr]    Compiling strum_macros v0.26.4
[INFO] [stderr]    Compiling derive-new v0.6.0
[INFO] [stderr]    Compiling clap_derive v4.6.1
[INFO] [stderr]     Checking zerofrom v0.1.8
[INFO] [stderr]     Checking yoke v0.8.3
[INFO] [stderr]    Compiling derive_more v0.99.20
[INFO] [stderr]     Checking thiserror v1.0.69
[INFO] [stderr]     Checking rustls-webpki v0.101.7
[INFO] [stderr]     Checking sct v0.7.1
[INFO] [stderr]    Compiling derive-new v0.7.0
[INFO] [stderr]     Checking zerovec v0.11.6
[INFO] [stderr]     Checking zerotrie v0.2.4
[INFO] [stderr]    Compiling enum-as-inner v0.4.0
[INFO] [stderr]    Compiling typed-builder v0.10.0
[INFO] [stderr]    Compiling derivative v2.2.0
[INFO] [stderr]     Checking thiserror v2.0.18
[INFO] [stderr]     Checking tinystr v0.8.3
[INFO] [stderr]     Checking potential_utf v0.1.5
[INFO] [stderr]     Checking icu_collections v2.2.0
[INFO] [stderr]     Checking icu_locale_core v2.2.0
[INFO] [stderr]    Compiling darling_macro v0.13.4
[INFO] [stderr]     Checking clap v4.6.1
[INFO] [stderr]    Compiling darling v0.13.4
[INFO] [stderr]     Checking bio-types v1.0.4
[INFO] [stderr]    Compiling serde_with_macros v1.5.2
[INFO] [stderr]     Checking futures-executor v0.3.32
[INFO] [stderr]     Checking serde v1.0.228
[INFO] [stderr]     Checking icu_provider v2.2.0
[INFO] [stderr]     Checking icu_properties v2.2.0
[INFO] [stderr]     Checking icu_normalizer v2.2.0
[INFO] [stderr]     Checking bson v2.15.0
[INFO] [stderr]     Checking serde_with v1.14.0
[INFO] [stderr]    Compiling hts-sys v2.2.0
[INFO] [stderr]     Checking idna_adapter v1.2.2
[INFO] [stderr]     Checking idna v1.1.0
[INFO] [stderr]     Checking url v2.5.8
[INFO] [stderr]     Checking tokio-rustls v0.24.1
[INFO] [stderr]     Checking tokio-util v0.7.18
[INFO] [stderr]     Checking trust-dns-proto v0.21.2
[INFO] [stderr]     Checking trust-dns-resolver v0.21.2
[INFO] [stderr]     Checking mongodb v2.8.2
[INFO] [stderr]     Checking rust-htslib v1.0.1
[INFO] [stderr]     Checking scout_loader v0.1.0 (/opt/rustwide/workdir)
[INFO] [stdout] warning: unused import: `doc`
[INFO] [stdout]  --> src/parse/meis.rs:1:21
[INFO] [stdout]   |
[INFO] [stdout] 1 | use mongodb::bson::{doc, Document};
[INFO] [stdout]   |                     ^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `doc`
[INFO] [stdout]  --> src/parse/meis.rs:1:21
[INFO] [stdout]   |
[INFO] [stdout] 1 | use mongodb::bson::{doc, Document};
[INFO] [stdout]   |                     ^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable does not need to be mutable
[INFO] [stdout]    --> src/parse/coordinates.rs:113:9
[INFO] [stdout]     |
[INFO] [stdout] 113 |     let mut end_chrom = chrom.clone();
[INFO] [stdout]     |         ----^^^^^^^^^
[INFO] [stdout]     |         |
[INFO] [stdout]     |         help: remove this `mut`
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(unused_mut)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable does not need to be mutable
[INFO] [stdout]    --> src/parse/coordinates.rs:113:9
[INFO] [stdout]     |
[INFO] [stdout] 113 |     let mut end_chrom = chrom.clone();
[INFO] [stdout]     |         ----^^^^^^^^^
[INFO] [stdout]     |         |
[INFO] [stdout]     |         help: remove this `mut`
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(unused_mut)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]     Finished `dev` profile [unoptimized + debuginfo] target(s) in 3m 50s
[INFO] running `Command { std: "docker" "inspect" "bb2b3a7d9ec58f85a5a81783a2bbe069c86d26197e5d3bf0dece18468d778c37", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "bb2b3a7d9ec58f85a5a81783a2bbe069c86d26197e5d3bf0dece18468d778c37", kill_on_drop: false }`
[INFO] [stdout] bb2b3a7d9ec58f85a5a81783a2bbe069c86d26197e5d3bf0dece18468d778c37
