[INFO] fetching crate mm2 0.25.6...
[INFO] checking mm2-0.25.6 against master#d5419f1e97b90741d51841f800d3c697c662567d for pr-147565-1
[INFO] extracting crate mm2 0.25.6 into /workspace/builds/worker-2-tc1/source
[INFO] started tweaking crates.io crate mm2 0.25.6
[INFO] finished tweaking crates.io crate mm2 0.25.6
[INFO] tweaked toml for crates.io crate mm2 0.25.6 written to /workspace/builds/worker-2-tc1/source/Cargo.toml
[INFO] validating manifest of crates.io crate mm2 0.25.6 on toolchain d5419f1e97b90741d51841f800d3c697c662567d
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+d5419f1e97b90741d51841f800d3c697c662567d" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] crate crates.io crate mm2 0.25.6 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" "+d5419f1e97b90741d51841f800d3c697c662567d" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Blocking waiting for file lock on package cache
[INFO] [stderr]     Updating crates.io index
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[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-2-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-2-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@sha256:4848fb76d95f26979359cc7e45710b1dbc8f3acb7aeedee7c460d7702230f228" "/opt/rustwide/cargo-home/bin/cargo" "+d5419f1e97b90741d51841f800d3c697c662567d" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] 5d038ebd2ea4d1b2a0b2567c098490b3db569c9e1d0b46f6bee691badc776165
[INFO] running `Command { std: "docker" "start" "-a" "5d038ebd2ea4d1b2a0b2567c098490b3db569c9e1d0b46f6bee691badc776165", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "5d038ebd2ea4d1b2a0b2567c098490b3db569c9e1d0b46f6bee691badc776165", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "5d038ebd2ea4d1b2a0b2567c098490b3db569c9e1d0b46f6bee691badc776165", kill_on_drop: false }`
[INFO] [stdout] 5d038ebd2ea4d1b2a0b2567c098490b3db569c9e1d0b46f6bee691badc776165
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-2-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-2-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@sha256:4848fb76d95f26979359cc7e45710b1dbc8f3acb7aeedee7c460d7702230f228" "/opt/rustwide/cargo-home/bin/cargo" "+d5419f1e97b90741d51841f800d3c697c662567d" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] 6690e04e0675bd7ef8230fc95302eab7f1df4c99a2669dc89a0f7b6f09596703
[INFO] running `Command { std: "docker" "start" "-a" "6690e04e0675bd7ef8230fc95302eab7f1df4c99a2669dc89a0f7b6f09596703", kill_on_drop: false }`
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[INFO] [stderr]     Checking tracing v0.1.41
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[INFO] [stderr]    Compiling strum_macros v0.25.3
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[INFO] [stderr]    Compiling clap_derive v4.5.24
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[INFO] [stdout] warning: unused import: `clap::builder::Str`
[INFO] [stdout]  --> src/align_processor/hp_tr_metric.rs:5:5
[INFO] [stdout]   |
[INFO] [stdout] 5 | use clap::builder::Str;
[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 imports: `ext::BamRecordExtensions` and `self`
[INFO] [stdout]  --> src/bam_writer.rs:9:24
[INFO] [stdout]   |
[INFO] [stdout] 9 | use rust_htslib::bam::{ext::BamRecordExtensions, header::HeaderRecord, record::{self, Aux}, Header};
[INFO] [stdout]   |                        ^^^^^^^^^^^^^^^^^^^^^^^^                                 ^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `clap::builder::Str`
[INFO] [stdout]  --> src/align_processor/hp_tr_metric.rs:5:5
[INFO] [stdout]   |
[INFO] [stdout] 5 | use clap::builder::Str;
[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 imports: `ext::BamRecordExtensions` and `self`
[INFO] [stdout]  --> src/bam_writer.rs:9:24
[INFO] [stdout]   |
[INFO] [stdout] 9 | use rust_htslib::bam::{ext::BamRecordExtensions, header::HeaderRecord, record::{self, Aux}, Header};
[INFO] [stdout]   |                        ^^^^^^^^^^^^^^^^^^^^^^^^                                 ^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable does not need to be mutable
[INFO] [stdout]    --> src/lib.rs:687:13
[INFO] [stdout]     |
[INFO] [stdout] 687 |         let mut records = vec![r1, r2, r3];
[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: unused variable: `records`
[INFO] [stdout]    --> src/lib.rs:687:13
[INFO] [stdout]     |
[INFO] [stdout] 687 |         let mut records = vec![r1, r2, r3];
[INFO] [stdout]     |             ^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_records`
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(unused_variables)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `aligner`
[INFO] [stdout]    --> src/lib.rs:708:17
[INFO] [stdout]     |
[INFO] [stdout] 708 |             let aligner = NoMemLeakAligner(aligner);
[INFO] [stdout]     |                 ^^^^^^^ help: if this is intentional, prefix it with an underscore: `_aligner`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `seq`
[INFO] [stdout]     --> src/lib.rs:1057:13
[INFO] [stdout]      |
[INFO] [stdout] 1057 |         let seq = b"AANNNNNNNNNNNNNAAAAAAAAANNNNCCCGTTT";
[INFO] [stdout]      |             ^^^ help: if this is intentional, prefix it with an underscore: `_seq`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable `index_params` is assigned to, but never used
[INFO] [stdout]     --> src/lib.rs:1257:13
[INFO] [stdout]      |
[INFO] [stdout] 1257 |         let mut index_params = IndexParams::default();
[INFO] [stdout]      |             ^^^^^^^^^^^^^^^^
[INFO] [stdout]      |
[INFO] [stdout]      = note: consider using `_index_params` instead
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: value assigned to `index_params` is never read
[INFO] [stdout]     --> src/lib.rs:1258:9
[INFO] [stdout]      |
[INFO] [stdout] 1258 |         index_params.kmer = Some(11);
[INFO] [stdout]      |         ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]      |
[INFO] [stdout]      = help: maybe it is overwritten before being read?
[INFO] [stdout]      = note: `#[warn(unused_assignments)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: value assigned to `index_params` is never read
[INFO] [stdout]     --> src/lib.rs:1259:9
[INFO] [stdout]      |
[INFO] [stdout] 1259 |         index_params.wins = Some(1);
[INFO] [stdout]      |         ^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]      |
[INFO] [stdout]      = help: maybe it is overwritten before being read?
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: function `dump_smc_input_bam` is never used
[INFO] [stdout]  --> src/bin/bam-rw.rs:5:4
[INFO] [stdout]   |
[INFO] [stdout] 5 | fn dump_smc_input_bam(subreads_bam_path: &str, o_filepath: &str, bam_threads: Option<usize>) {
[INFO] [stdout]   |    ^^^^^^^^^^^^^^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(dead_code)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: function `dump_smc_input_bam` is never used
[INFO] [stdout]  --> src/bin/bam-rw.rs:5:4
[INFO] [stdout]   |
[INFO] [stdout] 5 | fn dump_smc_input_bam(subreads_bam_path: &str, o_filepath: &str, bam_threads: Option<usize>) {
[INFO] [stdout]   |    ^^^^^^^^^^^^^^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(dead_code)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `intervaltree`
[INFO] [stdout]    --> src/bin/gsmm2-hp-tr-metric.rs:518:46
[INFO] [stdout]     |
[INFO] [stdout] 518 |     use hp_tr_finder::{all_seq_hp_tr_finder, intervaltree, UnitAndRepeats};
[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 variable: `seq`
[INFO] [stdout]    --> src/bin/gsmm2-time-err.rs:547:13
[INFO] [stdout]     |
[INFO] [stdout] 547 | ...   let seq = b"GAGAGAAGAGATGTTCTACTGGTGTGCCGATGGTGGCGGATTAGTCCTCGCTCAATCTGGGGTCAGGCGGTGATGGTCTATTGCTATCAATTATACAACAATTAAACAACAACCGGCGA...
[INFO] [stdout]     |           ^^^ help: if this is intentional, prefix it with an underscore: `_seq`
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(unused_variables)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `seq`
[INFO] [stdout]    --> src/bin/gsmm2-hp-tr-metric.rs:567:13
[INFO] [stdout]     |
[INFO] [stdout] 567 | ...   let seq = b"GAGAGAAGAGATGTTCTACTGGTGTGCCGATGGTGGCGGATTAGTCCTCGCTCAATCTGGGGTCAGGCGGTGATGGTCTATTGCTATCAATTATACAACAATTAAACAACAACCGGCGA...
[INFO] [stdout]     |           ^^^ help: if this is intentional, prefix it with an underscore: `_seq`
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(unused_variables)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `seq`
[INFO] [stdout]    --> src/bin/gsmm2-aligned-metric.rs:499:13
[INFO] [stdout]     |
[INFO] [stdout] 499 | ...   let seq = b"GAGAGAAGAGATGTTCTACTGGTGTGCCGATGGTGGCGGATTAGTCCTCGCTCAATCTGGGGTCAGGCGGTGATGGTCTATTGCTATCAATTATACAACAATTAAACAACAACCGGCGA...
[INFO] [stdout]     |           ^^^ help: if this is intentional, prefix it with an underscore: `_seq`
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(unused_variables)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]     Finished `dev` profile [unoptimized + debuginfo] target(s) in 6m 54s
[INFO] running `Command { std: "docker" "inspect" "6690e04e0675bd7ef8230fc95302eab7f1df4c99a2669dc89a0f7b6f09596703", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "6690e04e0675bd7ef8230fc95302eab7f1df4c99a2669dc89a0f7b6f09596703", kill_on_drop: false }`
[INFO] [stdout] 6690e04e0675bd7ef8230fc95302eab7f1df4c99a2669dc89a0f7b6f09596703
