[INFO] cloning repository https://github.com/NickRoz1/gbam [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/NickRoz1/gbam" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FNickRoz1%2Fgbam", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FNickRoz1%2Fgbam'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] eaf0b59157cb9f52ebf28008b9a055247fe0c789 [INFO] checking NickRoz1/gbam/eaf0b59157cb9f52ebf28008b9a055247fe0c789 against master#f609b7e0586f81fefb3523e3e17adf779ac416be for pr-129466-2 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FNickRoz1%2Fgbam" "/workspace/builds/worker-3-tc1/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-3-tc1/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/NickRoz1/gbam on toolchain f609b7e0586f81fefb3523e3e17adf779ac416be [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+f609b7e0586f81fefb3523e3e17adf779ac416be" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] started tweaking git repo https://github.com/NickRoz1/gbam [INFO] finished tweaking git repo https://github.com/NickRoz1/gbam [INFO] tweaked toml for git repo https://github.com/NickRoz1/gbam 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" "+f609b7e0586f81fefb3523e3e17adf779ac416be" "generate-lockfile" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Updating crates.io index [INFO] [stderr] Locking 145 packages to latest compatible versions [INFO] [stderr] Adding bitflags v1.3.2 (available: v2.6.0) [INFO] [stderr] Adding clap v2.34.0 (available: v4.5.18) [INFO] [stderr] Adding derive-new v0.5.9 (available: v0.7.0) [INFO] [stderr] Adding derive-new v0.6.0 (available: v0.7.0) [INFO] [stderr] Adding encode_unicode v0.3.6 (available: v1.0.0) [INFO] [stderr] Adding flume v0.10.14 (available: v0.11.0) [INFO] [stderr] Adding heck v0.3.3 (available: v0.5.0) [INFO] [stderr] Adding hermit-abi v0.1.19 (available: v0.4.0) [INFO] [stderr] Adding idna v0.5.0 (available: v1.0.2) [INFO] [stderr] Adding indicatif v0.16.2 (available: v0.17.8) [INFO] [stderr] Adding itertools v0.10.5 (available: v0.13.0) [INFO] [stderr] Adding lz4_flex v0.8.2 (available: v0.11.3) [INFO] [stderr] Adding memmap2 v0.3.1 (available: v0.9.5) [INFO] [stderr] Adding memmap2 v0.7.1 (available: v0.9.5) [INFO] [stderr] Adding num_cpus v0.2.13 (available: v1.16.0) [INFO] [stderr] Adding quick-error v1.2.3 (available: v2.0.1) [INFO] [stderr] Adding rand v0.4.6 (available: v0.8.5) [INFO] [stderr] Adding rand_core v0.3.1 (available: v0.6.4) [INFO] [stderr] Adding rand_core v0.4.2 (available: v0.6.4) [INFO] [stderr] Adding rdrand v0.4.0 (available: v0.8.3) [INFO] [stderr] Adding remove_dir_all v0.5.3 (available: v0.8.4) [INFO] [stderr] Adding rust-htslib v0.39.5 (available: v0.47.0) [INFO] [stderr] Adding rustc_version v0.1.7 (available: v0.4.1) [INFO] [stderr] Adding semver v0.1.20 (available: v1.0.23) [INFO] [stderr] Adding strsim v0.8.0 (available: v0.11.1) [INFO] [stderr] Adding syn v1.0.109 (available: v2.0.77) [INFO] [stderr] Adding textwrap v0.11.0 (available: v0.16.1) [INFO] [stderr] Adding unicode-width v0.1.14 (available: v0.2.0) [INFO] [stderr] Adding wasi v0.11.0+wasi-snapshot-preview1 (available: v0.13.2+wasi-0.2.1) [INFO] [stderr] Adding windows-sys v0.52.0 (available: v0.59.0) [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+f609b7e0586f81fefb3523e3e17adf779ac416be" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Downloading crates ... [INFO] [stderr] Downloaded thiserror-impl v1.0.64 [INFO] [stderr] Downloaded number_prefix v0.4.0 [INFO] [stderr] Downloaded newtype_derive v0.1.6 [INFO] [stderr] Downloaded fs-utils v1.1.4 [INFO] [stderr] Downloaded itertools v0.13.0 [INFO] [stderr] Downloaded num_cpus v0.2.13 [INFO] [stderr] Downloaded ppv-lite86 v0.2.20 [INFO] [stderr] Downloaded lz4_flex v0.8.2 [INFO] [stderr] Downloaded cmake v0.1.51 [INFO] [stderr] Downloaded semver v0.1.20 [INFO] [stderr] Downloaded rustc_version v0.1.7 [INFO] [stderr] Downloaded indicatif v0.16.2 [INFO] [stderr] Downloaded flume v0.10.14 [INFO] [stderr] Downloaded memmap2 v0.7.1 [INFO] [stderr] Downloaded bio-types v1.0.4 [INFO] [stderr] Downloaded lzzzz v1.1.0 [INFO] [stderr] Downloaded rust-htslib v0.39.5 [INFO] [stderr] Downloaded linear-map v1.2.0 [INFO] [stderr] Downloaded thiserror v1.0.64 [INFO] [stderr] Downloaded tempdir v0.3.7 [INFO] [stderr] Downloaded memmap2 v0.3.1 [INFO] [stderr] Downloaded nanorand v0.7.0 [INFO] [stderr] Downloaded derive-new v0.6.0 [INFO] [stderr] Downloaded custom_derive v0.1.7 [INFO] [stderr] Downloaded derive-new v0.5.9 [INFO] [stderr] Downloaded ieee754 v0.2.6 [INFO] [stderr] Downloaded libz-sys v1.1.20 [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@sha256:6252d7ea7fb8caaf7af6d800c5fb250a9cd862b9a7f9508afb3c54fa7fe1102e" "/opt/rustwide/cargo-home/bin/cargo" "+f609b7e0586f81fefb3523e3e17adf779ac416be" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] 534c28583d00883c818cae8e9eb159c76f70784f5afb5bf3f82086b2e136d147 [INFO] running `Command { std: "docker" "start" "-a" "534c28583d00883c818cae8e9eb159c76f70784f5afb5bf3f82086b2e136d147", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "534c28583d00883c818cae8e9eb159c76f70784f5afb5bf3f82086b2e136d147", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "534c28583d00883c818cae8e9eb159c76f70784f5afb5bf3f82086b2e136d147", kill_on_drop: false }` [INFO] [stdout] 534c28583d00883c818cae8e9eb159c76f70784f5afb5bf3f82086b2e136d147 [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@sha256:6252d7ea7fb8caaf7af6d800c5fb250a9cd862b9a7f9508afb3c54fa7fe1102e" "/opt/rustwide/cargo-home/bin/cargo" "+f609b7e0586f81fefb3523e3e17adf779ac416be" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 67e4e4078735fb9768a8d1d320258243d49ad18ef0712712732f3d3945d656ec [INFO] running `Command { std: "docker" "start" "-a" "67e4e4078735fb9768a8d1d320258243d49ad18ef0712712732f3d3945d656ec", kill_on_drop: false }` [INFO] [stderr] Compiling libc v0.2.159 [INFO] [stderr] Compiling unicode-ident v1.0.13 [INFO] [stderr] Compiling shlex v1.3.0 [INFO] [stderr] Compiling crossbeam-utils v0.8.20 [INFO] [stderr] Checking memchr v2.7.4 [INFO] [stderr] Compiling autocfg v1.4.0 [INFO] [stderr] Compiling pkg-config v0.3.31 [INFO] [stderr] Compiling vcpkg v0.2.15 [INFO] [stderr] Compiling version_check v0.9.5 [INFO] [stderr] Compiling serde v1.0.210 [INFO] [stderr] Compiling semver v0.1.20 [INFO] [stderr] Checking either v1.13.0 [INFO] [stderr] Compiling rayon-core v1.12.1 [INFO] [stderr] Compiling quick-error v1.2.3 [INFO] [stderr] Compiling thiserror v1.0.64 [INFO] [stderr] Compiling glob v0.3.1 [INFO] [stderr] Compiling proc-macro2 v1.0.86 [INFO] [stderr] Compiling fs-utils v1.1.4 [INFO] [stderr] Checking static_assertions v1.1.0 [INFO] [stderr] Checking adler2 v2.0.0 [INFO] [stderr] Compiling rustc_version v0.1.7 [INFO] [stderr] Checking twox-hash v1.6.3 [INFO] [stderr] Checking unicode-normalization v0.1.24 [INFO] [stderr] Checking number_prefix v0.4.0 [INFO] [stderr] Checking miniz_oxide v0.8.0 [INFO] [stderr] Checking futures-sink v0.3.30 [INFO] [stderr] Compiling proc-macro-error-attr v1.0.4 [INFO] [stderr] Checking remove_dir_all v0.5.3 [INFO] [stderr] Compiling heck v0.5.0 [INFO] [stderr] Checking futures-core v0.3.30 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Compiling proc-macro-error v1.0.4 [INFO] [stderr] Compiling lock_api v0.4.12 [INFO] [stderr] Compiling serde_json v1.0.128 [INFO] [stderr] Checking lz4_flex v0.8.2 [INFO] [stderr] Compiling unicode-segmentation v1.12.0 [INFO] [stderr] Checking aho-corasick v1.1.3 [INFO] [stderr] Compiling quote v1.0.37 [INFO] [stderr] Checking ieee754 v0.2.6 [INFO] [stderr] Checking unicode-width v0.1.14 [INFO] [stderr] Checking custom_derive v0.1.7 [INFO] [stderr] Checking linear-map v1.2.0 [INFO] [stderr] Checking crossbeam-epoch v0.9.18 [INFO] [stderr] Checking crossbeam-channel v0.5.13 [INFO] [stderr] Checking crossbeam-queue v0.3.11 [INFO] [stderr] Checking flate2 v1.0.34 [INFO] [stderr] Compiling syn v2.0.77 [INFO] [stderr] Compiling syn v1.0.109 [INFO] [stderr] Checking idna v0.5.0 [INFO] [stderr] Checking itertools v0.10.5 [INFO] [stderr] Checking textwrap v0.11.0 [INFO] [stderr] Checking vec_map v0.8.2 [INFO] [stderr] Checking spin v0.9.8 [INFO] [stderr] Compiling heck v0.3.3 [INFO] [stderr] Checking crossbeam-deque v0.8.5 [INFO] [stderr] Checking itertools v0.13.0 [INFO] [stderr] Compiling jobserver v0.1.32 [INFO] [stderr] Checking getrandom v0.2.15 [INFO] [stderr] Checking console v0.15.8 [INFO] [stderr] Checking rand v0.4.6 [INFO] [stderr] Checking num_cpus v0.2.13 [INFO] [stderr] Checking memmap2 v0.7.1 [INFO] [stderr] Checking atty v0.2.14 [INFO] [stderr] Checking memmap2 v0.3.1 [INFO] [stderr] Checking crossbeam v0.8.4 [INFO] [stderr] Checking clap v2.34.0 [INFO] [stderr] Checking nanorand v0.7.0 [INFO] [stderr] Checking rand_core v0.6.4 [INFO] [stderr] Checking url v2.5.2 [INFO] [stderr] Compiling cc v1.1.22 [INFO] [stderr] Checking rayon v1.10.0 [INFO] [stderr] Checking regex-automata v0.4.7 [INFO] [stderr] Checking tempdir v0.3.7 [INFO] [stderr] Compiling cmake v0.1.51 [INFO] [stderr] Compiling libz-sys v1.1.20 [INFO] [stderr] Compiling hts-sys v2.1.4 [INFO] [stderr] Compiling lzzzz v1.1.0 [INFO] [stderr] Checking regex v1.10.6 [INFO] [stderr] Compiling derive-new v0.5.9 [INFO] [stderr] Compiling structopt-derive v0.4.18 [INFO] [stderr] Checking indicatif v0.16.2 [INFO] [stderr] Checking structopt v0.3.26 [INFO] [stderr] Compiling serde_derive v1.0.210 [INFO] [stderr] Compiling pin-project-internal v1.1.5 [INFO] [stderr] Compiling zerocopy-derive v0.7.35 [INFO] [stderr] Compiling thiserror-impl v1.0.64 [INFO] [stderr] Compiling strum_macros v0.26.4 [INFO] [stderr] Compiling derive-new v0.6.0 [INFO] [stderr] Checking zerocopy v0.7.35 [INFO] [stderr] Checking pin-project v1.1.5 [INFO] [stderr] Checking flume v0.10.14 [INFO] [stderr] Checking ppv-lite86 v0.2.20 [INFO] [stderr] Checking bio-types v1.0.4 [INFO] [stderr] Checking rand_chacha v0.3.1 [INFO] [stderr] Checking rand v0.8.5 [INFO] [stderr] Checking bam_tools v0.1.0 (/opt/rustwide/workdir/bam_tools) [INFO] [stderr] Checking bincode v1.3.3 [INFO] [stdout] warning: elided lifetime has a name [INFO] [stdout] --> bam_tools/src/reader/records.rs:16:58 [INFO] [stdout] | [INFO] [stdout] 15 | impl<'a> Records<'a> { [INFO] [stdout] | -- lifetime `'a` declared here [INFO] [stdout] 16 | pub(crate) fn new(reader: &'a mut Reader) -> Records<'_> { [INFO] [stdout] | ^^ this elided lifetime gets resolved as `'a` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(elided_named_lifetimes)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: elided lifetime has a name [INFO] [stdout] --> bam_tools/src/reader/records.rs:16:58 [INFO] [stdout] | [INFO] [stdout] 15 | impl<'a> Records<'a> { [INFO] [stdout] | -- lifetime `'a` declared here [INFO] [stdout] 16 | pub(crate) fn new(reader: &'a mut Reader) -> Records<'_> { [INFO] [stdout] | ^^ this elided lifetime gets resolved as `'a` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(elided_named_lifetimes)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0063]: missing field `compressed_size` in initializer of `block::Block` [INFO] [stdout] --> bam_tools/src/block.rs:81:25 [INFO] [stdout] | [INFO] [stdout] 81 | let mut block = Block { [INFO] [stdout] | ^^^^^ missing `compressed_size` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0063]: missing field `compressed_size` in initializer of `block::Block` [INFO] [stdout] --> bam_tools/src/block.rs:108:25 [INFO] [stdout] | [INFO] [stdout] 108 | let mut block = Block { [INFO] [stdout] | ^^^^^ missing `compressed_size` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> bam_tools/src/sorting/sort.rs:108:5 [INFO] [stdout] | [INFO] [stdout] 108 | mut writer: &mut W, [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] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> bam_tools/src/sorting/sort.rs:109:5 [INFO] [stdout] | [INFO] [stdout] 109 | mut index_writer: &mut IndexW, [INFO] [stdout] | ----^^^^^^^^^^^^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> bam_tools/src/sorting/sort.rs:146:5 [INFO] [stdout] | [INFO] [stdout] 146 | mut index_file_to_create: Option, [INFO] [stdout] | ----^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> bam_tools/src/sorting/sort.rs:108:5 [INFO] [stdout] | [INFO] [stdout] 108 | mut writer: &mut W, [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] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> bam_tools/src/sorting/sort.rs:109:5 [INFO] [stdout] | [INFO] [stdout] 109 | mut index_writer: &mut IndexW, [INFO] [stdout] | ----^^^^^^^^^^^^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> bam_tools/src/sorting/sort.rs:146:5 [INFO] [stdout] | [INFO] [stdout] 146 | mut index_file_to_create: Option, [INFO] [stdout] | ----^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: field `track_progress` is never read [INFO] [stdout] --> bam_tools/src/reader.rs:22:5 [INFO] [stdout] | [INFO] [stdout] 17 | pub struct Reader { [INFO] [stdout] | ------ field in this struct [INFO] [stdout] ... [INFO] [stdout] 22 | track_progress: Option, [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(dead_code)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: methods `get_name` and `get_refid` are never used [INFO] [stdout] --> bam_tools/src/record/bamrawrecord.rs:107:19 [INFO] [stdout] | [INFO] [stdout] 15 | impl<'a> BAMRawRecord<'a> { [INFO] [stdout] | ------------------------- methods in this implementation [INFO] [stdout] ... [INFO] [stdout] 107 | pub(crate) fn get_name(&self) -> &str { [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] ... [INFO] [stdout] 111 | pub(crate) fn get_refid(&self) -> i32 { [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 6 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: aborting due to 2 previous errors; 4 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] For more information about this error, try `rustc --explain E0063`. [INFO] [stdout] [INFO] [stderr] error: could not compile `bam_tools` (lib test) due to 3 previous errors; 4 warnings emitted [INFO] [stderr] warning: build failed, waiting for other jobs to finish... [INFO] running `Command { std: "docker" "inspect" "67e4e4078735fb9768a8d1d320258243d49ad18ef0712712732f3d3945d656ec", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "67e4e4078735fb9768a8d1d320258243d49ad18ef0712712732f3d3945d656ec", kill_on_drop: false }` [INFO] [stdout] 67e4e4078735fb9768a8d1d320258243d49ad18ef0712712732f3d3945d656ec