[INFO] cloning repository https://github.com/bwbioinfo/nanocov [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/bwbioinfo/nanocov" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fbwbioinfo%2Fnanocov", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fbwbioinfo%2Fnanocov'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] c1933a0e08020c5c771ab650104e7db591bc5525 [INFO] checking bwbioinfo/nanocov against master#8365fcb2b840c95eeb0bc377af8bd498fad22245 for pr-145605 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fbwbioinfo%2Fnanocov" "/workspace/builds/worker-7-tc1/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-7-tc1/source'... [INFO] [stderr] done. 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[INFO] started tweaking git repo https://github.com/bwbioinfo/nanocov [INFO] finished tweaking git repo https://github.com/bwbioinfo/nanocov [INFO] tweaked toml for git repo https://github.com/bwbioinfo/nanocov written to /workspace/builds/worker-7-tc1/source/Cargo.toml [INFO] validating manifest of git repo https://github.com/bwbioinfo/nanocov on toolchain 8365fcb2b840c95eeb0bc377af8bd498fad22245 [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+8365fcb2b840c95eeb0bc377af8bd498fad22245" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] crate git repo https://github.com/bwbioinfo/nanocov 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" "+8365fcb2b840c95eeb0bc377af8bd498fad22245" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Updating crates.io index [INFO] [stderr] Downloading crates ... [INFO] [stderr] Downloaded noodles-bgzf v0.40.0 [INFO] [stderr] Downloaded noodles-core v0.17.0 [INFO] [stderr] Downloaded noodles-csi v0.48.0 [INFO] [stderr] Downloaded noodles-sam v0.76.0 [INFO] [stderr] Downloaded noodles-bam v0.80.0 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-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@sha256:7ad1b28ee6f5f7f699f6cf7015098d6ccdd96d6f2d78dd06228f5b4c9faf309c" "/opt/rustwide/cargo-home/bin/cargo" "+8365fcb2b840c95eeb0bc377af8bd498fad22245" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] 3e5bd7390593b72bbf515df9ff2f7b4e405d0b3e8f0ee039856e498da12b21e2 [INFO] running `Command { std: "docker" "start" "-a" "3e5bd7390593b72bbf515df9ff2f7b4e405d0b3e8f0ee039856e498da12b21e2", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "3e5bd7390593b72bbf515df9ff2f7b4e405d0b3e8f0ee039856e498da12b21e2", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "3e5bd7390593b72bbf515df9ff2f7b4e405d0b3e8f0ee039856e498da12b21e2", kill_on_drop: false }` [INFO] [stdout] 3e5bd7390593b72bbf515df9ff2f7b4e405d0b3e8f0ee039856e498da12b21e2 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-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@sha256:7ad1b28ee6f5f7f699f6cf7015098d6ccdd96d6f2d78dd06228f5b4c9faf309c" "/opt/rustwide/cargo-home/bin/cargo" "+8365fcb2b840c95eeb0bc377af8bd498fad22245" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] fe09ba483b7240cccb097b9ecf5f4152675dad12882b953905f774fb26e859ce [INFO] running `Command { std: "docker" "start" "-a" "fe09ba483b7240cccb097b9ecf5f4152675dad12882b953905f774fb26e859ce", kill_on_drop: false }` [INFO] [stderr] Compiling proc-macro2 v1.0.95 [INFO] [stderr] Compiling autocfg v1.4.0 [INFO] [stderr] Checking cfg-if v1.0.0 [INFO] [stderr] Compiling unicode-ident v1.0.18 [INFO] [stderr] Compiling libc v0.2.172 [INFO] [stderr] Checking simd-adler32 v0.3.7 [INFO] [stderr] Compiling crossbeam-utils v0.8.21 [INFO] [stderr] Checking zlib-rs v0.5.0 [INFO] [stderr] Checking adler2 v2.0.0 [INFO] [stderr] Checking memchr v2.7.4 [INFO] [stderr] Checking futures-sink v0.3.31 [INFO] [stderr] Checking pin-project-lite v0.2.16 [INFO] [stderr] Compiling semver v1.0.26 [INFO] [stderr] Checking futures-core v0.3.31 [INFO] [stderr] Compiling pkg-config v0.3.32 [INFO] [stderr] Checking byteorder v1.5.0 [INFO] [stderr] Checking crc32fast v1.4.2 [INFO] [stderr] Checking static_assertions v1.1.0 [INFO] [stderr] Checking futures-task v0.3.31 [INFO] [stderr] Checking pin-utils v0.1.0 [INFO] [stderr] Compiling shlex v1.3.0 [INFO] [stderr] Checking lexical-util v1.0.6 [INFO] [stderr] Checking miniz_oxide v0.8.8 [INFO] [stderr] Checking futures-channel v0.3.31 [INFO] [stderr] Checking futures-io v0.3.31 [INFO] [stderr] Checking bitflags v2.9.1 [INFO] [stderr] Checking bytes v1.10.1 [INFO] [stderr] Checking regex-automata v0.4.9 [INFO] [stderr] Checking anstyle v1.0.10 [INFO] [stderr] Compiling cc v1.2.23 [INFO] [stderr] Checking fdeflate v0.3.7 [INFO] [stderr] Checking lexical-write-integer v1.0.5 [INFO] [stderr] Checking lexical-parse-integer v1.0.5 [INFO] [stderr] Checking libloading v0.8.7 [INFO] [stderr] Checking hashbrown v0.15.3 [INFO] [stderr] Checking once_cell v1.21.3 [INFO] [stderr] Compiling slab v0.4.9 [INFO] [stderr] Compiling num-traits v0.2.19 [INFO] [stderr] Compiling rustc_version v0.4.1 [INFO] [stderr] Compiling quote v1.0.40 [INFO] [stderr] Compiling yeslogic-fontconfig-sys v6.0.0 [INFO] [stderr] Checking bitflags v1.3.2 [INFO] [stderr] Checking utf8parse v0.2.2 [INFO] [stderr] Compiling syn v2.0.101 [INFO] [stderr] Checking equivalent v1.0.2 [INFO] [stderr] Checking option-ext v0.2.0 [INFO] [stderr] Checking color_quant v1.1.0 [INFO] [stderr] Checking anstyle-parse v0.2.6 [INFO] [stderr] Checking lexical-write-float v1.0.5 [INFO] [stderr] Checking indexmap v2.9.0 [INFO] [stderr] Checking dlib v0.5.2 [INFO] [stderr] Checking lexical-parse-float v1.0.5 [INFO] [stderr] Checking log v0.4.27 [INFO] [stderr] Compiling font-kit v0.14.2 [INFO] [stderr] Compiling rayon-core v1.12.1 [INFO] [stderr] Checking same-file v1.0.6 [INFO] [stderr] Checking weezl v0.1.8 [INFO] [stderr] Compiling pathfinder_simd v0.5.4 [INFO] [stderr] Checking crossbeam-channel v0.5.15 [INFO] [stderr] Checking crossbeam-epoch v0.9.18 [INFO] [stderr] Checking plotters-backend v0.3.7 [INFO] [stderr] Checking anstyle-query v1.1.2 [INFO] [stderr] Checking bit-vec v0.8.0 [INFO] [stderr] Checking libz-rs-sys v0.5.0 [INFO] [stderr] Checking jpeg-decoder v0.3.1 [INFO] [stderr] Checking colorchoice v1.0.3 [INFO] [stderr] Checking bstr v1.12.0 [INFO] [stderr] Checking flate2 v1.1.1 [INFO] [stderr] Checking is_terminal_polyfill v1.70.1 [INFO] [stderr] Checking bytemuck v1.23.0 [INFO] [stderr] Checking anstream v0.6.18 [INFO] [stderr] Checking walkdir v2.5.0 [INFO] [stderr] Checking gif v0.12.0 [INFO] [stderr] Checking float-ord v0.3.2 [INFO] [stderr] Checking iana-time-zone v0.1.63 [INFO] [stderr] Compiling heck v0.5.0 [INFO] [stderr] Checking strsim v0.11.1 [INFO] [stderr] Checking clap_lex v0.7.4 [INFO] [stderr] Checking lazy_static v1.5.0 [INFO] [stderr] Checking chrono v0.4.41 [INFO] [stderr] Checking plotters-svg v0.3.7 [INFO] [stderr] Checking predicates-core v1.0.9 [INFO] [stderr] Checking dirs-sys v0.4.1 [INFO] [stderr] Compiling getrandom v0.3.3 [INFO] [stderr] Checking ttf-parser v0.20.0 [INFO] [stderr] Checking crossbeam-deque v0.8.6 [INFO] [stderr] Compiling rustix v1.0.7 [INFO] [stderr] Compiling doc-comment v0.3.3 [INFO] [stderr] Checking clap_builder v4.5.38 [INFO] [stderr] Checking dirs v5.0.1 [INFO] [stderr] Checking either v1.15.0 [INFO] [stderr] Checking num_cpus v1.16.0 [INFO] [stderr] Compiling assert_cmd v2.0.17 [INFO] [stderr] Checking termtree v0.5.1 [INFO] [stderr] Checking difflib v0.4.0 [INFO] [stderr] Checking linux-raw-sys v0.9.4 [INFO] [stderr] Checking predicates-tree v1.0.12 [INFO] [stderr] Checking lexical-core v1.0.5 [INFO] [stderr] Checking wait-timeout v0.2.1 [INFO] [stderr] Checking fastrand v2.3.0 [INFO] [stderr] Checking png v0.17.16 [INFO] [stderr] Checking predicates v3.1.3 [INFO] [stderr] Checking rayon v1.10.0 [INFO] [stderr] Checking noodles-core v0.17.0 [INFO] [stderr] Checking pathfinder_geometry v0.5.1 [INFO] [stderr] Compiling freetype-sys v0.20.1 [INFO] [stderr] Checking image v0.24.9 [INFO] [stderr] Checking tempfile v3.20.0 [INFO] [stderr] Checking plotters-bitmap v0.3.7 [INFO] [stderr] Checking plotters v0.3.7 [INFO] [stderr] Compiling futures-macro v0.3.31 [INFO] [stderr] Compiling tokio-macros v2.5.0 [INFO] [stderr] Compiling clap_derive v4.5.32 [INFO] [stderr] Checking tokio v1.45.0 [INFO] [stderr] Checking futures-util v0.3.31 [INFO] [stderr] Checking clap v4.5.38 [INFO] [stderr] Checking futures-executor v0.3.31 [INFO] [stderr] Checking futures v0.3.31 [INFO] [stderr] Checking tokio-util v0.7.15 [INFO] [stderr] Checking noodles-bgzf v0.40.0 [INFO] [stderr] Checking noodles-csi v0.48.0 [INFO] [stderr] Checking noodles-sam v0.76.0 [INFO] [stderr] Checking noodles-bam v0.80.0 [INFO] [stderr] Checking nanocov v0.1.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: unused import: `std::fs::File` [INFO] [stdout] --> src/io/mod.rs:643:9 [INFO] [stdout] | [INFO] [stdout] 643 | use std::fs::File; [INFO] [stdout] | ^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `BufWriter` and `Write` [INFO] [stdout] --> src/io/mod.rs:644:19 [INFO] [stdout] | [INFO] [stdout] 644 | use std::io::{Write, BufWriter}; [INFO] [stdout] | ^^^^^ ^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::io::BufReader` [INFO] [stdout] --> src/io/mod.rs:645:9 [INFO] [stdout] | [INFO] [stdout] 645 | use std::io::BufReader; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `noodles_core::Region` [INFO] [stdout] --> src/io/mod.rs:647:9 [INFO] [stdout] | [INFO] [stdout] 647 | use noodles_core::Region; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `noodles_core::Position` [INFO] [stdout] --> src/io/mod.rs:648:9 [INFO] [stdout] | [INFO] [stdout] 648 | use noodles_core::Position; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::fs::File` [INFO] [stdout] --> src/io/mod.rs:643:9 [INFO] [stdout] | [INFO] [stdout] 643 | use std::fs::File; [INFO] [stdout] | ^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `BufWriter` and `Write` [INFO] [stdout] --> src/io/mod.rs:644:19 [INFO] [stdout] | [INFO] [stdout] 644 | use std::io::{Write, BufWriter}; [INFO] [stdout] | ^^^^^ ^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::io::BufReader` [INFO] [stdout] --> src/io/mod.rs:645:9 [INFO] [stdout] | [INFO] [stdout] 645 | use std::io::BufReader; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `noodles_core::Region` [INFO] [stdout] --> src/io/mod.rs:647:9 [INFO] [stdout] | [INFO] [stdout] 647 | use noodles_core::Region; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `noodles_core::Position` [INFO] [stdout] --> src/io/mod.rs:648:9 [INFO] [stdout] | [INFO] [stdout] 648 | use noodles_core::Position; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `chart_plotting_area` [INFO] [stdout] --> src/plotting/multi_chrom.rs:169:9 [INFO] [stdout] | [INFO] [stdout] 169 | let chart_plotting_area = chart_area.margin(10, 10, 80, 60); [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_chart_plotting_area` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `chart_plotting_area` [INFO] [stdout] --> src/plotting/multi_chrom.rs:169:9 [INFO] [stdout] | [INFO] [stdout] 169 | let chart_plotting_area = chart_area.margin(10, 10, 80, 60); [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_chart_plotting_area` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/plotting/multi_chrom.rs:156:22 [INFO] [stdout] | [INFO] [stdout] 156 | let (title_area, mut chart_area) = root.split_vertically(80); [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] --> src/plotting/multi_chrom.rs:156:22 [INFO] [stdout] | [INFO] [stdout] 156 | let (title_area, mut chart_area) = root.split_vertically(80); [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: function `run_coverage_in_memory` is never used [INFO] [stdout] --> src/io/mod.rs:305:4 [INFO] [stdout] | [INFO] [stdout] 305 | fn run_coverage_in_memory(cli: &Cli, read_stats: Option) -> Result<(), Box> { [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(dead_code)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: field `target_regions` is never read [INFO] [stdout] --> src/io/mod.rs:741:5 [INFO] [stdout] | [INFO] [stdout] 737 | struct CoverageChunk { [INFO] [stdout] | ------------- field in this struct [INFO] [stdout] ... [INFO] [stdout] 741 | target_regions: Option>, // BED regions within this chunk [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `CoverageChunk` has derived impls for the traits `Clone` and `Debug`, but these are intentionally ignored during dead code analysis [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function `run_coverage_in_memory` is never used [INFO] [stdout] --> src/io/mod.rs:305:4 [INFO] [stdout] | [INFO] [stdout] 305 | fn run_coverage_in_memory(cli: &Cli, read_stats: Option) -> Result<(), Box> { [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(dead_code)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: field `target_regions` is never read [INFO] [stdout] --> src/io/mod.rs:741:5 [INFO] [stdout] | [INFO] [stdout] 737 | struct CoverageChunk { [INFO] [stdout] | ------------- field in this struct [INFO] [stdout] ... [INFO] [stdout] 741 | target_regions: Option>, // BED regions within this chunk [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `CoverageChunk` has derived impls for the traits `Clone` and `Debug`, but these are intentionally ignored during dead code analysis [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished `dev` profile [unoptimized + debuginfo] target(s) in 30.97s [INFO] running `Command { std: "docker" "inspect" "fe09ba483b7240cccb097b9ecf5f4152675dad12882b953905f774fb26e859ce", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "fe09ba483b7240cccb097b9ecf5f4152675dad12882b953905f774fb26e859ce", kill_on_drop: false }` [INFO] [stdout] fe09ba483b7240cccb097b9ecf5f4152675dad12882b953905f774fb26e859ce