[INFO] fetching crate rust-htslib 0.47.0...
[INFO] testing rust-htslib-0.47.0 against nightly-2024-10-28 for randomize-layout
[INFO] extracting crate rust-htslib 0.47.0 into /workspace/builds/worker-3-tc1/source
[INFO] validating manifest of crates.io crate rust-htslib 0.47.0 on toolchain nightly-2024-10-28
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+nightly-2024-10-28" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] started tweaking crates.io crate rust-htslib 0.47.0
[INFO] finished tweaking crates.io crate rust-htslib 0.47.0
[INFO] tweaked toml for crates.io crate rust-htslib 0.47.0 written to /workspace/builds/worker-3-tc1/source/Cargo.toml
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+nightly-2024-10-28" "generate-lockfile" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Blocking waiting for file lock on package cache
[INFO] [stderr]     Updating crates.io index
[INFO] [stderr]     Blocking waiting for file lock on package cache
[INFO] [stderr]      Locking 96 packages to latest compatible versions
[INFO] [stderr]       Adding derive-new v0.5.9 (available: v0.7.0)
[INFO] [stderr]       Adding pretty_assertions v0.6.1 (available: v1.4.1)
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+nightly-2024-10-28" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Blocking waiting for file lock on package cache
[INFO] [stderr]  Downloading crates ...
[INFO] [stderr]   Downloaded bio-types v1.0.4
[INFO] [stderr]   Downloaded newtype_derive v0.1.6
[INFO] [stderr]   Downloaded fs-utils v1.1.4
[INFO] [stderr]   Downloaded libdeflate-sys v0.7.5
[INFO] [stderr]   Downloaded hts-sys v2.1.4
[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@sha256:4a844ea9eb2546a2d2c7022eacef16ef2e8229c7fbb2c7d4d55a9ceca922f72d" "/opt/rustwide/cargo-home/bin/cargo" "+nightly-2024-10-28" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] 6816e9c75ca41352f93c093c3e1cee0d4df1b02622b0ec05c4d0825a45fd92f6
[INFO] running `Command { std: "docker" "start" "-a" "6816e9c75ca41352f93c093c3e1cee0d4df1b02622b0ec05c4d0825a45fd92f6", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "6816e9c75ca41352f93c093c3e1cee0d4df1b02622b0ec05c4d0825a45fd92f6", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "6816e9c75ca41352f93c093c3e1cee0d4df1b02622b0ec05c4d0825a45fd92f6", kill_on_drop: false }`
[INFO] [stdout] 6816e9c75ca41352f93c093c3e1cee0d4df1b02622b0ec05c4d0825a45fd92f6
[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@sha256:4a844ea9eb2546a2d2c7022eacef16ef2e8229c7fbb2c7d4d55a9ceca922f72d" "/opt/rustwide/cargo-home/bin/cargo" "+nightly-2024-10-28" "build" "--frozen" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] df4760f415676908d89ee45571746db58c65ef9fa9bc164d872b795d77e42e9a
[INFO] running `Command { std: "docker" "start" "-a" "df4760f415676908d89ee45571746db58c65ef9fa9bc164d872b795d77e42e9a", kill_on_drop: false }`
[INFO] [stderr]    Compiling libc v0.2.161
[INFO] [stderr]    Compiling glob v0.3.1
[INFO] [stderr]    Compiling minimal-lexical v0.2.1
[INFO] [stderr]    Compiling cfg-if v1.0.0
[INFO] [stderr]    Compiling either v1.13.0
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[INFO] [stderr]    Compiling bitflags v2.6.0
[INFO] [stderr]    Compiling semver v0.1.20
[INFO] [stderr]    Compiling quick-error v1.2.3
[INFO] [stderr]    Compiling rustc-hash v1.1.0
[INFO] [stderr]    Compiling lazycell v1.3.0
[INFO] [stderr]    Compiling syn v1.0.109
[INFO] [stderr]    Compiling syn v2.0.86
[INFO] [stderr]    Compiling unicode-bidi v0.3.17
[INFO] [stderr]    Compiling ieee754 v0.2.6
[INFO] [stderr]    Compiling custom_derive v0.1.7
[INFO] [stderr]    Compiling libloading v0.8.5
[INFO] [stderr]    Compiling linear-map v1.2.0
[INFO] [stderr]    Compiling fs-utils v1.1.4
[INFO] [stderr]    Compiling itertools v0.12.1
[INFO] [stderr]    Compiling rustc_version v0.1.7
[INFO] [stderr]    Compiling nom v7.1.3
[INFO] [stderr]    Compiling clang-sys v1.8.1
[INFO] [stderr]    Compiling newtype_derive v0.1.6
[INFO] [stderr]    Compiling idna v0.5.0
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[INFO] [stderr]    Compiling cc v1.1.31
[INFO] [stderr]    Compiling cexpr v0.6.0
[INFO] [stderr]    Compiling openssl-src v300.4.0+3.4.0
[INFO] [stderr]    Compiling cmake v0.1.51
[INFO] [stderr]    Compiling openssl-sys v0.9.104
[INFO] [stderr]    Compiling lzma-sys v0.1.20
[INFO] [stderr]    Compiling bzip2-sys v0.1.11+1.0.8
[INFO] [stderr]    Compiling curl-sys v0.4.77+curl-8.10.1
[INFO] [stderr]    Compiling libz-sys v1.1.20
[INFO] [stderr]    Compiling derive-new v0.5.9
[INFO] [stderr]    Compiling thiserror-impl v1.0.66
[INFO] [stderr]    Compiling derive-new v0.6.0
[INFO] [stderr]    Compiling strum_macros v0.26.4
[INFO] [stderr]    Compiling thiserror v1.0.66
[INFO] [stderr]    Compiling bio-types v1.0.4
[INFO] [stderr]    Compiling hts-sys v2.1.4
[INFO] [stderr]    Compiling rust-htslib v0.47.0 (/opt/rustwide/workdir)
[INFO] [stdout] warning: unnecessary parentheses around function argument
[INFO] [stdout]     --> src/bam/mod.rs:1395:45
[INFO] [stdout]      |
[INFO] [stdout] 1395 |             let rec = htslib::sam_hdr_parse((l_text + 1), text as *const c_char);
[INFO] [stdout]      |                                             ^          ^
[INFO] [stdout]      |
[INFO] [stdout]      = note: `#[warn(unused_parens)]` on by default
[INFO] [stdout] help: remove these parentheses
[INFO] [stdout]      |
[INFO] [stdout] 1395 -             let rec = htslib::sam_hdr_parse((l_text + 1), text as *const c_char);
[INFO] [stdout] 1395 +             let rec = htslib::sam_hdr_parse(l_text + 1, text as *const c_char);
[INFO] [stdout]      |
[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:140:42
[INFO] [stdout]     |
[INFO] [stdout] 140 |                 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] [stderr]     Finished `dev` profile [unoptimized + debuginfo] target(s) in 44.65s
[INFO] running `Command { std: "docker" "inspect" "df4760f415676908d89ee45571746db58c65ef9fa9bc164d872b795d77e42e9a", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "df4760f415676908d89ee45571746db58c65ef9fa9bc164d872b795d77e42e9a", kill_on_drop: false }`
[INFO] [stdout] df4760f415676908d89ee45571746db58c65ef9fa9bc164d872b795d77e42e9a
[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@sha256:4a844ea9eb2546a2d2c7022eacef16ef2e8229c7fbb2c7d4d55a9ceca922f72d" "/opt/rustwide/cargo-home/bin/cargo" "+nightly-2024-10-28" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] 7edcaeaaef7bc5a3adafd410b18223f7bbf29ed9e152f9697211eee9909b10b0
[INFO] running `Command { std: "docker" "start" "-a" "7edcaeaaef7bc5a3adafd410b18223f7bbf29ed9e152f9697211eee9909b10b0", kill_on_drop: false }`
[INFO] [stderr]    Compiling libloading v0.8.5
[INFO] [stderr]    Compiling rustix v0.38.38
[INFO] [stderr]    Compiling linux-raw-sys v0.4.14
[INFO] [stderr]    Compiling fastrand v2.1.1
[INFO] [stderr]    Compiling difference v2.0.0
[INFO] [stderr]    Compiling once_cell v1.20.2
[INFO] [stderr]    Compiling ansi_term v0.11.0
[INFO] [stderr]    Compiling bincode v1.3.3
[INFO] [stderr]    Compiling pretty_assertions v0.6.1
[INFO] [stderr]    Compiling clang-sys v1.8.1
[INFO] [stderr]    Compiling bindgen v0.69.5
[INFO] [stderr]    Compiling tempfile v3.13.0
[INFO] [stderr]    Compiling hts-sys v2.1.4
[INFO] [stderr]    Compiling rust-htslib v0.47.0 (/opt/rustwide/workdir)
[INFO] [stdout] warning: unnecessary parentheses around function argument
[INFO] [stdout]     --> src/bam/mod.rs:1395:45
[INFO] [stdout]      |
[INFO] [stdout] 1395 |             let rec = htslib::sam_hdr_parse((l_text + 1), text as *const c_char);
[INFO] [stdout]      |                                             ^          ^
[INFO] [stdout]      |
[INFO] [stdout]      = note: `#[warn(unused_parens)]` on by default
[INFO] [stdout] help: remove these parentheses
[INFO] [stdout]      |
[INFO] [stdout] 1395 -             let rec = htslib::sam_hdr_parse((l_text + 1), text as *const c_char);
[INFO] [stdout] 1395 +             let rec = htslib::sam_hdr_parse(l_text + 1, text as *const c_char);
[INFO] [stdout]      |
[INFO] [stdout] 
[INFO] [stdout] 
[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:300:27
[INFO] [stdout]     |
[INFO] [stdout] 300 |     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: unnecessary parentheses around function argument
[INFO] [stdout]     --> src/bam/mod.rs:1395:45
[INFO] [stdout]      |
[INFO] [stdout] 1395 |             let rec = htslib::sam_hdr_parse((l_text + 1), text as *const c_char);
[INFO] [stdout]      |                                             ^          ^
[INFO] [stdout]      |
[INFO] [stdout]      = note: `#[warn(unused_parens)]` on by default
[INFO] [stdout] help: remove these parentheses
[INFO] [stdout]      |
[INFO] [stdout] 1395 -             let rec = htslib::sam_hdr_parse((l_text + 1), text as *const c_char);
[INFO] [stdout] 1395 +             let rec = htslib::sam_hdr_parse(l_text + 1, text as *const c_char);
[INFO] [stdout]      |
[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:140:42
[INFO] [stdout]     |
[INFO] [stdout] 140 |                 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: variable does not need to be mutable
[INFO] [stdout]     --> src/bam/mod.rs:3030:17
[INFO] [stdout]      |
[INFO] [stdout] 3030 |             let mut record = Record::new();
[INFO] [stdout]      |                 ----^^^^^^
[INFO] [stdout]      |                 |
[INFO] [stdout]      |                 help: remove this `mut`
[INFO] [stdout]      |
[INFO] [stdout]      = note: `#[warn(unused_mut)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr] error: could not compile `rust-htslib` (lib test) due to 1 previous error; 2 warnings emitted
[INFO] running `Command { std: "docker" "inspect" "7edcaeaaef7bc5a3adafd410b18223f7bbf29ed9e152f9697211eee9909b10b0", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "7edcaeaaef7bc5a3adafd410b18223f7bbf29ed9e152f9697211eee9909b10b0", kill_on_drop: false }`
[INFO] [stdout] 7edcaeaaef7bc5a3adafd410b18223f7bbf29ed9e152f9697211eee9909b10b0
