[INFO] fetching crate rust-htslib 0.44.1...
[INFO] checking rust-htslib-0.44.1 against nightly-2024-02-05 for check-cfg
[INFO] extracting crate rust-htslib 0.44.1 into /workspace/builds/worker-5-tc1/source
[INFO] validating manifest of crates.io crate rust-htslib 0.44.1 on toolchain nightly-2024-02-05
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+nightly-2024-02-05" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] started tweaking crates.io crate rust-htslib 0.44.1
[INFO] finished tweaking crates.io crate rust-htslib 0.44.1
[INFO] tweaked toml for crates.io crate rust-htslib 0.44.1 written to /workspace/builds/worker-5-tc1/source/Cargo.toml
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+nightly-2024-02-05" "generate-lockfile" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Updating crates.io index
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+nightly-2024-02-05" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]  Downloading crates ...
[INFO] [stderr]   Downloaded bio-types v1.0.1
[INFO] [stderr]   Downloaded libdeflate-sys v0.7.5
[INFO] [stderr]   Downloaded hts-sys v2.1.1
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-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@sha256:2788e3201cd34a07e3172128adcd8b3090168a8e3bcc40d7c032b9dda1df7d1c" "/opt/rustwide/cargo-home/bin/cargo" "+nightly-2024-02-05" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] 8938333934bbc4e324ac2bce9027ae8be1a0e6009efe845e62cc898cb1d9ede2
[INFO] running `Command { std: "docker" "start" "-a" "8938333934bbc4e324ac2bce9027ae8be1a0e6009efe845e62cc898cb1d9ede2", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "8938333934bbc4e324ac2bce9027ae8be1a0e6009efe845e62cc898cb1d9ede2", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "8938333934bbc4e324ac2bce9027ae8be1a0e6009efe845e62cc898cb1d9ede2", kill_on_drop: false }`
[INFO] [stdout] 8938333934bbc4e324ac2bce9027ae8be1a0e6009efe845e62cc898cb1d9ede2
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-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@sha256:2788e3201cd34a07e3172128adcd8b3090168a8e3bcc40d7c032b9dda1df7d1c" "/opt/rustwide/cargo-home/bin/cargo" "+nightly-2024-02-05" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] 293c8820683adc3b31e89905dee9a3a5fa9e1fc6b8625aec8eaeb1bffc5c794a
[INFO] running `Command { std: "docker" "start" "-a" "293c8820683adc3b31e89905dee9a3a5fa9e1fc6b8625aec8eaeb1bffc5c794a", kill_on_drop: false }`
[INFO] [stderr]    Compiling rustversion v1.0.14
[INFO] [stderr]    Compiling quick-error v1.2.3
[INFO] [stderr]     Checking tinyvec_macros v0.1.1
[INFO] [stderr]     Checking memchr v2.7.1
[INFO] [stderr]    Compiling semver v0.1.20
[INFO] [stderr]    Compiling syn v1.0.109
[INFO] [stderr]     Checking regex-syntax v0.8.2
[INFO] [stderr]    Compiling serde v1.0.196
[INFO] [stderr]    Compiling glob v0.3.1
[INFO] [stderr]    Compiling rustix v0.38.31
[INFO] [stderr]     Checking unicode-bidi v0.3.15
[INFO] [stderr]    Compiling jobserver v0.1.27
[INFO] [stderr]     Checking form_urlencoded v1.2.1
[INFO] [stderr]     Checking linux-raw-sys v0.4.13
[INFO] [stderr]    Compiling syn v2.0.48
[INFO] [stderr]     Checking ieee754 v0.2.6
[INFO] [stderr]     Checking tinyvec v1.6.0
[INFO] [stderr]    Compiling fs-utils v1.1.4
[INFO] [stderr]     Checking difference v2.0.0
[INFO] [stderr]     Checking ansi_term v0.11.0
[INFO] [stderr]    Compiling rustc_version v0.1.7
[INFO] [stderr]    Compiling cc v1.0.83
[INFO] [stderr]     Checking linear-map v1.2.0
[INFO] [stderr]     Checking fastrand v2.0.1
[INFO] [stderr]     Checking custom_derive v0.1.7
[INFO] [stderr]    Compiling newtype_derive v0.1.6
[INFO] [stderr]     Checking byteorder v1.5.0
[INFO] [stderr]     Checking pretty_assertions v0.6.1
[INFO] [stderr]     Checking aho-corasick v1.1.2
[INFO] [stderr]    Compiling openssl-src v300.2.2+3.2.1
[INFO] [stderr]    Compiling cmake v0.1.50
[INFO] [stderr]     Checking unicode-normalization v0.1.22
[INFO] [stderr]    Compiling openssl-sys v0.9.99
[INFO] [stderr]    Compiling curl-sys v0.4.71+curl-8.6.0
[INFO] [stderr]    Compiling lzma-sys v0.1.20
[INFO] [stderr]    Compiling bzip2-sys v0.1.11+1.0.8
[INFO] [stderr]    Compiling hts-sys v2.1.1
[INFO] [stderr]    Compiling libz-sys v1.1.15
[INFO] [stderr]     Checking idna v0.5.0
[INFO] [stderr]     Checking regex-automata v0.4.5
[INFO] [stderr]     Checking url v2.5.0
[INFO] [stderr]     Checking tempfile v3.10.0
[INFO] [stderr]     Checking bincode v1.3.3
[INFO] [stderr]     Checking serde_json v1.0.113
[INFO] [stderr]    Compiling thiserror-impl v1.0.56
[INFO] [stderr]    Compiling strum_macros v0.25.3
[INFO] [stderr]     Checking regex v1.10.3
[INFO] [stderr]    Compiling derive-new v0.5.9
[INFO] [stderr]     Checking thiserror v1.0.56
[INFO] [stderr]     Checking bio-types v1.0.1
[INFO] [stderr]     Checking rust-htslib v0.44.1 (/opt/rustwide/workdir)
[INFO] [stdout] error: couldn't read src/bgzf/../../test/bgzip/plain.vcf: No such file or directory (os error 2)
[INFO] [stdout]    --> src/bgzf/mod.rs:309:27
[INFO] [stdout]     |
[INFO] [stdout] 309 |     const CONTENT: &str = include_str!("../../test/bgzip/plain.vcf");
[INFO] [stdout]     |                           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: this error originates in the macro `include_str` (in Nightly builds, run with -Z macro-backtrace for more info)
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: field `buffer` is never read
[INFO] [stdout]    --> src/bcf/record.rs:134:5
[INFO] [stdout]     |
[INFO] [stdout] 132 | pub struct BufferBacked<'a, T: 'a + fmt::Debug, B: Borrow<Buffer> + 'a> {
[INFO] [stdout]     |            ------------ field in this struct
[INFO] [stdout] 133 |     value: T,
[INFO] [stdout] 134 |     buffer: B,
[INFO] [stdout]     |     ^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: `BufferBacked` has a derived impl for the trait `Debug`, but this is intentionally ignored during dead code analysis
[INFO] [stdout]     = note: `#[warn(dead_code)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: field `hts_format` is never read
[INFO] [stdout]   --> src/tbx/mod.rs:94:5
[INFO] [stdout]    |
[INFO] [stdout] 87 | pub struct Reader {
[INFO] [stdout]    |            ------ field in this struct
[INFO] [stdout] ...
[INFO] [stdout] 94 |     hts_format: htslib::htsExactFormat,
[INFO] [stdout]    |     ^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = note: `Reader` has a derived impl for the trait `Debug`, but this is intentionally ignored during dead code analysis
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: the type `hts_sys::bam1_t` does not permit being left uninitialized
[INFO] [stdout]    --> src/bam/record.rs:128:42
[INFO] [stdout]     |
[INFO] [stdout] 128 |                 let mut inner = unsafe { MaybeUninit::uninit().assume_init() };
[INFO] [stdout]     |                                          ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]     |                                          |
[INFO] [stdout]     |                                          this code causes undefined behavior when executed
[INFO] [stdout]     |                                          help: use `MaybeUninit<T>` instead, and only call `assume_init` after initialization is done
[INFO] [stdout]     |
[INFO] [stdout]     = note: integers must be initialized
[INFO] [stdout]     = note: `#[warn(invalid_value)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: 3 warnings emitted
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: aborting due to 1 previous error
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr] error: could not compile `rust-htslib` (lib test) due to 2 previous errors
[INFO] running `Command { std: "docker" "inspect" "293c8820683adc3b31e89905dee9a3a5fa9e1fc6b8625aec8eaeb1bffc5c794a", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "293c8820683adc3b31e89905dee9a3a5fa9e1fc6b8625aec8eaeb1bffc5c794a", kill_on_drop: false }`
[INFO] [stdout] 293c8820683adc3b31e89905dee9a3a5fa9e1fc6b8625aec8eaeb1bffc5c794a
